Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold669
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11378
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Found at i:21 original size:4 final size:4
Alignment explanation
Indices: 12--37 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
2 TGAAAGATAC
12 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
38 ATATGTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:610 original size:30 final size:29
Alignment explanation
Indices: 560--671 Score: 197
Period size: 29 Copynumber: 3.8 Consensus size: 29
550 TTAAAATACA
560 TGTATTTTAAAAATAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAG
*
589 TGTACTTTAAAAATAAAAAAATATATGTAG
1 TGTATTTTAAAAAT-AAAAAATATATGTAG
619 TGTATTTTAAAAATAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAG
*
648 TGTGTTTTAAAAATAAAAAATATA
1 TGTATTTTAAAAATAAAAAATATA
672 GTTGATATTC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 51 0.65
30 28 0.35
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (29 bp):
TGTATTTTAAAAATAAAAAATATATGTAG
Found at i:623 original size:59 final size:58
Alignment explanation
Indices: 560--671 Score: 197
Period size: 59 Copynumber: 1.9 Consensus size: 58
550 TTAAAATACA
560 TGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAATAAAAAAATATATGTAG
1 TGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAAT-AAAAAATATATGTAG
**
619 TGTATTTTAAAAATAAAAAATATATGTAGTGTGTTTTAAAAATAAAAAATATA
1 TGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAATAAAAAATATA
672 GTTGATATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
58 10 0.20
59 41 0.80
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.37
Consensus pattern (58 bp):
TGTATTTTAAAAATAAAAAATATATGTAGTGTACTTTAAAAATAAAAAATATATGTAG
Found at i:890 original size:66 final size:65
Alignment explanation
Indices: 784--1418 Score: 1096
Period size: 66 Copynumber: 9.6 Consensus size: 65
774 GATTTGTGAA
* * * * *
784 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAACCCCAAATGTCATAAT-C-AA-AG
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAA---GAAAGGTAAT-TTCCTAATTG
846 TTTC
62 TTTC
850 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
915 C
65 C
916 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
981 C
65 C
982 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1047 C
65 C
1048 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1113 C
65 C
1114 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1179 C
65 C
1180 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1245 C
65 C
1246 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1311 C
65 C
1312 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTTGTTT
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAA-TTGTTT
1377 C
65 C
1378 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAA
1 ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAA
1419 CCCCAAATGT
Statistics
Matches: 560, Mismatches: 5, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
62 1 0.00
63 8 0.01
64 2 0.00
66 549 0.98
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (65 bp):
ACAAATTAGGAAATTACCTTTCTTGTGAAGATATAGAACAAGAAAGGTAATTTCCTAATTGTTTC
Found at i:2392 original size:211 final size:211
Alignment explanation
Indices: 2028--2449 Score: 844
Period size: 211 Copynumber: 2.0 Consensus size: 211
2018 TCAAATTTTC
2028 TTACTTCTTATTTGTTTTACGTATTTTATATTGTTAATATATCAATAATTTTCAATTTCCTTTCT
1 TTACTTCTTATTTGTTTTACGTATTTTATATTGTTAATATATCAATAATTTTCAATTTCCTTTCT
2093 TTCACGTTTTTTGGTTATTTCAAAACTTGTACATTGAGTTGGTGTTTGTGATAATTTGCTTGTTT
66 TTCACGTTTTTTGGTTATTTCAAAACTTGTACATTGAGTTGGTGTTTGTGATAATTTGCTTGTTT
2158 CTTAGTTTTTATTATTATTAATCATTAGGTTTTAAATATTAATGATGATATTTACATGTGATGTG
131 CTTAGTTTTTATTATTATTAATCATTAGGTTTTAAATATTAATGATGATATTTACATGTGATGTG
2223 AGATTATTGCATTTAT
196 AGATTATTGCATTTAT
2239 TTACTTCTTATTTGTTTTACGTATTTTATATTGTTAATATATCAATAATTTTCAATTTCCTTTCT
1 TTACTTCTTATTTGTTTTACGTATTTTATATTGTTAATATATCAATAATTTTCAATTTCCTTTCT
2304 TTCACGTTTTTTGGTTATTTCAAAACTTGTACATTGAGTTGGTGTTTGTGATAATTTGCTTGTTT
66 TTCACGTTTTTTGGTTATTTCAAAACTTGTACATTGAGTTGGTGTTTGTGATAATTTGCTTGTTT
2369 CTTAGTTTTTATTATTATTAATCATTAGGTTTTAAATATTAATGATGATATTTACATGTGATGTG
131 CTTAGTTTTTATTATTATTAATCATTAGGTTTTAAATATTAATGATGATATTTACATGTGATGTG
2434 AGATTATTGCATTTAT
196 AGATTATTGCATTTAT
2450 GTATATGGTA
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 211 1.00
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.54
Consensus pattern (211 bp):
TTACTTCTTATTTGTTTTACGTATTTTATATTGTTAATATATCAATAATTTTCAATTTCCTTTCT
TTCACGTTTTTTGGTTATTTCAAAACTTGTACATTGAGTTGGTGTTTGTGATAATTTGCTTGTTT
CTTAGTTTTTATTATTATTAATCATTAGGTTTTAAATATTAATGATGATATTTACATGTGATGTG
AGATTATTGCATTTAT
Found at i:4918 original size:392 final size:398
Alignment explanation
Indices: 4294--5089 Score: 1462
Period size: 392 Copynumber: 2.0 Consensus size: 398
4284 TAAATGTAAT
4294 TGAATCAGAATCAACGTCTCTTTAGGCATACATTTCATGCATTCGCATTACATGCATTAAAGTCC
1 TGAATCAGAATCAACGTCTCTTTAGGCATACATTTCATGCATTCGCATTACATGCATTAAAGTCC
4359 ATTGAAAGGGTCTAATTGAGTAAATTTATTTTAGCTAATCTAGAAACCGACAAAAGCTCACCCAT
66 ATTGAAAGGGTCTAATTGAGTAAATTTATTTTAGCTAATCTAGAAACCGACAAAAGCTCACCCAT
4424 TAAGCATCAATACGGTACTCGTCGAAAGACTAAAGAAATGGACCAAAGATTAGAAAAACTGGAGC
131 TAAGCATCAATACGGTACTCGTCGAAAGACTAAAGAAATGGACCAAAGATTAGAAAAACTGGAGC
4489 AAATGCAAAAGGATATGCCAGAACGGTTACAAGTGCAAATGCAAGAGCGATTAGATAAAATCCAA
196 AAATGCAAAAGGATATGCCAGAACGGTTACAAGTGCAAATGCAAGAGCGATTAGATAAAATCCAA
4554 GAAGACATGATGGAAAAATTGATCAAGGCTCAAAAAGATGCGATGGCTGAATTGACCCATCTACT
261 GAAGACATGATGGAAAAATTGATCAAGGCTCAAAAAGATGCGATGGCTGAATTGACCCATCTACT
4619 GACTAA-AGGAG-T-A-G-G-TCCTATGGTAAATGATGAAGAAGAAGACAAGGATAGACCTATCT
326 GACTAAGAGGAGATAAGGAGATCCTATGGTAAATGATGAAGAAGAAGACAAGGATAGACCTATCT
4678 ATCCTCTA
391 ATCCTCTA
4686 TGAATCAGAATCAACGTCTCTTTAGGCATACATTTCATGCATTCGCATTACATGCATTAAAGTCC
1 TGAATCAGAATCAACGTCTCTTTAGGCATACATTTCATGCATTCGCATTACATGCATTAAAGTCC
4751 ATTGAAAGGGTCTAATTGAGTAAATTTATTTTAGCTAATCTAGAAACCGACAAAAGCTCACCCAT
66 ATTGAAAGGGTCTAATTGAGTAAATTTATTTTAGCTAATCTAGAAACCGACAAAAGCTCACCCAT
4816 TAAGCATCAATACGGTAACTCGTCG-AAGACTAAAGAAATGGACCAAAGATTAGAAAAACTGGAG
131 TAAGCATCAATACGGT-ACTCGTCGAAAGACTAAAGAAATGGACCAAAGATTAGAAAAACTGGAG
*
4880 CAAATGCAAAAGGATATGCCAGAACGGTTACAAGTGCAAATGCAAGAGCGGTTAGATAAAATCCA
195 CAAATGCAAAAGGATATGCCAGAACGGTTACAAGTGCAAATGCAAGAGCGATTAGATAAAATCCA
4945 AGAAGACATGATGGAAAAATTGATCAAGGCTCAAAAAGATGCGATGGCTGAATTGACCCATCTAC
260 AGAAGACATGATGGAAAAATTGATCAAGGCTCAAAAAGATGCGATGGCTGAATTGACCCATCTAC
*
5010 TGACTAAGGGAGTAGATAAAGGGAAAGATCCTATGGTAAATGATGAAGAAGAAGACAAGGATAGA
325 TGACTAA--GAGGAGAT-AA-GG--AGATCCTATGGTAAATGATGAAGAAGAAGACAAGGATAGA
5075 CCTATCTATCCTCTA
384 CCTATCTATCCTCTA
5090 AGCTTTACGT
Statistics
Matches: 389, Mismatches: 2, Indels: 14
0.96 0.00 0.03
Matches are distributed among these distances:
392 321 0.83
393 8 0.02
395 4 0.01
396 1 0.00
398 1 0.00
400 1 0.00
403 1 0.00
404 52 0.13
ACGTcount: A:0.40, C:0.17, G:0.20, T:0.23
Consensus pattern (398 bp):
TGAATCAGAATCAACGTCTCTTTAGGCATACATTTCATGCATTCGCATTACATGCATTAAAGTCC
ATTGAAAGGGTCTAATTGAGTAAATTTATTTTAGCTAATCTAGAAACCGACAAAAGCTCACCCAT
TAAGCATCAATACGGTACTCGTCGAAAGACTAAAGAAATGGACCAAAGATTAGAAAAACTGGAGC
AAATGCAAAAGGATATGCCAGAACGGTTACAAGTGCAAATGCAAGAGCGATTAGATAAAATCCAA
GAAGACATGATGGAAAAATTGATCAAGGCTCAAAAAGATGCGATGGCTGAATTGACCCATCTACT
GACTAAGAGGAGATAAGGAGATCCTATGGTAAATGATGAAGAAGAAGACAAGGATAGACCTATCT
ATCCTCTA
Found at i:7391 original size:28 final size:28
Alignment explanation
Indices: 7323--7391 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
7313 CACATTCAAA
*
7323 AAAAAAATCAAAGTCAAAAGTAAAAAAG
1 AAAAAAATAAAAGTCAAAAGTAAAAAAG
* *
7351 AAAAAAATCAAAGTCAAAA-TAAAATATG
1 AAAAAAATAAAAGTCAAAAGTAAAA-AAG
7379 AAAAGAAA-AAAAG
1 AAAA-AAATAAAAG
7392 AAAAGAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.14
28 29 0.78
29 3 0.08
ACGTcount: A:0.72, C:0.06, G:0.10, T:0.12
Consensus pattern (28 bp):
AAAAAAATAAAAGTCAAAAGTAAAAAAG
Found at i:9172 original size:88 final size:88
Alignment explanation
Indices: 9009--9469 Score: 692
Period size: 88 Copynumber: 5.3 Consensus size: 88
8999 CAGATCAGTG
* * *
9009 AAGATAGCAGGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* *
9074 TCAGTGGCAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* * * * *
9097 AAGATAGCAGATCTTGGCTTCCTGCGTTAGCAACGAAACAGATCAAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
9162 TTGGTTGCAG-TGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* *
9184 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
*
9249 TCGGTTGTAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* * *
9272 AAGATAGCAGATCTTGCTTTCCTGTGTTAACAGCGAAGCAGATCGAAAATAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
9337 TCGGTTGCAGTTGGAGCTGGTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
* * *
9360 AAGATAACAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
* * *
9425 TTGGTTGCAG-TGAAGCTGCTTA
66 TCGGTTGCAGTTGGAGCTGGTTA
*
9447 AAGATAACAGATCTTGCCTTCCT
1 AAGATAGCAGATCTTGCCTTCCT
9470 AAGCACCAAC
Statistics
Matches: 337, Mismatches: 35, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
87 111 0.33
88 226 0.67
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTTGGAGCTGGTTA
Found at i:9328 original size:175 final size:175
Alignment explanation
Indices: 9009--9469 Score: 701
Period size: 175 Copynumber: 2.6 Consensus size: 175
8999 CAGATCAGTG
* * * * *
9009 AAGATAGCAGGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTACCTTCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
* * *
9074 TCAGTGGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGGCTTCCTGCGTTAGCAACGAAACAGA
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTT-GCTTCCTGCGTTAACAACGAAACAGA
*
9139 TCAAAAACAAAGCCTTGCCTCCATTGGTTGCAG-TGGAGCTGGTTA
130 TCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
9184 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
* * * *
9249 TCGGTTGTAGTTGGAGCTGGTTAAAGATAGCAGATCTTGCTTTCCTGTGTTAACAGCGAAGCAGA
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGC-TTCCTGCGTTAACAACGAAACAGA
* *
9314 TCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
130 TCAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
*
9360 AAGATAACAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
1 AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
* * * *
9425 TTGGTTGCAG-TGAAGCTGCTTAAAGATAACAGATCTTGCCTTCCT
66 TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTG-CTTCCT
9470 AAGCACCAAC
Statistics
Matches: 262, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 175 0.67
176 85 0.32
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (175 bp):
AAGATAGCAGATCTTGCCTTCCTGCGTTAACAGTGAAGTAGATCGAAAACAAAGCCTTGCCTCCA
TCGGTTGCAGTTGGAGCTGGTTAAAGATAGCAGATCTTGCTTCCTGCGTTAACAACGAAACAGAT
CAAAAACAAAGCCTTGCCTCCATCGGTTGCAGTTGGAGCTGGTTA
Found at i:9648 original size:44 final size:44
Alignment explanation
Indices: 9598--9782 Score: 140
Period size: 44 Copynumber: 4.2 Consensus size: 44
9588 GTCTTATCCC
*
9598 CCCTGAAGTCACAGTGGAGCAGACAGAAGAAATCAATCCTATCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
*** * * * * * *
9642 CCCTGAAGTTGTAGCGAAGTAGACTG-AGAAAACAAGTCTTATCC
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAA-TCCTATCT
* * * * *
9686 CCCTGAAGTCACAGTGGGGCAGACTGAAGAAGTAAATCTTCTCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
* * ** * **
9730 CCCTCAGGTTGCAGTGGAGCAGATTGAAGTCGAT-AATCCTATCT
1 CCCTGAAGTCACAGTGGAGCAGACTGAAG-AAATCAATCCTATCT
9774 CCCTGAAGT
1 CCCTGAAGT
9783 TGTAGTGGAG
Statistics
Matches: 103, Mismatches: 35, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
43 8 0.08
44 88 0.85
45 7 0.07
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (44 bp):
CCCTGAAGTCACAGTGGAGCAGACTGAAGAAATCAATCCTATCT
Found at i:9790 original size:44 final size:44
Alignment explanation
Indices: 9727--9841 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
9717 GTAAATCTTC
* * * *
9727 TCTCCCTCAGGTTGCAGTGGAGCAGATTGAAGTCGATA-ATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-AATAGATCCTA
* * *
9771 TCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCCTA
* *
9815 TCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TCTCCCTGAAGTTGCAGTGGAGCAGAT
9842 CGCATCAAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 3 0.05
44 56 0.95
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAGATCCTA
Found at i:11264 original size:25 final size:25
Alignment explanation
Indices: 11216--11264 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11206 ACTGTTATTT
* * *
11216 TATTATATATTACTATTATTTTTAG
1 TATTATAGATTACTATCATATTTAG
*
11241 TATTATAGATTGCTATCATATTTA
1 TATTATAGATTACTATCATATTTA
11265 TTTATATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATTATAGATTACTATCATATTTAG
Found at i:11343 original size:27 final size:27
Alignment explanation
Indices: 11312--11377 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
11302 TTTACTACAT
11312 ATTATTTTAAAATTGTTTT-TAT-ATA
1 ATTATTTTAAAATTGTTTTATATAATA
* *
11337 GTT-TTATTCCAAATTGTTTTATATAATA
1 ATTATT-TT-AAAATTGTTTTATATAATA
11365 ATTATTTTAAAAT
1 ATTATTTTAAAAT
11378 C
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
24 2 0.06
25 4 0.12
26 10 0.31
27 7 0.22
28 7 0.22
29 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (27 bp):
ATTATTTTAAAATTGTTTTATATAATA
Done.