Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 318 of 320
Found at i:102069897 original size:18 final size:18
Alignment explanation
Indices: 102069876--102069910 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
102069866 TTCTTTTTCC
102069876 TTTTTTAAATT-TTTATGA
1 TTTTTT-AATTATTTATGA
102069894 TTTTTTAATTATTTATG
1 TTTTTTAATTATTTATG
102069911 TAATTATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTTTAATTATTTATGA
Found at i:102072585 original size:15 final size:15
Alignment explanation
Indices: 102072555--102072611 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
102072545 CGATGAATTT
*
102072555 ATTGAATTTATATTG
1 ATTGAAATTATATTG
* *
102072570 ATTTAAATTATTTTG
1 ATTGAAATTATATTG
102072585 ATTGAAATTATATTG
1 ATTGAAATTATATTG
102072600 ATTG-AATTATAT
1 ATTGAAATTATAT
102072612 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 8 0.22
15 29 0.78
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:102073014 original size:20 final size:21
Alignment explanation
Indices: 102072982--102073045 Score: 76
Period size: 20 Copynumber: 3.1 Consensus size: 21
102072972 GGTTTTATCG
102072982 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
102073003 ATCAGG-ACCTCGTGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
* * * **
102073023 TTTAGGCACTTTATGTGTCGT
1 ATCAGGCACCTCGTGTGTCGT
102073044 AT
1 AT
102073046 ACTGATCAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.36
Consensus pattern (21 bp):
ATCAGGCACCTCGTGTGTCGT
Found at i:102075300 original size:26 final size:26
Alignment explanation
Indices: 102075264--102075316 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
102075254 CACCACTGAA
* *
102075264 TCGGGGAATCATCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
102075290 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
102075316 T
1 T
102075317 TTTCATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.21, T:0.17
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:102075390 original size:69 final size:70
Alignment explanation
Indices: 102075276--102075423 Score: 235
Period size: 69 Copynumber: 2.1 Consensus size: 70
102075266 GGGGAATCAT
* * *
102075276 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCTTTTCA-TTTCAAATATACAATGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATACAATGGA
102075340 TATCG
66 TATCG
***
102075345 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATATGGTGGA
1 CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATACAATGGA
102075410 TATCG
66 TATCG
102075415 CACTTAGCA
1 CACTTAGCA
102075424 CCACCAATGA
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
69 45 0.62
70 27 0.38
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (70 bp):
CACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATACAATGGA
TATCG
Found at i:102075545 original size:103 final size:102
Alignment explanation
Indices: 102075344--102075564 Score: 347
Period size: 103 Copynumber: 2.2 Consensus size: 102
102075334 AATGGATATC
102075344 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATATGGTGG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATATGGTGG
* *
102075409 ATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 ATATCGCACATAGCACCACCAATAAACCGGGGAATCA
102075446 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACA-TTCAAAGATATGGT
* *
102075511 GGATCA-CGCACATAGCACCACCCATAAATC-GGGAATCA
64 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
102075549 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
102075565 TTTATATACA
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
102 17 0.15
103 54 0.49
104 38 0.35
105 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.19, T:0.18
Consensus pattern (102 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTCAAAGATATGGTGG
ATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:102082466 original size:69 final size:71
Alignment explanation
Indices: 102082354--102082503 Score: 241
Period size: 71 Copynumber: 2.1 Consensus size: 71
102082344 GGGGAATCAT
*
102082354 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-CATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
102082418 ATATCG
66 ATATCG
***
102082424 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
102082488 GATATCG
65 GATATCG
102082495 CACTTAGCA
1 CACTTAGCA
102082504 CCACCAATGA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
69 28 0.38
70 16 0.22
71 30 0.41
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:102082545 original size:103 final size:103
Alignment explanation
Indices: 102082423--102082644 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
102082413 AATGGATATC
102082423 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
102082488 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
102082526 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
102082591 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
102082629 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
102082645 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:102082546 original size:26 final size:26
Alignment explanation
Indices: 102082516--102082566 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
102082506 ACCAATGAAC
*
102082516 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
102082542 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
102082567 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:102086693 original size:26 final size:26
Alignment explanation
Indices: 102086656--102086731 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
102086646 AGTAGCTCCG
*
102086656 AAGAGCCATTAATCAGGAAGCTTACA
1 AAGAGCCATTAATCAGGAAGCTCACA
* * *
102086682 AAGAGCCTTTAATCGGGAAGCTCACG
1 AAGAGCCATTAATCAGGAAGCTCACA
* *
102086708 AAGAGTCATATAA-CAGGACGCTCA
1 AAGAGCCAT-TAATCAGGAAGCTCA
102086732 TAAGAGCTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 38 0.93
27 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.18
Consensus pattern (26 bp):
AAGAGCCATTAATCAGGAAGCTCACA
Found at i:102087204 original size:21 final size:20
Alignment explanation
Indices: 102087170--102087214 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
102087160 TAAACGAGTA
102087170 AATTTAACTCAATTCAATAC
1 AATTTAACTCAATTCAATAC
* *
102087190 AATTTATATTCAATTCAATTC
1 AATTTA-ACTCAATTCAATAC
102087211 AATT
1 AATT
102087215 CACATCTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTAACTCAATTCAATAC
Found at i:102087205 original size:5 final size:5
Alignment explanation
Indices: 102087178--102087216 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
102087168 TAAATTTAAC
* *
102087178 TCAAT TCAAT ACAAT TTATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
102087217 CATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:102090655 original size:13 final size:13
Alignment explanation
Indices: 102090637--102090661 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102090627 AAGAACCAAA
102090637 AAAAATAAAAAAT
1 AAAAATAAAAAAT
102090650 AAAAATAAAAAA
1 AAAAATAAAAAA
102090662 CCCATATATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:102095736 original size:58 final size:58
Alignment explanation
Indices: 102095667--102095781 Score: 194
Period size: 58 Copynumber: 2.0 Consensus size: 58
102095657 AAAAAGCCTA
*
102095667 TTTTTTTATGACTATAAGGTACATATTTTAGATAATCACTTCAAAATCTGAGTTGATT
1 TTTTTTTATGACTATAAGGTACATATTTTAGATAATCACTTCAAAATCTAAGTTGATT
* * *
102095725 TTTTTTTATGACTATAAGTTACTTGTTTTAGATAATCACTTCAAAATCTAAGTTGAT
1 TTTTTTTATGACTATAAGGTACATATTTTAGATAATCACTTCAAAATCTAAGTTGAT
102095782 ATTTAATTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.46
Consensus pattern (58 bp):
TTTTTTTATGACTATAAGGTACATATTTTAGATAATCACTTCAAAATCTAAGTTGATT
Found at i:102099114 original size:34 final size:35
Alignment explanation
Indices: 102099070--102099136 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
102099060 CAGTAAAATA
* * *
102099070 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
*
102099104 TTTTCTGTAAAATGACTTACAGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACAGGAAAATATTTT
102099137 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACAGGAAAATATTTTAC
Found at i:102099123 original size:20 final size:20
Alignment explanation
Indices: 102099085--102099123 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
102099075 CGTAAAATGA
**
102099085 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGACTTACT
*
102099105 TTTCTGTAAAATGACTTAC
1 TTTCTGGAAAATGACTTAC
102099124 AGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATGACTTACT
Found at i:102102236 original size:13 final size:13
Alignment explanation
Indices: 102102218--102102242 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
102102208 CATCACTAAT
102102218 GAAATTAAAAATA
1 GAAATTAAAAATA
102102231 GAAATTAAAAAT
1 GAAATTAAAAAT
102102243 TGTAGAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
GAAATTAAAAATA
Found at i:102116256 original size:52 final size:52
Alignment explanation
Indices: 102116189--102116536 Score: 459
Period size: 52 Copynumber: 6.9 Consensus size: 52
102116179 AGTGACAAAT
* **
102116189 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
* *
102116241 TGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
* *
102116293 TGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
* **
102116339 TGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
* *
102116391 TGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
*
102116437 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
** *
102116489 TGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGTG
1 TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACA-AGTG
102116537 ATAAGTGGCT
Statistics
Matches: 263, Mismatches: 20, Indels: 25
0.85 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 174 0.66
53 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (52 bp):
TGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAG
Found at i:102116307 original size:98 final size:98
Alignment explanation
Indices: 102116237--102116543 Score: 429
Period size: 98 Copynumber: 3.1 Consensus size: 98
102116227 TGACAAGTGG
* *
102116237 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
102116302 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
102116335 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
102116400 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
102116433 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
102116498 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
*
102116531 AGAGTGATAAGTG
1 AAAGTGATAAGTG
102116544 GCTACACTTA
Statistics
Matches: 193, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
98 191 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:102116391 original size:150 final size:144
Alignment explanation
Indices: 102116171--102116536 Score: 570
Period size: 150 Copynumber: 2.5 Consensus size: 144
102116161 TTTGAGTACT
*
102116171 TCTGATCAAGTGACAAATTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
102116236 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
102116301 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
102116321 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
102116386 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
102116451 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
102116465 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
102116530 CAGAGTG
60 CA-AGTG
102116537 ATAAGTGGCT
Statistics
Matches: 204, Mismatches: 5, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
144 44 0.22
150 156 0.76
151 4 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:102116550 original size:37 final size:37
Alignment explanation
Indices: 102116507--102116726 Score: 363
Period size: 37 Copynumber: 6.0 Consensus size: 37
102116497 GATAGCTTTA
* *
102116507 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
102116544 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
102116581 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
102116618 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
102116655 GCTACACTTATCTGATCAAGAAATAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
102116692 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
102116727 ATCATACGTA
Statistics
Matches: 173, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 11 0.06
36 3 0.02
37 159 0.92
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:102122051 original size:16 final size:16
Alignment explanation
Indices: 102122030--102122060 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
102122020 TTTATTATTT
102122030 TATTAACATAATATAA
1 TATTAACATAATATAA
*
102122046 TATTAATATAATATA
1 TATTAACATAATATA
102122061 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:102124384 original size:24 final size:24
Alignment explanation
Indices: 102124340--102124385 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
102124330 ATTTGTACTT
*
102124340 ATTTTTAAATATATATTTTAAAGC
1 ATTTTTAAATATATATATTAAAGC
*
102124364 ATTTTTTAATATAT-TCATTAAA
1 ATTTTTAAATATATAT-ATTAAA
102124386 TTATATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTTTTAAATATATATATTAAAGC
Found at i:102131582 original size:8 final size:8
Alignment explanation
Indices: 102131569--102131594 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
102131559 AAATTCGGTA
102131569 CATGTATG
1 CATGTATG
102131577 CATGTATG
1 CATGTATG
102131585 CATGTATG
1 CATGTATG
102131593 CA
1 CA
102131595 ACTGCATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (8 bp):
CATGTATG
Found at i:102134923 original size:14 final size:14
Alignment explanation
Indices: 102134904--102134931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
102134894 AACCACATGA
102134904 AATCATCAAATAAT
1 AATCATCAAATAAT
102134918 AATCATCAAATAAT
1 AATCATCAAATAAT
102134932 CCCCGAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
AATCATCAAATAAT
Found at i:102162188 original size:22 final size:22
Alignment explanation
Indices: 102162160--102162204 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
102162150 AGGGGGAGTG
102162160 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
102162182 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
102162204 T
1 T
102162205 TTTTTTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:102182330 original size:16 final size:15
Alignment explanation
Indices: 102182294--102182327 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
102182284 AATTTTTGTA
102182294 TTTTAATTTAATTAT
1 TTTTAATTTAATTAT
102182309 TTTTAATTTAATTAT
1 TTTTAATTTAATTAT
102182324 TTTT
1 TTTT
102182328 TAAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTAATTTAATTAT
Found at i:102182344 original size:21 final size:21
Alignment explanation
Indices: 102182313--102182353 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
102182303 AATTATTTTT
*
102182313 AATTTAATTAT-TTTTTAAAA
1 AATTTAATTATATTTGTAAAA
102182333 AATTTAAATTATATTTGTAAA
1 AATTT-AATTATATTTGTAAA
102182354 GTTATTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 6 0.33
22 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTTAATTATATTTGTAAAA
Found at i:102182610 original size:23 final size:23
Alignment explanation
Indices: 102182579--102182627 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
102182569 GGTTTGGATC
* * *
102182579 AATATAAAAGTTAAAATTAAAAA
1 AATACAAAAATTAAAAATAAAAA
*
102182602 AATACAAAAATTAAAAATAAACA
1 AATACAAAAATTAAAAATAAAAA
102182625 AAT
1 AAT
102182628 TAGAATACGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (23 bp):
AATACAAAAATTAAAAATAAAAA
Found at i:102183047 original size:29 final size:29
Alignment explanation
Indices: 102183014--102183094 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
102183004 ATAAATAGTT
* * *
102183014 AAATAATTAAATTATATTTTAATTCTCTA
1 AAATAATAAAATTATAATTTAATTATCTA
* *
102183043 AAATAATAAAATTTTAATTTAATTATTTA
1 AAATAATAAAATTATAATTTAATTATCTA
* *
102183072 AAATTAT-AAATATATAAATTAAT
1 AAATAATAAAAT-TATAATTTAAT
102183095 ATAATAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 4 0.09
29 39 0.91
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (29 bp):
AAATAATAAAATTATAATTTAATTATCTA
Found at i:102187246 original size:47 final size:49
Alignment explanation
Indices: 102187168--102187266 Score: 184
Period size: 47 Copynumber: 2.1 Consensus size: 49
102187158 CTTACTCTCC
102187168 AACTTTAATTTAAAAAAAACCATAAGTATTTAAAATAAAAATTTTAAAT
1 AACTTTAATTTAAAAAAAACCATAAGTATTTAAAATAAAAATTTTAAAT
102187217 AACTTTAATTT-AAAAAAA-CATAAGTATTTAAAATAAAAATTTTAAAT
1 AACTTTAATTTAAAAAAAACCATAAGTATTTAAAATAAAAATTTTAAAT
102187264 AAC
1 AAC
102187267 ATAGAAACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 32 0.64
48 7 0.14
49 11 0.22
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (49 bp):
AACTTTAATTTAAAAAAAACCATAAGTATTTAAAATAAAAATTTTAAAT
Found at i:102187500 original size:20 final size:19
Alignment explanation
Indices: 102187457--102187501 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
102187447 AAAAAATATT
*
102187457 AATTTGTAAAAAAAACTAA
1 AATTTGTAAAAAAAACAAA
102187476 AATTTGTAAAAGAAAA-AAA
1 AATTTGTAAAA-AAAACAAA
102187495 ATATTTG
1 A-ATTTG
102187502 ATGATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (19 bp):
AATTTGTAAAAAAAACAAA
Found at i:102214398 original size:35 final size:35
Alignment explanation
Indices: 102214292--102214379 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
102214282 CATGGCAAAG
*
102214292 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
* *
102214327 TGTGATATATAGGTATGGTATCATCCATACTAAGT
1 TGTGATATGTAGGTATGGTATCATCCATACTGAGT
102214362 TGTGATATGTAGGTATGG
1 TGTGATATGTAGGTATGG
102214380 CATTTCCCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (35 bp):
TGTGATATGTAGGTATGGTATCATCCATACTGAGT
Found at i:102221325 original size:35 final size:35
Alignment explanation
Indices: 102221153--102221313 Score: 216
Period size: 35 Copynumber: 4.6 Consensus size: 35
102221143 CCTCATTGAA
* ** * *
102221153 ATACCATACCTACATTTTTCAACTCGGTATGGGA-A
1 ATACCATACCTACATATCACAACTCAGTAT-GGATG
* * *
102221188 ATGCCATACCAACATATCACAACTTAGTATGGATG
1 ATACCATACCTACATATCACAACTCAGTATGGATG
102221223 ATACCATACCTACATATCACAACTCAGTATGGATG
1 ATACCATACCTACATATCACAACTCAGTATGGATG
*
102221258 ATACCATACCTATATATCACAACTCAGTATGGATG
1 ATACCATACCTACATATCACAACTCAGTATGGATG
*
102221293 ATACCATACCTACATTTCACA
1 ATACCATACCTACATATCACA
102221314 CTTTGCCATG
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 3 0.03
35 108 0.97
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (35 bp):
ATACCATACCTACATATCACAACTCAGTATGGATG
Found at i:102225669 original size:13 final size:14
Alignment explanation
Indices: 102225637--102225678 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
102225627 TCAAAGAGAG
*
102225637 TATTTAATTTTAAGTT
1 TATTTAA-TATAA-TT
102225653 TATTT-ATATAATT
1 TATTTAATATAATT
102225666 TATTTAATATAAT
1 TATTTAATATAAT
102225679 AATTGGTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 7 0.29
14 11 0.46
15 1 0.04
16 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTTAATATAATT
Found at i:102226398 original size:23 final size:23
Alignment explanation
Indices: 102226370--102226413 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
102226360 GTTTAATAAA
*
102226370 TTTTATTTATTTGAAATTTAATT
1 TTTTATTTAATTGAAATTTAATT
*
102226393 TTTTATTTAATTGATATTTAA
1 TTTTATTTAATTGAAATTTAA
102226414 ATTGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (23 bp):
TTTTATTTAATTGAAATTTAATT
Found at i:102227945 original size:5 final size:5
Alignment explanation
Indices: 102227935--102228005 Score: 69
Period size: 5 Copynumber: 14.6 Consensus size: 5
102227925 AAAAAAATAT
* * *
102227935 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA T-TAA TATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA TATTA TATTA
102227984 TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TAT
102228006 ACATAAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 2 0.04
4 9 0.16
5 37 0.67
6 6 0.11
7 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:102228035 original size:15 final size:15
Alignment explanation
Indices: 102228015--102228046 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
102228005 TACATAAAAC
*
102228015 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
102228030 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
102228045 AA
1 AA
102228047 CATAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:102228902 original size:13 final size:13
Alignment explanation
Indices: 102228884--102228915 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102228874 TTTCCAGCAA
102228884 TTATGAATTTATT
1 TTATGAATTTATT
102228897 TTATGAATTTATT
1 TTATGAATTTATT
*
102228910 TGATGA
1 TTATGA
102228916 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:102229123 original size:50 final size:50
Alignment explanation
Indices: 102229010--102229251 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
102229000 ATTTGGGTAA
* * *
102229010 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
102229066 AGAGGTCCCTTGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
102229116 AGAGGTCCAATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102229166 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
102229216 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
102229252 TTTGGCATGT
Statistics
Matches: 162, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 88 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:102229198 original size:100 final size:103
Alignment explanation
Indices: 102229010--102229259 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
102229000 ATTTGGGTAA
102229010 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
102229075 TTGTAAGACCATGTCTGAGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGAGACATGGCATGGGCACC-ATCACG
* * * *
102229116 AGAGGTCCAATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
102229178 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
* *
102229216 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
102229260 GTTATTATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.38
101 38 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
Found at i:102243917 original size:5 final size:5
Alignment explanation
Indices: 102243907--102243966 Score: 52
Period size: 5 Copynumber: 11.6 Consensus size: 5
102243897 AAAAAAATAT
* *
102243907 TATTA TATTA TAGATTA TGTTTTA TATTA TA-T- TATTA TAATA TATTA
1 TATTA TATTA T--ATTA T-ATT-A TATTA TATTA TATTA TATTA TATTA
102243954 TATTA TATTA TAT
1 TATTA TATTA TAT
102243967 ATACATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 30 0.65
6 5 0.11
7 7 0.15
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:102243952 original size:10 final size:9
Alignment explanation
Indices: 102243903--102243969 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 9
102243893 TGTTAAAAAA
102243903 ATATTAT-T
1 ATATTATAT
*
102243911 ATATTATAG
1 ATATTATAT
*
102243920 ATTATGT-TTT
1 A-TAT-TATAT
102243930 ATATTATAT
1 ATATTATAT
102243939 -TATTATAAT
1 ATATTAT-AT
102243948 ATATTATATT
1 ATATTATA-T
102243958 ATATTATAT
1 ATATTATAT
102243967 ATA
1 ATA
102243970 CATAAAACAA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 14 0.29
9 13 0.27
10 20 0.42
11 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (9 bp):
ATATTATAT
Found at i:102243959 original size:35 final size:32
Alignment explanation
Indices: 102243903--102243968 Score: 78
Period size: 35 Copynumber: 2.0 Consensus size: 32
102243893 TGTTAAAAAA
* *
102243903 ATATTATTATATTATAGATTATGTTTTATATT
1 ATATTATTATATTATAGATTATATTATATATT
*
102243935 ATATTATTATAATATATTATATTATATTATATAT
1 ATATTATTAT-AT-TA-TAGATTATATTATATAT
102243969 ACATAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 10 0.36
33 2 0.07
34 2 0.07
35 14 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
ATATTATTATATTATAGATTATATTATATATT
Found at i:102243998 original size:15 final size:15
Alignment explanation
Indices: 102243978--102244019 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
102243968 TACATAAAAC
*
102243978 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
102243993 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
102244008 AACAGAATAGAA
1 AAAAGAA-AGAA
102244020 GAGACGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:102244607 original size:30 final size:29
Alignment explanation
Indices: 102244563--102244619 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
102244553 TCCGAGCCTT
102244563 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATT-TGTAAAAGTTTA
* * *
102244593 GGGGTAAAATTGTAATTTTTAAAAGTT
1 GGGGCAAAAATGTAATTTGTAAAAGTT
102244620 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTTGTAAAAGTTTA
Found at i:102244849 original size:13 final size:13
Alignment explanation
Indices: 102244831--102244862 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102244821 TTTCCAGCAA
102244831 TTATGAATTTATT
1 TTATGAATTTATT
102244844 TTATGAATTTATT
1 TTATGAATTTATT
*
102244857 TGATGA
1 TTATGA
102244863 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:102245070 original size:50 final size:50
Alignment explanation
Indices: 102244957--102245198 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
102244947 ATTTGGGTAA
* * *
102244957 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
102245013 AGAGGTCCCTTGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102245063 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102245113 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
102245163 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
102245199 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:102245149 original size:100 final size:103
Alignment explanation
Indices: 102244957--102245206 Score: 346
Period size: 100 Copynumber: 2.4 Consensus size: 103
102244947 ATTTGGGTAA
102244957 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
102245022 TTGTAAGACCATGTCTGAGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGAGACATGGCATGGGCACC-ATCACG
* * *
102245063 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
102245125 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
* *
102245163 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
102245207 GTTATTATCA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 39 0.30
105 2 0.02
106 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
Found at i:102249548 original size:5 final size:5
Alignment explanation
Indices: 102249538--102249603 Score: 61
Period size: 5 Copynumber: 13.6 Consensus size: 5
102249528 AAAAAAATAT
*
102249538 TATTA TATTA TAGATTA TGTT- T-TTA TATTA TATTA TTATTA -A-TA
1 TATTA TATTA T--ATTA TATTA TATTA TATTA TATTA -TATTA TATTA
102249582 TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TAT
102249604 ACATAAAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 16
0.75 0.01 0.23
Matches are distributed among these distances:
3 4 0.08
4 8 0.15
5 30 0.58
6 5 0.10
7 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:102249585 original size:19 final size:19
Alignment explanation
Indices: 102249534--102249603 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
102249524 TGTTAAAAAA
102249534 ATATTAT-TATATTATAGATT
1 ATATTATATATATTAT--ATT
* *
102249554 ATGTT-TTTATATTATATT
1 ATATTATATATATTATATT
102249572 ATTATTA-ATATATTATATT
1 A-TATTATATATATTATATT
102249591 ATATTATATATAT
1 ATATTATATATAT
102249604 ACATAAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
18 9 0.21
19 22 0.51
20 12 0.28
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATATTATATATATTATATT
Found at i:102249633 original size:15 final size:15
Alignment explanation
Indices: 102249613--102249654 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
102249603 TACATAAAAC
*
102249613 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
102249628 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
*
102249643 AACAGAATAGAA
1 AAAAGAA-AGAA
102249655 GAGACGAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:102250489 original size:13 final size:13
Alignment explanation
Indices: 102250471--102250502 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
102250461 TTTCCAGCAA
102250471 TTATGAATTTATT
1 TTATGAATTTATT
102250484 TTATGAATTTATT
1 TTATGAATTTATT
*
102250497 TGATGA
1 TTATGA
102250503 TGATCTAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:102250710 original size:50 final size:50
Alignment explanation
Indices: 102250597--102250838 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
102250587 ATTTGGGTAA
* * *
102250597 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
* *
102250653 AGAGGTCCCTTGTAAGACCATGTCTGAGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * * *
102250703 AGAGGTCCAATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
102250753 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
102250803 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
102250839 TTTGGCATGT
Statistics
Matches: 162, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 88 0.54
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:102250785 original size:100 final size:103
Alignment explanation
Indices: 102250597--102250846 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
102250587 ATTTGGGTAA
102250597 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
102250662 TTGTAAGACCATGTCTGAGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGAGACATGGCATGGGCACC-ATCACG
* * * *
102250703 AGAGGTCCAATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
102250765 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
* *
102250803 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
102250847 GTTATTATCA
Statistics
Matches: 129, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.38
101 38 0.29
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGAGACATGGCATGGGCACCATCACG
Found at i:102258573 original size:20 final size:21
Alignment explanation
Indices: 102258533--102258573 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
102258523 AGTTTAACTG
* *
102258533 CTCGATTTCAATTGATTTTTA
1 CTCGATTTCAATCGATCTTTA
102258554 CTCG-TTTCAATCGATCTTTA
1 CTCGATTTCAATCGATCTTTA
102258574 TCAATTCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (21 bp):
CTCGATTTCAATCGATCTTTA
Found at i:102262729 original size:43 final size:43
Alignment explanation
Indices: 102262668--102262755 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
102262658 TAACTCCTTA
102262668 TACTCTCTGTAAATTTAAAATTTAATCTTTTCACTTTAATTTT
1 TACTCTCTGTAAATTTAAAATTTAATCTTTTCACTTTAATTTT
102262711 TACTCTCTGTAAATTTAAAATTTAATCTTTTCACTTTAATTTT
1 TACTCTCTGTAAATTTAAAATTTAATCTTTTCACTTTAATTTT
102262754 TA
1 TA
102262756 GAAATTTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.53
Consensus pattern (43 bp):
TACTCTCTGTAAATTTAAAATTTAATCTTTTCACTTTAATTTT
Found at i:102266031 original size:6 final size:6
Alignment explanation
Indices: 102266016--102266069 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
102266006 AGGAAGGAGA
* * *
102266016 GAAGGG GAAGGA GAAGGG GAAGGG GAAGGG GAGGGG GAGGGG GCAAAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG G--AAGGG
102266066 GAAG
1 GAAG
102266070 CGTGGAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 37 0.88
8 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.65, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:102266058 original size:18 final size:18
Alignment explanation
Indices: 102266016--102266057 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
102266006 AGGAAGGAGA
102266016 GAAGGGGAAGGAGAAGGG
1 GAAGGGGAAGGAGAAGGG
*
102266034 GAAGGGGAAGG-GGAGGG
1 GAAGGGGAAGGAGAAGGG
*
102266051 GGAGGGG
1 GAAGGGG
102266058 GCAAAGGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAGGAGAAGGG
Found at i:102269361 original size:20 final size:19
Alignment explanation
Indices: 102269338--102269384 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
102269328 CTTAAATTAA
102269338 AAAAAATAG-AATTAATATGT
1 AAAAAATAGAAATTAA-AT-T
*
102269358 AAAAAAAAGAAATTAAATT
1 AAAAAATAGAAATTAAATT
102269377 AAAAAATA
1 AAAAAATA
102269385 TAAAATTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (19 bp):
AAAAAATAGAAATTAAATT
Found at i:102269390 original size:20 final size:19
Alignment explanation
Indices: 102269329--102269391 Score: 65
Period size: 21 Copynumber: 3.1 Consensus size: 19
102269319 ATATCATCAC
*
102269329 TTAAATTAAAAAAAATAGAA
1 TTAAATT-AAAAAAATAAAA
102269349 TTAATATGTAAAAAAA-AGAAA
1 TTAA-AT-TAAAAAAATA-AAA
102269370 TTAAATTAAAAAATATAAAA
1 TTAAATTAAAAAA-ATAAAA
102269390 TT
1 TT
102269392 TAGAGTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
19 7 0.19
20 13 0.35
21 16 0.43
22 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
TTAAATTAAAAAAATAAAA
Found at i:102272134 original size:51 final size:51
Alignment explanation
Indices: 102271974--102272131 Score: 262
Period size: 51 Copynumber: 3.1 Consensus size: 51
102271964 ACTTCTGATT
* * *
102271974 AGTGACAAGTGATAAGTGGTAGCCTCAGCTATACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
102272025 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
102272076 AGTGATAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
102272127 AGTGA
1 AGTGA
102272132 TAAATGTGAT
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 100 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:102283032 original size:13 final size:13
Alignment explanation
Indices: 102283011--102283052 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
102283001 ATGCGTTATT
102283011 AAAATTAAATTAA
1 AAAATTAAATTAA
*
102283024 AATATTAAA-TAA
1 AAAATTAAATTAA
*
102283036 AAAATAAAATTATA
1 AAAATTAAATTA-A
102283050 AAA
1 AAA
102283053 CAATATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 10 0.42
14 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAATTAAATTAA
Found at i:102287792 original size:23 final size:24
Alignment explanation
Indices: 102287750--102287794 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
102287740 TAATTGCAAA
*
102287750 TTTAATATTTATATATTTTATTCT
1 TTTAATATTTATATAATTTATTCT
*
102287774 TTTAAT-TTTATTTAATTTATT
1 TTTAATATTTATATAATTTATT
102287795 ATTAATTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTAATATTTATATAATTTATTCT
Found at i:102287801 original size:21 final size:21
Alignment explanation
Indices: 102287775--102287816 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
102287765 TTTTATTCTT
*
102287775 TTAATTTTAT-TTAATTTATTA
1 TTAATTTAATCTT-ATTTATTA
102287796 TTAATTTAATCTTATTTATTA
1 TTAATTTAATCTTATTTATTA
102287817 ACATAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
TTAATTTAATCTTATTTATTA
Found at i:102287816 original size:18 final size:16
Alignment explanation
Indices: 102287783--102287817 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
102287773 TTTTAATTTT
102287783 ATTTAATTTATTATTA
1 ATTTAATTTATTATTA
102287799 ATTTAATCTTATTTATTA
1 ATTTAAT-TTA-TTATTA
102287817 A
1 A
102287818 CATAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 3 0.18
18 7 0.41
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTAATTTATTATTA
Found at i:102291940 original size:17 final size:16
Alignment explanation
Indices: 102291885--102291940 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
102291875 CGTAATCATA
*
102291885 TTTTTATTTATTAATTG
1 TTTTTATTTTTTAA-TG
*
102291902 TTTTTATTTTTT-ATAC
1 TTTTTATTTTTTAAT-G
*
102291918 TATTTATTTTTTAGATG
1 TTTTTATTTTTTA-ATG
102291935 TTTTTA
1 TTTTTA
102291941 GAATTTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 1 0.03
16 12 0.39
17 16 0.52
18 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTATTTTTTAATG
Found at i:102292322 original size:27 final size:28
Alignment explanation
Indices: 102292269--102292323 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
102292259 AATTTACACT
* * **
102292269 AATAAGAGTTTAAGTGTGAAACTAAAAA
1 AATAAGAGTTTAACTGGGAAAAGAAAAA
102292297 AATAA-AGTTTAACTGGGAAAAGAAAAA
1 AATAAGAGTTTAACTGGGAAAAGAAAAA
102292324 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (28 bp):
AATAAGAGTTTAACTGGGAAAAGAAAAA
Found at i:102294759 original size:15 final size:15
Alignment explanation
Indices: 102294739--102294768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102294729 AATAATAATT
102294739 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
102294754 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
102294769 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:102294878 original size:15 final size:15
Alignment explanation
Indices: 102294858--102294888 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102294848 AAATATATTA
102294858 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
102294873 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
102294888 A
1 A
102294889 GAAAATAATA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:102295185 original size:3 final size:3
Alignment explanation
Indices: 102295179--102295306 Score: 91
Period size: 3 Copynumber: 42.7 Consensus size: 3
102295169 ATAGTTGTAG
* * * * * * *
102295179 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
102295226 T-A TAA CAA -GA GAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TGGAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--A-A
* *
102295275 TAA TAA TAA TAA TAA TGA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102295307 TAAATAAAAA
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
2 5 0.05
3 87 0.91
4 1 0.01
5 1 0.01
6 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:102295223 original size:20 final size:21
Alignment explanation
Indices: 102295184--102295223 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
102295174 TGTAGTAATA
*
102295184 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
102295205 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
102295224 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:102295312 original size:12 final size:11
Alignment explanation
Indices: 102295205--102295318 Score: 59
Period size: 12 Copynumber: 9.8 Consensus size: 11
102295195 AAAAATAGTG
102295205 ATAAT-ATAACA
1 ATAATAATAA-A
* *
102295216 ATAATAGTAAT
1 ATAATAATAAA
* * *
102295227 ATAACAAGAGA
1 ATAATAATAAA
102295238 ATAATAATAATA
1 ATAATAATAA-A
102295250 ATAATAATAATA
1 ATAATAATAA-A
* * *
102295262 ATAGTAATGGAG
1 ATAATAAT-AAA
102295274 ATAATAATAATA
1 ATAATAATAA-A
* *
102295286 ATAATGATACTA
1 ATAATAATA-AA
102295298 ATAATAATATAA
1 ATAATAATA-AA
*
102295310 ATAAAAATA
1 ATAATAATA
102295319 TAAACAACAA
Statistics
Matches: 76, Mismatches: 22, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
11 19 0.25
12 56 0.74
13 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.29
Consensus pattern (11 bp):
ATAATAATAAA
Found at i:102297073 original size:44 final size:43
Alignment explanation
Indices: 102296993--102297429 Score: 209
Period size: 44 Copynumber: 9.9 Consensus size: 43
102296983 GCTTCGCTGC
* ** * *
102296993 CAAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTG
1 CAAATACAGG-AGACAAGATCTGCTTTCTTCGATCTACTT-CAC-G
102297038 TCAAATACAGG-GACAAGATCTGCTTTCTTCGATCTACTTCAC-
1 -CAAATACAGGAGACAAGATCTGCTTTCTTCGATCTACTTCACG
* **
102297080 CACCAGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACG
1 CA--AATACAGG-AGACAAGATCTGCTTTCTTCGATCTACTTCACG
* * * *
102297126 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CAAATACA-GGAGACAAGATCTGCTTTCTTCGATCTACTTCACG
** * * *
102297169 CACCAATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTTCCTAC-
1 CA--AATACAGG-AGACAAGATCTGCTTTCTTCGATCTACTT-C-ACG
* * * * *
102297215 C-AATATAGGAAGATC-GGACCTACTATCTTCGATCTACTTCACG
1 CAAATACAGG-AGA-CAAGATCTGCTTTCTTCGATCTACTTCACG
* * *
102297258 CCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCAC-
1 CAAATACA-GGAGACAAGATCTGCTTTCTTCGATCTACTT---CACG
* * * *
102297304 CAAAT--GGGAAGACAAGATCTGC-ATCTTCGATCCATTTCCTAC-
1 CAAATACAGG-AGACAAGATCTGCTTTCTTCGATCTACTT-C-ACG
* * * ** *
102297346 C-AATATAGGAAGATAGGATCTGCTACCTTCGATCTATTTCACG
1 CAAATACAGG-AGACAAGATCTGCTTTCTTCGATCTACTTCACG
* * * *
102297389 CCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTC
1 CAAATACA-GGAGACAAGATCTGCTTTCTTCGATCTACTTC
102297430 GCCACCAATA
Statistics
Matches: 306, Mismatches: 56, Indels: 60
0.73 0.13 0.14
Matches are distributed among these distances:
41 7 0.02
42 7 0.02
43 53 0.17
44 165 0.54
45 54 0.18
46 17 0.06
47 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
CAAATACAGGAGACAAGATCTGCTTTCTTCGATCTACTTCACG
Found at i:102297094 original size:89 final size:89
Alignment explanation
Indices: 102297001--102297487 Score: 340
Period size: 89 Copynumber: 5.5 Consensus size: 89
102296991 GCCAAATACA
* *
102297001 GGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGTCAAATACA-G-GGACAAGATCTGCTT
1 GGAAGACAAGATCTGCAATCCTCAATCTACTT-CAC-G-CAAATACATGAAGACAAGATCTGCTT
* *
102297063 TCTTCGATCTACTTCACCACCAGTATG
63 TCTGCGATCTACTTCACCACCAATATG
** * * *
102297090 GGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGCAATCCTCAATCTACTTCACGCAAATACATGAAGACAAGATCTGCTTTCT
*
102297155 GCGATCTACTTCGCCACCAATATG
66 GCGATCTACTTCACCACCAATATG
* * * * * * * * *
102297179 GGAAGACAAGATCTGC-ATCGTCGATCCACTTCCTAC-C-AATATAGGAAGATC-GGACCTACTA
1 GGAAGACAAGATCTGCAATCCTCAATCTACTT-C-ACGCAAATACATGAAGA-CAAGATCTGCTT
* * **
102297240 TCTTCGATCTACTTCA-CGCCAATACA
63 TCTGCGATCTACTTCACCACCAATATG
* * * * **
102297266 TGAAGACAAGATCTGC-TTTCTGCGATCTACTTCGCCAC-CAAAT--GGGAAGACAAGATCTGC-
1 GGAAGACAAGATCTGCAATCCT-CAATCTACTT---CACGCAAATACATGAAGACAAGATCTGCT
* * * * * *
102297326 ATCTTCGATCCATTTC-CTACCAATATA
62 TTCTGCGATCTACTTCACCACCAATATG
* * * * * * *
102297353 GGAAGATAGGATCTGCTA-CCTTCGATCTATTTCACGCCAATACATGAAGATAAGATCTGCTTTC
1 GGAAGACAAGATCTGCAATCC-TCAATCTACTTCACGCAAATACATGAAGACAAGATCTGCTTTC
*
102297417 TGCGATCTACTTCGCCACCAATATG
65 TGCGATCTACTTCACCACCAATATG
*
102297442 GGAAGACAAGATCTGCAATCTTCAATCTA-TTCCACTGCCAAATACA
1 GGAAGACAAGATCTGCAATCCTCAATCTACTT-CAC-G-CAAATACA
102297488 GGGAGATAGA
Statistics
Matches: 315, Mismatches: 60, Indels: 44
0.75 0.14 0.11
Matches are distributed among these distances:
84 3 0.01
85 4 0.01
87 90 0.29
88 79 0.25
89 121 0.38
90 11 0.03
91 7 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (89 bp):
GGAAGACAAGATCTGCAATCCTCAATCTACTTCACGCAAATACATGAAGACAAGATCTGCTTTCT
GCGATCTACTTCACCACCAATATG
Found at i:102297292 original size:88 final size:88
Alignment explanation
Indices: 102297049--102297457 Score: 319
Period size: 87 Copynumber: 4.6 Consensus size: 88
102297039 CAAATACAGG
* * * * *
102297049 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTTCTTCG
1 GACAAGACCTACTATCTTCGATCTACTTCA-CACCAATATGGGAAGACAAGATCTGCTTTCTGCG
* * *
102297114 ATCTACTTCACGCCAATACATGAA
65 ATCTACTTCACACCAATATAGGAA
* * * * * *
102297138 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC-GTC
1 GACAAGACCTACTATCTTCGATCTACTTC-ACACCAATATGGGAAGACAAGATCTGCTTTCTG-C
*
102297201 GATCCACTTC-CTACCAATATAGGAA
64 GATCTACTTCAC-ACCAATATAGGAA
* * ***
102297226 GATC-GGACCTACTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCG
1 GA-CAAGACCTACTATCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCTGCTTTCTGCG
* *
102297290 ATCTACTTCGCCACCAA-ATGGGAA
65 ATCTACTTC-ACACCAATATAGGAA
* * * * * * * ** *
102297314 GACAAGATCTGC-ATCTTCGATCCATTTC-CTACCAATATAGGAAGATAGGATCTGCTACCTTCG
1 GACAAGACCTACTATCTTCGATCTACTTCAC-ACCAATATGGGAAGACAAGATCTGCTTTCTGCG
* * * *
102297377 ATCTATTTCACGCCAATACATGAA
65 ATCTACTTCACACCAATATAGGAA
* * * * * *
102297401 GATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC
1 GACAAGACCTACTATCTTCGATCTACTTC-ACACCAATATGGGAAGACAAGATCTGC
102297458 AATCTTCAAT
Statistics
Matches: 257, Mismatches: 49, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
86 6 0.02
87 86 0.33
88 81 0.32
89 82 0.32
90 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (88 bp):
GACAAGACCTACTATCTTCGATCTACTTCACACCAATATGGGAAGACAAGATCTGCTTTCTGCGA
TCTACTTCACACCAATATAGGAA
Found at i:102297388 original size:131 final size:133
Alignment explanation
Indices: 102297049--102297464 Score: 649
Period size: 131 Copynumber: 3.1 Consensus size: 133
102297039 CAAATACAGG
** * * * * * * *
102297049 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTTTCTTCG
1 GACAAGATCTGCAATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTATCTTCG
102297114 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
65 ATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATG
102297179 GGAA
130 GGAA
* * * *
102297183 GACAAGATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGATCGGACCTACTATCTTCGA
1 GACAAGATCTGCAATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGA
102297247 TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAA-ATGG
66 TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
102297311 GAA
131 GAA
* *
102297314 GACAAGATCTGC-ATCTTCGATCCATTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGA
1 GACAAGATCTGCAATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGA
* *
102297378 TCTATTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
66 TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
102297443 GAA
131 GAA
102297446 GACAAGATCTGCAATCTTC
1 GACAAGATCTGCAATCTTC
102297465 AATCTATTCC
Statistics
Matches: 260, Mismatches: 20, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
131 123 0.47
132 106 0.41
133 19 0.07
134 12 0.05
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (133 bp):
GACAAGATCTGCAATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGA
TCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGG
GAA
Found at i:102297602 original size:136 final size:134
Alignment explanation
Indices: 102297442--102297736 Score: 493
Period size: 136 Copynumber: 2.2 Consensus size: 134
102297432 CACCAATATG
*
102297442 GGAAGACAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
102297507 TTCAATCTACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
66 TTCAATCTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCA
102297572 AATACA
129 AATACA
* *
102297578 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAGATACAGGGAGATAGAGTTATTGGC
1 GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
* * *
102297643 TTCAATGTACTCCACTGTTGTCAGGGAGGTAAAATCTGTCATCTTCGATCTGCTTCGCTGCCAAA
66 TTCAATCTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
102297708 TACA
131 TACA
*
102297712 GGAAAGCAAGATCTG-ATATCTTCAA
1 GGAAGGCAAGATCTGCA-ATCTTCAA
102297737 CCAGCTCTGC
Statistics
Matches: 151, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
133 1 0.01
134 69 0.46
136 81 0.54
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
GGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGC
TTCAATCTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAA
TACA
Found at i:102297616 original size:46 final size:46
Alignment explanation
Indices: 102296989--102297625 Score: 201
Period size: 44 Copynumber: 14.3 Consensus size: 46
102296979 ATCTGCTTCG
* *
102296989 CTGCCAAATACAGGAAGGCAAGATCTGCAATCCTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* ** *
102297035 CTGTCAAATACAGG--GACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
** * ** ** *
102297079 CCACC-AGTATGGGAAGACAAGATCTGCTTTCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
102297124 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* ** * * *
102297169 C-ACC-AATATGGGAAGACAAGATCTGC-ATCGTCGATCCACTT-C-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTCCA
* * * * * * *
102297211 CTACC-AATATAGGAAGATC-GGACCTACTATCTTCGATCTACTT-CA
1 CTGCCAAATACAGGAAGA-CAAGATCTGCAATCTTCAATCTA-TTCCA
* ** * *
102297256 C-GCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* * * * *
102297301 C-ACCAAAT--GGGAAGACAAGATCTGC-ATCTTCGATCCATTTC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* * * * * * * *
102297342 CTACC-AATATAGGAAGATAGGATCTGCTACCTTCGATCTATTTCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* * ** * *
102297387 C-GCC-AATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTCGC-
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTA-TTC-CA
* **
102297432 C-ACC-AATATGGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
* * * * ** *
102297476 CTGCCAAATACAGGGAGATAGAGTTAT-C-GGCTTCAATCTACTCCA
1 CTGCCAAATACAGGAAGACA-AGATCTGCAATCTTCAATCTATTCCA
* * * ** * * * * *
102297521 CTG--TAGTCACAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT-CG
1 CTGCCAAAT-ACAGGAAGACAAGATCTGCAATCTTCAATCT-ATTCCA
*
102297566 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
*
102297612 CTGCCAGATACAGG
1 CTGCCAAATACAGG
102297626 GAGATAGAGT
Statistics
Matches: 459, Mismatches: 101, Indels: 62
0.74 0.16 0.10
Matches are distributed among these distances:
41 5 0.01
42 7 0.02
43 54 0.12
44 191 0.42
45 125 0.27
46 71 0.15
47 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGACAAGATCTGCAATCTTCAATCTATTCCA
Found at i:102297830 original size:86 final size:86
Alignment explanation
Indices: 102297684--102298033 Score: 556
Period size: 86 Copynumber: 4.1 Consensus size: 86
102297674 AAATCTGTCA
* * * *
102297684 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAAGCAAGATCTGATATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTA
102297749 CAAACGAGAGAGGCAAGGTTTG
65 CAAACGAGAGAGGCAAGGTTTG
* *
102297771 TCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
102297836 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
102297857 TCTTCGATCTGCTTCGCTGTCAATGCAGGAATGCAAGATCTGCTATCTTCAACCAGCTCTACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
*
102297922 AAACGAGAGTGGCAAGGTTTG
66 AAACGAGAGAGGCAAGGTTTG
* *
102297943 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATAACTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
* * *
102298008 GACCGAGAGAGGCAAGGTTTA
66 AAACGAGAGAGGCAAGGTTTG
102298029 TCTTC
1 TCTTC
102298034 AATTTTACTG
Statistics
Matches: 246, Mismatches: 17, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
86 226 0.92
87 20 0.08
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (86 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGATATCTTCAACCAGCTCTACTAC
AAACGAGAGAGGCAAGGTTTG
Found at i:102297947 original size:41 final size:41
Alignment explanation
Indices: 102297816--102297947 Score: 99
Period size: 41 Copynumber: 3.1 Consensus size: 41
102297806 AGATCTGCTA
102297816 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
1 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
* * * * * * * * *
102297857 TCTTCGATCTGCT-TCGCTGTC-AATGCAGGAAT-GCAAGATCTGCTA
1 TCTTCAACCAGCTCT-ACT-ACAAACG-A-GAGTGGCAAGGT-T--TG
102297902 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
1 TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
102297943 TCTTC
1 TCTTC
102297948 GATCTGCTTC
Statistics
Matches: 63, Mismatches: 18, Indels: 20
0.62 0.18 0.20
Matches are distributed among these distances:
40 1 0.02
41 21 0.33
42 8 0.13
43 8 0.13
44 8 0.13
45 16 0.25
46 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (41 bp):
TCTTCAACCAGCTCTACTACAAACGAGAGTGGCAAGGTTTG
Found at i:102297978 original size:42 final size:42
Alignment explanation
Indices: 102297759--102297979 Score: 98
Period size: 42 Copynumber: 5.2 Consensus size: 42
102297749 CAAACGAGAG
*
102297759 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGA
1 AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * *
102297801 AGGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
102297844 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
* * * * * * * * *
102297887 ATGCAAGATCTGCTATCTTCAACCAGC-TCTACT-ACAA-AC-GAGA
1 AGGCAAGGT-T--TGTCTTCGATCTGCTTC-GCTGTCAATGCAG-GA
*
102297930 GTGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
102297973 AGGCAAG
1 AGGCAAG
102297980 ATCTGATAAC
Statistics
Matches: 120, Mismatches: 39, Indels: 40
0.60 0.20 0.20
Matches are distributed among these distances:
41 24 0.20
42 32 0.27
43 16 0.13
44 24 0.20
45 24 0.20
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (42 bp):
AGGCAAGGTTTGTCTTCGATCTGCTTCGCTGTCAATGCAGGA
Found at i:102302165 original size:19 final size:20
Alignment explanation
Indices: 102302141--102302184 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
102302131 TGTGAAAGTC
* *
102302141 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
102302160 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
102302180 -AATGC
1 TAATGC
102302185 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:102304153 original size:15 final size:15
Alignment explanation
Indices: 102304133--102304162 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
102304123 AATAATAATT
102304133 ATAATAGTAAAAATA
1 ATAATAGTAAAAATA
*
102304148 ATAATAGTAATAATA
1 ATAATAGTAAAAATA
102304163 GCTAAGTGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
ATAATAGTAAAAATA
Found at i:102304273 original size:15 final size:15
Alignment explanation
Indices: 102304253--102304283 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
102304243 ATATATATTA
102304253 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
102304268 ATAATAGTAATAAAT
1 ATAATAGTAATAAAT
102304283 A
1 A
102304284 GAAAATAATA
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:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
ATAATAGTAATAAAT
Found at i:102304580 original size:3 final size:3
Alignment explanation
Indices: 102304574--102304698 Score: 85
Period size: 3 Copynumber: 41.7 Consensus size: 3
102304564 ATAGTTGTAG
* * * * * * *
102304574 TAA TAA TAA TAG TAA GAA AAA TAG TGA TAA T-A TAA CAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
102304621 T-A TAA CAA -GA GAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TGGAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T--A-A
* *
102304667 TAA TAA TAA TAA TAA TGA TAC TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
102304699 TAAATAAAAA
Statistics
Matches: 93, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
2 5 0.05
3 84 0.90
4 1 0.01
5 1 0.01
6 2 0.02
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:102304618 original size:20 final size:21
Alignment explanation
Indices: 102304579--102304618 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
102304569 TGTAGTAATA
*
102304579 ATAATAGTAAGAAAAATAGTG
1 ATAATAGTAACAAAAATAGTG
*
102304600 ATAATA-TAACAATAATAGT
1 ATAATAGTAACAAAAATAGT
102304619 AATATAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.12, T:0.28
Consensus pattern (21 bp):
ATAATAGTAACAAAAATAGTG
Found at i:102304704 original size:12 final size:13
Alignment explanation
Indices: 102304633--102304712 Score: 69
Period size: 12 Copynumber: 6.1 Consensus size: 13
102304623 TAACAAGAGA
102304633 ATAATAATAATA-
1 ATAATAATAATAT
102304645 ATAATAATAATA-
1 ATAATAATAATAT
*
102304657 GTAATGGAGATAATA-
1 ATAAT--A-ATAATAT
102304672 ATAATAATAATGAT
1 ATAATAATAAT-AT
102304686 ACTAATAATAATAT
1 A-TAATAATAATAT
*
102304700 A-AATAAAAATAT
1 ATAATAATAATAT
102304712 A
1 A
102304713 AACAACAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
12 32 0.54
13 2 0.03
14 5 0.08
15 20 0.34
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:102335853 original size:54 final size:54
Alignment explanation
Indices: 102335788--102335894 Score: 142
Period size: 54 Copynumber: 2.0 Consensus size: 54
102335778 CTTGAGTGGG
* * * * *
102335788 TAGGTTAAAGATGTGACTGATGACAGTGAGAACTGGGGAAATTTGAATAAAATA
1 TAGGTCAAAGATGTCACTGATGAAAGTGAGAACTAGGGAAATTTGAAGAAAATA
* * *
102335842 TAGGTCAAAGATGTCATTGATGAAAGTGTGAACTAGGGAAGTTTGAAGAAAAT
1 TAGGTCAAAGATGTCACTGATGAAAGTGAGAACTAGGGAAATTTGAAGAAAAT
102335895 TCATGAGATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.40, C:0.06, G:0.28, T:0.26
Consensus pattern (54 bp):
TAGGTCAAAGATGTCACTGATGAAAGTGAGAACTAGGGAAATTTGAAGAAAATA
Found at i:102336246 original size:29 final size:28
Alignment explanation
Indices: 102336214--102336273 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
102336204 AGAATTAGAT
*
102336214 CAAATCAAAATTTCATA-TATAAAATTGCA
1 CAAATC-AAAGTTCA-AGTATAAAATTGCA
*
102336243 CAAAATCAAAGTTCAAGTATACAATTGCA
1 C-AAATCAAAGTTCAAGTATAAAATTGCA
102336272 CA
1 CA
102336274 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
28 2 0.07
29 20 0.74
30 5 0.19
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.27
Consensus pattern (28 bp):
CAAATCAAAGTTCAAGTATAAAATTGCA
Found at i:102336850 original size:16 final size:17
Alignment explanation
Indices: 102336829--102336867 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
102336819 ATAATAAAAC
*
102336829 TATATTATAATTTATTA
1 TATATTATAATATATTA
*
102336846 T-TATTTTAATATATTA
1 TATATTATAATATATTA
102336862 TATATT
1 TATATT
102336868 TTTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTATAATATATTA
Found at i:102346728 original size:53 final size:53
Alignment explanation
Indices: 102346648--102346748 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
102346638 AAAACTCAAA
* * *
102346648 TATCAAATTAAAAAAACTTAGACACT-AATTTAAATATTAAAATCAAATGCAGG
1 TATCAAATTAAAAAAACTTAAAAACTAAATTT-AACATTAAAATCAAATGCAGG
*
102346701 TATCAAATTAAAAAAA-TTAAAAAACTAAATTTAACATTAAAATTAAAT
1 TATCAAATTAAAAAAACTT-AAAAACTAAATTTAACATTAAAATCAAAT
102346749 TCAAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 2 0.05
53 35 0.83
54 5 0.12
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (53 bp):
TATCAAATTAAAAAAACTTAAAAACTAAATTTAACATTAAAATCAAATGCAGG
Found at i:102347722 original size:16 final size:16
Alignment explanation
Indices: 102347703--102347749 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
102347693 AAATTTCAAT
102347703 AAATAAAAAATATATA
1 AAATAAAAAATATATA
**
102347719 AAATTATTAAATAT-TA
1 AAA-TAAAAAATATATA
102347735 AAATAAAATAATATA
1 AAATAAAA-AATATA
102347750 AATATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 13 0.54
17 8 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATAAAAAATATATA
Found at i:102348312 original size:30 final size:31
Alignment explanation
Indices: 102348196--102348331 Score: 94
Period size: 30 Copynumber: 4.6 Consensus size: 31
102348186 AAATTAGTAT
* * *
102348196 ATAATAAAATTACACA-TTAACT-TTTTGAAA
1 ATAATAAAATTA-AAATTTAACTCTTATAAAA
** *
102348226 ATAATAAAATTTTAGTTTAA-TCTT-TAAAA
1 ATAATAAAATTAAAATTTAACTCTTATAAAA
* * * *
102348255 ATAGTAAAA--AAAATAT-AC-GTTATTAAA
1 ATAATAAAATTAAAATTTAACTCTTATAAAA
102348282 ATAATAAAATTAAAATTTAACTCTTATAAAA
1 ATAATAAAATTAAAATTTAACTCTTATAAAA
102348313 AT-AT-AAATATAAAATTTAA
1 ATAATAAAAT-TAAAATTTAA
102348332 TAATCGCGTC
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
26 3 0.04
27 15 0.19
29 23 0.28
30 31 0.38
31 9 0.11
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (31 bp):
ATAATAAAATTAAAATTTAACTCTTATAAAA
Found at i:102351742 original size:31 final size:31
Alignment explanation
Indices: 102351707--102351767 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
102351697 CTATTCAAAA
* *
102351707 GTTTTCATTTAAATTACTAAACTATTTGAAC
1 GTTTTCATTTAAATCACTAAACTAATTGAAC
* * *
102351738 GTTTTTATTTAAGTCACTGAACTAATTGAA
1 GTTTTCATTTAAATCACTAAACTAATTGAA
102351768 TATTTTTGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.44
Consensus pattern (31 bp):
GTTTTCATTTAAATCACTAAACTAATTGAAC
Found at i:102364762 original size:15 final size:15
Alignment explanation
Indices: 102364742--102364771 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
102364732 CTTTTTCGGC
102364742 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
102364757 CGATTTGCTCTCTGT
1 CGATTTGCTCTCTGT
102364772 TTTACCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.20, T:0.47
Consensus pattern (15 bp):
CGATTTGCTCTCTGT
Found at i:102367654 original size:59 final size:57
Alignment explanation
Indices: 102367588--102367776 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
102367578 ATTTTATTAA
102367588 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
102367647 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
102367708 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
102367767 ATCATATATT
1 ATCATATATT
102367777 ATTATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:102367685 original size:66 final size:64
Alignment explanation
Indices: 102367615--102367813 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
102367605 AAATATATTT
*
102367615 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
102367680 G
64 G
* * * * **
102367681 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
* *
102367735 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAA
102367800 G
64 G
*
102367801 AATATTGATTATT
1 AATATTAATTATT
102367814 AAGAATTTTA
Statistics
Matches: 102, Mismatches: 17, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 9 0.09
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.26
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATTATTTGAGTAAATTCATATAAG
Found at i:102367707 original size:120 final size:120
Alignment explanation
Indices: 102367577--102367874 Score: 483
Period size: 120 Copynumber: 2.5 Consensus size: 120
102367567 AATTATTTTA
* * *
102367577 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
102367641 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
102367697 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
102367762 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
102367817 AATTTTATTAAATTC-TATATTTTAATTATAATATATCTAATAATAATTATGTTTAAAT
1 AATTTTATTAAA-TCATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
102367875 ATGATTAAAT
Statistics
Matches: 165, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
120 157 0.95
121 8 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:102367717 original size:61 final size:61
Alignment explanation
Indices: 102367650--102367837 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
102367640 TTATAGTATC
*
102367650 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
102367711 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATTATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
102367769 C
61 T
*
102367770 ATATATTATTATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
102367831 CTATATT
1 ATATATT
102367838 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 17 0.18
61 24 0.25
62 7 0.07
63 11 0.11
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:102367737 original size:15 final size:15
Alignment explanation
Indices: 102367702--102367753 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
102367692 TTAAGAATTT
*
102367702 TATTAAATTAT-ATA
1 TATTTAATTATAATA
102367716 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
102367730 TATTTAATAATAAT-
1 TATTTAATTATAATA
102367744 TATGTTAATT
1 TAT-TTAATT
102367754 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:102368112 original size:16 final size:16
Alignment explanation
Indices: 102368088--102368122 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
102368078 GATTTGTTAT
*
102368088 TACACCTCTAATCCAA
1 TACAACTCTAATCCAA
102368104 TACAACTCTAATCCAA
1 TACAACTCTAATCCAA
102368120 TAC
1 TAC
102368123 TTCAATGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (16 bp):
TACAACTCTAATCCAA
Found at i:102368689 original size:6 final size:6
Alignment explanation
Indices: 102368678--102368713 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
102368668 GTATGATATG
*
102368678 AAATTA AAATTA AAATTA AAATTA AATATAA AAATT
1 AAATTA AAATTA AAATTA AAATTA AA-ATTA AAATT
102368714 CTAAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:102369432 original size:33 final size:34
Alignment explanation
Indices: 102369390--102369455 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
102369380 TCTCACCTTC
*
102369390 CTTCAAAGAGGA-GGTTTTTTTTAAAGAACAAAT
1 CTTCAAAGAGGAGGGTTTTTTTAAAAGAACAAAT
102369423 CTTCAAAGAGGAGGGTTTTTTTAAAAGAACAAA
1 CTTCAAAGAGGAGGGTTTTTTTAAAAGAACAAA
102369456 ACTTTTGGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (34 bp):
CTTCAAAGAGGAGGGTTTTTTTAAAAGAACAAAT
Found at i:102369663 original size:31 final size:31
Alignment explanation
Indices: 102369628--102369686 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
102369618 AAATTATTCC
** *
102369628 TTGAACTTGGTAATTGTTCCCATATTGAAGT
1 TTGAACTTGACAATTGTTCCCACATTGAAGT
*
102369659 TTGAATTTGACAATTGTTCCCACATTGA
1 TTGAACTTGACAATTGTTCCCACATTGA
102369687 GCTCTTAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (31 bp):
TTGAACTTGACAATTGTTCCCACATTGAAGT
Found at i:102370997 original size:53 final size:53
Alignment explanation
Indices: 102370917--102371044 Score: 220
Period size: 53 Copynumber: 2.4 Consensus size: 53
102370907 TATACAAAAA
* * *
102370917 TACGAGAACTTAAAAAAAAATTTTGGTGCTGGCCTTATAATGGCCGACACCAG
1 TACGAGTATTTAAAAAAAAATTTTGGTGCTGGCCTTATAATGGCCAACACCAG
*
102370970 TACGAGTATTTAAAAAAAAATTTTGGTGCTGGCCTTGTAATGGCCAACACCAG
1 TACGAGTATTTAAAAAAAAATTTTGGTGCTGGCCTTATAATGGCCAACACCAG
102371023 TACGAGTATTTAAAAAAAAATT
1 TACGAGTATTTAAAAAAAAATT
102371045 ACCTTCTGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 71 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (53 bp):
TACGAGTATTTAAAAAAAAATTTTGGTGCTGGCCTTATAATGGCCAACACCAG
Found at i:102371617 original size:104 final size:106
Alignment explanation
Indices: 102371388--102371617 Score: 286
Period size: 106 Copynumber: 2.2 Consensus size: 106
102371378 TATTTTCACA
* * *
102371388 CCTTCTAATGGTCGGCACCAGTACGAGTATTTAAAAAAAAATTGGTGCTGGCCTTATAACCGCCG
1 CCTTCTAATGGCCGGCACCAGTACAAATATTTAAAAAAAAATTGGTGCTGGCCTTATAACCGCCG
*
102371453 GCACCAGTACGAATAAAAAAATCAAAACTTTTTTGTGCTGG
66 ACACCAGTACGAATAAAAAAATCAAAACTTTTTTGTGCTGG
* ** * ** *
102371494 CCTTGTAATGGCCGGCACCAGTACAAATATTTTAAAAAAAAA-TGGTTTTGGCCTTCTAATGGCT
1 CCTTCTAATGGCCGGCACCAGTACAAATA-TTTAAAAAAAAATTGGTGCTGGCCTTATAACCGCC
* ***
102371558 GACACCAGTACGAA-AAAAAATTC-ATTTTTTTTTGTGCTGG
65 GACACCAGTACGAATAAAAAAATCAAAACTTTTTTGTGCTGG
*
102371598 CCTTCTAATGGCCGACACCA
1 CCTTCTAATGGCCGGCACCA
102371618 AAACTTATAT
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
104 32 0.30
105 8 0.08
106 54 0.51
107 12 0.11
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (106 bp):
CCTTCTAATGGCCGGCACCAGTACAAATATTTAAAAAAAAATTGGTGCTGGCCTTATAACCGCCG
ACACCAGTACGAATAAAAAAATCAAAACTTTTTTGTGCTGG
Found at i:102372834 original size:34 final size:34
Alignment explanation
Indices: 102372785--102372858 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 34
102372775 AGTGCCACGA
*
102372785 TTCACAACTCAGTATGGAAACACCATACCTATGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
* * * *
102372819 TTCACAGCTCGGTATGGAAATACCATACTTACGT
1 TTCACAACTCAGTATGGAAACACCATACCTACGT
102372853 TTCACA
1 TTCACA
102372859 CATTGCCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (34 bp):
TTCACAACTCAGTATGGAAACACCATACCTACGT
Found at i:102372956 original size:27 final size:27
Alignment explanation
Indices: 102372913--102373000 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
102372903 AATCACTGAA
* * *
102372913 CACTTTG-CTATGTTTGGCAGACTATAT
1 CACTTTGTC-ATGATTGGCACACTTTAT
102372940 CACTTTGTCATGATTGGCACACTTTAT
1 CACTTTGTCATGATTGGCACACTTTAT
*
102372967 CACTTTGTCATGATTGGCTCACTTTAT
1 CACTTTGTCATGATTGGCACACTTTAT
102372994 CACTTTG
1 CACTTTG
102373001 CCATTGTTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (27 bp):
CACTTTGTCATGATTGGCACACTTTAT
Found at i:102373139 original size:31 final size:31
Alignment explanation
Indices: 102373094--102373209 Score: 162
Period size: 31 Copynumber: 3.7 Consensus size: 31
102373084 TTGTCACTTT
* * *
102373094 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
102373125 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCTGAAGCTACCACTTTTCACTAATCAGG
*
102373156 TAG-TCGAAGCTACTACTTTTCACTAATCAGG
1 TAGCT-GAAGCTACCACTTTTCACTAATCAGG
*
102373187 TAGCCGAAGCTACCACTTTTCAC
1 TAGCTGAAGCTACCACTTTTCAC
102373210 ATTGTACACA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 1 0.01
31 74 0.99
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
TAGCTGAAGCTACCACTTTTCACTAATCAGG
Found at i:102373283 original size:33 final size:33
Alignment explanation
Indices: 102373227--102373314 Score: 124
Period size: 33 Copynumber: 2.7 Consensus size: 33
102373217 ACATAAGGCA
102373227 TACATTTCCTTTTCAAG-TGTACACACAAAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
* * * *
102373259 TACGTTTCATTTTTAAGTTGTACACACACAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
*
102373292 TACATTTCCTTTTCCAGTTGTAC
1 TACATTTCCTTTTCAAGTTGTAC
102373315 CTTTTAGGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 14 0.30
33 33 0.70
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (33 bp):
TACATTTCCTTTTCAAGTTGTACACACAAAGTG
Found at i:102375990 original size:44 final size:44
Alignment explanation
Indices: 102375927--102376077 Score: 203
Period size: 44 Copynumber: 3.3 Consensus size: 44
102375917 AGCGACAAGC
102375927 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGT
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGT
*
102375971 GACAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGATCAGTGACAAGT
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCT--T-A-T--C-AGT
* * *
102376022 GATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGT
102376066 GACAAGTGATAA
1 GACAAGTGATAA
102376078 ATGTGATCAG
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
44 50 0.53
45 1 0.01
46 1 0.01
47 2 0.02
48 2 0.02
50 1 0.01
51 37 0.39
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (44 bp):
GACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTTATCAGT
Found at i:102376075 original size:51 final size:51
Alignment explanation
Indices: 102375968--102376077 Score: 193
Period size: 51 Copynumber: 2.2 Consensus size: 51
102375958 TTATCTTATC
* *
102375968 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
102376019 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
102376070 AGTGATAA
1 AGTGATAA
102376078 ATGTGATCAG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:102380144 original size:15 final size:15
Alignment explanation
Indices: 102380124--102380152 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
102380114 GAAATAAAGG
102380124 AAAGAAACAGAATGA
1 AAAGAAACAGAATGA
102380139 AAAGAAACAGAATG
1 AAAGAAACAGAATG
102380153 TGGGAATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (15 bp):
AAAGAAACAGAATGA
Found at i:102380579 original size:23 final size:21
Alignment explanation
Indices: 102380533--102380573 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
102380523 TTTGGTTAAA
102380533 AATTGAATAGAAATGAAGTATG
1 AATTGAATAGAAA-GAAGTATG
102380555 AATTGAGATAGAAA-AAGTA
1 AATTGA-ATAGAAAGAAGTA
102380574 AGTGAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (21 bp):
AATTGAATAGAAAGAAGTATG
Found at i:102380952 original size:15 final size:15
Alignment explanation
Indices: 102380904--102380953 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
102380894 TTTATCAAAT
102380904 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
102380919 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
102380934 TTATATTGATTGAAA
1 TTATATTGATTGAAA
102380949 TTATA
1 TTATA
102380954 ATATATATAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:102380969 original size:10 final size:10
Alignment explanation
Indices: 102380950--102380982 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
102380940 TGATTGAAAT
102380950 TATA-ATATA
1 TATACATATA
102380959 TATACATATA
1 TATACATATA
102380969 TATACATATA
1 TATACATATA
102380979 TATA
1 TATA
102380983 TGATCTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
TATACATATA
Found at i:102385123 original size:31 final size:31
Alignment explanation
Indices: 102385078--102385224 Score: 231
Period size: 31 Copynumber: 4.7 Consensus size: 31
102385068 TTGTCACTTT
* *
102385078 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
* *
102385109 TAGCTGGAGCTACCACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
102385140 TAGCCGAAGCTACTACTTTTCACTAATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
102385171 TAGCCGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGG
*
102385202 TAGCCGAAACTACCACTTTTCAC
1 TAGCCGAAGCTACCACTTTTCAC
102385225 ATTGTACACA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGG
Found at i:102385265 original size:32 final size:31
Alignment explanation
Indices: 102385217--102385329 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 31
102385207 GAAACTACCA
*
102385217 CTTTTCACA-TTGTACACATAAGGCATACATTTC
1 CTTTTCA-AGTTGTACACACAAGG--TACATTTC
*
102385250 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACAC-AAG-GTACATTTC
*
102385282 CTTTTTAAGTTGTACACACACAGTGTACATTTC
1 CTTTTCAAGTTGTACACACA-AG-GTACATTTC
*
102385315 CTTTTCCAGTTGTAC
1 CTTTTCAAGTTGTAC
102385330 CTTTTAGGTA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
32 25 0.36
33 43 0.62
34 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (31 bp):
CTTTTCAAGTTGTACACACAAGGTACATTTC
Found at i:102385300 original size:33 final size:33
Alignment explanation
Indices: 102385242--102385329 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
102385232 ACATAAGGCA
102385242 TACATTTCCTTTTCAAG-TGTACACACAAAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
* * *
102385274 TACGTTTCCTTTTTAAGTTGTACACACACAGTG
1 TACATTTCCTTTTCAAGTTGTACACACAAAGTG
*
102385307 TACATTTCCTTTTCCAGTTGTAC
1 TACATTTCCTTTTCAAGTTGTAC
102385330 CTTTTAGGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 15 0.31
33 34 0.69
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (33 bp):
TACATTTCCTTTTCAAGTTGTACACACAAAGTG
Done.