Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold69
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: 75258
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Warning! 15 characters in sequence are not A, C, G, or T
Found at i:14592 original size:11 final size:11
Alignment explanation
Indices: 14576--14604 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
14566 AGCATACGTA
14576 GGCCAGGCGAT
1 GGCCAGGCGAT
14587 GGCCAGGCGAT
1 GGCCAGGCGAT
14598 GGCCAGG
1 GGCCAGG
14605 TAATGAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.48, T:0.07
Consensus pattern (11 bp):
GGCCAGGCGAT
Left flanking sequence: Indices 14076 -- 14575
GCATGGTGGCCATAAGCACGGCGCCCACGGCGCCGACGACGGCGGAAAAGTTAACCATGGGGTTG
AGCTAGGTGGTGAGAGTAAAGCGACGGCAGTAGTGGGGTAAGCGATTGGCACTCAGGTCAATCGG
GCTCAGCAACGGGTGGCAATCGCGGTCTCTCTGAAGCAAGATAAGCCGCGCACTGATTAAAGTGA
CCCAACATGCATTGCCGCAATATGCATACCGGTGGGGAAGGCCGGGGAACGGTGGAGACAAGATG
GTGTGGGATTGGCGGGTGCGGACTGAGGAGAGAGTGTCGGGCTGTTGGGGGTGTAGATGAGTGGG
GTGTCTGTGTAGAGAAGAAGGAGGCCACGTCTGCCTGGCTCCGTGGCTTTGAGTCTTGGCTCGTG
GGCACAAAGCCACATGCAGGTGGCATCTACGTGGTAACAGCCCCAGCAGTTGGCAACGATCAGTG
TGGCTGAAGTGGAGGGGAAGTGGAAAAGAATTGTTAGCATACGTA
Right flanking sequence: Indices 14605 -- 15104
TAATGAAGGCATAGGCGATGGCAGAGGAGTTAGCGGACGTACTAGTGGTGCCACGCACTGTGGCG
GTTTCCACCGACAATGTACGGTCTTACCGCAATTAGACGATCCTCACCCATCCACCAGGCAACCG
GTGATACGATACTTTATCCATCAATGCCACGCGATAGGTCCAACATGGTACCACCGACGTGACCT
TGAGAACATACTAACAAACACTACAGCACGAACAAACACTACAGCTACAACCGACCACCGACCCA
CCACTGGCGACCCACTCCACCCACGCTCCTATTATTGTGTTATTAAATATTACATAGTTACTCCG
GGTAGTTGGACAACTTGTTGCGGGGAATCCCCCGGGCAAAGATGTTGTAGGGCACCGAGTGCACC
TTGTACTTGTTGCCCTTGATCTTCGATCCCCCAGGCGCCACCGACAGCGGCTGCAACGTGGTGTC
CACCAGCGAGCGGTTGCGGATCTTGTTGAGAAGCAGCCGCCGCAG
Found at i:16656 original size:9 final size:9
Alignment explanation
Indices: 16642--16667 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
16632 GGACATTGCT
16642 GTGGGGTGC
1 GTGGGGTGC
16651 GTGGGGTGC
1 GTGGGGTGC
16660 GTGGGGTG
1 GTGGGGTG
16668 AGGTTCCGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.08, G:0.69, T:0.23
Consensus pattern (9 bp):
GTGGGGTGC
Left flanking sequence: Indices 16142 -- 16641
GGCGGTGGCCGTTGCGTCCCGAGTCCGCCGGCAGGCTGGGAGCGTGGGTTTGTTTCTCGGGAGAC
GCGTCGAGCTGGTCGACCACGGGCATCACCGCGGGCTTGTTGGGGCTGGGCACCTCGATGATCCG
GGGGCGGGCGGCCTCCTGCGGCATCTGCGACGCGTCCAAGTTGTCGCCGAGCCTCACCGTCTCGC
CGTTCTTTTCGAGCTGGCGTTTGAGCACGTACGACGACCGCATGAACCCAAGCGACGCACGGTTG
GTGCTGTAGGTGGACAGGATGTCGGTGTGCACCGACAGCGAGCGCGAGATGCCGATGGCCGGGCT
CATTGCCAGCAGCGACACCGAGCTCATGCGTCCGTGGCGCGGGGGTCCCAGCGCCAGCGGCTGGC
GCGACGAGTAGGCGGACCCGTTGCTAAACGAGTTGAGCATTGGGCTGGCGTTGCCGCCCTGGTTG
CCAACCCCTGTCTTTTGGTACCGTCGAGGAACAGTGGACATTGCT
Right flanking sequence: Indices 16668 -- 17167
AGGTTCCGAGCGGAGGCTGGTCAACGGGTTGTGGTTTTGTGGTGTGGGGTACAGCAGTACGGTAC
AGCAGTACGGTACAGTGGTACGGGTACAGTGGTACGGTGGGTGGTGGGCTGCTGGACCTTGGTGG
TGGCCTCAATCAAGCGGATACGAGCGTCAGCAAGGGCAGGCGGAGCAGGCACGGGTAACCAGGAG
ACTAGCGGGAACGGTTCAAGCAGCGTATGGATACCACAGGGTGCAAACCAATTGACGTCCCGGTG
CTAATGCTATAGAAGTTGGTGATAGGTATGGAAAAAAAAAAACTTAAACCGGGAGTAGAAGGTCA
ACCAGCGTCAAATCGTGGGGGCCGAAAAAAGGCGGGTGAACCCCGCCAGACACCGGTTGCTGCAT
ATGTACGACAAAAGGGGAGACGCGGGCGATAGGACTACGGGCCACCGGTGTTGAACGCGCTCGTG
GGTCTTTCCCGGGACCGCACCGGGCCTACTGGTGTTTTGCTCTGA
Found at i:16731 original size:13 final size:13
Alignment explanation
Indices: 16715--16761 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
16705 TGTGGTGTGG
16715 GGTACAGCAGTAC
1 GGTACAGCAGTAC
16728 GGTACAGCAGTAC
1 GGTACAGCAGTAC
**
16741 GGTACAGTGGTAC
1 GGTACAGCAGTAC
16754 GGGTACAG
1 -GGTACAG
16762 TGGTACGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
13 24 0.77
14 7 0.23
ACGTcount: A:0.28, C:0.19, G:0.36, T:0.17
Consensus pattern (13 bp):
GGTACAGCAGTAC
Left flanking sequence: Indices 16215 -- 16714
CTGGTCGACCACGGGCATCACCGCGGGCTTGTTGGGGCTGGGCACCTCGATGATCCGGGGGCGGG
CGGCCTCCTGCGGCATCTGCGACGCGTCCAAGTTGTCGCCGAGCCTCACCGTCTCGCCGTTCTTT
TCGAGCTGGCGTTTGAGCACGTACGACGACCGCATGAACCCAAGCGACGCACGGTTGGTGCTGTA
GGTGGACAGGATGTCGGTGTGCACCGACAGCGAGCGCGAGATGCCGATGGCCGGGCTCATTGCCA
GCAGCGACACCGAGCTCATGCGTCCGTGGCGCGGGGGTCCCAGCGCCAGCGGCTGGCGCGACGAG
TAGGCGGACCCGTTGCTAAACGAGTTGAGCATTGGGCTGGCGTTGCCGCCCTGGTTGCCAACCCC
TGTCTTTTGGTACCGTCGAGGAACAGTGGACATTGCTGTGGGGTGCGTGGGGTGCGTGGGGTGAG
GTTCCGAGCGGAGGCTGGTCAACGGGTTGTGGTTTTGTGGTGTGG
Right flanking sequence: Indices 16762 -- 17261
TGGTACGGTGGGTGGTGGGCTGCTGGACCTTGGTGGTGGCCTCAATCAAGCGGATACGAGCGTCA
GCAAGGGCAGGCGGAGCAGGCACGGGTAACCAGGAGACTAGCGGGAACGGTTCAAGCAGCGTATG
GATACCACAGGGTGCAAACCAATTGACGTCCCGGTGCTAATGCTATAGAAGTTGGTGATAGGTAT
GGAAAAAAAAAAACTTAAACCGGGAGTAGAAGGTCAACCAGCGTCAAATCGTGGGGGCCGAAAAA
AGGCGGGTGAACCCCGCCAGACACCGGTTGCTGCATATGTACGACAAAAGGGGAGACGCGGGCGA
TAGGACTACGGGCCACCGGTGTTGAACGCGCTCGTGGGTCTTTCCCGGGACCGCACCGGGCCTAC
TGGTGTTTTGCTCTGAAATTGACTTGCGTCGATATTGTTTTAAGTGCGAGCATACGCACCAAATG
GTGCATTGTTGACGGCCGCCTCATGCAGCTCGATGACTCGTCGTG
Found at i:56630 original size:6 final size:6
Alignment explanation
Indices: 56591--56678 Score: 50
Period size: 6 Copynumber: 13.2 Consensus size: 6
56581 CAGAACCTGA
* * * *
56591 ACAATG ACAACG ACAATG ACAACG ACGGTGACG ACAACG ACAACG ACGGTGACG
1 ACAACG ACAACG ACAACG ACAACG AC---AACG ACAACG ACAACG AC---AACG
*
56645 ACAACG ACAACG ACGGTGACG ACAACG ACAACG A
1 ACAACG ACAACG AC---AACG ACAACG ACAACG A
56679 TGGTGATGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
6 49 0.77
9 15 0.23
ACGTcount: A:0.42, C:0.27, G:0.25, T:0.06
Consensus pattern (6 bp):
ACAACG
Left flanking sequence: Indices 56091 -- 56590
TGATGCATGGATTTGCTCGCGAGGTCACACGGATATTTGCAAACATGAGATTTTTAGGCCGCGAA
ACAAGGAAATTTAACAACCGAGATCCATTCGAATCTTATTTCAGTTGGACCCGACCACTTTTGGG
TGGTTACTCGGTGCTGTCGCAGCATTTGTCGATACTTTGCCCTAGTCCCAGGGTTATGAGCCTTC
TTGGCGGCAACTCGGCTGCATGCATGTTTTGCAACCAAAATCCCGCTGTGCTATGACCGAAGGGT
ACTGCCGGGCCAAATGGAATATTCGAATTATAAAAGAACGCAGTTCGCCGTAAATCTTGGTCAAT
CAATTAATCATGAAGTTCACTTTGCTTGCTCTTGCTACCGCTGTTGCCGCTTCTCCCTTGGCTTA
CCTCAAGCCTGAGGTTTTGAACAACCTTGTCACTAGAGATGACGACGACGACGATGACCACCAGA
TCAGCAACCAGGGTAACTCTGGTGGTGCTAACAACCAGAACCTGA
Right flanking sequence: Indices 56679 -- 57178
TGGTGATGACAACGACGATGACAACGATGGCGACGACAACGATGACGATGATGACGATGATGATG
ACGATGACAGCGACGACGATGATGACGACGTCTTGAAGAACCTCAAGAGCTTCCGCATCATTGTT
GACTTCAACGACGATGACGACCAGTTGGTTTCTTTGAAGCAAGGTAACGGCACTGGCCAGTTGGT
TGCTGCCCGTTACGGTAAGGACGTTTACTTCAACCTCAAGAACTCCTCGTTGGCTGCCATCAACG
GTACCGGTGTTGTCTTCGACGACCACACTGTTGAGTTGGCCAACAGCACCCAGAAGGCCCAGCAG
ACCAACCTGACCAAGAACGGCTGGAGAATCTACGAGAACAGATTGTTCTGGAGAGGTCAGCACAC
TTGGCGTGCGTGCCCCCTTCCTCGCACCAACACCACTTACACTTTGTCCACTAAGAAGTGCAAGG
ACGGCGAGAAGGTTAAGCTCAGAGTGTTTGTCTAAGTTAGTTGTT
Found at i:56689 original size:15 final size:15
Alignment explanation
Indices: 56671--56745 Score: 66
Period size: 15 Copynumber: 5.2 Consensus size: 15
56661 TGACGACAAC
**
56671 GACAACGATGGTGAT
1 GACAACGATGACGAT
56686 GACAAC---GACGAT
1 GACAACGATGACGAT
* *
56698 GACAACGATGGCGAC
1 GACAACGATGACGAT
56713 GACAACGATGACGAT
1 GACAACGATGACGAT
** *
56728 GATGACGATGATGAT
1 GACAACGATGACGAT
56743 GAC
1 GAC
56746 GATGACAGCG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
12 10 0.21
15 37 0.79
ACGTcount: A:0.36, C:0.19, G:0.31, T:0.15
Consensus pattern (15 bp):
GACAACGATGACGAT
Left flanking sequence: Indices 56171 -- 56670
AACCGAGATCCATTCGAATCTTATTTCAGTTGGACCCGACCACTTTTGGGTGGTTACTCGGTGCT
GTCGCAGCATTTGTCGATACTTTGCCCTAGTCCCAGGGTTATGAGCCTTCTTGGCGGCAACTCGG
CTGCATGCATGTTTTGCAACCAAAATCCCGCTGTGCTATGACCGAAGGGTACTGCCGGGCCAAAT
GGAATATTCGAATTATAAAAGAACGCAGTTCGCCGTAAATCTTGGTCAATCAATTAATCATGAAG
TTCACTTTGCTTGCTCTTGCTACCGCTGTTGCCGCTTCTCCCTTGGCTTACCTCAAGCCTGAGGT
TTTGAACAACCTTGTCACTAGAGATGACGACGACGACGATGACCACCAGATCAGCAACCAGGGTA
ACTCTGGTGGTGCTAACAACCAGAACCTGAACAATGACAACGACAATGACAACGACGGTGACGAC
AACGACAACGACGGTGACGACAACGACAACGACGGTGACGACAAC
Right flanking sequence: Indices 56746 -- 57245
GATGACAGCGACGACGATGATGACGACGTCTTGAAGAACCTCAAGAGCTTCCGCATCATTGTTGA
CTTCAACGACGATGACGACCAGTTGGTTTCTTTGAAGCAAGGTAACGGCACTGGCCAGTTGGTTG
CTGCCCGTTACGGTAAGGACGTTTACTTCAACCTCAAGAACTCCTCGTTGGCTGCCATCAACGGT
ACCGGTGTTGTCTTCGACGACCACACTGTTGAGTTGGCCAACAGCACCCAGAAGGCCCAGCAGAC
CAACCTGACCAAGAACGGCTGGAGAATCTACGAGAACAGATTGTTCTGGAGAGGTCAGCACACTT
GGCGTGCGTGCCCCCTTCCTCGCACCAACACCACTTACACTTTGTCCACTAAGAAGTGCAAGGAC
GGCGAGAAGGTTAAGCTCAGAGTGTTTGTCTAAGTTAGTTGTTGAGAAGATTGGACCCGTTATTG
TCCAGTCTTCGTTAAAATACCCAATGTTTAATGCAATGTACGAGA
Found at i:56714 original size:9 final size:9
Alignment explanation
Indices: 56690--56773 Score: 59
Period size: 9 Copynumber: 9.7 Consensus size: 9
56680 GGTGATGACA
56690 ACGACGATG
1 ACGACGATG
*
56699 ACAACGATG
1 ACGACGATG
*
56708 --G-CGACG
1 ACGACGATG
*
56714 ACAACGATG
1 ACGACGATG
*
56723 ACGATGATG
1 ACGACGATG
*
56732 ACGATGATG
1 ACGACGATG
*
56741 ATGACGATG
1 ACGACGATG
*
56750 AC-AGCGACG
1 ACGA-CGATG
*
56759 ACGATGATG
1 ACGACGATG
56768 ACGACG
1 ACGACG
56774 TCTTGAAGAA
Statistics
Matches: 56, Mismatches: 14, Indels: 10
0.70 0.17 0.12
Matches are distributed among these distances:
6 4 0.07
8 1 0.02
9 50 0.89
10 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.32, T:0.13
Consensus pattern (9 bp):
ACGACGATG
Left flanking sequence: Indices 56190 -- 56689
CTTATTTCAGTTGGACCCGACCACTTTTGGGTGGTTACTCGGTGCTGTCGCAGCATTTGTCGATA
CTTTGCCCTAGTCCCAGGGTTATGAGCCTTCTTGGCGGCAACTCGGCTGCATGCATGTTTTGCAA
CCAAAATCCCGCTGTGCTATGACCGAAGGGTACTGCCGGGCCAAATGGAATATTCGAATTATAAA
AGAACGCAGTTCGCCGTAAATCTTGGTCAATCAATTAATCATGAAGTTCACTTTGCTTGCTCTTG
CTACCGCTGTTGCCGCTTCTCCCTTGGCTTACCTCAAGCCTGAGGTTTTGAACAACCTTGTCACT
AGAGATGACGACGACGACGATGACCACCAGATCAGCAACCAGGGTAACTCTGGTGGTGCTAACAA
CCAGAACCTGAACAATGACAACGACAATGACAACGACGGTGACGACAACGACAACGACGGTGACG
ACAACGACAACGACGGTGACGACAACGACAACGATGGTGATGACA
Right flanking sequence: Indices 56774 -- 57273
TCTTGAAGAACCTCAAGAGCTTCCGCATCATTGTTGACTTCAACGACGATGACGACCAGTTGGTT
TCTTTGAAGCAAGGTAACGGCACTGGCCAGTTGGTTGCTGCCCGTTACGGTAAGGACGTTTACTT
CAACCTCAAGAACTCCTCGTTGGCTGCCATCAACGGTACCGGTGTTGTCTTCGACGACCACACTG
TTGAGTTGGCCAACAGCACCCAGAAGGCCCAGCAGACCAACCTGACCAAGAACGGCTGGAGAATC
TACGAGAACAGATTGTTCTGGAGAGGTCAGCACACTTGGCGTGCGTGCCCCCTTCCTCGCACCAA
CACCACTTACACTTTGTCCACTAAGAAGTGCAAGGACGGCGAGAAGGTTAAGCTCAGAGTGTTTG
TCTAAGTTAGTTGTTGAGAAGATTGGACCCGTTATTGTCCAGTCTTCGTTAAAATACCCAATGTT
TAATGCAATGTACGAGAAACGAAAAACTCGGTAAAGTGATTGTGG
Found at i:56715 original size:21 final size:21
Alignment explanation
Indices: 56600--56694 Score: 163
Period size: 21 Copynumber: 4.5 Consensus size: 21
56590 AACAATGACA
*
56600 ACGACAATGACAACGACGGTG
1 ACGACAACGACAACGACGGTG
56621 ACGACAACGACAACGACGGTG
1 ACGACAACGACAACGACGGTG
56642 ACGACAACGACAACGACGGTG
1 ACGACAACGACAACGACGGTG
*
56663 ACGACAACGACAACGATGGTG
1 ACGACAACGACAACGACGGTG
*
56684 ATGACAACGAC
1 ACGACAACGAC
56695 GATGACAACG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.39, C:0.26, G:0.27, T:0.07
Consensus pattern (21 bp):
ACGACAACGACAACGACGGTG
Left flanking sequence: Indices 56100 -- 56599
GATTTGCTCGCGAGGTCACACGGATATTTGCAAACATGAGATTTTTAGGCCGCGAAACAAGGAAA
TTTAACAACCGAGATCCATTCGAATCTTATTTCAGTTGGACCCGACCACTTTTGGGTGGTTACTC
GGTGCTGTCGCAGCATTTGTCGATACTTTGCCCTAGTCCCAGGGTTATGAGCCTTCTTGGCGGCA
ACTCGGCTGCATGCATGTTTTGCAACCAAAATCCCGCTGTGCTATGACCGAAGGGTACTGCCGGG
CCAAATGGAATATTCGAATTATAAAAGAACGCAGTTCGCCGTAAATCTTGGTCAATCAATTAATC
ATGAAGTTCACTTTGCTTGCTCTTGCTACCGCTGTTGCCGCTTCTCCCTTGGCTTACCTCAAGCC
TGAGGTTTTGAACAACCTTGTCACTAGAGATGACGACGACGACGATGACCACCAGATCAGCAACC
AGGGTAACTCTGGTGGTGCTAACAACCAGAACCTGAACAATGACA
Right flanking sequence: Indices 56695 -- 57194
GATGACAACGATGGCGACGACAACGATGACGATGATGACGATGATGATGACGATGACAGCGACGA
CGATGATGACGACGTCTTGAAGAACCTCAAGAGCTTCCGCATCATTGTTGACTTCAACGACGATG
ACGACCAGTTGGTTTCTTTGAAGCAAGGTAACGGCACTGGCCAGTTGGTTGCTGCCCGTTACGGT
AAGGACGTTTACTTCAACCTCAAGAACTCCTCGTTGGCTGCCATCAACGGTACCGGTGTTGTCTT
CGACGACCACACTGTTGAGTTGGCCAACAGCACCCAGAAGGCCCAGCAGACCAACCTGACCAAGA
ACGGCTGGAGAATCTACGAGAACAGATTGTTCTGGAGAGGTCAGCACACTTGGCGTGCGTGCCCC
CTTCCTCGCACCAACACCACTTACACTTTGTCCACTAAGAAGTGCAAGGACGGCGAGAAGGTTAA
GCTCAGAGTGTTTGTCTAAGTTAGTTGTTGAGAAGATTGGACCCG
Found at i:56770 original size:12 final size:12
Alignment explanation
Indices: 56722--56773 Score: 52
Period size: 12 Copynumber: 4.3 Consensus size: 12
56712 CGACAACGAT
56722 GACGATGATGAC
1 GACGATGATGAC
*
56734 GATGATGATGAC
1 GACGATGATGAC
* * *
56746 GATGA-CAGCGAC
1 GACGATGA-TGAC
56758 GACGATGATGAC
1 GACGATGATGAC
56770 GACG
1 GACG
56774 TCTTGAAGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.35, T:0.15
Consensus pattern (12 bp):
GACGATGATGAC
Left flanking sequence: Indices 56222 -- 56721
GGTTACTCGGTGCTGTCGCAGCATTTGTCGATACTTTGCCCTAGTCCCAGGGTTATGAGCCTTCT
TGGCGGCAACTCGGCTGCATGCATGTTTTGCAACCAAAATCCCGCTGTGCTATGACCGAAGGGTA
CTGCCGGGCCAAATGGAATATTCGAATTATAAAAGAACGCAGTTCGCCGTAAATCTTGGTCAATC
AATTAATCATGAAGTTCACTTTGCTTGCTCTTGCTACCGCTGTTGCCGCTTCTCCCTTGGCTTAC
CTCAAGCCTGAGGTTTTGAACAACCTTGTCACTAGAGATGACGACGACGACGATGACCACCAGAT
CAGCAACCAGGGTAACTCTGGTGGTGCTAACAACCAGAACCTGAACAATGACAACGACAATGACA
ACGACGGTGACGACAACGACAACGACGGTGACGACAACGACAACGACGGTGACGACAACGACAAC
GATGGTGATGACAACGACGATGACAACGATGGCGACGACAACGAT
Right flanking sequence: Indices 56774 -- 57273
TCTTGAAGAACCTCAAGAGCTTCCGCATCATTGTTGACTTCAACGACGATGACGACCAGTTGGTT
TCTTTGAAGCAAGGTAACGGCACTGGCCAGTTGGTTGCTGCCCGTTACGGTAAGGACGTTTACTT
CAACCTCAAGAACTCCTCGTTGGCTGCCATCAACGGTACCGGTGTTGTCTTCGACGACCACACTG
TTGAGTTGGCCAACAGCACCCAGAAGGCCCAGCAGACCAACCTGACCAAGAACGGCTGGAGAATC
TACGAGAACAGATTGTTCTGGAGAGGTCAGCACACTTGGCGTGCGTGCCCCCTTCCTCGCACCAA
CACCACTTACACTTTGTCCACTAAGAAGTGCAAGGACGGCGAGAAGGTTAAGCTCAGAGTGTTTG
TCTAAGTTAGTTGTTGAGAAGATTGGACCCGTTATTGTCCAGTCTTCGTTAAAATACCCAATGTT
TAATGCAATGTACGAGAAACGAAAAACTCGGTAAAGTGATTGTGG
Found at i:61097 original size:18 final size:18
Alignment explanation
Indices: 61074--61138 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 18
61064 GGCAGGAAGG
*
61074 TCAGGTACACCGGGTACT
1 TCAGGTACACCAGGTACT
* *
61092 TCAGGTACACCAGGCACC
1 TCAGGTACACCAGGTACT
* *
61110 TCAGGAACACCAGGTAAT
1 TCAGGTACACCAGGTACT
*
61128 TGAGGTACACC
1 TCAGGTACACC
61139 GGGCACAAGC
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.25, T:0.17
Consensus pattern (18 bp):
TCAGGTACACCAGGTACT
Left flanking sequence: Indices 60574 -- 61073
AACTTTGACGAATTGATTTCGTTGTACGCGGTGCTGGATGTGTGCTTAGTGTCGCTGACCCGTGA
TGGGATGAACTTGGTGAGTTACGAGTACATTGCTTGTCAACAGCAGAAACAGGGTGCGCTTATTT
TGCTGGAGTTTGCTGGTGCCGCCCAGCTGTTGAATGGAGCTATAATCGTCAACCCCTGGAACACC
GAAGAGTTGAGCGAGGCCATCCTTGAGCTGTTGACTCTCCCGAAGGAGAAGAAGGAGCTCAACTT
TTCCAAATTGTTTGCCTACATCAAAAAATTCACCCTGGGCTACTGGGGCGAGTCCTTTGTTAAGG
AACTTGCTCAGTGCGGTGACGAAAAACCTGTTCAATTATAATCTTTACGTGCCTGAGGTGAATCG
TAGCTTTTTCCCTGGCTGGGGTGAAGCGAGTATCGGGCAGCGCCGAGTTAAGTAGATCATTCATT
TAATGTTACATTCCTAATTAGGATGCCTGAGCTCCGGCAGGAAGG
Right flanking sequence: Indices 61139 -- 61638
GGGCACAAGCTTGTCGAGACCCAAGCCACTCAACAACTTGTTCAACAAGTTCGCAACCAGGCCCA
AGAGGTTGCTCAGCGGGTTGTCGGTGAACAAGTTGTCAACGGGGAGACCCGCAAGAGGGTTGGCA
CCGTTCGAAGGAGCACCCGAGGGGAGAGGTAAACCCACGTTGCCCAAAAGGTCCAGGAGGTTGCT
GACCACATTTTCAGGCGAGGTCGTGTCGGGCTTGGGAACATCCACCGGCAAGTCGGTAGGGGTCG
GAGCGGCAGCGGCGAGAACAGCGGTCAAGAGAATGTTTCTGAGTTGCATTGAAGAGAGTAGTTGA
ATACAGACTAGGCTAACTTAGTTAGTGCTTTTATATACGGGTCGGGCCCACCTGGGGCGTGCCAA
CAATGGTATTGTTGGAATGTGGCTGGATTGATCGAGGTGGTACTTGGAATTCGAGACAATCAGCT
TTCGAGAGACATACGTTTCTCAGCTTTGCTACTTTGCTCAAATCC
Found at i:61134 original size:36 final size:36
Alignment explanation
Indices: 61074--61144 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
61064 GGCAGGAAGG
* * *
61074 TCAGGTACACCGGGTACTTCAGGTACACCAGGCACC
1 TCAGGAACACCAGGTAATTCAGGTACACCAGGCACC
* *
61110 TCAGGAACACCAGGTAATTGAGGTACACCGGGCAC
1 TCAGGAACACCAGGTAATTCAGGTACACCAGGCAC
61145 AAGCTTGTCG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (36 bp):
TCAGGAACACCAGGTAATTCAGGTACACCAGGCACC
Left flanking sequence: Indices 60574 -- 61073
AACTTTGACGAATTGATTTCGTTGTACGCGGTGCTGGATGTGTGCTTAGTGTCGCTGACCCGTGA
TGGGATGAACTTGGTGAGTTACGAGTACATTGCTTGTCAACAGCAGAAACAGGGTGCGCTTATTT
TGCTGGAGTTTGCTGGTGCCGCCCAGCTGTTGAATGGAGCTATAATCGTCAACCCCTGGAACACC
GAAGAGTTGAGCGAGGCCATCCTTGAGCTGTTGACTCTCCCGAAGGAGAAGAAGGAGCTCAACTT
TTCCAAATTGTTTGCCTACATCAAAAAATTCACCCTGGGCTACTGGGGCGAGTCCTTTGTTAAGG
AACTTGCTCAGTGCGGTGACGAAAAACCTGTTCAATTATAATCTTTACGTGCCTGAGGTGAATCG
TAGCTTTTTCCCTGGCTGGGGTGAAGCGAGTATCGGGCAGCGCCGAGTTAAGTAGATCATTCATT
TAATGTTACATTCCTAATTAGGATGCCTGAGCTCCGGCAGGAAGG
Right flanking sequence: Indices 61145 -- 61644
AAGCTTGTCGAGACCCAAGCCACTCAACAACTTGTTCAACAAGTTCGCAACCAGGCCCAAGAGGT
TGCTCAGCGGGTTGTCGGTGAACAAGTTGTCAACGGGGAGACCCGCAAGAGGGTTGGCACCGTTC
GAAGGAGCACCCGAGGGGAGAGGTAAACCCACGTTGCCCAAAAGGTCCAGGAGGTTGCTGACCAC
ATTTTCAGGCGAGGTCGTGTCGGGCTTGGGAACATCCACCGGCAAGTCGGTAGGGGTCGGAGCGG
CAGCGGCGAGAACAGCGGTCAAGAGAATGTTTCTGAGTTGCATTGAAGAGAGTAGTTGAATACAG
ACTAGGCTAACTTAGTTAGTGCTTTTATATACGGGTCGGGCCCACCTGGGGCGTGCCAACAATGG
TATTGTTGGAATGTGGCTGGATTGATCGAGGTGGTACTTGGAATTCGAGACAATCAGCTTTCGAG
AGACATACGTTTCTCAGCTTTGCTACTTTGCTCAAATCCATTTAA
Found at i:63057 original size:22 final size:22
Alignment explanation
Indices: 63029--63070 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
63019 CGAACCCGTA
*
63029 TGGAACCGCAAATAGGAAAGTG
1 TGGAACCGCAAAGAGGAAAGTG
63051 TGGAACCGCAAAGAGGAAAG
1 TGGAACCGCAAAGAGGAAAG
63071 GGTTTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.14, G:0.33, T:0.10
Consensus pattern (22 bp):
TGGAACCGCAAAGAGGAAAGTG
Left flanking sequence: Indices 62529 -- 63028
GTCTTCGATGTTTGGTAGGGCTCTTAAGTATCTAGCCTAACTCTTCGCTGAATGGTGCCAAGTTG
AAGCAAACCCCAGTGCCATGCATATTACAGCAGACTCACGATCAAAAAAATCAGACAATGGTGTA
CTTGGGGTCCAAGCCGTTCCGAGGTGCCAAAGAACAAGCGGAATATGACAGAACGTTTGCTGGAC
GTTATCAGAGGCTCTTAAAGCGCAACCACTTCCTTTACTTCGGGCTTCCCTTCATGCTCTCGATC
GTGGCCGGGCTGATCTATCTCCAAAAGTTTACCGCCGTCAAGTGGGAACGCTACGATGAAAAGCA
CCAGCAGCTTAACGAGGAGGAGATGCTTAGTTTGATTGAGAACAAGCGTCCCGTGGACAAAAAGA
ACGACTACTACCGGTTGCAAGGTCTTTTGAATGACCACAACAAGGAAGTAGCTCTGAACAATGAC
TATGAGATCGTGAGAGTGTCCCGCAGGCCCGAGGACGAACCCGTA
Right flanking sequence: Indices 63071 -- 63570
GGTTTTTTGTACATAGTATACCGGTTACTGATAAATATAGGTTCTTGGAGAAAGTAGTTGGCTAA
GGTACAGGAGGGGAGGATGACACGGTACTAACGTGTCATAGTGGTGTTTGGATTATCTCCAGTTT
TCTGTATTACGGGTGTGTGTTTATTTCTCTATGTCGGGGTTTGGTTTAACCAACAGGCAAACGGT
TGAGCGAGTTGGGGTCCTCGTCGTTTTCGTGTTCCGGCCACCCCTTTTCGAGCGAGTACACGTTG
AATTTGAGCTTGTCGTGTCTAAAAAGAGCCTTTTCATTCAACGACCAGGGGACCTTGAGAGCACC
AGCAGAAATCTTGGGGATATTGATCACAGGCTTGCCCTCGTCAGACTCAACGTCCTCAGGAAGCT
TGCCTTCCATGTCGGTGAGGGCCAGGTCGGCGTAAGCGGTCACCTGGTCGGCACCGTATTGGTCC
TCGACGTCCAGAGCGTAGAGAACAGCAATGACCGCGGGCTTGGAC
Found at i:75197 original size:26 final size:26
Alignment explanation
Indices: 75161--75258 Score: 196
Period size: 26 Copynumber: 3.8 Consensus size: 26
75151 GTTATAGTCG
75161 TGCGGTTAGAATCTTTTCTCAGCATT
1 TGCGGTTAGAATCTTTTCTCAGCATT
75187 TGCGGTTAGAATCTTTTCTCAGCATT
1 TGCGGTTAGAATCTTTTCTCAGCATT
75213 TGCGGTTAGAATCTTTTCTCAGCATT
1 TGCGGTTAGAATCTTTTCTCAGCATT
75239 TGCGGTTAGAATCTTTTCTC
1 TGCGGTTAGAATCTTTTCTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.43
Consensus pattern (26 bp):
TGCGGTTAGAATCTTTTCTCAGCATT
Left flanking sequence: Indices 74661 -- 75160
TGTTGCGGGAAGTAGCGCTAAAGGAATAATGTTGCAAATTTGTCGGTGGACGTGGACTGAGACGT
TGAAGAGAAGCATGCTGTACTAGAGAGCTTGACTACCACTGTCATAATGGTATCATGCGCAAGGC
ATCAGCTCGCGACCGCAGTCAACCCTCGGATCGCACAGAAAGCAAAAAGATTCTAACCAAATGTC
AGGAAAAGGTTCTAACCGAAAATGGGGTTTGCTCGATTACATTGAATATTAACATGAATGTACCA
CTTCTCATAAACTAAAGTGGGGCACTCAACAAGTAAGTATGGACACGTTTCCTTAGCCTTAACTT
GGTTATCGTTTCGACGAACTTAGCGCCTACGATCAATTCGACAGTGAATCCATTTGCTTCTGTGA
CTATTTCTTACAGTACAAAGGTGTGAAGGGATACAGAGATGCACATGTTTTCCCGTTCGCTACGC
CCAATTCCTGATCTGCAGCACCACAAACTGCGAATGTTATAGTCG
Right flanking sequence: None
Done.