Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold28
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 42955
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Found at i:530 original size:21 final size:21
Alignment explanation
Indices: 498--559 Score: 74
Period size: 21 Copynumber: 2.9 Consensus size: 21
488 TACTATTTTA
*
498 GGAAAGGTTTAGGTAAGGAG-
1 GGAAAGGATTAGGTAAGGAGT
518 GGAAGAGGATTAGGTAAGGAGT
1 GGAA-AGGATTAGGTAAGGAGT
540 GGCATAA-GATTAGGTAAGGA
1 GG-A-AAGGATTAGGTAAGGA
560 TTTTCACGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
20 4 0.11
21 15 0.41
22 15 0.41
23 2 0.05
24 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (21 bp):
GGAAAGGATTAGGTAAGGAGT
Left flanking sequence: Indices 1 -- 497
ATACGTAACTTATACTTCGACCTTCAAATAGTTATTTTTGAGTGCATTTTTGGACTTCCGGAATT
TTCTTATTCCGAATAATTATGTAACGACTGTACAGACACTGTGCCTGCATCGGGGCCACAGGGTC
CTCACAGGGAGCGGGCCAATGAGAGCGCGCGAAAATGTCAGCAGTGGCGGGATGAGCAACGATGG
CACCAGCCACAGAGAGCACGGAGAAGTAAGCAGGTGCCGAGGGAGAGAAAAAACTACTGGAAAAG
AACCGGCCCGTCGCACGCTCCGCTCGTGTGCTTGTCCTTGGCTGGCTACACTTGTTGATTGCCTT
CCCAACGGTGCCAAGCCTTTCTGCAGGGACGGGCAAAACAAACAAATAGCGGATCCGGAAAATAT
GTGGTGACAGAACAAAGCGCAATTAGGCGGGGAGACGGCGGTCGGAGTCGTGTCGGCTCCAACAG
CGAGTGTACGGTCCACATTTTTGCCTCCTGGTTACTATTTTA
Right flanking sequence: Indices 560 -- 1059
TTTTCACGTGCCTCGCCCGAGGCCCAGTGAAGGAGGGGGACCGAAGGGGGGACGTAGTGGCTCTT
TCAAAGCGTGTCCACAGTGCAGATGGCCGCCCACATCGGGACGCTAGGTGCATATCAACCTATGC
CTGTTGCAGACACGGCTTTTACCGTAAATGTCACATTAAGCCGTGCATGGTGATGGCTGCAACAG
TTGCGAGTTTTAGTGGGTGGGTGTAGAAGAAGAGTTTAAATCGGGTAGTTACGAGGCTTGGGACG
ATGGCCACGTGTGGGAGGGCTCGACTTGCCTGATCGCGTGAAGGGTGACAATGGTCGGGTGTCTG
AGCCACTGTGGCTTGTGATTAGTAGGGCTGGTGGGGCATTAGAGGTTGTAGTGAGAGGGGTGGAT
TATGAAAGAAGCTGGGGGGATGGGAGAAGCTGAGAAACGGGAGCTGGGAGAAATGTGAGTTTGAA
AGACCGGGAGAATAGACAAGCATGGACAACGTACAGAAAACGAGC
Found at i:553 original size:22 final size:21
Alignment explanation
Indices: 506--559 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 21
496 TAGGAAAGGT
*
506 TTAGGTAAGGAGGGAAGAGGA
1 TTAGGTAAGGAGGGAAGAAGA
* *
527 TTAGGTAAGGAGTGGCATAAGA
1 TTAGGTAAGGAG-GGAAGAAGA
549 TTAGGTAAGGA
1 TTAGGTAAGGA
560 TTTTCACGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.37, C:0.02, G:0.41, T:0.20
Consensus pattern (21 bp):
TTAGGTAAGGAGGGAAGAAGA
Left flanking sequence: Indices 6 -- 505
TAACTTATACTTCGACCTTCAAATAGTTATTTTTGAGTGCATTTTTGGACTTCCGGAATTTTCTT
ATTCCGAATAATTATGTAACGACTGTACAGACACTGTGCCTGCATCGGGGCCACAGGGTCCTCAC
AGGGAGCGGGCCAATGAGAGCGCGCGAAAATGTCAGCAGTGGCGGGATGAGCAACGATGGCACCA
GCCACAGAGAGCACGGAGAAGTAAGCAGGTGCCGAGGGAGAGAAAAAACTACTGGAAAAGAACCG
GCCCGTCGCACGCTCCGCTCGTGTGCTTGTCCTTGGCTGGCTACACTTGTTGATTGCCTTCCCAA
CGGTGCCAAGCCTTTCTGCAGGGACGGGCAAAACAAACAAATAGCGGATCCGGAAAATATGTGGT
GACAGAACAAAGCGCAATTAGGCGGGGAGACGGCGGTCGGAGTCGTGTCGGCTCCAACAGCGAGT
GTACGGTCCACATTTTTGCCTCCTGGTTACTATTTTAGGAAAGGT
Right flanking sequence: Indices 560 -- 1059
TTTTCACGTGCCTCGCCCGAGGCCCAGTGAAGGAGGGGGACCGAAGGGGGGACGTAGTGGCTCTT
TCAAAGCGTGTCCACAGTGCAGATGGCCGCCCACATCGGGACGCTAGGTGCATATCAACCTATGC
CTGTTGCAGACACGGCTTTTACCGTAAATGTCACATTAAGCCGTGCATGGTGATGGCTGCAACAG
TTGCGAGTTTTAGTGGGTGGGTGTAGAAGAAGAGTTTAAATCGGGTAGTTACGAGGCTTGGGACG
ATGGCCACGTGTGGGAGGGCTCGACTTGCCTGATCGCGTGAAGGGTGACAATGGTCGGGTGTCTG
AGCCACTGTGGCTTGTGATTAGTAGGGCTGGTGGGGCATTAGAGGTTGTAGTGAGAGGGGTGGAT
TATGAAAGAAGCTGGGGGGATGGGAGAAGCTGAGAAACGGGAGCTGGGAGAAATGTGAGTTTGAA
AGACCGGGAGAATAGACAAGCATGGACAACGTACAGAAAACGAGC
Found at i:1406 original size:14 final size:14
Alignment explanation
Indices: 1387--1426 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1377 ACGACAAACC
*
1387 ACCACTGCTACAAA
1 ACCACTACTACAAA
*
1401 ACCACTACTACAGA
1 ACCACTACTACAAA
1415 ACCACTACTACA
1 ACCACTACTACA
1427 CGGTTCACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.42, C:0.38, G:0.05, T:0.15
Consensus pattern (14 bp):
ACCACTACTACAAA
Left flanking sequence: Indices 887 -- 1386
CCACTGTGGCTTGTGATTAGTAGGGCTGGTGGGGCATTAGAGGTTGTAGTGAGAGGGGTGGATTA
TGAAAGAAGCTGGGGGGATGGGAGAAGCTGAGAAACGGGAGCTGGGAGAAATGTGAGTTTGAAAG
ACCGGGAGAATAGACAAGCATGGACAACGTACAGAAAACGAGCCAATTAAGTGGGAATTAAGGCA
ACCAAGTTCAGCCGTAGATAACAACTCGGTGTGTTACTTAATCAATCACCTACACCCTCGTCGCT
AAAACACCTTATCTATAGTTGTTATTGGTGGCTTGTGTACACTTTGGAGTAGGTCTATCACATGT
GTTAGCCCGACGAAGGTGTCGGAATTCCGGGATTGCTATCCAATTCGTGAACTAGCATATCCAAA
TTCGAAATTATCATGGAGAGAGGTTTGACTCTTGGGACCACAATCTGATCTGTTTGGCACTGTAG
CCGTGCCGATCTGAGACCTCTATCCATGATTCAGAACGACAAACC
Right flanking sequence: Indices 1427 -- 1926
CGGTTCACCACTGCTACAAAACCACCCTGTAACCACCACTGTTATCCTTACTCTCTACAAACTAC
CGTCACGTAAGGTCGCACCACTCATCTCCTGGAACCTAGCTCGATTTTTCTCATAATCCCCTCTC
GATCAAACATGTACTGGACTTAATCAAAATATAGCAAGTGGTAGAAGGCCAAACACCAAAAGGGT
TCGACAAATGAAGGGCACGCGGCCTCCACTATCCATAACCAATGGTGTCACCACGCCTGGCGTTT
GGGTTGCGTCTTGTAAGGAAACTGTCTTCACAGTCTGATCAAAGGTCGGCCCAACAACCAGGTCA
GGGGCTTCCACCTCGGGTACATTCTCATCTGGCTGGCCTTCTGGATGGTCTTCTGGATGGTCTTC
TGGCTGGTCTTCTGGATGGTCTGAAGGGTCTTCTGGATGGTCTTCTGAATCTTCTGCTTGTGTGG
TTGGCTGCCCGTCATTGAGCACCTCAGTCGCGACCAATGTGCGGG
Found at i:1804 original size:12 final size:12
Alignment explanation
Indices: 1779--1863 Score: 104
Period size: 12 Copynumber: 7.3 Consensus size: 12
1769 TACATTCTCA
* *
1779 TCTGGCTGGCCT
1 TCTGGATGGTCT
1791 TCTGGATGGTCT
1 TCTGGATGGTCT
1803 TCTGGATGGTCT
1 TCTGGATGGTCT
*
1815 TCTGGCTGGTCT
1 TCTGGATGGTCT
1827 TCTGGATGG---
1 TCTGGATGGTCT
* *
1836 TCTGAAGGGTCT
1 TCTGGATGGTCT
1848 TCTGGATGGTCT
1 TCTGGATGGTCT
1860 TCTG
1 TCTG
1864 AATCTTCTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
9 7 0.11
12 55 0.89
ACGTcount: A:0.07, C:0.20, G:0.34, T:0.39
Consensus pattern (12 bp):
TCTGGATGGTCT
Left flanking sequence: Indices 1279 -- 1778
CGAAATTATCATGGAGAGAGGTTTGACTCTTGGGACCACAATCTGATCTGTTTGGCACTGTAGCC
GTGCCGATCTGAGACCTCTATCCATGATTCAGAACGACAAACCACCACTGCTACAAAACCACTAC
TACAGAACCACTACTACACGGTTCACCACTGCTACAAAACCACCCTGTAACCACCACTGTTATCC
TTACTCTCTACAAACTACCGTCACGTAAGGTCGCACCACTCATCTCCTGGAACCTAGCTCGATTT
TTCTCATAATCCCCTCTCGATCAAACATGTACTGGACTTAATCAAAATATAGCAAGTGGTAGAAG
GCCAAACACCAAAAGGGTTCGACAAATGAAGGGCACGCGGCCTCCACTATCCATAACCAATGGTG
TCACCACGCCTGGCGTTTGGGTTGCGTCTTGTAAGGAAACTGTCTTCACAGTCTGATCAAAGGTC
GGCCCAACAACCAGGTCAGGGGCTTCCACCTCGGGTACATTCTCA
Right flanking sequence: Indices 1864 -- 2363
AATCTTCTGCTTGTGTGGTTGGCTGCCCGTCATTGAGCACCTCAGTCGCGACCAATGTGCGGGTC
AAAGTGACCCACACGTCGTTATCGTTGGTCACCACGACCTGGCCGTAGACAGTGGTGGGTTGACC
ATCGGACCCCGTTGTTTCGTAAACAGTAGTGTACTCCGTTGGAGCTGGTTGGCCGTCACCGGCTC
CCGTTGGGTCTGGCTGTTGGGGAGCAGTGGCTATGGGCCCGTACTCTGTTGCGTCCATCACAGAT
TCTGTGGCTGCACTTTCGAACTGAGGGCCAACCAAGGTTGTCTCGACGGGTGTCTCGACGGGTTC
GACGGGTGTCTCGATGGGTGTCTCGAAGGGTGTCTCGATGGGTGGCTCAACGGGTGGCTCAACGG
GTGTCTCGACTCCATCATCAGTCGGTTCAGCATTGGTGCCTGTCGTGAACACCGACGTGTATGTG
GTCACTGCGCCATCCTCGTCGGTGGTGACTCCCACTATCCCGGTG
Found at i:1869 original size:21 final size:21
Alignment explanation
Indices: 1798--1872 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
1788 CCTTCTGGAT
1798 GGTCTTCTGGATGGTCTTCTGG
1 GGTCTTCTGGATGGTCTTCT-G
***
1820 CTGGTCTTCTGGATGGTCTGAAG
1 --GGTCTTCTGGATGGTCTTCTG
1843 GGTCTTCTGGATGGTCTTCTG
1 GGTCTTCTGGATGGTCTTCTG
**
1864 AATCTTCTG
1 GGTCTTCTG
1873 CTTGTGTGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
21 25 0.58
23 1 0.02
24 17 0.40
ACGTcount: A:0.09, C:0.19, G:0.32, T:0.40
Consensus pattern (21 bp):
GGTCTTCTGGATGGTCTTCTG
Left flanking sequence: Indices 1298 -- 1797
GGTTTGACTCTTGGGACCACAATCTGATCTGTTTGGCACTGTAGCCGTGCCGATCTGAGACCTCT
ATCCATGATTCAGAACGACAAACCACCACTGCTACAAAACCACTACTACAGAACCACTACTACAC
GGTTCACCACTGCTACAAAACCACCCTGTAACCACCACTGTTATCCTTACTCTCTACAAACTACC
GTCACGTAAGGTCGCACCACTCATCTCCTGGAACCTAGCTCGATTTTTCTCATAATCCCCTCTCG
ATCAAACATGTACTGGACTTAATCAAAATATAGCAAGTGGTAGAAGGCCAAACACCAAAAGGGTT
CGACAAATGAAGGGCACGCGGCCTCCACTATCCATAACCAATGGTGTCACCACGCCTGGCGTTTG
GGTTGCGTCTTGTAAGGAAACTGTCTTCACAGTCTGATCAAAGGTCGGCCCAACAACCAGGTCAG
GGGCTTCCACCTCGGGTACATTCTCATCTGGCTGGCCTTCTGGAT
Right flanking sequence: Indices 1873 -- 2372
CTTGTGTGGTTGGCTGCCCGTCATTGAGCACCTCAGTCGCGACCAATGTGCGGGTCAAAGTGACC
CACACGTCGTTATCGTTGGTCACCACGACCTGGCCGTAGACAGTGGTGGGTTGACCATCGGACCC
CGTTGTTTCGTAAACAGTAGTGTACTCCGTTGGAGCTGGTTGGCCGTCACCGGCTCCCGTTGGGT
CTGGCTGTTGGGGAGCAGTGGCTATGGGCCCGTACTCTGTTGCGTCCATCACAGATTCTGTGGCT
GCACTTTCGAACTGAGGGCCAACCAAGGTTGTCTCGACGGGTGTCTCGACGGGTTCGACGGGTGT
CTCGATGGGTGTCTCGAAGGGTGTCTCGATGGGTGGCTCAACGGGTGGCTCAACGGGTGTCTCGA
CTCCATCATCAGTCGGTTCAGCATTGGTGCCTGTCGTGAACACCGACGTGTATGTGGTCACTGCG
CCATCCTCGTCGGTGGTGACTCCCACTATCCCGGTGTCGGTGTGG
Found at i:2179 original size:12 final size:12
Alignment explanation
Indices: 2162--2263 Score: 120
Period size: 12 Copynumber: 8.8 Consensus size: 12
2152 CAACCAAGGT
2162 TGTCTCGACGGG
1 TGTCTCGACGGG
2174 TGTCTCGAC-GG
1 TGTCTCGACGGG
2185 -GT-TCGACGGG
1 TGTCTCGACGGG
*
2195 TGTCTCGATGGG
1 TGTCTCGACGGG
*
2207 TGTCTCGAAGGG
1 TGTCTCGACGGG
*
2219 TGTCTCGATGGG
1 TGTCTCGACGGG
* *
2231 TGGCTCAACGGG
1 TGTCTCGACGGG
* *
2243 TGGCTCAACGGG
1 TGTCTCGACGGG
2255 TGTCTCGAC
1 TGTCTCGAC
2264 TCCATCATCA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
9 5 0.06
10 4 0.05
11 4 0.05
12 66 0.84
ACGTcount: A:0.12, C:0.23, G:0.40, T:0.25
Consensus pattern (12 bp):
TGTCTCGACGGG
Left flanking sequence: Indices 1662 -- 2161
AATGGTGTCACCACGCCTGGCGTTTGGGTTGCGTCTTGTAAGGAAACTGTCTTCACAGTCTGATC
AAAGGTCGGCCCAACAACCAGGTCAGGGGCTTCCACCTCGGGTACATTCTCATCTGGCTGGCCTT
CTGGATGGTCTTCTGGATGGTCTTCTGGCTGGTCTTCTGGATGGTCTGAAGGGTCTTCTGGATGG
TCTTCTGAATCTTCTGCTTGTGTGGTTGGCTGCCCGTCATTGAGCACCTCAGTCGCGACCAATGT
GCGGGTCAAAGTGACCCACACGTCGTTATCGTTGGTCACCACGACCTGGCCGTAGACAGTGGTGG
GTTGACCATCGGACCCCGTTGTTTCGTAAACAGTAGTGTACTCCGTTGGAGCTGGTTGGCCGTCA
CCGGCTCCCGTTGGGTCTGGCTGTTGGGGAGCAGTGGCTATGGGCCCGTACTCTGTTGCGTCCAT
CACAGATTCTGTGGCTGCACTTTCGAACTGAGGGCCAACCAAGGT
Right flanking sequence: Indices 2264 -- 2763
TCCATCATCAGTCGGTTCAGCATTGGTGCCTGTCGTGAACACCGACGTGTATGTGGTCACTGCGC
CATCCTCGTCGGTGGTGACTCCCACTATCCCGGTGTCGGTGTGGACGTGGCCGTCTTCGTCTGTC
CACGTCGTGGTGTAGGTGAACCCAGGCTCTGGGAACTCCGACGTGGTTGTTGCCCAGCCTTCGGG
ACCACTGGTGATAATCACCACTCCCGAGTCTGTATCCACGTTGCCTTGGTCGTCCGTGGTGACCC
AGGTTGAAGTGTAAGTGGTGGGGGCGGGAGGAACCGTTGGCTCTGGGAACACCGAGGTGGTGGTT
ACTTGCTGGCCGTTCTCGTCAGTGGTCACAATAACCACACCAGATTCCGTCTCGCCATCTTCCGT
CCAGGTGGTGGTATACGTCGTAAACCCAGGTAGCTCTGGAAACACCGACGTGGTTGTTGTTTCTT
GACCGTTCTCGTCAGTAGTTACAATTACCACGCCAGATTCCGTCT
Found at i:2730 original size:123 final size:123
Alignment explanation
Indices: 2563--3082 Score: 494
Period size: 123 Copynumber: 4.2 Consensus size: 123
2553 GGAACCGTTG
* * *
2563 GCTCTGGGAACACCGAGGTGGTGGTTACTTGC-TGGCCGTTCTCGTCAGTGGTCACAATAACCAC
1 GCTCTGGGAACACCGACGTGGTGGTTAC-TGCTTGACCGTTCTCGTCAGTGGTCACAATCACCAC
*
2627 ACCAGATTCCGTCTCGCCATCTTCCGTCCAGGTGGTGGTATACGTCGTAAACCCAGGTA
65 ACCAGATTCCGTCTCGCCATCTTCCGTCCACGTGGTGGTATACGTCGTAAACCCAGGTA
* * ** * * * * *
2686 GCTCTGGAAACACCGACGTGGTTGTTGTTTCTTGACCGTTCTCGTCAGTAGTTACAATTACCACG
1 GCTCTGGGAACACCGACGTGGTGGTTACTGCTTGACCGTTCTCGTCAGTGGTCACAATCACCACA
* *
2751 CCAGATTCCGTCTCGCCATCTTCCGTCCACGTGGTGGTAAACGTCGTAAACCCAGGTG
66 CCAGATTCCGTCTCGCCATCTTCCGTCCACGTGGTGGTATACGTCGTAAACCCAGGTA
* ** * * * * * *
2809 GCTCTGGGAATATTGAGGTAGTGGTTACTGCCTGGCCATTCTCGTCAGTGGTCACGATCACCACA
1 GCTCTGGGAACACCGACGTGGTGGTTACTGCTTGACCGTTCTCGTCAGTGGTCACAATCACCACA
* * * * * * *
2874 CCAGAATCCGTGACACCCTCATCATCTGTCCATGTGGTGGTATACGTCGTGAACCCAGGTA
66 CCAGATTCCGT--CTCGC-CATCTTCCGTCCACGTGGTGGTATACGTCGTAAACCCAGGTA
* * * * * * * * *
2935 ACTCCGGGAACACCGACGTGGTTGTAACTTCTTGACCGTTCTCGTCGGTGGTTACGATCACCACG
1 GCTCTGGGAACACCGACGTGGTGGTTACTGCTTGACCGTTCTCGTCAGTGGTCACAATCACCACA
* * * * * *
3000 CCAGA-CCCAG--T-GCCCTCGTTGTCTGTCCATGTGGTGGTGA-ACGTCGTCAACCCAGGTG
66 CCAGATTCC-GTCTCGCCATC--T-TCCGTCCACGTGGTGGT-ATACGTCGTAAACCCAGGTA
*
3058 GCTCTGGGAACACCGAGGTGGTGGT
1 GCTCTGGGAACACCGACGTGGTGGT
3083 GACCAACTGT
Statistics
Matches: 320, Mismatches: 68, Indels: 18
0.79 0.17 0.04
Matches are distributed among these distances:
120 3 0.01
121 1 0.00
122 2 0.01
123 217 0.68
124 1 0.00
125 5 0.02
126 91 0.28
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.26
Consensus pattern (123 bp):
GCTCTGGGAACACCGACGTGGTGGTTACTGCTTGACCGTTCTCGTCAGTGGTCACAATCACCACA
CCAGATTCCGTCTCGCCATCTTCCGTCCACGTGGTGGTATACGTCGTAAACCCAGGTA
Left flanking sequence: Indices 2063 -- 2562
TGGGTCTGGCTGTTGGGGAGCAGTGGCTATGGGCCCGTACTCTGTTGCGTCCATCACAGATTCTG
TGGCTGCACTTTCGAACTGAGGGCCAACCAAGGTTGTCTCGACGGGTGTCTCGACGGGTTCGACG
GGTGTCTCGATGGGTGTCTCGAAGGGTGTCTCGATGGGTGGCTCAACGGGTGGCTCAACGGGTGT
CTCGACTCCATCATCAGTCGGTTCAGCATTGGTGCCTGTCGTGAACACCGACGTGTATGTGGTCA
CTGCGCCATCCTCGTCGGTGGTGACTCCCACTATCCCGGTGTCGGTGTGGACGTGGCCGTCTTCG
TCTGTCCACGTCGTGGTGTAGGTGAACCCAGGCTCTGGGAACTCCGACGTGGTTGTTGCCCAGCC
TTCGGGACCACTGGTGATAATCACCACTCCCGAGTCTGTATCCACGTTGCCTTGGTCGTCCGTGG
TGACCCAGGTTGAAGTGTAAGTGGTGGGGGCGGGAGGAACCGTTG
Right flanking sequence: Indices 3083 -- 3582
GACCAACTGTCCGTCGTCATCTGTAGTCACAATCACCACACCAGAATCGGTGACCCCCCCATCTG
TGGTCCAGGTGGTGGTATACTCTGTGCATTCCGGACACTCGTCGCCAGGCGGCCGTGGGAACAAC
GACGTCTGCGTCACTACCTCGCCGTTCTCGTCCGTGGTCACCACTATGACCCCGGAGTCAGTCAC
AGTGACGCCTTCTTCGTCGGTCGTCCACGTTGAAGTGAACTCTGTGCACTCGGGACACTCTCTGG
GGAATATTGACGTGGTGGTGGTGAGCTGGCCGCTGTCGTCAGTGGTCACGATCACCACACCAGAG
TCTGTCTGCGTCACCCCTTCGTCGTCCGTAGTCCAGGTAGTGGTGAACTCTGTACACTCGGGACA
CTCTGGTGTTGGGAACACCGACGTTGTTGTACCGAGCTGGCCGTCTTCGTCGGTCGTCACCTCGA
CGACACCGGACCCAGTCACAGTCTGGCCGTCCTCTCCTGTCGTGG
Found at i:3118 original size:123 final size:123
Alignment explanation
Indices: 2898--3127 Score: 268
Period size: 123 Copynumber: 1.9 Consensus size: 123
2888 ACCCTCATCA
* *
2898 TCTGTCCATGTGGTGGTATACGTCGTGAACCCAGGTAACTCCGGGAACACCGACGTGGTTGTAAC
1 TCTGTCCATGTGGTGGTATACGTCGTCAACCCAGGTAACTCCGGGAACACCGACGTGGTGGTAAC
** * * * * *
2963 TTCTTGACCGTTCTCGTCGGTGGTTACGATCACCACGCCAGACCCAGTGCCCTCGTTG
66 AACTTGACCGTTCTCATCGGTAGTCACAATCACCACACCAGACCCAGTGCCCTCGTTG
** * *
3021 TCTGTCCATGTGGTGGTGA-ACGTCGTCAACCCAGGTGGCTCTGGGAACACCGAGGTGGTGGTGA
1 TCTGTCCATGTGGTGGT-ATACGTCGTCAACCCAGGTAACTCCGGGAACACCGACGTGGTGGT-A
* * *
3085 CCAAC-TGTCCG-TCGTCATCTGTAGTCACAATCACCACACCAGA
64 ACAACTTGACCGTTC-TCATCGGTAGTCACAATCACCACACCAGA
3128 ATCGGTGACC
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
122 2 0.02
123 82 0.93
124 4 0.05
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (123 bp):
TCTGTCCATGTGGTGGTATACGTCGTCAACCCAGGTAACTCCGGGAACACCGACGTGGTGGTAAC
AACTTGACCGTTCTCATCGGTAGTCACAATCACCACACCAGACCCAGTGCCCTCGTTG
Left flanking sequence: Indices 2398 -- 2897
TCGTGGTGTAGGTGAACCCAGGCTCTGGGAACTCCGACGTGGTTGTTGCCCAGCCTTCGGGACCA
CTGGTGATAATCACCACTCCCGAGTCTGTATCCACGTTGCCTTGGTCGTCCGTGGTGACCCAGGT
TGAAGTGTAAGTGGTGGGGGCGGGAGGAACCGTTGGCTCTGGGAACACCGAGGTGGTGGTTACTT
GCTGGCCGTTCTCGTCAGTGGTCACAATAACCACACCAGATTCCGTCTCGCCATCTTCCGTCCAG
GTGGTGGTATACGTCGTAAACCCAGGTAGCTCTGGAAACACCGACGTGGTTGTTGTTTCTTGACC
GTTCTCGTCAGTAGTTACAATTACCACGCCAGATTCCGTCTCGCCATCTTCCGTCCACGTGGTGG
TAAACGTCGTAAACCCAGGTGGCTCTGGGAATATTGAGGTAGTGGTTACTGCCTGGCCATTCTCG
TCAGTGGTCACGATCACCACACCAGAATCCGTGACACCCTCATCA
Right flanking sequence: Indices 3128 -- 3627
ATCGGTGACCCCCCCATCTGTGGTCCAGGTGGTGGTATACTCTGTGCATTCCGGACACTCGTCGC
CAGGCGGCCGTGGGAACAACGACGTCTGCGTCACTACCTCGCCGTTCTCGTCCGTGGTCACCACT
ATGACCCCGGAGTCAGTCACAGTGACGCCTTCTTCGTCGGTCGTCCACGTTGAAGTGAACTCTGT
GCACTCGGGACACTCTCTGGGGAATATTGACGTGGTGGTGGTGAGCTGGCCGCTGTCGTCAGTGG
TCACGATCACCACACCAGAGTCTGTCTGCGTCACCCCTTCGTCGTCCGTAGTCCAGGTAGTGGTG
AACTCTGTACACTCGGGACACTCTGGTGTTGGGAACACCGACGTTGTTGTACCGAGCTGGCCGTC
TTCGTCGGTCGTCACCTCGACGACACCGGACCCAGTCACAGTCTGGCCGTCCTCTCCTGTCGTGG
TCCACGTGGTGGTGTACGTAGTGAGCCCGTCGTCCGGGAACAACG
Found at i:3120 original size:249 final size:246
Alignment explanation
Indices: 2561--3167 Score: 686
Period size: 249 Copynumber: 2.4 Consensus size: 246
2551 GAGGAACCGT
** *
2561 TGGCTCTGGGAACACCGAGGTGGTGGTTACTTGCTGGCCGTTCTCGTCAGTGGTCACAATAACCA
1 TGGCTCTGGGAACACCGAGGTGGTGGTTACTAACTGGCCG-TCTCGTCAGTGGTCACAATCACCA
* * * * *
2626 CACCAGATTCCGT--CTCGCCATCTTCCGTCCAGGTGGTGGTATACGTCGTAAACCCAGGTAGCT
65 CACCAGAATCCGTGACACCCCATC-TCTGTCCAGGTGGTGGTATACGTCGTAAACCCAGGTAACT
* *** *
2689 CTGGAAACACCGACGTGGTTGTTGTTTCTTGACCGTTCTCGTCAGTAGTTACAATTACCACGCCA
129 CCGGAAACACCGACGTGGTTGTAACTTCTTGACCGTTCTCGTCAGTAGTTACAATCACCACGCCA
*
2754 GATTCCGTCTCGCCATCTTCCGTCCACGTGGTGGTAAACGTCGTAAACCCAGG
194 GATCCCGTCTCGCCATCTTCCGTCCACGTGGTGGTAAACGTCGTAAACCCAGG
* ** * ** * *
2807 TGGCTCTGGGAATATTGAGGTAGTGGTTACTGCCTGGCCATTCTCGTCAGTGGTCACGATCACCA
1 TGGCTCTGGGAACACCGAGGTGGTGGTTACTAACTGGCC-GTCTCGTCAGTGGTCACAATCACCA
* *
2872 CACCAGAATCCGTGACACCCTCATCATCTGTCCATGTGGTGGTATACGTCGTGAACCCAGGTAAC
65 CACCAGAATCCGTGACACCC-CATC-TCTGTCCAGGTGGTGGTATACGTCGTAAACCCAGGTAAC
* * * *
2937 TCCGGGAACACCGACGTGGTTGTAACTTCTTGACCGTTCTCGTCGGTGGTTACGATCACCACGCC
128 TCCGGAAACACCGACGTGGTTGTAACTTCTTGACCGTTCTCGTCAGTAGTTACAATCACCACGCC
* * * * *
3002 AGA-CCCAG--T-GCCCTCGTTGTCTGTCCATGTGGTGGTGAACGTCGTCAACCCAGG
193 AGATCCC-GTCTCGCCATC--T-TCCGTCCACGTGGTGGTAAACGTCGTAAACCCAGG
* * * * * *
3056 TGGCTCTGGGAACACCGAGGTGGTGGTGACCAACTGTCCGTCGTCATCTGTAGTCACAATCACCA
1 TGGCTCTGGGAACACCGAGGTGGTGGTTACTAACTGGCCGTC-TCGTCAGTGGTCACAATCACCA
* * *
3121 CACCAGAATCGGTGACCCCCCCATCTGTGGTCCAGGTGGTGGTATAC
65 CACCAGAATCCGTGA-CACCCCATCTCT-GTCCAGGTGGTGGTATAC
3168 TCTGTGCATT
Statistics
Matches: 300, Mismatches: 50, Indels: 19
0.81 0.14 0.05
Matches are distributed among these distances:
246 72 0.24
247 1 0.00
248 10 0.03
249 213 0.71
250 4 0.01
ACGTcount: A:0.20, C:0.29, G:0.26, T:0.26
Consensus pattern (246 bp):
TGGCTCTGGGAACACCGAGGTGGTGGTTACTAACTGGCCGTCTCGTCAGTGGTCACAATCACCAC
ACCAGAATCCGTGACACCCCATCTCTGTCCAGGTGGTGGTATACGTCGTAAACCCAGGTAACTCC
GGAAACACCGACGTGGTTGTAACTTCTTGACCGTTCTCGTCAGTAGTTACAATCACCACGCCAGA
TCCCGTCTCGCCATCTTCCGTCCACGTGGTGGTAAACGTCGTAAACCCAGG
Left flanking sequence: Indices 2061 -- 2560
GTTGGGTCTGGCTGTTGGGGAGCAGTGGCTATGGGCCCGTACTCTGTTGCGTCCATCACAGATTC
TGTGGCTGCACTTTCGAACTGAGGGCCAACCAAGGTTGTCTCGACGGGTGTCTCGACGGGTTCGA
CGGGTGTCTCGATGGGTGTCTCGAAGGGTGTCTCGATGGGTGGCTCAACGGGTGGCTCAACGGGT
GTCTCGACTCCATCATCAGTCGGTTCAGCATTGGTGCCTGTCGTGAACACCGACGTGTATGTGGT
CACTGCGCCATCCTCGTCGGTGGTGACTCCCACTATCCCGGTGTCGGTGTGGACGTGGCCGTCTT
CGTCTGTCCACGTCGTGGTGTAGGTGAACCCAGGCTCTGGGAACTCCGACGTGGTTGTTGCCCAG
CCTTCGGGACCACTGGTGATAATCACCACTCCCGAGTCTGTATCCACGTTGCCTTGGTCGTCCGT
GGTGACCCAGGTTGAAGTGTAAGTGGTGGGGGCGGGAGGAACCGT
Right flanking sequence: Indices 3168 -- 3667
TCTGTGCATTCCGGACACTCGTCGCCAGGCGGCCGTGGGAACAACGACGTCTGCGTCACTACCTC
GCCGTTCTCGTCCGTGGTCACCACTATGACCCCGGAGTCAGTCACAGTGACGCCTTCTTCGTCGG
TCGTCCACGTTGAAGTGAACTCTGTGCACTCGGGACACTCTCTGGGGAATATTGACGTGGTGGTG
GTGAGCTGGCCGCTGTCGTCAGTGGTCACGATCACCACACCAGAGTCTGTCTGCGTCACCCCTTC
GTCGTCCGTAGTCCAGGTAGTGGTGAACTCTGTACACTCGGGACACTCTGGTGTTGGGAACACCG
ACGTTGTTGTACCGAGCTGGCCGTCTTCGTCGGTCGTCACCTCGACGACACCGGACCCAGTCACA
GTCTGGCCGTCCTCTCCTGTCGTGGTCCACGTGGTGGTGTACGTAGTGAGCCCGTCGTCCGGGAA
CAACGACGTCGTTGTCGTGACAGCACCATCTGGGTCCGTAGTGAC
Found at i:4606 original size:141 final size:141
Alignment explanation
Indices: 4167--4594 Score: 802
Period size: 141 Copynumber: 3.0 Consensus size: 141
4157 CCAGGTTGAG
*
4167 GTGAATGTGGTGCATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
1 GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
* *
4232 TTCTTCGTCAGTCGTCACCACAATAACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
66 TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
*
4297 CCCACGTAGAG
131 CCCACGTAGAA
4308 GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
1 GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
* *
4373 TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTAATCCCTTCTTCTTCCGTAG
66 TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
4438 CCCACGTAGAA
131 CCCACGTAGAA
4449 GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
1 GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
4514 TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
66 TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
4579 CCCACGTAGAA
131 CCCACGTAGAA
4590 GTGAA
1 GTGAA
4595 CGTAGTGCAT
Statistics
Matches: 279, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
141 279 1.00
ACGTcount: A:0.20, C:0.28, G:0.27, T:0.25
Consensus pattern (141 bp):
GTGAATGTGGTACATTCATCGCACGTAGGCCGTGGAAACAACGACGTAGTGGTGGTGAGTTGGCC
TTCTTCGTCTGTCGTCACCACAATCACCCCAGAGTCTGTCGCGGTGATCCCCTCTTCTTCCGTAG
CCCACGTAGAA
Left flanking sequence: Indices 3667 -- 4166
CAATAACGACGCCAGACTCGGTTTCGGTCGTTCCATCGTCGTGAGTCGTTGTCCAGGTAGTTGTG
AACGTGGTGTGCGGGTCTGTGGGTTGTGGAAGCACCGACATGGTGGTGCTCAAAGCACCGTCGGG
GTCAGTTGTAACGATAACCACCCCAGAGTCTGTTTGTGTTGTTCCGTCATCGTTGGTTGTGGTCC
AGTCGGTGGTGAATGTCGTGCAATAAGGACATACGCCGGCCGCAGGGAACATGGACGTCGTGGTG
ACGAGCTCGCCTTCTGGGTCGGTGGTGATGATTACGACCCCGGACTCCGTCTGAGGGCCACCTTC
ACCGTCCGTGGTTGTGAAGGTAGTTGTGAACTCAGTGCACTCAACACAGGTTGGGGAAGGTTGGG
GAAATAACGAAGTGGTGGTGGTGAGTTGGCCATCTTCGTCCGTGGTCACCTCCACCACACCTGAC
TCGGTGAGCGTTTGACCCCCCTCGTCCGTTGTCGTCCAGGTTGAG
Right flanking sequence: Indices 4595 -- 5094
CGTAGTGCATTCGTCACAAGGCACCTCTTGGGGTGGCTCCAAAACAGGCGGGGGCGGTCTACAGT
TGTCAGCCCATTCAGCACCTTCGGGAACCGGCCCATCGTATAAAAGAAGAACATCCTCCAAGAAC
AGACCATCCTCTTCCCAGTCTCCAATTCTGAACAAAGACTCGTCGTAACCTGGGCCAATTTCTGC
CGATGTCTCACCATCAAAAGTGAGATGAAAAGTCAATTTTGAGCCGTCGTATTCGATACTCTCAA
TCGGTTGGTCAGTCCGGAAAGCCTTTCCCTGACCATAACCACGCACTATTGTACGTTGGGGCTCA
TCAATGTCTGCACGGAGAAATACAAACCCAGTAGAGTCAACATGAAATTGAATAGTGTGATCCAA
GTGGGAACCACTACCCTGGAAAACACCATCTCCAATAATGTGTATGCATCCAGAGCCCGCTAGCT
GGGACCAGGGCAAATAGAGGTGAGCATTGTCCAAGTAAATGTCGC
Found at i:6068 original size:14 final size:14
Alignment explanation
Indices: 6049--6104 Score: 78
Period size: 14 Copynumber: 4.0 Consensus size: 14
6039 AACCGATTTG
*
6049 GATCTGAGATGGCC
1 GATCTGAGTTGGCC
6063 GATCTGAGTTGGCC
1 GATCTGAGTTGGCC
6077 GATCTGAGTTGGCC
1 GATCTGAGTTGGCC
*
6091 -AGTCTTAGTTGGCC
1 GA-TCTGAGTTGGCC
6105 CAAAAGTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
13 1 0.03
14 38 0.97
ACGTcount: A:0.16, C:0.21, G:0.34, T:0.29
Consensus pattern (14 bp):
GATCTGAGTTGGCC
Left flanking sequence: Indices 5549 -- 6048
GATTGCACCAGCCGTTAAAATGAGTAAAGACCACACGTAATTGCGTAGTATCATCGCGTCAAAAG
GTCTGCTTCGAACTTCGACGGCTTGGTTGTCTTTATAGAATTGTTGGTGTATTCCAGGTTTACGT
GACTAGCAGCCTGACTTGAGGGTCGTCATTACTGGGAACTATTCAACTGACAGGCTCTATAAGCC
TCCTAATTCACTTTCTTTAGCCCAAACAAATCTTTGTATCAGCCAACGCAGACGTACGTGAGTCA
GGAGCCCAGCAAAGACAGCCGTGGAGAAGCGATGTAATTCCATTGGTCCGCCCGGCTCTAACCCA
CACCCGAGCGCTACAGCTTTGAGGTCCGCGTCGGATTTATCGAGGTCCGATTATGCTCAAAAGGC
ACAAATTCAGATATCAGGTGGTGATCTGCTGATTCCCCCAGACCCTCAATCCTGCATTGCTAATT
CAGAGTAACAGGCTTTAGCGAGATCAATGATCTCAAACCGATTTG
Right flanking sequence: Indices 6105 -- 6604
CAAAAGTATAGAGTATAGCTGGGTGACATTTCGTCACCTAACCCAGAACAAGAGACGTCACGACG
TCGCAATGTCACGACGTCACTATAATGCAGATACGATCACGGAAGATCTGAAACAAGATGCTAAT
CGTTGATCTCAGCACCAGAGGACGGTTTCACCCCTGGTCTAGCCCAAATGAGTGGCGGTTGGCTG
CTCAATTCTTCCCCACTGTGGCTGATCAATTCTCCTCCCAGGTAGATCAGCTCAATTCCCCTCAG
ATCAGCTCAATTCCCCTAGCGGTAGAACAACTCAATTCTTCCCCTTCAGCTCAATTCTTCTCCTC
TGTGGCAAACCAGCTCAATTCTTCTTCTATGTGGCAAACCATCTCAATTCTTCCCTCTGGCAGCT
CATTCTTCCCCTCTGGCAGACCAGCTCATTCTTCCCCTCCGTTCTTCACATCTCAACACACGCCT
TGCATTTATTCCGTGTATTCCCTACTTTTTCATGAGTCCCTGTAC
Found at i:6368 original size:20 final size:20
Alignment explanation
Indices: 6343--6381 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6333 CCTCCCAGGT
6343 AGATCAGCTCAATTCCCCTC
1 AGATCAGCTCAATTCCCCTC
6363 AGATCAGCTCAATTCCCCT
1 AGATCAGCTCAATTCCCCT
6382 AGCGGTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.38, G:0.10, T:0.26
Consensus pattern (20 bp):
AGATCAGCTCAATTCCCCTC
Left flanking sequence: Indices 5843 -- 6342
TAATTCCATTGGTCCGCCCGGCTCTAACCCACACCCGAGCGCTACAGCTTTGAGGTCCGCGTCGG
ATTTATCGAGGTCCGATTATGCTCAAAAGGCACAAATTCAGATATCAGGTGGTGATCTGCTGATT
CCCCCAGACCCTCAATCCTGCATTGCTAATTCAGAGTAACAGGCTTTAGCGAGATCAATGATCTC
AAACCGATTTGGATCTGAGATGGCCGATCTGAGTTGGCCGATCTGAGTTGGCCAGTCTTAGTTGG
CCCAAAAGTATAGAGTATAGCTGGGTGACATTTCGTCACCTAACCCAGAACAAGAGACGTCACGA
CGTCGCAATGTCACGACGTCACTATAATGCAGATACGATCACGGAAGATCTGAAACAAGATGCTA
ATCGTTGATCTCAGCACCAGAGGACGGTTTCACCCCTGGTCTAGCCCAAATGAGTGGCGGTTGGC
TGCTCAATTCTTCCCCACTGTGGCTGATCAATTCTCCTCCCAGGT
Right flanking sequence: Indices 6382 -- 6881
AGCGGTAGAACAACTCAATTCTTCCCCTTCAGCTCAATTCTTCTCCTCTGTGGCAAACCAGCTCA
ATTCTTCTTCTATGTGGCAAACCATCTCAATTCTTCCCTCTGGCAGCTCATTCTTCCCCTCTGGC
AGACCAGCTCATTCTTCCCCTCCGTTCTTCACATCTCAACACACGCCTTGCATTTATTCCGTGTA
TTCCCTACTTTTTCATGAGTCCCTGTACCGACGGCATTCTGCGAGAGAACCGCCGCATCAAATTG
TCCTTGTGGGGCGAGCTGCTATCGAGACTCGGGGTCCCGCTGGTGTTGGACCCGCTCCGGTGCCG
CGTGGGCGACCCTGAGATCCGGCTCGAGCGCGACAGGTTGCGGTGGGACCCCAACGGCGGGGTGG
CAGCCCTGGGCAGCTCACCGTCAAAATCCCCCCCGTAGGCACTCGTCGCGAGGATCAGCCCGCGG
GTGTGGCTCTTCTCGGGCGACGGCAGCTCCTTCGGGGGCCGTGGC
Found at i:6453 original size:29 final size:29
Alignment explanation
Indices: 6411--6488 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
6401 TCTTCCCCTT
6411 CAGCTCAATTCTTCTCCTCTGTGGCAAAC
1 CAGCTCAATTCTTCTCCTCTGTGGCAAAC
* *
6440 CAGCTCAATTCTTCTTCTATGTGGCAAAC
1 CAGCTCAATTCTTCTCCTCTGTGGCAAAC
*
6469 CATCTCAATTCTTC-CCTCTG
1 CAGCTCAATTCTTCTCCTCTG
6489 GCAGCTCATT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 4 0.09
29 40 0.91
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.35
Consensus pattern (29 bp):
CAGCTCAATTCTTCTCCTCTGTGGCAAAC
Left flanking sequence: Indices 5911 -- 6410
TATCGAGGTCCGATTATGCTCAAAAGGCACAAATTCAGATATCAGGTGGTGATCTGCTGATTCCC
CCAGACCCTCAATCCTGCATTGCTAATTCAGAGTAACAGGCTTTAGCGAGATCAATGATCTCAAA
CCGATTTGGATCTGAGATGGCCGATCTGAGTTGGCCGATCTGAGTTGGCCAGTCTTAGTTGGCCC
AAAAGTATAGAGTATAGCTGGGTGACATTTCGTCACCTAACCCAGAACAAGAGACGTCACGACGT
CGCAATGTCACGACGTCACTATAATGCAGATACGATCACGGAAGATCTGAAACAAGATGCTAATC
GTTGATCTCAGCACCAGAGGACGGTTTCACCCCTGGTCTAGCCCAAATGAGTGGCGGTTGGCTGC
TCAATTCTTCCCCACTGTGGCTGATCAATTCTCCTCCCAGGTAGATCAGCTCAATTCCCCTCAGA
TCAGCTCAATTCCCCTAGCGGTAGAACAACTCAATTCTTCCCCTT
Right flanking sequence: Indices 6489 -- 6988
GCAGCTCATTCTTCCCCTCTGGCAGACCAGCTCATTCTTCCCCTCCGTTCTTCACATCTCAACAC
ACGCCTTGCATTTATTCCGTGTATTCCCTACTTTTTCATGAGTCCCTGTACCGACGGCATTCTGC
GAGAGAACCGCCGCATCAAATTGTCCTTGTGGGGCGAGCTGCTATCGAGACTCGGGGTCCCGCTG
GTGTTGGACCCGCTCCGGTGCCGCGTGGGCGACCCTGAGATCCGGCTCGAGCGCGACAGGTTGCG
GTGGGACCCCAACGGCGGGGTGGCAGCCCTGGGCAGCTCACCGTCAAAATCCCCCCCGTAGGCAC
TCGTCGCGAGGATCAGCCCGCGGGTGTGGCTCTTCTCGGGCGACGGCAGCTCCTTCGGGGGCCGT
GGCTGGAGCGCGGGCGAGCTCACGAGGTGCTTGCGCTTCGACAACCGGAACACCGTCTGCACGGG
CTTCAAGTAGATCAGGGCCAACGTCCCGATGGCAAGCTCGAGCTC
Found at i:6490 original size:26 final size:27
Alignment explanation
Indices: 6411--6533 Score: 100
Period size: 29 Copynumber: 4.7 Consensus size: 27
6401 TCTTCCCCTT
6411 CAGCTCAATTCTTCTCCTCTGTGGCAAAC
1 CAGCTCAATTCTTCTCCTC--TGGCAAAC
* *
6440 CAGCTCAATTCTTCTTCTATGTGGCAAAC
1 CAGCTCAATTCTTC-TC-CTCTGGCAAAC
*
6469 CATCTCAATTCTTC-CCTCTGG-----
1 CAGCTCAATTCTTCTCCTCTGGCAAAC
* *
6490 CAGCTC-ATTCTTCCCCTCTGGCAGAC
1 CAGCTCAATTCTTCTCCTCTGGCAAAC
*
6516 CAGCTC-ATTCTTCCCCTC
1 CAGCTCAATTCTTCTCCTC
6534 CGTTCTTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 19
0.76 0.06 0.18
Matches are distributed among these distances:
20 7 0.09
21 12 0.15
26 22 0.28
27 1 0.01
29 35 0.44
30 2 0.03
31 1 0.01
ACGTcount: A:0.18, C:0.37, G:0.12, T:0.33
Consensus pattern (27 bp):
CAGCTCAATTCTTCTCCTCTGGCAAAC
Left flanking sequence: Indices 5911 -- 6410
TATCGAGGTCCGATTATGCTCAAAAGGCACAAATTCAGATATCAGGTGGTGATCTGCTGATTCCC
CCAGACCCTCAATCCTGCATTGCTAATTCAGAGTAACAGGCTTTAGCGAGATCAATGATCTCAAA
CCGATTTGGATCTGAGATGGCCGATCTGAGTTGGCCGATCTGAGTTGGCCAGTCTTAGTTGGCCC
AAAAGTATAGAGTATAGCTGGGTGACATTTCGTCACCTAACCCAGAACAAGAGACGTCACGACGT
CGCAATGTCACGACGTCACTATAATGCAGATACGATCACGGAAGATCTGAAACAAGATGCTAATC
GTTGATCTCAGCACCAGAGGACGGTTTCACCCCTGGTCTAGCCCAAATGAGTGGCGGTTGGCTGC
TCAATTCTTCCCCACTGTGGCTGATCAATTCTCCTCCCAGGTAGATCAGCTCAATTCCCCTCAGA
TCAGCTCAATTCCCCTAGCGGTAGAACAACTCAATTCTTCCCCTT
Right flanking sequence: Indices 6534 -- 7033
CGTTCTTCACATCTCAACACACGCCTTGCATTTATTCCGTGTATTCCCTACTTTTTCATGAGTCC
CTGTACCGACGGCATTCTGCGAGAGAACCGCCGCATCAAATTGTCCTTGTGGGGCGAGCTGCTAT
CGAGACTCGGGGTCCCGCTGGTGTTGGACCCGCTCCGGTGCCGCGTGGGCGACCCTGAGATCCGG
CTCGAGCGCGACAGGTTGCGGTGGGACCCCAACGGCGGGGTGGCAGCCCTGGGCAGCTCACCGTC
AAAATCCCCCCCGTAGGCACTCGTCGCGAGGATCAGCCCGCGGGTGTGGCTCTTCTCGGGCGACG
GCAGCTCCTTCGGGGGCCGTGGCTGGAGCGCGGGCGAGCTCACGAGGTGCTTGCGCTTCGACAAC
CGGAACACCGTCTGCACGGGCTTCAAGTAGATCAGGGCCAACGTCCCGATGGCAAGCTCGAGCTC
CTCGAGGATCAGCGGGTCGATGGTGTCGTTGTCGGCCGAGATCTC
Found at i:14126 original size:18 final size:19
Alignment explanation
Indices: 14103--14140 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14093 AGACAGGGAA
*
14103 GGGAATGGGA-AATGGGTG
1 GGGAATGGGAGAAGGGGTG
14121 GGGAATGGGAGAAGGGGTG
1 GGGAATGGGAGAAGGGGTG
14140 G
1 G
14141 TGTAGTGGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.61, T:0.13
Consensus pattern (19 bp):
GGGAATGGGAGAAGGGGTG
Left flanking sequence: Indices 13603 -- 14102
AAATCACGGTGCATGATGAGTTTGCGCCCGCGGGTGTACTCGACGTCCACGTAGATGGGGGCCGA
GTACGTCAAGTCCCGCAACCGGCACTCGTGGGGCGGCAAAATGACCTCCTTGGTCCCGGGGGCCA
GCAGCAGCTTGTGGCCGACCCGGATGTCCAAGTACTTCAAGTAGAACTCGGGGTCGACGTCCAGC
AACACGTACTCGTTGGCGGCAATGATCTTTTTCAAGTCGGTGTCGACGAAGTAGTTGAACGAGTC
GAGGTGCTGTTTGACGAGGCCCTTGACCTTGAGGAACGCCGGGAGGAGGTTCCACTTGTCTTTGG
CGGTGTCGATGGCGTCGGTGAGCAGCTTGCCGCGGTACTGCGGCTGTAGCAACTCCGAGAACGCC
TCGTCGGTGGTGGCCATGGTGTTGTGGTGTGGATGGGGGAATGGGAGGATTGTGGTGATCTGAGA
TGTCATCGCGAATGCGGGGCTCGCAACGGGGGGGAAGACAGGGAA
Right flanking sequence: Indices 14141 -- 14640
TGTAGTGGTGTTGTGGGGTGGTGTTGGGTGGTATGGTGATGGTATGTGTGTTTTGTAGTGGTTGT
GTTGGTTTCGTTGGTCTTAGTCTTGGTGGTGTATGGCTGGTGATGAGGATTAGTAAGAACGCGAA
GGTGGGTGGAAAACCGGTGTAGGTTGAGCGCGGTGGGAGATACCGGTGGGGATAGAGATTGGGTG
TGGCTGGGAGTAGTGTAGAGGGGTTTTATCTACTCAATCGGTGCTTTGAATGGGCTGGTTGTGTG
TACGCGATGGTGGACAATTAGTTCACATATGGGGCGGTAGAGTGCTGGAAACAAGCTGGAAACAA
GCTGGTGGGCTGTTTAGCCCGGTTTCAATGGCTACGTACTACTCTTTCTCCGTCCACCCCTCTCC
TCGCTGAAACACTGGCGTCTACTTGCTCGTCTATGTTAATATACTGCATATAGTGCGGTCGGCTA
ACCAATTCACCGATAGTCAGGGCCAAACGTGGTGAAAAGTTCTTA
Found at i:14460 original size:11 final size:11
Alignment explanation
Indices: 14444--14470 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14434 GCGGTAGAGT
14444 GCTGGAAACAA
1 GCTGGAAACAA
14455 GCTGGAAACAA
1 GCTGGAAACAA
14466 GCTGG
1 GCTGG
14471 TGGGCTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.19, G:0.33, T:0.11
Consensus pattern (11 bp):
GCTGGAAACAA
Left flanking sequence: Indices 13944 -- 14443
GGTGAGCAGCTTGCCGCGGTACTGCGGCTGTAGCAACTCCGAGAACGCCTCGTCGGTGGTGGCCA
TGGTGTTGTGGTGTGGATGGGGGAATGGGAGGATTGTGGTGATCTGAGATGTCATCGCGAATGCG
GGGCTCGCAACGGGGGGGAAGACAGGGAAGGGAATGGGAAATGGGTGGGGAATGGGAGAAGGGGT
GGTGTAGTGGTGTTGTGGGGTGGTGTTGGGTGGTATGGTGATGGTATGTGTGTTTTGTAGTGGTT
GTGTTGGTTTCGTTGGTCTTAGTCTTGGTGGTGTATGGCTGGTGATGAGGATTAGTAAGAACGCG
AAGGTGGGTGGAAAACCGGTGTAGGTTGAGCGCGGTGGGAGATACCGGTGGGGATAGAGATTGGG
TGTGGCTGGGAGTAGTGTAGAGGGGTTTTATCTACTCAATCGGTGCTTTGAATGGGCTGGTTGTG
TGTACGCGATGGTGGACAATTAGTTCACATATGGGGCGGTAGAGT
Right flanking sequence: Indices 14471 -- 14970
TGGGCTGTTTAGCCCGGTTTCAATGGCTACGTACTACTCTTTCTCCGTCCACCCCTCTCCTCGCT
GAAACACTGGCGTCTACTTGCTCGTCTATGTTAATATACTGCATATAGTGCGGTCGGCTAACCAA
TTCACCGATAGTCAGGGCCAAACGTGGTGAAAAGTTCTTAGAAAAGACTCGATTCGGGTGTCAGC
CTCACTGATAGAGGTCCGTTATCTTACTGTCCCAATTGAACGAATTTCAACCTTCTCTACCGTTC
CACTTTTCCATTTATTGAAACTAACATTCCAGTCAATGTTCAATAGGCAACCTATCTCTCTTTCT
CTTTCTCTCTTCCTCTCTTTCCCTACTGTCCCAATTGAACCAGTTTCATCCTCCTCTAACCACTT
TACCATATATTGAGTCACCTAACTAACCATTCCAGTCAATATTCAAAAGGCAACCTATCTGTGTG
TCTTTCTTTCTCTCTTTCTTTCTTTATGTCCTTCCCCCCTTTCTC
Found at i:16003 original size:22 final size:19
Alignment explanation
Indices: 15966--16012 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 19
15956 AGAGGCGTGG
15966 AGAGGTGGTGGGGG-TTGTT
1 AGAGGTGGTGGGGGTTTG-T
15985 AGAGGTGGTGTGTGTGGTTTGT
1 AGAGGTGGTG-G-G-GGTTTGT
16007 AGAGGT
1 AGAGGT
16013 ATGAGTGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 10 0.42
20 1 0.04
21 1 0.04
22 9 0.38
23 3 0.12
ACGTcount: A:0.13, C:0.00, G:0.53, T:0.34
Consensus pattern (19 bp):
AGAGGTGGTGGGGGTTTGT
Left flanking sequence: Indices 15466 -- 15965
GCGTTCAGCGACAAGTGGTTGAAGTCCGCAAGGAAGTTGCCGGCGGCCCCCGCTATCACGTAGTC
GATCCGGCCCAACTCCGCCACCGTCTTGTCGGCCGCAGCCTTGAGCGACTGCACAGACCGCACGT
CGGTGTTGGGGCACGCCACCACTCGCGCTCCTGGCCGTACCCGCGACAATTGCTCGGCCGCAGCC
ACCGTCTTGCTCTCGTTGCGCCCGATGATGGCCGCGTCGGCCCCGAGGGCGATCATGGCCTCGGC
CTGGTCCTTGCAAATGGTGCCACCGCCGCCGGTGACAAACACGACTTTGCCCTTGAAGAGATCGG
GCTTCCACACCGACTCGGTGCTCCAGTGGTTTCCAAGAGGCATGGTGTGGGGATGGCGTTGGTTG
GTTTTGTGGGGTATAATCACGTGAAAGTGAGAGAACGCGAGATAAGGGTGGGGTGGTTGAATGGA
ATGAGGAGATGTAGGGGGGATGGTGAAGGGGTTGGAGAGGCGTGG
Right flanking sequence: Indices 16013 -- 16512
ATGAGTGAGAGTTGTGGTTTCTTTCTTTGCTTTGAGTCTTGTTCGGGGCCGTTAAGGTTCCGGAG
TTATATCCGGTGCGATCGTACGATTTTGTGGATGGCTGCAAACGGTAAGCGAGAGGACAATGGAT
TGGGTGAGGTGGGGACCCAGGAGTGGGCGAGTTGGGACCCGCGGGTTGTTCAAATTATAGTAAGT
GCTGATACGAGCTGATAGACACTTTCTTCTCTAGGTCGCATTAGTTTCATCATCCATTGGAGGTT
GCATTTTCTCAATGCAACCTGTCACTTCACAAAACAGCCTCGCACCACCTGAGCGCCTCGGTGAC
GCTGACATTCCACTACGTGTCAACCTCGTCACACATTCTTCTCTATTCTCCGAGTCAAACCACAA
TTTGACTCCCTTTGTAACTCTCATAAATATACATTTTCCCTCCTCCACCCTCAGCAATCCTCAGC
AATCCTCAGCAACCCTCATAGAACCTCTATCTACCTCCTACCTCC
Found at i:16464 original size:10 final size:10
Alignment explanation
Indices: 16451--16485 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
16441 CCTCCTCCAC
16451 CCTCAGCAAT
1 CCTCAGCAAT
16461 CCTCAGCAAT
1 CCTCAGCAAT
*
16471 CCTCAGCAAC
1 CCTCAGCAAT
16481 CCTCA
1 CCTCA
16486 TAGAACCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.46, G:0.09, T:0.17
Consensus pattern (10 bp):
CCTCAGCAAT
Left flanking sequence: Indices 15951 -- 16450
GTTGGAGAGGCGTGGAGAGGTGGTGGGGGTTGTTAGAGGTGGTGTGTGTGGTTTGTAGAGGTATG
AGTGAGAGTTGTGGTTTCTTTCTTTGCTTTGAGTCTTGTTCGGGGCCGTTAAGGTTCCGGAGTTA
TATCCGGTGCGATCGTACGATTTTGTGGATGGCTGCAAACGGTAAGCGAGAGGACAATGGATTGG
GTGAGGTGGGGACCCAGGAGTGGGCGAGTTGGGACCCGCGGGTTGTTCAAATTATAGTAAGTGCT
GATACGAGCTGATAGACACTTTCTTCTCTAGGTCGCATTAGTTTCATCATCCATTGGAGGTTGCA
TTTTCTCAATGCAACCTGTCACTTCACAAAACAGCCTCGCACCACCTGAGCGCCTCGGTGACGCT
GACATTCCACTACGTGTCAACCTCGTCACACATTCTTCTCTATTCTCCGAGTCAAACCACAATTT
GACTCCCTTTGTAACTCTCATAAATATACATTTTCCCTCCTCCAC
Right flanking sequence: Indices 16486 -- 16985
TAGAACCTCTATCTACCTCCTACCTCCTACCTCCTACCTCCTACCTCCTCCTCTACCTCCACCTC
CTCTACCTTCCTCCTCTACCTCCACTTCCCTCCTTCCTTCTTCCTCTCTCTCTTCCCCCCCTCTA
CCCCACTTAAACGCGTTTTTCGCGCGCGTTTCACAATCACCCGACCCAAACGCCAACCATGCTCT
ACCGCCGGACCGGCCGCAGAGCGTTGCTTGTGCTAGCTGTTCTCATGGCCCCCTTGCTTGTCATC
GGGGTCATGTCCTACACCCACCCCCACCACGTCCAGAAGCTGCTTGACAAGCTCAAGGACTTTGC
TCCGAAACAGGACCACTTTGACTACTTGTTGCTGAAGTTCAAGGGCACCAACTCCACAATGTCCG
TGGGCGACGGCGCCACCATCGAGAAGGAAAACGTCGGCTTTGAGTTTGTGCGGAAAAAATCAGGT
CTGGCCGACGCCATTGCCAAAAAGAACACCAAGACCTACCAGGAC
Found at i:16510 original size:7 final size:7
Alignment explanation
Indices: 16498--16573 Score: 90
Period size: 7 Copynumber: 11.1 Consensus size: 7
16488 GAACCTCTAT
16498 CTACCTC
1 CTACCTC
16505 CTACCTC
1 CTACCTC
16512 CTACCTC
1 CTACCTC
16519 CTACCTC
1 CTACCTC
16526 CTACCTC
1 CTACCTC
16533 CT-CCT-
1 CTACCTC
16538 CTACCTC
1 CTACCTC
16545 C-ACCTCC
1 CTACCT-C
16552 TCTACCTTC
1 -CTACC-TC
16561 CT-CCT-
1 CTACCTC
16566 CTACCTC
1 CTACCTC
16573 C
1 C
16574 ACTTCCCTCC
Statistics
Matches: 61, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
5 4 0.07
6 14 0.23
7 35 0.57
8 3 0.05
9 4 0.07
10 1 0.02
ACGTcount: A:0.12, C:0.58, G:0.00, T:0.30
Consensus pattern (7 bp):
CTACCTC
Left flanking sequence: Indices 15998 -- 16497
GTGGTTTGTAGAGGTATGAGTGAGAGTTGTGGTTTCTTTCTTTGCTTTGAGTCTTGTTCGGGGCC
GTTAAGGTTCCGGAGTTATATCCGGTGCGATCGTACGATTTTGTGGATGGCTGCAAACGGTAAGC
GAGAGGACAATGGATTGGGTGAGGTGGGGACCCAGGAGTGGGCGAGTTGGGACCCGCGGGTTGTT
CAAATTATAGTAAGTGCTGATACGAGCTGATAGACACTTTCTTCTCTAGGTCGCATTAGTTTCAT
CATCCATTGGAGGTTGCATTTTCTCAATGCAACCTGTCACTTCACAAAACAGCCTCGCACCACCT
GAGCGCCTCGGTGACGCTGACATTCCACTACGTGTCAACCTCGTCACACATTCTTCTCTATTCTC
CGAGTCAAACCACAATTTGACTCCCTTTGTAACTCTCATAAATATACATTTTCCCTCCTCCACCC
TCAGCAATCCTCAGCAATCCTCAGCAACCCTCATAGAACCTCTAT
Right flanking sequence: Indices 16574 -- 17073
ACTTCCCTCCTTCCTTCTTCCTCTCTCTCTTCCCCCCCTCTACCCCACTTAAACGCGTTTTTCGC
GCGCGTTTCACAATCACCCGACCCAAACGCCAACCATGCTCTACCGCCGGACCGGCCGCAGAGCG
TTGCTTGTGCTAGCTGTTCTCATGGCCCCCTTGCTTGTCATCGGGGTCATGTCCTACACCCACCC
CCACCACGTCCAGAAGCTGCTTGACAAGCTCAAGGACTTTGCTCCGAAACAGGACCACTTTGACT
ACTTGTTGCTGAAGTTCAAGGGCACCAACTCCACAATGTCCGTGGGCGACGGCGCCACCATCGAG
AAGGAAAACGTCGGCTTTGAGTTTGTGCGGAAAAAATCAGGTCTGGCCGACGCCATTGCCAAAAA
GAACACCAAGACCTACCAGGACCTCTTGACCCAGCCAATCACCGAGCCACTTGACTATGACGTCA
ACCTTTTGCGGGCACCCCCGCTGCCGCACGACTACCCGAACCGTG
Found at i:16530 original size:28 final size:27
Alignment explanation
Indices: 16497--16575 Score: 108
Period size: 28 Copynumber: 2.9 Consensus size: 27
16487 AGAACCTCTA
16497 TCTACCTCCTACCTCCTACCTCCTACCT-C
1 TCTACCTCCT-CCT-CTACCTCC-ACCTCC
16526 -CTACCTCCTCCTCTACCTCCACCTCC
1 TCTACCTCCTCCTCTACCTCCACCTCC
16552 TCTACCTTCCTCCTCTACCTCCAC
1 TCTACC-TCCTCCTCTACCTCCAC
16576 TTCCCTCCTT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
25 4 0.09
26 9 0.19
27 8 0.17
28 26 0.55
ACGTcount: A:0.13, C:0.57, G:0.00, T:0.30
Consensus pattern (27 bp):
TCTACCTCCTCCTCTACCTCCACCTCC
Left flanking sequence: Indices 15997 -- 16496
TGTGGTTTGTAGAGGTATGAGTGAGAGTTGTGGTTTCTTTCTTTGCTTTGAGTCTTGTTCGGGGC
CGTTAAGGTTCCGGAGTTATATCCGGTGCGATCGTACGATTTTGTGGATGGCTGCAAACGGTAAG
CGAGAGGACAATGGATTGGGTGAGGTGGGGACCCAGGAGTGGGCGAGTTGGGACCCGCGGGTTGT
TCAAATTATAGTAAGTGCTGATACGAGCTGATAGACACTTTCTTCTCTAGGTCGCATTAGTTTCA
TCATCCATTGGAGGTTGCATTTTCTCAATGCAACCTGTCACTTCACAAAACAGCCTCGCACCACC
TGAGCGCCTCGGTGACGCTGACATTCCACTACGTGTCAACCTCGTCACACATTCTTCTCTATTCT
CCGAGTCAAACCACAATTTGACTCCCTTTGTAACTCTCATAAATATACATTTTCCCTCCTCCACC
CTCAGCAATCCTCAGCAATCCTCAGCAACCCTCATAGAACCTCTA
Right flanking sequence: Indices 16576 -- 17075
TTCCCTCCTTCCTTCTTCCTCTCTCTCTTCCCCCCCTCTACCCCACTTAAACGCGTTTTTCGCGC
GCGTTTCACAATCACCCGACCCAAACGCCAACCATGCTCTACCGCCGGACCGGCCGCAGAGCGTT
GCTTGTGCTAGCTGTTCTCATGGCCCCCTTGCTTGTCATCGGGGTCATGTCCTACACCCACCCCC
ACCACGTCCAGAAGCTGCTTGACAAGCTCAAGGACTTTGCTCCGAAACAGGACCACTTTGACTAC
TTGTTGCTGAAGTTCAAGGGCACCAACTCCACAATGTCCGTGGGCGACGGCGCCACCATCGAGAA
GGAAAACGTCGGCTTTGAGTTTGTGCGGAAAAAATCAGGTCTGGCCGACGCCATTGCCAAAAAGA
ACACCAAGACCTACCAGGACCTCTTGACCCAGCCAATCACCGAGCCACTTGACTATGACGTCAAC
CTTTTGCGGGCACCCCCGCTGCCGCACGACTACCCGAACCGTGCC
Found at i:21508 original size:11 final size:10
Alignment explanation
Indices: 21490--21589 Score: 84
Period size: 11 Copynumber: 10.0 Consensus size: 10
21480 GTACGCCAAA
21490 CCTACACAAT
1 CCTACACAAT
*
21500 CCGTACACAAG
1 CC-TACACAAT
21511 CCGTACACAAT
1 CC-TACACAAT
*
21522 CACTAGACAAT
1 C-CTACACAAT
*
21533 TCTACACAAT
1 CCTACACAAT
*
21543 CCCTCCACAATT
1 -CCTACACAA-T
21555 CC--CACAAT
1 CCTACACAAT
21563 CCTACAC-AT
1 CCTACACAAT
21572 CC--CACAAT
1 CCTACACAAT
21580 CCTACACAAT
1 CCTACACAAT
21590 TCACCCCATG
Statistics
Matches: 74, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
7 3 0.04
8 7 0.09
9 9 0.12
10 19 0.26
11 34 0.46
12 2 0.03
ACGTcount: A:0.37, C:0.40, G:0.04, T:0.19
Consensus pattern (10 bp):
CCTACACAAT
Left flanking sequence: Indices 20990 -- 21489
AGGCTCATCTCACAATATGTCTGGTCTACCGGCTCTCGGGGGTTTATGTAACTGAAAACCACCGA
CGAACACTAAGATGACCACTAAAATATGCATTACTCATTATAGCCAAACACTTGACGCTCACAAG
CTCGTGGAAATTAGAACAGATAAGCTACACGATGTGTTGGCATGCCGCACATATGAGGACGTAGA
TTGGTGAAATTTGCTTTTATACCGCGGCGATGGCCGGTGTGCACATAGGCACCTGTGTCACGTGA
GCGCTAAGTTACCCGCCTAGCTTAGGGCTAAGTGTCAGCCGGCTGGAATCGGTAGGCGATGCGGG
GTGGTTGCAGGCCCATGCACCCCGCTGTTAGGTTGACACAAAGTGTGAATGTGGTGATGTAACAT
TCATCGGGCAGATTAGGAAATACACGAGCAGTACGAGTCGGAGTCCCTCAATTGCAACAGATTGC
AGACATTCCCAAACCCAAACAAGTCCACATAATTCGTACGCCAAA
Right flanking sequence: Indices 21590 -- 22089
TCACCCCATGTCATGGTGATCGACCCAATACTCCTCTAACACTCTTCTCGTACCTTACTTCTCAT
CTTCATTTAATCTCCTTCGTCATTCCTATCCTCGCCTCACGCTACATCTTACCATCTCTCTCCTC
CCACTTCCGTCACCTCCATTCTACTTCCCATTTCCGTCACTTCCATTCTCCTTCCCCCTCCTACT
TCTCTCCTCCTACTTCCCACCTACTTCCCTCCTACTTCTCCCGCTTCACCCTGATTCACCCTTAC
CCCCCTCACTCCCTTCTTCCCCTCTTCTCCCTATTCCACGTCCAAACCTTGTTCTCCCACCTCAC
ACGACTCCACCCGGACACCTTTCTCCCGTCGTGGGCCCATCTATTTTTGCAATCGTTAGCGATCG
CACGCACCAACCACCCGCTAGCCAATGAACGACGCGCAAACCGCGACAATATTTACCCCGTGTGT
CAGCCTCGACACACCCACCCGCCGTAGCGAGCCCCCAGCAGCCCC
Found at i:21552 original size:21 final size:21
Alignment explanation
Indices: 21491--21591 Score: 79
Period size: 21 Copynumber: 5.0 Consensus size: 21
21481 TACGCCAAAC
* **
21491 CTACACAATCCGTACACAAGC
1 CTACACAATCCCTACACAATT
* *
21512 CGTACACAATCACTAGACAATT
1 C-TACACAATCCCTACACAATT
*
21534 CTACACAATCCCTCCACAATT
1 CTACACAATCCCTACACAATT
*
21555 C-CCACAAT-CCTACAC-A-T
1 CTACACAATCCCTACACAATT
*
21572 C-CCACAAT-CCTACACAATT
1 CTACACAATCCCTACACAATT
21591 C
1 C
21592 ACCCCATGTC
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
17 16 0.24
18 2 0.03
19 8 0.12
20 6 0.09
21 19 0.28
22 16 0.24
ACGTcount: A:0.37, C:0.40, G:0.04, T:0.20
Consensus pattern (21 bp):
CTACACAATCCCTACACAATT
Left flanking sequence: Indices 20991 -- 21490
GGCTCATCTCACAATATGTCTGGTCTACCGGCTCTCGGGGGTTTATGTAACTGAAAACCACCGAC
GAACACTAAGATGACCACTAAAATATGCATTACTCATTATAGCCAAACACTTGACGCTCACAAGC
TCGTGGAAATTAGAACAGATAAGCTACACGATGTGTTGGCATGCCGCACATATGAGGACGTAGAT
TGGTGAAATTTGCTTTTATACCGCGGCGATGGCCGGTGTGCACATAGGCACCTGTGTCACGTGAG
CGCTAAGTTACCCGCCTAGCTTAGGGCTAAGTGTCAGCCGGCTGGAATCGGTAGGCGATGCGGGG
TGGTTGCAGGCCCATGCACCCCGCTGTTAGGTTGACACAAAGTGTGAATGTGGTGATGTAACATT
CATCGGGCAGATTAGGAAATACACGAGCAGTACGAGTCGGAGTCCCTCAATTGCAACAGATTGCA
GACATTCCCAAACCCAAACAAGTCCACATAATTCGTACGCCAAAC
Right flanking sequence: Indices 21592 -- 22091
ACCCCATGTCATGGTGATCGACCCAATACTCCTCTAACACTCTTCTCGTACCTTACTTCTCATCT
TCATTTAATCTCCTTCGTCATTCCTATCCTCGCCTCACGCTACATCTTACCATCTCTCTCCTCCC
ACTTCCGTCACCTCCATTCTACTTCCCATTTCCGTCACTTCCATTCTCCTTCCCCCTCCTACTTC
TCTCCTCCTACTTCCCACCTACTTCCCTCCTACTTCTCCCGCTTCACCCTGATTCACCCTTACCC
CCCTCACTCCCTTCTTCCCCTCTTCTCCCTATTCCACGTCCAAACCTTGTTCTCCCACCTCACAC
GACTCCACCCGGACACCTTTCTCCCGTCGTGGGCCCATCTATTTTTGCAATCGTTAGCGATCGCA
CGCACCAACCACCCGCTAGCCAATGAACGACGCGCAAACCGCGACAATATTTACCCCGTGTGTCA
GCCTCGACACACCCACCCGCCGTAGCGAGCCCCCAGCAGCCCCGT
Found at i:21576 original size:17 final size:17
Alignment explanation
Indices: 21554--21587 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21544 CCTCCACAAT
21554 TCCCACAATCCTACACA
1 TCCCACAATCCTACACA
21571 TCCCACAATCCTACACA
1 TCCCACAATCCTACACA
21588 ATTCACCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (17 bp):
TCCCACAATCCTACACA
Left flanking sequence: Indices 21054 -- 21553
ACGAACACTAAGATGACCACTAAAATATGCATTACTCATTATAGCCAAACACTTGACGCTCACAA
GCTCGTGGAAATTAGAACAGATAAGCTACACGATGTGTTGGCATGCCGCACATATGAGGACGTAG
ATTGGTGAAATTTGCTTTTATACCGCGGCGATGGCCGGTGTGCACATAGGCACCTGTGTCACGTG
AGCGCTAAGTTACCCGCCTAGCTTAGGGCTAAGTGTCAGCCGGCTGGAATCGGTAGGCGATGCGG
GGTGGTTGCAGGCCCATGCACCCCGCTGTTAGGTTGACACAAAGTGTGAATGTGGTGATGTAACA
TTCATCGGGCAGATTAGGAAATACACGAGCAGTACGAGTCGGAGTCCCTCAATTGCAACAGATTG
CAGACATTCCCAAACCCAAACAAGTCCACATAATTCGTACGCCAAACCTACACAATCCGTACACA
AGCCGTACACAATCACTAGACAATTCTACACAATCCCTCCACAAT
Right flanking sequence: Indices 21588 -- 22087
ATTCACCCCATGTCATGGTGATCGACCCAATACTCCTCTAACACTCTTCTCGTACCTTACTTCTC
ATCTTCATTTAATCTCCTTCGTCATTCCTATCCTCGCCTCACGCTACATCTTACCATCTCTCTCC
TCCCACTTCCGTCACCTCCATTCTACTTCCCATTTCCGTCACTTCCATTCTCCTTCCCCCTCCTA
CTTCTCTCCTCCTACTTCCCACCTACTTCCCTCCTACTTCTCCCGCTTCACCCTGATTCACCCTT
ACCCCCCTCACTCCCTTCTTCCCCTCTTCTCCCTATTCCACGTCCAAACCTTGTTCTCCCACCTC
ACACGACTCCACCCGGACACCTTTCTCCCGTCGTGGGCCCATCTATTTTTGCAATCGTTAGCGAT
CGCACGCACCAACCACCCGCTAGCCAATGAACGACGCGCAAACCGCGACAATATTTACCCCGTGT
GTCAGCCTCGACACACCCACCCGCCGTAGCGAGCCCCCAGCAGCC
Found at i:21748 original size:27 final size:27
Alignment explanation
Indices: 21718--21775 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
21708 ATCTCTCTCC
21718 TCCCACTTCCGTCACCTCCATTCTACT
1 TCCCACTTCCGTCACCTCCATTCTACT
* * *
21745 TCCCATTTCCGTCACTTCCATTCTCCT
1 TCCCACTTCCGTCACCTCCATTCTACT
21772 TCCC
1 TCCC
21776 CCTCCTACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.12, C:0.48, G:0.03, T:0.36
Consensus pattern (27 bp):
TCCCACTTCCGTCACCTCCATTCTACT
Left flanking sequence: Indices 21218 -- 21717
CCGGTGTGCACATAGGCACCTGTGTCACGTGAGCGCTAAGTTACCCGCCTAGCTTAGGGCTAAGT
GTCAGCCGGCTGGAATCGGTAGGCGATGCGGGGTGGTTGCAGGCCCATGCACCCCGCTGTTAGGT
TGACACAAAGTGTGAATGTGGTGATGTAACATTCATCGGGCAGATTAGGAAATACACGAGCAGTA
CGAGTCGGAGTCCCTCAATTGCAACAGATTGCAGACATTCCCAAACCCAAACAAGTCCACATAAT
TCGTACGCCAAACCTACACAATCCGTACACAAGCCGTACACAATCACTAGACAATTCTACACAAT
CCCTCCACAATTCCCACAATCCTACACATCCCACAATCCTACACAATTCACCCCATGTCATGGTG
ATCGACCCAATACTCCTCTAACACTCTTCTCGTACCTTACTTCTCATCTTCATTTAATCTCCTTC
GTCATTCCTATCCTCGCCTCACGCTACATCTTACCATCTCTCTCC
Right flanking sequence: Indices 21776 -- 22275
CCTCCTACTTCTCTCCTCCTACTTCCCACCTACTTCCCTCCTACTTCTCCCGCTTCACCCTGATT
CACCCTTACCCCCCTCACTCCCTTCTTCCCCTCTTCTCCCTATTCCACGTCCAAACCTTGTTCTC
CCACCTCACACGACTCCACCCGGACACCTTTCTCCCGTCGTGGGCCCATCTATTTTTGCAATCGT
TAGCGATCGCACGCACCAACCACCCGCTAGCCAATGAACGACGCGCAAACCGCGACAATATTTAC
CCCGTGTGTCAGCCTCGACACACCCACCCGCCGTAGCGAGCCCCCAGCAGCCCCGTAGCCCACCC
CACCGCGTCACACCACCGCTAGCACCGTCCCCACTCCTCCCCCGCAACCCGCCCGCGTCACATGG
GTCTCGGCGCAATGGAGCGACGGTTAGATCGCTGCGGGTTACCCCTCATATTTGAGACGTTTTTC
TGCGAACTTTTCAACAACTTTGGCCATGACCCAGGACTTGCCCTT
Found at i:21791 original size:11 final size:11
Alignment explanation
Indices: 21775--21822 Score: 60
Period size: 11 Copynumber: 4.1 Consensus size: 11
21765 TTCTCCTTCC
21775 CCCTCCTACTTCT
1 CCCTCCTAC-T-T
21788 CTCCTCCTACTT
1 C-CCTCCTACTT
*
21800 CCCACCTACTT
1 CCCTCCTACTT
21811 CCCTCCTACTT
1 CCCTCCTACTT
21822 C
1 C
21823 TCCCGCTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 20 0.62
12 2 0.06
13 2 0.06
14 8 0.25
ACGTcount: A:0.10, C:0.54, G:0.00, T:0.35
Consensus pattern (11 bp):
CCCTCCTACTT
Left flanking sequence: Indices 21275 -- 21774
GGCTAAGTGTCAGCCGGCTGGAATCGGTAGGCGATGCGGGGTGGTTGCAGGCCCATGCACCCCGC
TGTTAGGTTGACACAAAGTGTGAATGTGGTGATGTAACATTCATCGGGCAGATTAGGAAATACAC
GAGCAGTACGAGTCGGAGTCCCTCAATTGCAACAGATTGCAGACATTCCCAAACCCAAACAAGTC
CACATAATTCGTACGCCAAACCTACACAATCCGTACACAAGCCGTACACAATCACTAGACAATTC
TACACAATCCCTCCACAATTCCCACAATCCTACACATCCCACAATCCTACACAATTCACCCCATG
TCATGGTGATCGACCCAATACTCCTCTAACACTCTTCTCGTACCTTACTTCTCATCTTCATTTAA
TCTCCTTCGTCATTCCTATCCTCGCCTCACGCTACATCTTACCATCTCTCTCCTCCCACTTCCGT
CACCTCCATTCTACTTCCCATTTCCGTCACTTCCATTCTCCTTCC
Right flanking sequence: Indices 21823 -- 22322
TCCCGCTTCACCCTGATTCACCCTTACCCCCCTCACTCCCTTCTTCCCCTCTTCTCCCTATTCCA
CGTCCAAACCTTGTTCTCCCACCTCACACGACTCCACCCGGACACCTTTCTCCCGTCGTGGGCCC
ATCTATTTTTGCAATCGTTAGCGATCGCACGCACCAACCACCCGCTAGCCAATGAACGACGCGCA
AACCGCGACAATATTTACCCCGTGTGTCAGCCTCGACACACCCACCCGCCGTAGCGAGCCCCCAG
CAGCCCCGTAGCCCACCCCACCGCGTCACACCACCGCTAGCACCGTCCCCACTCCTCCCCCGCAA
CCCGCCCGCGTCACATGGGTCTCGGCGCAATGGAGCGACGGTTAGATCGCTGCGGGTTACCCCTC
ATATTTGAGACGTTTTTCTGCGAACTTTTCAACAACTTTGGCCATGACCCAGGACTTGCCCTTCA
TCTACCAATTCGCAGCCGGCGCCATTGCCGGCGTGCTGGAGATCC
Found at i:34536 original size:7 final size:7
Alignment explanation
Indices: 34502--34692 Score: 355
Period size: 7 Copynumber: 27.0 Consensus size: 7
34492 ACAAACACTA
34502 ACCTACC
1 ACCTACC
*
34509 ACCCACTC
1 ACCTAC-C
34517 ACCTACTC
1 ACCTAC-C
34525 ACCTACC
1 ACCTACC
34532 ACCTACC
1 ACCTACC
34539 ACCTACC
1 ACCTACC
34546 ACCTACC
1 ACCTACC
34553 ACCTACC
1 ACCTACC
34560 ACCTACC
1 ACCTACC
34567 ACCTACC
1 ACCTACC
34574 ACCTACC
1 ACCTACC
34581 ACCTACC
1 ACCTACC
34588 ACCTACC
1 ACCTACC
34595 ACCTACC
1 ACCTACC
34602 ACCTACC
1 ACCTACC
34609 ACCTACC
1 ACCTACC
34616 ACCTACC
1 ACCTACC
34623 ACCTACC
1 ACCTACC
34630 ACCTACC
1 ACCTACC
34637 ACCTACC
1 ACCTACC
34644 ACCTACC
1 ACCTACC
34651 ACCTACC
1 ACCTACC
34658 ACCTACC
1 ACCTACC
34665 ACCTACC
1 ACCTACC
34672 ACCTACC
1 ACCTACC
34679 ACCTACC
1 ACCTACC
34686 ACCTACC
1 ACCTACC
34693 CCCCAACTTA
Statistics
Matches: 181, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
7 167 0.92
8 14 0.08
ACGTcount: A:0.28, C:0.57, G:0.00, T:0.15
Consensus pattern (7 bp):
ACCTACC
Left flanking sequence: Indices 34002 -- 34501
TGCCCCCGGCATTGTTGATGTCTTTGTACAACGGGTTGTGGCGCTGGGCTTGCAGCTCCCTCACG
GTGATCTTCCCCATGGTTGTGGTTGGAGATGCTCATCGCGGAGAAATTTAGGTGTGTGGTGCGGG
CTCGTGACCAGACGCGAGAGATAAGGTGAGAGAAGGGAGTAGGTGGGAGGTGGTGTTGGGTGTAG
AAGTAGGGATAGTTTTGGTGGCTGCAATGATTATGGGTTGTGTTTTAAGATGGTATTGCTTTCAA
ACCATGGTTTGGTGGTTGCTTTAGTTTGATGGTTGCCCTGTAAATTATGGTAATACTCTGTACCA
ATGTTCTAATGCGAGCCTCGTGAACGATGATCTAACCCGATCTCTGTTTAACTGATCCATTGGTG
AATGACCATTAGTAGTTCTAGTGGGTTAGGCTACAAGATTTCCCGAGCCCACCCCTCTTACCACG
ACAACAACACCGCTATCTCATTCCTTATCTTAACTACAAACACTA
Right flanking sequence: Indices 34693 -- 35192
CCCCAACTTAATCAAGCTGACTCACGATCAACTCGTGGGTCGCTGCTACGGGGAGCCCCACCACG
TTGAAGTAGTCTCCCTCGATCGCGTCAAACAAGAGAGCCCCCTTCTCCTGGTACTTGAACCCGCC
CGCAGCGTCCAACCCCTCTCCGCTCTCAACGTACCCCTCGATCCACGCCTGGTCAATGCCCTGGT
TGAACCGGAGCGTCGTGGGCACCACCTTCGTCACAAGCGGCTTGTCGCCCACCTTCACCGTGACC
GCGCTCACCACGCGAATCGTGCCCACTTGCTGGTACTCGGCAATCATTTCCCGCTGGCGCTCGCG
GGTGGTGGGCTTCTCCCGAACCGCCCCGTCGTAGTCAATCACGGTATCGCAGCAGATAAGCACCA
GGTCCAGGGCCTTCCCCGCAGCCACAATCGCCTCGGCCTTGTTCCGACAGGTCGCAGCAACGTAC
TCGTCCACCGTCAACCCCTGCTTCGGAAGATCCTCGGCGTAGTTC
Found at i:38861 original size:12 final size:13
Alignment explanation
Indices: 38804--38880 Score: 61
Period size: 13 Copynumber: 6.2 Consensus size: 13
38794 TTAATGTAAA
*
38804 GATCGGCTT-AAG
1 GATCGACTTGAAG
* *
38816 GATCGACCTGATG
1 GATCGACTTGAAG
* * *
38829 GATTGACCTCAAG
1 GATCGACTTGAAG
*
38842 GATTGACTTG-AG
1 GATCGACTTGAAG
38854 GATCGAC-TGAAG
1 GATCGACTTGAAG
*
38866 GATCGACTTCAAG
1 GATCGACTTGAAG
38879 GA
1 GA
38881 CTAAATTTGA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.04
12 24 0.46
13 26 0.50
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (13 bp):
GATCGACTTGAAG
Left flanking sequence: Indices 38304 -- 38803
GTGACTTGTTCACCAAGCACCCGTTGGTCCGCGTCCACCCGGTGACCGGGGAGAAGCTGTTGTGG
TTTGTGCCCGGGTTCACCCAGAGAGTGGACGGGGTCAAGCGCCAGGAGTCTGACGCCATTCTCAA
CTTCCTTGTGGACCATGTGCAAAACAACCCCGAGTTCCAGGTGAGAGCCCTCCACCGTGGTGGAG
ACTCTAGACTGGTGATTGCCTGGGACAACCGGATTCTCTTGCACCTGGCCACATTGGACTTTTTG
AGACACGAGACGGGCCACCGCCACCACTTCCGGATCACCGTGTTGGGAGAGAAGCCTTACAACGA
GGTCATTGGCGACGGTGACGGTAACAAGGACGCGATCCCCAAGAAGGAGGATATCGCCCACGAGG
AGAGAAAGTTGGAGTCGGTGGTGGACGGCAAAACCAAATCTGGTGAAGTTGTATAGACTATACAG
AACGAAAGACAAGCACCATTAAGCTATCACATATATTAATGTAAA
Right flanking sequence: Indices 38881 -- 39380
CTAAATTTGAATTTCAACTTCTTCAACCACCCAAATAGGCAATTGCGTCGATTTGCAGCCATACA
CGTTACTACTGTTTCTCTGTTTCCCCGTTTCTCGTTTCCCGTTTCTCTATTCCTCGTTTCTCCGT
TTTCTCCGTTTCTCTATCATATATTACAAACCATGCTTATTATTAATCTTCGTCGAGTCGTACCG
GCTACTGGAAGGTGGCCGGGGAAAAATGGGGCACCCGCGGGCTGCCTAAGTCCAAGTTTGGCCGG
GCCTCCACTTCCTCCGGGATCGTCGGCGTCTGGGTGTTGAACCGAGGCGGGTGGTCAAAGTCGTA
CAGGGCCAAGTCGCTGAAGATCGTGCTCGGGTTGAGCATGTCCGCCAGGTACTCGGGCTTCGGGT
CCACCGGAGGGAATGCCAGCAGCGCCGCCGGCAAGTCAAACAGCAGATCCAGAAGCACCAGTTCC
GGTCGCGTGAGCCCCGGACGTTGCGAGAACTGGTCCATGTTCATC
Found at i:38967 original size:8 final size:8
Alignment explanation
Indices: 38956--39024 Score: 63
Period size: 8 Copynumber: 8.9 Consensus size: 8
38946 CGTTACTACT
*
38956 GTTTCTCT
1 GTTTCTCC
*
38964 GTTTCCCC
1 GTTTCTCC
38972 GTTTCT-C
1 GTTTCTCC
38979 GTTTC-CC
1 GTTTCTCC
*
38986 GTTTCTCT
1 GTTTCTCC
* *
38994 ATTCCT-C
1 GTTTCTCC
39001 GTTTCTCC
1 GTTTCTCC
39009 GTTTTCTCC
1 G-TTTCTCC
39018 GTTTCTC
1 GTTTCTC
39025 TATCATATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
7 16 0.33
8 24 0.50
9 8 0.17
ACGTcount: A:0.01, C:0.35, G:0.12, T:0.52
Consensus pattern (8 bp):
GTTTCTCC
Left flanking sequence: Indices 38456 -- 38955
AACAACCCCGAGTTCCAGGTGAGAGCCCTCCACCGTGGTGGAGACTCTAGACTGGTGATTGCCTG
GGACAACCGGATTCTCTTGCACCTGGCCACATTGGACTTTTTGAGACACGAGACGGGCCACCGCC
ACCACTTCCGGATCACCGTGTTGGGAGAGAAGCCTTACAACGAGGTCATTGGCGACGGTGACGGT
AACAAGGACGCGATCCCCAAGAAGGAGGATATCGCCCACGAGGAGAGAAAGTTGGAGTCGGTGGT
GGACGGCAAAACCAAATCTGGTGAAGTTGTATAGACTATACAGAACGAAAGACAAGCACCATTAA
GCTATCACATATATTAATGTAAAGATCGGCTTAAGGATCGACCTGATGGATTGACCTCAAGGATT
GACTTGAGGATCGACTGAAGGATCGACTTCAAGGACTAAATTTGAATTTCAACTTCTTCAACCAC
CCAAATAGGCAATTGCGTCGATTTGCAGCCATACACGTTACTACT
Right flanking sequence: Indices 39025 -- 39524
TATCATATATTACAAACCATGCTTATTATTAATCTTCGTCGAGTCGTACCGGCTACTGGAAGGTG
GCCGGGGAAAAATGGGGCACCCGCGGGCTGCCTAAGTCCAAGTTTGGCCGGGCCTCCACTTCCTC
CGGGATCGTCGGCGTCTGGGTGTTGAACCGAGGCGGGTGGTCAAAGTCGTACAGGGCCAAGTCGC
TGAAGATCGTGCTCGGGTTGAGCATGTCCGCCAGGTACTCGGGCTTCGGGTCCACCGGAGGGAAT
GCCAGCAGCGCCGCCGGCAAGTCAAACAGCAGATCCAGAAGCACCAGTTCCGGTCGCGTGAGCCC
CGGACGTTGCGAGAACTGGTCCATGTTCATCTGGGTGAGAGGGTTGGGTTGGGTCCGCTGCGCCT
GCGGGGCGTACGGGTTCAGCAGCGGCTTTTCGATGAAGAGAGTGTCTTCGTTGTCGAGCAGCGCC
AGGCCCACAAGCGGGAACAACGGGAACATCCGGTCCACCATATCG
Found at i:38984 original size:15 final size:15
Alignment explanation
Indices: 38956--39024 Score: 70
Period size: 14 Copynumber: 4.5 Consensus size: 15
38946 CGTTACTACT
38956 GTTTCTCTGTTTCCCC
1 GTTTCTC-GTTTCCCC
38972 GTTTCTCGTTT-CCC
1 GTTTCTCGTTTCCCC
*
38986 GTTTCTC-TATTCCTC
1 GTTTCTCGT-TTCCCC
*
39001 GTTTCTCCGTTTTCTCC
1 GTTTCT-CG-TTTCCCC
39018 GTTTCTC
1 GTTTCTC
39025 TATCATATAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
13 1 0.02
14 12 0.27
15 12 0.27
16 9 0.20
17 10 0.22
18 1 0.02
ACGTcount: A:0.01, C:0.35, G:0.12, T:0.52
Consensus pattern (15 bp):
GTTTCTCGTTTCCCC
Left flanking sequence: Indices 38456 -- 38955
AACAACCCCGAGTTCCAGGTGAGAGCCCTCCACCGTGGTGGAGACTCTAGACTGGTGATTGCCTG
GGACAACCGGATTCTCTTGCACCTGGCCACATTGGACTTTTTGAGACACGAGACGGGCCACCGCC
ACCACTTCCGGATCACCGTGTTGGGAGAGAAGCCTTACAACGAGGTCATTGGCGACGGTGACGGT
AACAAGGACGCGATCCCCAAGAAGGAGGATATCGCCCACGAGGAGAGAAAGTTGGAGTCGGTGGT
GGACGGCAAAACCAAATCTGGTGAAGTTGTATAGACTATACAGAACGAAAGACAAGCACCATTAA
GCTATCACATATATTAATGTAAAGATCGGCTTAAGGATCGACCTGATGGATTGACCTCAAGGATT
GACTTGAGGATCGACTGAAGGATCGACTTCAAGGACTAAATTTGAATTTCAACTTCTTCAACCAC
CCAAATAGGCAATTGCGTCGATTTGCAGCCATACACGTTACTACT
Right flanking sequence: Indices 39025 -- 39524
TATCATATATTACAAACCATGCTTATTATTAATCTTCGTCGAGTCGTACCGGCTACTGGAAGGTG
GCCGGGGAAAAATGGGGCACCCGCGGGCTGCCTAAGTCCAAGTTTGGCCGGGCCTCCACTTCCTC
CGGGATCGTCGGCGTCTGGGTGTTGAACCGAGGCGGGTGGTCAAAGTCGTACAGGGCCAAGTCGC
TGAAGATCGTGCTCGGGTTGAGCATGTCCGCCAGGTACTCGGGCTTCGGGTCCACCGGAGGGAAT
GCCAGCAGCGCCGCCGGCAAGTCAAACAGCAGATCCAGAAGCACCAGTTCCGGTCGCGTGAGCCC
CGGACGTTGCGAGAACTGGTCCATGTTCATCTGGGTGAGAGGGTTGGGTTGGGTCCGCTGCGCCT
GCGGGGCGTACGGGTTCAGCAGCGGCTTTTCGATGAAGAGAGTGTCTTCGTTGTCGAGCAGCGCC
AGGCCCACAAGCGGGAACAACGGGAACATCCGGTCCACCATATCG
Found at i:38990 original size:22 final size:23
Alignment explanation
Indices: 38956--39024 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
38946 CGTTACTACT
* *
38956 GTTTCTCTGTTTCCCCGTTTCTC
1 GTTTCTCCGTTTCTCCGTTTCTC
** *
38979 GTTTC-CCGTTTCTCTATTCCTC
1 GTTTCTCCGTTTCTCCGTTTCTC
39001 GTTTCTCCGTTTTCTCCGTTTCTC
1 GTTTCTCCG-TTTCTCCGTTTCTC
39025 TATCATATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.47
23 8 0.22
24 11 0.31
ACGTcount: A:0.01, C:0.35, G:0.12, T:0.52
Consensus pattern (23 bp):
GTTTCTCCGTTTCTCCGTTTCTC
Left flanking sequence: Indices 38456 -- 38955
AACAACCCCGAGTTCCAGGTGAGAGCCCTCCACCGTGGTGGAGACTCTAGACTGGTGATTGCCTG
GGACAACCGGATTCTCTTGCACCTGGCCACATTGGACTTTTTGAGACACGAGACGGGCCACCGCC
ACCACTTCCGGATCACCGTGTTGGGAGAGAAGCCTTACAACGAGGTCATTGGCGACGGTGACGGT
AACAAGGACGCGATCCCCAAGAAGGAGGATATCGCCCACGAGGAGAGAAAGTTGGAGTCGGTGGT
GGACGGCAAAACCAAATCTGGTGAAGTTGTATAGACTATACAGAACGAAAGACAAGCACCATTAA
GCTATCACATATATTAATGTAAAGATCGGCTTAAGGATCGACCTGATGGATTGACCTCAAGGATT
GACTTGAGGATCGACTGAAGGATCGACTTCAAGGACTAAATTTGAATTTCAACTTCTTCAACCAC
CCAAATAGGCAATTGCGTCGATTTGCAGCCATACACGTTACTACT
Right flanking sequence: Indices 39025 -- 39524
TATCATATATTACAAACCATGCTTATTATTAATCTTCGTCGAGTCGTACCGGCTACTGGAAGGTG
GCCGGGGAAAAATGGGGCACCCGCGGGCTGCCTAAGTCCAAGTTTGGCCGGGCCTCCACTTCCTC
CGGGATCGTCGGCGTCTGGGTGTTGAACCGAGGCGGGTGGTCAAAGTCGTACAGGGCCAAGTCGC
TGAAGATCGTGCTCGGGTTGAGCATGTCCGCCAGGTACTCGGGCTTCGGGTCCACCGGAGGGAAT
GCCAGCAGCGCCGCCGGCAAGTCAAACAGCAGATCCAGAAGCACCAGTTCCGGTCGCGTGAGCCC
CGGACGTTGCGAGAACTGGTCCATGTTCATCTGGGTGAGAGGGTTGGGTTGGGTCCGCTGCGCCT
GCGGGGCGTACGGGTTCAGCAGCGGCTTTTCGATGAAGAGAGTGTCTTCGTTGTCGAGCAGCGCC
AGGCCCACAAGCGGGAACAACGGGAACATCCGGTCCACCATATCG
Found at i:39737 original size:9 final size:9
Alignment explanation
Indices: 39723--39752 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
39713 GTCAAACCCT
39723 AGCGGGTTG
1 AGCGGGTTG
39732 AGCGGGTTG
1 AGCGGGTTG
*
39741 AGCGAGTTG
1 AGCGGGTTG
39750 AGC
1 AGC
39753 TGGCCGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.17, C:0.13, G:0.50, T:0.20
Consensus pattern (9 bp):
AGCGGGTTG
Left flanking sequence: Indices 39223 -- 39722
AGATCGTGCTCGGGTTGAGCATGTCCGCCAGGTACTCGGGCTTCGGGTCCACCGGAGGGAATGCC
AGCAGCGCCGCCGGCAAGTCAAACAGCAGATCCAGAAGCACCAGTTCCGGTCGCGTGAGCCCCGG
ACGTTGCGAGAACTGGTCCATGTTCATCTGGGTGAGAGGGTTGGGTTGGGTCCGCTGCGCCTGCG
GGGCGTACGGGTTCAGCAGCGGCTTTTCGATGAAGAGAGTGTCTTCGTTGTCGAGCAGCGCCAGG
CCCACAAGCGGGAACAACGGGAACATCCGGTCCACCATATCGAGCTCCAGGGGCGCCAAATACAG
CTGCCCGTCGGGCCCAATCGTGCCCAGGCCCATGCCAATGCCCTGGAGGGGCTGCGACATCGGAG
GCTGCGACTCGGTCGTCAGGGGAGCCGCCAGGAGGGAGACCGGGGTCTCCAGAGCCAGCGAGTCG
CCACCCTTGGTGGCGGTGGTCAGCATGTACTCCTGGTCAAACCCT
Right flanking sequence: Indices 39753 -- 40252
TGGCCGTTCTGGGGCACCGCGGGCGTCGGAGGCGCGATCCCCAGCCCCAACGAGCTGTCGAAACT
CGTGAGATCGGGCTCCATGTTGGTGGGGCGGCCCTGCCCGTTGCCGTTGCGCGGGGTGGTCTCGC
GACTGAACAAGTCAAACATCCCCAGCACGTAGTACGGGAGAGCCACGTCCTCGACGATGTACTGG
TTCTTCTGTTCGCCTGGGCCCGCCATGGGGGCCATCCCGGAGAGCAGCAGCTGCGACAGCACCGC
CGGTATCAGCACTTGCAGCAGCATCAGCGCCAGCAGGCCCTTGTCGGCCAACTTCTTTTTCAGCT
TGCAGGTGCAGTGTGTCAACGGCTTGTGGCAACCGCAGTTGGCGGAGTGGTTTTTCTTCTTGCCA
CAGGTGCAATTGGTGTGGAGGTTTTTGGTTTTGCGCTGCTCGCGGCAGTGCTGGCACTGGGAGGC
CGGGCGGCCCTTGGGCTTGATCATGGTGAGCGGCTGGTCGGTGTG
Found at i:40458 original size:11 final size:11
Alignment explanation
Indices: 40439--40487 Score: 80
Period size: 11 Copynumber: 4.5 Consensus size: 11
40429 AGAGTGGACT
40439 GGAAACCGATG
1 GGAAACCGATG
*
40450 GGGAACCGATG
1 GGAAACCGATG
40461 GGAAACCGATG
1 GGAAACCGATG
*
40472 GGAAACCGATT
1 GGAAACCGATG
40483 GGAAA
1 GGAAA
40488 GGGTTATGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.37, T:0.10
Consensus pattern (11 bp):
GGAAACCGATG
Left flanking sequence: Indices 39939 -- 40438
ATGTACTGGTTCTTCTGTTCGCCTGGGCCCGCCATGGGGGCCATCCCGGAGAGCAGCAGCTGCGA
CAGCACCGCCGGTATCAGCACTTGCAGCAGCATCAGCGCCAGCAGGCCCTTGTCGGCCAACTTCT
TTTTCAGCTTGCAGGTGCAGTGTGTCAACGGCTTGTGGCAACCGCAGTTGGCGGAGTGGTTTTTC
TTCTTGCCACAGGTGCAATTGGTGTGGAGGTTTTTGGTTTTGCGCTGCTCGCGGCAGTGCTGGCA
CTGGGAGGCCGGGCGGCCCTTGGGCTTGATCATGGTGAGCGGCTGGTCGGTGTGGGTGCACAGGG
TGACCCGGTGGCCGCGGATGCACCGCTCGCAGGCGTACTTGACGCCGTTAATGACAACCATGGGG
GTTAGTGGGGTGGCTGAGTGAGGTGGCTAAGTGAATTTATGGTACCGTGAGGTACGGAAAGGCTT
GAAAATGAGCTGAAGCCGGGTTAAATGGAAACCAGAGAGTGGACT
Right flanking sequence: Indices 40488 -- 40987
GGGTTATGAGTCGAAAACCTTTTTTCGTGCAAGTTTCGACTGCAACCACGGAATTAGCGTCTGTT
TTTCCGGGAGGGTGTTGGTTATACCACTAGCGAGTCGCAAAAACCACTCAAAAGCTGGGAAGTAA
AAGCGGGAGTGGCGAAAATTGGGAGTGGCGAGAACGGGGAAGACGTTGATCTCACGAGACACTCG
ACTAAACACCAGTAAACGGGTCGAAGGGGCTTAACACCTGATTTCAACCGGTGGTGCAAGGATAT
ATGGGGCAACGAGACCAACCAAGTGCTCCAAACAGCTAAACCTCGCGTGAAAACGGATGGGAGGC
AGCTAAAAAACGCCGGAGACCACTAGCTGTGCACCAGCGGACTCGAACAGACAAAAAGGACAGCC
AACCAGGGGGTCAGAAAGTCCACTACTAGCCGTCGCAAACGAAAAGCTAGTATCAGGTACGGGGG
AAGGGGCGACCGAGAACGGGGTGCGCTAAGCAGTAAACACACAAC
Found at i:42149 original size:10 final size:10
Alignment explanation
Indices: 42134--42159 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
42124 TGAGGTGTAA
42134 CGTGGGATAT
1 CGTGGGATAT
42144 CGTGGGATAT
1 CGTGGGATAT
42154 CGTGGG
1 CGTGGG
42160 TTTCGTTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (10 bp):
CGTGGGATAT
Left flanking sequence: Indices 41634 -- 42133
CACCGCAGGCACGGGTCGGCCCACATTGGGTAAGCGTTAGTAAGGACAAAGCTACGGTAGATGAC
TGCGGAGCGGACACTGGTTTTGTGGCGACTTAAGCGACCGCACCTCCACACTTGTGCCGTCGCAA
CCGCCCGGTGGCGATCGCCTGATCGGGCTGGTTACGCCCTATTGTCTACGCGGGGATCCACAGAA
GCGCACATACGCAGGTGCACCACGCCAGAAGTGGTGGAAACGCCTCGGCGTTGCTTCGTTGGGTG
TAATTCGCTTGTGGGTGGCTGCCGACACTCGGCAAAAGCAGCCCCTTGTTTGTGGTGGTTGACCA
TCGGGTGGCAACCAGAGTGGTGGTCATGTGACCTTCGATGAGATGAACGGCAGATCGGCTGCAGC
GTAATTGTCTCAAAATAACCCGAGATCACTGGGTTCGCAGGTCTACGAGAGTCACGGGACCACCT
GAGGCTGGGCCCAGCTTCGTGAGTGGAATTTATCGTGAGGTGTAA
Right flanking sequence: Indices 42160 -- 42659
TTTCGTTTCGTCTCGTCTCTTTTGGGAGATTCTCCACGGGCCATCCTACGGCTGACTGCTAGCCG
TACCGTAGCCGTTTGATCTCTGTGACTACTCAGTCACCCCCCGCGCGGTTTTAACTCACGTACTT
CCGCGTTAGCCGCTTAACCCTAACGGCGCATGTAGCTGTCAACTGTGGTTGCATGAATGGCTGCA
AAACACCCCCAGAATGTCACGCAACCGAAGAGGACGGCAGGGCCATTCTCTGCCGCTGCCCCCAC
GCCCCCACGGAACTCCGTGGAATCTCACCCTGCTGCGCTTGACACCTGTCAGCCCTCGTAAAACG
ACGCAAGGGCATCGCCTTGCCCTAAACACCGAGCATTCCGATGAGACAGGTGAAACGGGCTCCGG
GTCCATACCCTCGTGGGCGGGGTTGCTGGTGGGTGGGGTTGTTATCGGACGGCGCTCGTCGTACC
GGTGCTGTGATTGGACGATTTTGCGGGCTCGATAAGATAACGGGC
Found at i:42846 original size:11 final size:11
Alignment explanation
Indices: 42830--42860 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
42820 AAGGAAACAC
*
42830 GGCGTAGTGGG
1 GGCGTAGTAGG
42841 GGCGTAGTAGG
1 GGCGTAGTAGG
42852 GGCGTAGTA
1 GGCGTAGTA
42861 CAGTCGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.16, C:0.10, G:0.55, T:0.19
Consensus pattern (11 bp):
GGCGTAGTAGG
Left flanking sequence: Indices 42330 -- 42829
AACTGTGGTTGCATGAATGGCTGCAAAACACCCCCAGAATGTCACGCAACCGAAGAGGACGGCAG
GGCCATTCTCTGCCGCTGCCCCCACGCCCCCACGGAACTCCGTGGAATCTCACCCTGCTGCGCTT
GACACCTGTCAGCCCTCGTAAAACGACGCAAGGGCATCGCCTTGCCCTAAACACCGAGCATTCCG
ATGAGACAGGTGAAACGGGCTCCGGGTCCATACCCTCGTGGGCGGGGTTGCTGGTGGGTGGGGTT
GTTATCGGACGGCGCTCGTCGTACCGGTGCTGTGATTGGACGATTTTGCGGGCTCGATAAGATAA
CGGGCGTGGGCGGTCGCGGGCCGTGGACCGGCGCTGTTGGCTATTCGGGTGTCATTCGTGGTGGG
TTTGTCCGAAACTGGCTGGATAAGGCCACTCCGCCTGATTTCTTAATTTGTCCCAAACGGGACAT
TATCCCGAGAATTCTCATTTGGAGGTGCATTATCGAAGGAAACAC
Right flanking sequence: Indices 42861 -- 42955
CAGTCGTTTCGGTTTTGTTCGGAACTAAATAAATGCAGATGACACAGGTTGACTTCCGACTTGTC
CTGAGTAAATTCCGACTTTGTCGTGCACAT
Done.