Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: C10787
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: 27568
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.23
Found at i:6621 original size:13 final size:13
Alignment explanation
Indices: 6605--6659 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
6595 CTCAACCATC
6605 ACTTATCATCTCA
1 ACTTATCATCTCA
*
6618 ACTTATCACCTCA
1 ACTTATCATCTCA
*
6631 ACTTATCTTCTCA
1 ACTTATCATCTCA
* *
6644 ATTTATCCTCTCA
1 ACTTATCATCTCA
6657 ACT
1 ACT
6660 CTTGCTCTCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (13 bp):
ACTTATCATCTCA
Left flanking sequence: Indices 6105 -- 6604
CACCCCGGTGTTGCTGGGGGGAGTCTTGTTGTACTTGCCGGAGTTGGGGGGCTCGGTGCCCAGCT
GGCGCAACACCACGTACTGCGACGGGGTCAACGAGGCGCGCCACTCGGCGTCTGTCTTCTGTACC
ATGGTTCTGATCGGTCTAACTAGTCGTACTGAGCGTAGGGCTGCCCGGCGGATCATTGCTGGAGT
GCGCAACCAACGTTATGTGCCCAACTAGGGAGAACGAGAATGCAATTGGGTGGGAACAGGTGGAT
GAGGTAGCCAGTTGAAGTGGCGGGTTGCTTACTGCTAAATAGTAAGTTAAGGTTAACTGATTAAC
TGATACAACTCCCGACCGGAATATTCCCCGGATCAATCACATGTTGAAAAACCTATCAAACACCG
GAAGAACGATTGATCCGAACCGTGCTCTCGAAATCCAACCTCTTTACCTCTCTCTCTCAACCAAT
GGGACGAACCATACACCCACAACGAAACCAACAATCTCAACCATC
Right flanking sequence: Indices 6660 -- 7159
CTTGCTCTCCCTTACACTCTTTTATTACTATATTACAATCACCGGAACCGGTGGGTCAAGATCTT
CTCGGCCCCCGCCTCCGTCCACTCGTCCTTCAGCACCCACAACTGGTGGAACGTGCCCAACAGCG
CCAACACCGAGCCCCCGATCCACGCCTGGTTCACCCGCTCCAGCAGGTTCCCCACCGCGTGCAAC
CGCACCTTGAGCCCCGGGTGCGCCGCCAGGATCTCCGCGTAGAGCCGCTCGGTCAACTGGGGCAC
CAACAGCGTGCCCCCGGTGACGATGATGTTGTGTGCGGCCAGGGCACGCAAGTCGATATCCACCG
CGTTCAACACGTGGGAAATGAGCTTGGCGAGTCCCCGGACGGTAGCCCCATCGTCCTGGGCGGGA
GGGTCGGTCTTGCGGCGCTTGGGCCGCTCCTCAAAGCTCGGTTTGAGCCCCAACTCACCGTTGTC
AGGAGCGTAAGCCTTGGCCTCGTCAGCAAACTTGTACACCAGCGG
Found at i:12287 original size:15 final size:15
Alignment explanation
Indices: 12267--12297 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12257 CACAATCCTA
12267 AATCCAGATTCATGG
1 AATCCAGATTCATGG
12282 AATCCAGATTCATGG
1 AATCCAGATTCATGG
12297 A
1 A
12298 GACCACACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (15 bp):
AATCCAGATTCATGG
Left flanking sequence: Indices 11767 -- 12266
GTTTTTGGTTGAATTTAGGCTTTATCGTTGTACAACTGGAGCCTTCTCTGTTTTTGAGTTCTCAA
TGTTTGAGTATTCGGTTCCAGATTCGCCGTATCGTACTTGCAGGTGGTTTCCCCAGAATGGTGGG
TGATCTCCTAATTTAGACCAGCGTTTTTCTACTTTCAGCACCCTTAAAAGTGTAATTGAAGCTTC
GGCCGTAACCATTGAGCTCCCACACTTGGCGACACAGTGGTAAATTTGCTGACAAGTATGGGAGT
GCTTCTATGATTTTTACTAGAGCCCAGCCACTCATCACAGTGACTTGCAGACCACCCTGCATTGA
CACCAAACTTTCCTCAGTGCCAACAGGGTCCAAGCATTTACCACAACCCCCTTCAGTCCAACGGC
TGTCAAAGTTAGCCGAGCTGTGCGACAAGATAAACGTGCGGAAATACGAGGTGGCAACAAGTCAA
ATAACGACTCATCCGAAACACCGTGGTTGATTGTACACAATCCTA
Right flanking sequence: Indices 12298 -- 12797
GACCACACCCTGCCGACTTCTGCCAATTCTAACATTAATCATTCTATTCTATACCAATCTATAGC
TACGCCGCCATCCGCAAGTCGTACTCGCTGAGCCCGATCTGCTGGCCCAACCGCTCAAAGTTGCT
CATGTAGAGCGCCCGCTTCTGCTCGGCCATCTCATTGAGCGCAGGCCAGTACACGTTGTGGTTGT
AATCAAAGTCAAGCAGCCCACCCCACTGTTTGTCAAGCTGCTCGCTGGGCACCCAGTCAGCAAAG
TTGCCATCGAAAATCGTCTTCAGCCGGGTGTAAGGGTCAATAAACGGCAGCGCCATCTTGAAGAA
GAGGTGGCCCACCCAGGGAACATTAGTGAAGAGACCCTTGCCCAACCGCTCGGGATAGTGGTGTT
GCAACACATGCATGCAGTCACGGGTAACCGCCACACCAGGGAACTTCAGCGACAACTTCATGTGC
GCTGGAGCTGGAGCGAAGTCGATGAGCAACGCCAAGGTGTCCTGG
Found at i:14136 original size:10 final size:10
Alignment explanation
Indices: 14121--14214 Score: 134
Period size: 10 Copynumber: 9.4 Consensus size: 10
14111 GACGAGAGGA
*
14121 AGGAGATCGG
1 AGGAGATGGG
*
14131 AGGAGATCGG
1 AGGAGATGGG
14141 AGGAGATGGG
1 AGGAGATGGG
* *
14151 AGGAGTTGAG
1 AGGAGATGGG
*
14161 AGGAGACGGG
1 AGGAGATGGG
14171 AGGAGATGGG
1 AGGAGATGGG
14181 AGGAGATGGG
1 AGGAGATGGG
14191 AGGAGATGGG
1 AGGAGATGGG
*
14201 AGGAGATGAG
1 AGGAGATGGG
14211 AGGA
1 AGGA
14215 AAAAAGATGG
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 76 1.00
ACGTcount: A:0.32, C:0.03, G:0.55, T:0.10
Consensus pattern (10 bp):
AGGAGATGGG
Left flanking sequence: Indices 13621 -- 14120
GCTTTAACGCGACGATGACAGGGCGTTGGGAACGGATACTGTGAATGACTAGAGACGATATGTAT
GCAATCCCTGGATCATTCTGAAGTAGCAGGTGTTTTCGTCAACCTTACGACTTTTCTTCCTTTCC
TCCACTGTGAACACTACATCACGTGAACCGTCCGCGATCGTAACTCTATGGCTCCCCAGGTACTT
AGCGAGGTGGGCGAAGCGCCCTTCACCAAGGAGTTTCTTCTCCTGGTGGCTGAGAAGCCCATTGA
CGAGGTGGTTGCCGCATTGGCCACCAAGCTGAGCAAGTACAAGTACATCCTCGAGGAAACGGTGG
CCAGTGGCGACGCTGACATGACCACCGACTTTGCGGCGGTGTGGGGCCCGAAGGACGGGGCCTTG
GTGCTCGGCATGGGCACGAACCCGCTGGACGGCTCGGCACTGGTCCGCACAGTGTACTTTATTTA
CGTAGGTTAATGGATACGATGGTTATAAGGTGAGGGACGAGAGGA
Right flanking sequence: Indices 14215 -- 14714
AAAAAGATGGGGCAATGGTCAAAGGAGATTGGTTCTAGGACCATTGACGGATTAGGCAATGACTT
GCGCTCTGGTAGGTATCACATTATCTATCTACTATAATACAGATGATCACTCACTGATCATATCC
AACTGGGCTCTCGGTCCCAGAGTCCCGTAAACTGCACTTTTAAGCTCCTCGTACGCTCTCTGTGC
CTTTAACTCGCCATAACACTTGCTATCACCCACGAACTCCTACTTGTCCACCAAATTCGCTAAGC
GCTGGACCCGTTGCGCCACGTCCTTGAGCTCACGCACATCGCCTATCGCTGCCTCCACGTCCTTC
AACACCTGGGCCACCTGCGGGTCGCTGGCCACTGTGGGGTCCACGGGAGCAAGCCAGTTGTCCTC
GGGCACGTGTCCGGTCTGGCCGGTTAACAACCCCAATTCCCGTTCCATCGGCTCCATCTGGCGGC
GTGCCATGCTCTCTAACTTGCGCAACTGGCCCTCTTTCTCCTCGG
Found at i:16598 original size:24 final size:24
Alignment explanation
Indices: 16571--16638 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
16561 CAGGGCCCTG
16571 GCTAGTGGTAGGAGCCGGGGCTTC
1 GCTAGTGGTAGGAGCCGGGGCTTC
16595 GCTAGTGGTAGGAG-CGGGAGCTTC
1 GCTAGTGGTAGGAGCCGGG-GCTTC
* * *
16619 ACTGGTGGTAGGGGCCGGGG
1 GCTAGTGGTAGGAGCCGGGG
16639 GCTTGGAAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
23 4 0.10
24 31 0.79
25 4 0.10
ACGTcount: A:0.13, C:0.18, G:0.50, T:0.19
Consensus pattern (24 bp):
GCTAGTGGTAGGAGCCGGGGCTTC
Left flanking sequence: Indices 16071 -- 16570
TATAATACAGAGCGTTATAACGGAGGCAAGACGTTTTCCTCAAAGTAGGTTTTGCCCGTCTTGCG
GTCGACGCCGACAACGTTGCCGACCTCGTCAGAGTAGGAACAGATGGTGTACTGGCGCCACTTGG
TGTTGCACATCTTGGCGTAGCACCCCACCTTCAGGGTCAGTTTCCACACAAGCGCGGTGAAGTGA
CCGGTGGCCTCGGAGAAGCCAGGGTTGCTGTAGTCGTAGAGCGAGATCTCGTCGTACCACGCAAC
CACCGGGTCCACGCCGCCAACGTAGCCCCCGGCCAAGTTCTCACCGTAGGGACCGTGCAGGTGGA
TCAACTTCATGGTGTTACAGTCGACAATGCCCGACTCAGCGTAGTTCTTGGCGTACTCAACAAGC
TTGGGGTCCCATGAGAGATCTTGTACTCCATGGAGACGCCGCTTTTCGTTGTGAGTGTCGAGGGT
GTCCTGTTCGAATTTAGAGAGAGAAGGACCAGGAGCAGGGCCCTG
Right flanking sequence: Indices 16639 -- 17138
GCTTGGAAGAAGCCGGGGGCTGAGTAGGAGTGTCGCTCGTGGGAGCAGGGGCCTCGCTGGTGGTA
GGCAGCGGGCGGAAAGTGATGGTGGTGGCGAACTCCGACGACGGAGCGGCCTCGCTGGGCGGAGG
AGCGGGCTCCGATGTGGGCTGTGTGTTCGCTGCCAGCGGGGTGTATGTGATGGTGGTGCCAAACA
CACTAGAGGACGCTTGGCCTATTGACAGCGGAGCAGCTGGCTGTGTAGAGGGGGTGTCCGTCGCG
GCAGACGGGACATCCACGGGTGACTCCTCGGAGGGTAACGATTGACTGGTGGCCCCCGCCGCAGG
TGGGGTGTCTGACAAAGTAACACTGACAGTGGTGGTCTCGACACTGGTCACGGTGACAACCTCTT
TGGGAGCAGTCACCGTGATCACCGCCTGGGCGTGTACAGCGGCCACTAACGATAAAAGAACGGCA
GAGGATAACATCACTAACGCCAAAACTCAGGGTCCTGTCACCAAT
Found at i:17922 original size:21 final size:21
Alignment explanation
Indices: 17896--17947 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
17886 ACATAAACAA
* *
17896 ACAAACAAACGAGTGAAGCTG
1 ACAAACAAACGAGTGAACCGG
*
17917 ACAAACAAACTAGTGAACCGG
1 ACAAACAAACGAGTGAACCGG
17938 ACAAACAAAC
1 ACAAACAAAC
17948 CAGACAACCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.52, C:0.23, G:0.17, T:0.08
Consensus pattern (21 bp):
ACAAACAAACGAGTGAACCGG
Left flanking sequence: Indices 17396 -- 17895
AAGCATGCGGTGATGACGTTCGGCAGCGGGGGTGCGTTTGACACCCCTGCGTGGCTTGCAAAAAC
CCTTGTGTTGCTTTTGTGCAAACAAAGTGGCCCGACGTTGGTTGCCAGGTGGACGACGATGGTAC
GAGATGGTAACCACTTGCAACCGATGGACCCGCGGGAGCTGTCACTGCGAGGTGTCACGGCCGCT
GTGCAGCCACAGTGTGCACGAACGGGTCTACGCACGGGCTAGAGCCGAGATAAGCGTGCGGGCTG
TGCGAAGGGGGAGACCGAAAGCGGACAGCCAGCGCCGGAGTGCAGAGTTACGTCGGGCTCTCCAG
CGGGCCCGGAGCCAAGAATTAGGTTGGCTATTGTCTAAACGTCGCTAGCCAGGCGATAGCCCTCT
GCTTTGTTCGCACACTGCATGCACCGCACTGATAACACGGTGCCGTGGACCGCATGGCACATGAG
CCGTAACCGGACCCATAACCGACCTTAACCGGGCCACATAAACAA
Right flanking sequence: Indices 17948 -- 18447
CAGACAACCCAACCAAACACGTTTAATTTCGTCCCCGCACGGGGCTCCACCTTCCTTTTTCCTCA
TCTCGCTTCCCTCGTTCCCCCACCCGTGCCCCCAACGCGATTTTTCACTGTGGGGCACCGGTCCA
GGCACACCGACACCCCACGTACACCCGCCACCACCACCGCCTGGGTGAAAAACCACTACGTAGCC
ACTCTCCCACCCCTAACTAACCCACCCCGCGCCCGCCACCCGCCGGGACCCGCATTTGCGCCCCC
CCGCTGTGCCCCTATCTTGTGTGCAACGTGCGCGCTTTTTGACAGCACTTGATATTTTGATCCAC
CACCACCATGTTCAAGGGCTTACGGAAAAAGGCACTGGTGCTAGCGCTAGGCGGCGGCCACGACG
AGCCCGCGCTGGACAACTACCCCCGGGTGCTCAAACAGGTGCGGGACTTTGAGATTGCCCTCCAG
GCGATGGACTATCTCTTGGACGACCGCACGTCGCAGGGGACAAAG
Found at i:17956 original size:21 final size:21
Alignment explanation
Indices: 17916--17956 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17906 GAGTGAAGCT
* **
17916 GACAAACAAACTAGTGAACCG
1 GACAAACAAACCAGACAACCG
17937 GACAAACAAACCAGACAACC
1 GACAAACAAACCAGACAACC
17957 CAACCAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.29, G:0.15, T:0.05
Consensus pattern (21 bp):
GACAAACAAACCAGACAACCG
Left flanking sequence: Indices 17416 -- 17915
CGGCAGCGGGGGTGCGTTTGACACCCCTGCGTGGCTTGCAAAAACCCTTGTGTTGCTTTTGTGCA
AACAAAGTGGCCCGACGTTGGTTGCCAGGTGGACGACGATGGTACGAGATGGTAACCACTTGCAA
CCGATGGACCCGCGGGAGCTGTCACTGCGAGGTGTCACGGCCGCTGTGCAGCCACAGTGTGCACG
AACGGGTCTACGCACGGGCTAGAGCCGAGATAAGCGTGCGGGCTGTGCGAAGGGGGAGACCGAAA
GCGGACAGCCAGCGCCGGAGTGCAGAGTTACGTCGGGCTCTCCAGCGGGCCCGGAGCCAAGAATT
AGGTTGGCTATTGTCTAAACGTCGCTAGCCAGGCGATAGCCCTCTGCTTTGTTCGCACACTGCAT
GCACCGCACTGATAACACGGTGCCGTGGACCGCATGGCACATGAGCCGTAACCGGACCCATAACC
GACCTTAACCGGGCCACATAAACAAACAAACAAACGAGTGAAGCT
Right flanking sequence: Indices 17957 -- 18456
CAACCAAACACGTTTAATTTCGTCCCCGCACGGGGCTCCACCTTCCTTTTTCCTCATCTCGCTTC
CCTCGTTCCCCCACCCGTGCCCCCAACGCGATTTTTCACTGTGGGGCACCGGTCCAGGCACACCG
ACACCCCACGTACACCCGCCACCACCACCGCCTGGGTGAAAAACCACTACGTAGCCACTCTCCCA
CCCCTAACTAACCCACCCCGCGCCCGCCACCCGCCGGGACCCGCATTTGCGCCCCCCCGCTGTGC
CCCTATCTTGTGTGCAACGTGCGCGCTTTTTGACAGCACTTGATATTTTGATCCACCACCACCAT
GTTCAAGGGCTTACGGAAAAAGGCACTGGTGCTAGCGCTAGGCGGCGGCCACGACGAGCCCGCGC
TGGACAACTACCCCCGGGTGCTCAAACAGGTGCGGGACTTTGAGATTGCCCTCCAGGCGATGGAC
TATCTCTTGGACGACCGCACGTCGCAGGGGACAAAGTTGCTCGAG
Found at i:18940 original size:3 final size:3
Alignment explanation
Indices: 18932--18959 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
18922 GGCTACCTGG
18932 TGC TGC TGC TGC TGC TGC TGC TGC TGC T
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC T
18960 TCCCGCCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.32, T:0.36
Consensus pattern (3 bp):
TGC
Left flanking sequence: Indices 18432 -- 18931
GTCGCAGGGGACAAAGTTGCTCGAGCAGGAAGCCGCGAAGCACCAGCAGCTGGCGCTGGAACAGC
CGGCGGGGATCTTCCCCCTCGCGCTCGGGGTGATGCAGTTCATCGAGGCCACCCTCGGCTTCGAG
CCCGAGGTGATGGAACGGGCGTTGACCACCCTCCAGGAGGCAGAGGCGGCGCTGGACGCAAACCA
CAAGTACAACTCGCGCCACCGGCTTGCCACGTCGCACATCTACCCCCCCGGGACCGAGTTTGACG
TCACCCACGCCGAGCTGACGCTCTTGTGTGCGCTTTTGATGCTTCTCCGCGAGAACAACGGGATG
GTGGAGGGGCTCAAGGCTCTCTACAAGTTGCGGGCCGCCTACAACAAATTGGACTCCACCTACAA
GAAGATCAAGGCGCTGGAGCCCGCGTTCAACCGCAACTTGGCCAAGCTCAAGGCCCAGGCCGCGG
GCCACCCGCAGAACTTGCTGAATCTGGACCTTCCGGGCTACCTGG
Right flanking sequence: Indices 18960 -- 19459
TCCCGCCGACGTCCAGCTCATGCAGAACCTCGAGGCGGTATACCAGATGCGCAAGGGCCGTATTG
AGGGCACCAACTTGGGCAACGCAGACTTCTGGGCCCTGCTGCTGCTGGTGGCGCTGCTGCTGGTG
TTGGACCCGCCACGGCTGTTGGCCCAGCTGCTGGACCGCCCGCGGTCGCCGGCCCCGGGCAACGA
GGCGTTTTTGAACCCGCTGGGCGCCCAGCTGTCGGCTGCGCTGAACACAGCCCTGTCGGCGGCGC
TGGTGGCTCCGCTGGTGGCGCCGCTGGTGCCTCCCGTGGGCGCGGTCGACGGGTCGGACGACGAC
TTCTCCGACGCCATCTCCCAGGTGTCGTTGCACCCGTCGGACAACCACTTGTACGTGCTGACCAT
CGACGAGTTCATCCACCTGGGGGTGCAGCTCTGCTTTGGCATTTTGCAGGTGGTGCTCTCGCTCA
TCCCCCCCGCCATCGGCAAGGTGTTGCTGATTGTCGGGTTCAAGG
Found at i:19234 original size:12 final size:12
Alignment explanation
Indices: 19217--19253 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
19207 CTGTCGGCGG
19217 CGCTGGTGGCTC
1 CGCTGGTGGCTC
*
19229 CGCTGGTGGCGC
1 CGCTGGTGGCTC
*
19241 CGCTGGTGCCTC
1 CGCTGGTGGCTC
19253 C
1 C
19254 CGTGGGCGCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.38, G:0.41, T:0.22
Consensus pattern (12 bp):
CGCTGGTGGCTC
Left flanking sequence: Indices 18717 -- 19216
GTGTGCGCTTTTGATGCTTCTCCGCGAGAACAACGGGATGGTGGAGGGGCTCAAGGCTCTCTACA
AGTTGCGGGCCGCCTACAACAAATTGGACTCCACCTACAAGAAGATCAAGGCGCTGGAGCCCGCG
TTCAACCGCAACTTGGCCAAGCTCAAGGCCCAGGCCGCGGGCCACCCGCAGAACTTGCTGAATCT
GGACCTTCCGGGCTACCTGGTGCTGCTGCTGCTGCTGCTGCTGCTGCTTCCCGCCGACGTCCAGC
TCATGCAGAACCTCGAGGCGGTATACCAGATGCGCAAGGGCCGTATTGAGGGCACCAACTTGGGC
AACGCAGACTTCTGGGCCCTGCTGCTGCTGGTGGCGCTGCTGCTGGTGTTGGACCCGCCACGGCT
GTTGGCCCAGCTGCTGGACCGCCCGCGGTCGCCGGCCCCGGGCAACGAGGCGTTTTTGAACCCGC
TGGGCGCCCAGCTGTCGGCTGCGCTGAACACAGCCCTGTCGGCGG
Right flanking sequence: Indices 19254 -- 19753
CGTGGGCGCGGTCGACGGGTCGGACGACGACTTCTCCGACGCCATCTCCCAGGTGTCGTTGCACC
CGTCGGACAACCACTTGTACGTGCTGACCATCGACGAGTTCATCCACCTGGGGGTGCAGCTCTGC
TTTGGCATTTTGCAGGTGGTGCTCTCGCTCATCCCCCCCGCCATCGGCAAGGTGTTGCTGATTGT
CGGGTTCAAGGGCGACCGCGACACCGGGCTCCGGATGTTGTGGCGCACCGCCATCACCTCGCGCA
ACATCCACGGCGACTTGGCGTTGTTGTGCTTGCTCGTGTTCTACGACGGGCCGGTGCAGTTTGTC
GACGTCGGTTTCCAGCTTCCCCACCAGACCGACGACAACGTCACCGAGGTGATCTCGTTGGCGGG
CAAGGTGCTGGTGCTGGACGCGGAGCTCGGGCAGATCATGCAGAACCCCGCGCTCTACACGCCCC
AGTTGCTCAACAAGGCCCGCAAGTTGTTCCCCCACAACGCGCTCT
Found at i:20823 original size:9 final size:9
Alignment explanation
Indices: 20809--20854 Score: 65
Period size: 9 Copynumber: 5.0 Consensus size: 9
20799 GGTGTGGGTT
20809 GGTGTACTG
1 GGTGTACTG
20818 GGTGTACTG
1 GGTGTACTG
*
20827 GGTGTGCTG
1 GGTGTACTG
20836 GGATGTACTG
1 GG-TGTACTG
*
20846 GGTATACTG
1 GGTGTACTG
20855 TGCTCTACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.13, C:0.11, G:0.43, T:0.33
Consensus pattern (9 bp):
GGTGTACTG
Left flanking sequence: Indices 20309 -- 20808
TGACCCCCAAGGAGCTTGAGATGTCGCTCAAGGTGTTGCTGTACACCGCGCCCGGGTCCAAGTAC
GCCAAGTGCGACGAGACCGAGGACGACCACATGATCCGCAACTTTTTGGAGCTGATGGCGATGCG
GTCGTTGGGCCAGGTGGCCGAGGGGGAGAAGAAGCTCGACCACGAGGTCATTGGCAAGTACGTCA
CCTCGCAGGACCCGTTCCGGTTCACCAAGATGGCGGAGCTGCCCTACTTGTACCCGACGGCGTTG
TACGAGCGGCTGATGTTTGTGTGGTTGTTGCGCACCGCCAAGCCCAACGCCGACGTGCCGGCGGC
GGTGCACGAGCTGTTGGCGTGGTTGCACAAGGCCGAGCAGGTGGGCGAGGGCGACTACGAGTTGA
GCAACCGCACGGGGATGCGGATCAAGGCTGCTGGCGAGCGGCTCGAGTCATTTTTAAAGTAACAA
TAGACAGATAGAAGAGTGGGTGTGTAGGGGTGTAGGGTGTGGGTT
Right flanking sequence: Indices 20855 -- 21354
TGCTCTACTGTGCTCTCCTGGGGTTTATGGTGGCTTTAGTATGGCATTCTGCGTTTGGGAATCGA
ACGCGCGACTTGGGTAGAAGATGTTGGCGGGTGAAGACATTGATGTAGAATTGTAAAGTTTTGGT
AGAATCTGATGAAAAGAGGAGAGCAGCAACAATGGGAGAGCACGATTTACTGGAACACCCGGGTG
ATAGGTCGGGAACTCTCTAAATCGACCCTCAATTACAATTGATCTCCCGTGAAACACTACTAATT
ACACTCTAGTTAGATCCTACCACCTGCCGTGACATGTCGAACGTAAGTAGACAACCCCACATCAC
CAGGTAGTCCCTCAGCCCCACAACACAAACTACCACACCCTCAGGTAACCCACATCACCTGATAG
CGTTCCTTACACCTAGCCAACCCCCCTATGACGTGGTTAATTTCCCACCTAATCGCGAAAATACC
CGGCCCACACCCCAAACACCACCGCTTACGTTCACCTAACAAAAG
Found at i:20844 original size:19 final size:18
Alignment explanation
Indices: 20809--20854 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
20799 GGTGTGGGTT
20809 GGTGTACTGGGTGTACTG
1 GGTGTACTGGGTGTACTG
*
20827 GGTGTGCTGGGATGTACTG
1 GGTGTACTGGG-TGTACTG
*
20846 GGTATACTG
1 GGTGTACTG
20855 TGCTCTACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.13, C:0.11, G:0.43, T:0.33
Consensus pattern (18 bp):
GGTGTACTGGGTGTACTG
Left flanking sequence: Indices 20309 -- 20808
TGACCCCCAAGGAGCTTGAGATGTCGCTCAAGGTGTTGCTGTACACCGCGCCCGGGTCCAAGTAC
GCCAAGTGCGACGAGACCGAGGACGACCACATGATCCGCAACTTTTTGGAGCTGATGGCGATGCG
GTCGTTGGGCCAGGTGGCCGAGGGGGAGAAGAAGCTCGACCACGAGGTCATTGGCAAGTACGTCA
CCTCGCAGGACCCGTTCCGGTTCACCAAGATGGCGGAGCTGCCCTACTTGTACCCGACGGCGTTG
TACGAGCGGCTGATGTTTGTGTGGTTGTTGCGCACCGCCAAGCCCAACGCCGACGTGCCGGCGGC
GGTGCACGAGCTGTTGGCGTGGTTGCACAAGGCCGAGCAGGTGGGCGAGGGCGACTACGAGTTGA
GCAACCGCACGGGGATGCGGATCAAGGCTGCTGGCGAGCGGCTCGAGTCATTTTTAAAGTAACAA
TAGACAGATAGAAGAGTGGGTGTGTAGGGGTGTAGGGTGTGGGTT
Right flanking sequence: Indices 20855 -- 21354
TGCTCTACTGTGCTCTCCTGGGGTTTATGGTGGCTTTAGTATGGCATTCTGCGTTTGGGAATCGA
ACGCGCGACTTGGGTAGAAGATGTTGGCGGGTGAAGACATTGATGTAGAATTGTAAAGTTTTGGT
AGAATCTGATGAAAAGAGGAGAGCAGCAACAATGGGAGAGCACGATTTACTGGAACACCCGGGTG
ATAGGTCGGGAACTCTCTAAATCGACCCTCAATTACAATTGATCTCCCGTGAAACACTACTAATT
ACACTCTAGTTAGATCCTACCACCTGCCGTGACATGTCGAACGTAAGTAGACAACCCCACATCAC
CAGGTAGTCCCTCAGCCCCACAACACAAACTACCACACCCTCAGGTAACCCACATCACCTGATAG
CGTTCCTTACACCTAGCCAACCCCCCTATGACGTGGTTAATTTCCCACCTAATCGCGAAAATACC
CGGCCCACACCCCAAACACCACCGCTTACGTTCACCTAACAAAAG
Found at i:25047 original size:15 final size:14
Alignment explanation
Indices: 25029--25081 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
25019 AGGTCGCCGT
*
25029 CCCCGAGGTTGCTG
1 CCCCCAGGTTGCTG
25043 CCCCC--GTTGCTG
1 CCCCCAGGTTGCTG
*
25055 CCCCTCAGGTTGTTG
1 CCCC-CAGGTTGCTG
25070 CCCCCAAGGTTG
1 CCCCC-AGGTTG
25082 ATGTCGACGC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 1 0.03
14 5 0.15
15 16 0.48
ACGTcount: A:0.08, C:0.40, G:0.28, T:0.25
Consensus pattern (14 bp):
CCCCCAGGTTGCTG
Left flanking sequence: Indices 24529 -- 25028
TGTGGTTACCACATGAGCGCGTTTTCTTTCTAGAATCTATCGGAATGTGGCTTAATCGGTTTCAT
GTCGTGACTAATGAGATGCGATAACAATTTAAGGTTTTGTCTGATCCATTCGCGATCGTAAATGG
TGTCACAAACGGTCGAATTAGTGTTAGCAACGATGGAAACAAAAACTGGAATACTGAAAACCCGC
ATTACAACAAGTACACCAACTTGCATATACTATTGCCCTCTGGGGGTTACTTTTCGAGATTTGTG
TCGGGCGTCACTTGCATTTGCATATTTATTTTTTTGAGATATGGCTGCAAAATATCCCCTGCCCA
AAGAATTGCCTCGTTTCAAAAAGCTATAAATACGCCTTATCCACACATTTAAACACCACCCAACA
CCACCCTACAACCCAACTATGAAGTTCTCTTCTGCTACGCTCGTTTCTGTTTTGGCCGCCACTGC
CGCCACCCAGGTCATTGAGACCCCCAAGGTCGTCAAGGTCGCCGT
Right flanking sequence: Indices 25082 -- 25581
ATGTCGACGCTGTCATTGCCAGTCTTGAGAGCTTGCAGCGCGCCCTTAACCTCAACCTGGAGCTC
CAGGTTAGAGCTCTTGTTGGTGAGTTCATTGGCAAGCGTGACGCCATCAACCTCAACGAGTTGAT
CGACAAGCTTGTGAAGTTCTTGCCCAACTTGTTCAGCAACCTCTGGAACTCTGCTATCTTCCACA
ACCTCATTACTACTTTGTGGAACCTGGACTGGTTGAAGCGCGCCTTGAACAACGCCATCAACTGG
GTGATCAACTTGATCAACAGCTCGCTCAACGGCCCCGCTAAGCGTTCCGTTCTCGACCCCTTCAT
CAAGCGCCAGTTGGCTGGCCACATGAAGCGCGCCGAGGAGCTCGCTGACCGCTTGCAGAACGACC
CTTCTTTGACTGCCAGAGAATTCGCTCTTTCCTTTAGCGGGATCATCACCGCCATCTTAAACTCG
GGGATCTTCAAGACTGTCTTGAACGCTGGTGTTTCTTGGCTCAAG
Found at i:27307 original size:15 final size:15
Alignment explanation
Indices: 27287--27322 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
27277 TCAGATAGAT
*
27287 TTTCCGAAGGGCACA
1 TTTCCGAAGCGCACA
*
27302 TTTCCGAAGCGCATA
1 TTTCCGAAGCGCACA
27317 TTTCCG
1 TTTCCG
27323 GATAATTCCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (15 bp):
TTTCCGAAGCGCACA
Left flanking sequence: Indices 26787 -- 27286
GCTAATCTTCGTGACAGTTTCCGTGTGTATTTGGCGCCTTGCCTGTCCAGTTGGAGAAATTCCAG
GCTATATTTGATGAAGTGTCTTTTTGAGGAGGAGGAAAGGGTTCACCGGAGCGCTAGACGGCAAG
ACGGGTGTGGTGAAGATGGACTTAAAGTATAACTTGAAACACAGTAAATTCATCCAACTTCAAGA
CTCCTTGATAGTATCTAAAGCAGTTTGAAACCAATTTTGGTAGAATTTTTGACAGCACTGTGGTC
CATTTGAAACTGGTGCTTGGCATGAAGACTTCGTGGCCAAGTTTGGTTAAGGCGTGCGACTGTTA
ATCGCAAGATCGTGAGTTCAATCCTCACCGAGGTCGACACATCTGTTTTTTGCCTCTAGCCACGA
GAATTTGCGTTTAGTTGAGTCTATAGCTTTCCCTCTCAACAATATTTATAGCGTTTTGCAGTTTT
TCTGTACATTGATGAAAATCTTCGCGCCACTCGGATCAGATAGAT
Right flanking sequence: Indices 27323 -- 27568
GATAATTCCCGCTTTCGGAGCTATTTTCCAGGCATTTGAAGTTAAAATACGTAAATGGCAAGCGG
ATATAAAACTATGAAAAGTCCATTATACAACAACAATTACCAAAAGGGTTAAATTAAAAAGGGGA
CAACACGAACTAACGCGCGCATTTGCGGTTAGAATCTTTTCTCAGCATTTGCGGTTAGAATCTTT
TCTCAGCATTTGCGGTTAGAATCTTTTCTCAGCATTTGCGGTTAGAATCTT
Found at i:27507 original size:26 final size:26
Alignment explanation
Indices: 27471--27568 Score: 196
Period size: 26 Copynumber: 3.8 Consensus size: 26
27461 ACTAACGCGC
27471 GCATTTGCGGTTAGAATCTTTTCTCA
1 GCATTTGCGGTTAGAATCTTTTCTCA
27497 GCATTTGCGGTTAGAATCTTTTCTCA
1 GCATTTGCGGTTAGAATCTTTTCTCA
27523 GCATTTGCGGTTAGAATCTTTTCTCA
1 GCATTTGCGGTTAGAATCTTTTCTCA
27549 GCATTTGCGGTTAGAATCTT
1 GCATTTGCGGTTAGAATCTT
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:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
GCATTTGCGGTTAGAATCTTTTCTCA
Left flanking sequence: Indices 26971 -- 27470
CAACTTCAAGACTCCTTGATAGTATCTAAAGCAGTTTGAAACCAATTTTGGTAGAATTTTTGACA
GCACTGTGGTCCATTTGAAACTGGTGCTTGGCATGAAGACTTCGTGGCCAAGTTTGGTTAAGGCG
TGCGACTGTTAATCGCAAGATCGTGAGTTCAATCCTCACCGAGGTCGACACATCTGTTTTTTGCC
TCTAGCCACGAGAATTTGCGTTTAGTTGAGTCTATAGCTTTCCCTCTCAACAATATTTATAGCGT
TTTGCAGTTTTTCTGTACATTGATGAAAATCTTCGCGCCACTCGGATCAGATAGATTTTCCGAAG
GGCACATTTCCGAAGCGCATATTTCCGGATAATTCCCGCTTTCGGAGCTATTTTCCAGGCATTTG
AAGTTAAAATACGTAAATGGCAAGCGGATATAAAACTATGAAAAGTCCATTATACAACAACAATT
ACCAAAAGGGTTAAATTAAAAAGGGGACAACACGAACTAACGCGC
Right flanking sequence: None
Done.