Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 312 of 373
Found at i:105375213 original size:9 final size:9
Alignment explanation
Indices: 105375199--105375275 Score: 100
Period size: 9 Copynumber: 8.6 Consensus size: 9
105375189 TTTATACAAA
105375199 TAATTCGGT
1 TAATTCGGT
105375208 TAATTCGGT
1 TAATTCGGT
* *
105375217 TAATTTGGG
1 TAATTCGGT
*
105375226 TAATTCGGG
1 TAATTCGGT
*
105375235 TAATTCGGG
1 TAATTCGGT
*
105375244 TAATTTGGT
1 TAATTCGGT
*
105375253 TAATTCGAT
1 TAATTCGGT
105375262 TAATTCGGT
1 TAATTCGGT
105375271 TAATT
1 TAATT
105375276 TTATGCTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 60 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:105375238 original size:27 final size:27
Alignment explanation
Indices: 105375199--105375276 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
105375189 TTTATACAAA
105375199 TAATTCGGTTAATTCGGTTAATTTGGG
1 TAATTCGGTTAATTCGGTTAATTTGGG
* * *
105375226 TAATTCGGGTAATTCGGGTAATTTGGT
1 TAATTCGGTTAATTCGGTTAATTTGGG
*
105375253 TAATTCGATTAATTCGGTTAATTT
1 TAATTCGGTTAATTCGGTTAATTT
105375277 TATGCTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGTTAATTTGGG
Found at i:105378582 original size:124 final size:124
Alignment explanation
Indices: 105378362--105378610 Score: 471
Period size: 124 Copynumber: 2.0 Consensus size: 124
105378352 TTCCCTAGTG
* *
105378362 GGTACCCCTGGATATGAATTGATGGATTTTTAATTTTGTACATTGTACTACATGAGCGTATCTAT
1 GGTACCACTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
105378427 CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
66 CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
105378486 GGTACCACTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
1 GGTACCACTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
*
105378551 CGATATTTCAAATAATTTCAACGGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
66 CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
105378610 G
1 G
105378611 ATTGATCATG
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (124 bp):
GGTACCACTGGATATGAATTGATGGATTTTTAATTTTGTACACTGTACTACATGAGCGTATCTAT
CGATATTTCAAATAATTTCAACAGATAAAGTTTTGACATAGTTAAACTAAATTTGAAAT
Found at i:105382192 original size:29 final size:29
Alignment explanation
Indices: 105382150--105382207 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
105382140 TGATTACATT
105382150 TTAGAGGATATATCTTAATTCTGTCCCTA
1 TTAGAGGATATATCTTAATTCTGTCCCTA
* *
105382179 TTAGATGATATATCTTAATTTTGTCCCTA
1 TTAGAGGATATATCTTAATTCTGTCCCTA
105382208 CTTTTTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.45
Consensus pattern (29 bp):
TTAGAGGATATATCTTAATTCTGTCCCTA
Found at i:105383912 original size:18 final size:18
Alignment explanation
Indices: 105383889--105383938 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
105383879 GTTTGACCAA
* *
105383889 ATAAAATATTAAAATTTT
1 ATAAAATATAAAAATATT
105383907 ATAAAATA-AAAAATATT
1 ATAAAATATAAAAATATT
105383924 -TAAAATATAGAAAAT
1 ATAAAATATA-AAAAT
105383939 CAATTCAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 7 0.25
17 8 0.29
18 13 0.46
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
ATAAAATATAAAAATATT
Found at i:105383937 original size:25 final size:25
Alignment explanation
Indices: 105383891--105383938 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
105383881 TTGACCAAAT
* *
105383891 AAAATATTAAAATTTTATAAAATAA
1 AAAATATTAAAATTATAGAAAATAA
105383916 AAAATATTTAAAA-TATAGAAAAT
1 AAAATA-TTAAAATTATAGAAAAT
105383939 CAATTCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAATATTAAAATTATAGAAAATAA
Found at i:105386624 original size:27 final size:27
Alignment explanation
Indices: 105386576--105386734 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
105386566 GCGAGGCTGC
* *
105386576 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
105386603 CATATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
105386629 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
105386656 CAAATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
105386683 CAGATATATGTGGCAGAGCCACCGGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
105386710 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
105386735 TACGCTTCCT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
26 9 0.08
27 95 0.87
28 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:105386666 original size:54 final size:54
Alignment explanation
Indices: 105386594--105386734 Score: 212
Period size: 54 Copynumber: 2.6 Consensus size: 54
105386584 GTGACGAAGT
* *
105386594 CACCAGAT-ACATATATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGC
1 CACCAGATCAAATA-ATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
105386648 CACCAGATCAAATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
* *
105386702 CACCGGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAAATAATTGTGGCATAGCCACCAG
105386735 TACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 76 0.95
55 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAAATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGC
Found at i:105390729 original size:12 final size:12
Alignment explanation
Indices: 105390705--105390740 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
105390695 ACATCAATTG
105390705 AAATTTTTAAAA
1 AAATTTTTAAAA
105390717 AAATATTTTAAAA
1 AAAT-TTTTAAAA
105390730 AAATCTTTTAA
1 AAAT-TTTTAA
105390741 CTTTTCTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (12 bp):
AAATTTTTAAAA
Found at i:105392116 original size:22 final size:22
Alignment explanation
Indices: 105392089--105392134 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
105392079 AAAGCAATAT
*
105392089 TTAATCTTTTAAATCGATAATC
1 TTAATCTTTCAAATCGATAATC
* *
105392111 TTAATCTTTCATATTGATAATC
1 TTAATCTTTCAAATCGATAATC
105392133 TT
1 TT
105392135 TCTTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAATCTTTCAAATCGATAATC
Found at i:105406934 original size:20 final size:21
Alignment explanation
Indices: 105406901--105406942 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
105406891 TTTTTTATTT
*
105406901 ATTATTATAATTCAT-TTTAA
1 ATTATAATAATTCATATTTAA
*
105406921 ATTATAATATTTCATATTTAA
1 ATTATAATAATTCATATTTAA
105406942 A
1 A
105406943 AGAATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATAATAATTCATATTTAA
Found at i:105410484 original size:25 final size:25
Alignment explanation
Indices: 105410456--105410506 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
105410446 TAATTTCCAA
*
105410456 TGGGTTTTCTCGTAATGGAAAAGTT
1 TGGGCTTTCTCGTAATGGAAAAGTT
105410481 TGGGCTTTCTCGTAATGGAAAAGTT
1 TGGGCTTTCTCGTAATGGAAAAGTT
105410506 T
1 T
105410507 TTTTTTAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (25 bp):
TGGGCTTTCTCGTAATGGAAAAGTT
Found at i:105413158 original size:13 final size:13
Alignment explanation
Indices: 105413140--105413214 Score: 87
Period size: 13 Copynumber: 5.8 Consensus size: 13
105413130 TTCTTCATTC
105413140 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
105413153 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * *
105413166 CTGTGGAAAATTG
1 CTTTTGAAAAGTG
* *
105413179 CTTTTGAGAAGTA
1 CTTTTGAAAAGTG
*
105413192 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
*
105413205 CTTTGGAAAA
1 CTTTTGAAAA
105413215 ATTTAAGTGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:105413183 original size:39 final size:39
Alignment explanation
Indices: 105413140--105413214 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
105413130 TTCTTCATTC
*
105413140 CTTTTGAAAAGTGCTTTTGAAAAGTGCTGTGGAAAATTG
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAATTG
* * *
105413179 CTTTTGAGAAGTACTTTTGAGAAGTGCTTTGGAAAA
1 CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAA
105413215 ATTTAAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (39 bp):
CTTTTGAAAAGTACTTTTGAAAAGTGCTGTGGAAAATTG
Found at i:105414681 original size:24 final size:24
Alignment explanation
Indices: 105414649--105414696 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
105414639 TAAAACATAA
105414649 AATAAAGGTTATCTTCCTCATTTT
1 AATAAAGGTTATCTTCCTCATTTT
*
105414673 AATAAAGGTTATCTTCCTTATTTT
1 AATAAAGGTTATCTTCCTCATTTT
105414697 TACTTCTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (24 bp):
AATAAAGGTTATCTTCCTCATTTT
Found at i:105416992 original size:71 final size:71
Alignment explanation
Indices: 105416861--105416997 Score: 177
Period size: 71 Copynumber: 1.9 Consensus size: 71
105416851 GGGCTCCCAA
* * * *
105416861 TTCACAATGGTTATATAGTCACGGGTTGAAGTATAGCTAAGGCTCTCAATTGATGGTGGTTATGT
1 TTCACAATGGTTATATAGTCACGAGTTGAAGTATAACTAAGGCTCTCAATTGACGATGGTTATGT
105416926 GGTCAT
66 GGTCAT
* * * * *
105416932 TTCACGATGGTTATATGGTCATGAGTTGAAGTATAACTAGGGCTC-CTAGTTGACGATGGTTATG
1 TTCACAATGGTTATATAGTCACGAGTTGAAGTATAACTAAGGCTCTC-AATTGACGATGGTTATG
105416996 TG
65 TG
105416998 ATCACGGGTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
70 1 0.02
71 55 0.98
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.35
Consensus pattern (71 bp):
TTCACAATGGTTATATAGTCACGAGTTGAAGTATAACTAAGGCTCTCAATTGACGATGGTTATGT
GGTCAT
Found at i:105417032 original size:49 final size:49
Alignment explanation
Indices: 105416935--105417032 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
105416925 TGGTCATTTC
* * * *
105416935 ACGATGGTTATATGGTCATGAGTTGAAGTATAACTAGGGCTCCTAGTTG
1 ACGATGGTTATATGATCACGAGTTCAAGTATAACTAGAGCTCCTAGTTG
* * *
105416984 ACGATGGTTATGTGATCACGGGTTCAAGTATAACTTGAGC-CCTAAGTTG
1 ACGATGGTTATATGATCACGAGTTCAAGTATAACTAGAGCTCCT-AGTTG
105417033 GCGGTGATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.07
49 38 0.93
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (49 bp):
ACGATGGTTATATGATCACGAGTTCAAGTATAACTAGAGCTCCTAGTTG
Found at i:105417479 original size:49 final size:48
Alignment explanation
Indices: 105417396--105417510 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 48
105417386 GTGGCATAAA
* *
105417396 ACTTGAACTCGTGATCGCATAACTATCGTCAACTA-GAGGCCC-AAGTTAT
1 ACTTGAACT-GTGACCGCATAACGATCGTCAACTAGGA-GCCCTAA-TTAT
105417445 ACTTGAATCTGTGACCGCATAACGATCG-CAAACTAGGAGCCCTAATTAT
1 ACTTGAA-CTGTGACCGCATAACGATCGTC-AACTAGGAGCCCTAATTAT
*
105417494 ACTTCAACATGTGACCG
1 ACTTGAAC-TGTGACCG
105417511 TATGACCATC
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
48 2 0.03
49 50 0.86
50 6 0.10
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (48 bp):
ACTTGAACTGTGACCGCATAACGATCGTCAACTAGGAGCCCTAATTAT
Found at i:105428695 original size:24 final size:24
Alignment explanation
Indices: 105428663--105428710 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
105428653 CGAAGGTATT
105428663 TAATGTTCGACCTTTACTTGTTGA
1 TAATGTTCGACCTTTACTTGTTGA
*
105428687 TAATGTTCGGCCTTTACTTGTTGA
1 TAATGTTCGACCTTTACTTGTTGA
105428711 CAAATCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.46
Consensus pattern (24 bp):
TAATGTTCGACCTTTACTTGTTGA
Found at i:105445160 original size:16 final size:16
Alignment explanation
Indices: 105445141--105445192 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
105445131 ATTAAAAAAA
105445141 TTTAATAAAATATTAT
1 TTTAATAAAATATTAT
105445157 TTT-AT-AAA-A--A-
1 TTTAATAAAATATTAT
105445167 TTTAATAAAATATTAT
1 TTTAATAAAATATTAT
105445183 TTTAGATAAA
1 TTTA-ATAAA
105445193 TTTACATTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 13
0.69 0.00 0.31
Matches are distributed among these distances:
10 3 0.10
11 3 0.10
12 3 0.10
13 2 0.07
14 3 0.10
15 3 0.10
16 7 0.24
17 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
TTTAATAAAATATTAT
Found at i:105445171 original size:26 final size:26
Alignment explanation
Indices: 105445136--105445196 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
105445126 TTTTTATTAA
*
105445136 AAAAATTTAATAAAATATTATTTTAT
1 AAAAATTTAATAAAATATTATTTTAG
105445162 AAAAATTTAATAAAATATTATTTTAG
1 AAAAATTTAATAAAATATTATTTTAG
*
105445188 ATAAATTTA
1 AAAAATTTA
105445197 CATTCTGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (26 bp):
AAAAATTTAATAAAATATTATTTTAG
Found at i:105445182 original size:21 final size:24
Alignment explanation
Indices: 105445129--105445183 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 24
105445119 TTTTCATTTT
*
105445129 TTATTAAAAAAATTTAATAAAATA
1 TTATTATAAAAATTTAATAAAATA
105445153 TTATTTTATAAAAATTTAATAAAATA
1 TTA--TTATAAAAATTTAATAAAATA
105445179 TTATT
1 TTATT
105445184 TTAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 5 0.18
26 23 0.82
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TTATTATAAAAATTTAATAAAATA
Found at i:105447100 original size:13 final size:13
Alignment explanation
Indices: 105447082--105447106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
105447072 ATTTCCCAGA
105447082 TTACATAATCAAT
1 TTACATAATCAAT
105447095 TTACATAATCAA
1 TTACATAATCAA
105447107 ATCAAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:105448495 original size:10 final size:10
Alignment explanation
Indices: 105448480--105448528 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
105448470 TATTTTAGCT
105448480 TTTATCTTTA
1 TTTATCTTTA
105448490 TTTATCTTTA
1 TTTATCTTTA
*
105448500 ATTATCTTTA
1 TTTATCTTTA
* *
105448510 ATTATCTGTA
1 TTTATCTTTA
105448520 TTTATCTTT
1 TTTATCTTT
105448529 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:105449316 original size:14 final size:15
Alignment explanation
Indices: 105449290--105449328 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
105449280 TTCAATCAAC
*
105449290 TTTTA-ATTCTGTCT
1 TTTTATATTTTGTCT
105449304 TTTT-TATTTTGTCT
1 TTTTATATTTTGTCT
105449318 TTTTATATTTT
1 TTTTATATTTT
105449329 TCCCCAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTTATATTTTGTCT
Found at i:105454217 original size:19 final size:19
Alignment explanation
Indices: 105454193--105454230 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
105454183 TTGCAATTTA
105454193 AATTTTT-ATTTTATTTTCT
1 AATTTTTCA-TTTATTTTCT
105454212 AATTTTTCATTTATTTTCT
1 AATTTTTCATTTATTTTCT
105454231 TCAGACAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
AATTTTTCATTTATTTTCT
Found at i:105460677 original size:32 final size:32
Alignment explanation
Indices: 105460636--105460700 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
105460626 TGTCTGAAAC
105460636 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
1 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
105460668 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
1 TTTGATGTACTTTTAGTTGAATTTTCAATGTA
105460700 T
1 T
105460701 AAATACTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (32 bp):
TTTGATGTACTTTTAGTTGAATTTTCAATGTA
Found at i:105461170 original size:13 final size:13
Alignment explanation
Indices: 105461154--105461183 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
105461144 GTACACGAGC
105461154 GTGTCACACGGAT
1 GTGTCACACGGAT
*
105461167 GTGTCACACGGGT
1 GTGTCACACGGAT
105461180 GTGT
1 GTGT
105461184 ACCTGCCGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (13 bp):
GTGTCACACGGAT
Found at i:105464397 original size:28 final size:26
Alignment explanation
Indices: 105464356--105464424 Score: 90
Period size: 23 Copynumber: 2.8 Consensus size: 26
105464346 AACCTAATTT
*
105464356 TTATTTATTTTTTTATTTTTATTTT-
1 TTATTTATTATTTTATTTTTATTTTA
**
105464381 TTA-TTA-TCCTTTATTTTTATTTTA
1 TTATTTATTATTTTATTTTTATTTTA
105464405 TTATTTATTATTTTATTTTT
1 TTATTTATTATTTTATTTTT
105464425 TGGGGTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
23 15 0.41
24 6 0.16
25 6 0.16
26 10 0.27
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (26 bp):
TTATTTATTATTTTATTTTTATTTTA
Found at i:105464425 original size:7 final size:7
Alignment explanation
Indices: 105464359--105464418 Score: 52
Period size: 7 Copynumber: 8.1 Consensus size: 7
105464349 CTAATTTTTA
105464359 TTTATTT
1 TTTATTT
105464366 TTT-TATT
1 TTTAT-TT
105464373 TTTATTT
1 TTTATTT
105464380 TTTATTAT
1 TTTATT-T
105464388 CCTTTA-TT
1 --TTTATTT
105464396 TTTATTT
1 TTTATTT
105464403 TATTATTT
1 T-TTATTT
*
105464411 ATTATTT
1 TTTATTT
105464418 T
1 T
105464419 ATTTTTTGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
6 5 0.11
7 25 0.57
8 9 0.20
9 1 0.02
10 4 0.09
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTATTT
Found at i:105464425 original size:28 final size:29
Alignment explanation
Indices: 105464352--105464425 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 29
105464342 AAGCAACCTA
105464352 ATTT-TTA-TTTATTTTTTTATTTTTATT
1 ATTTATTATTTTATTTTTTTATTTTTATT
*
105464379 TTTTATTATCCTTTA--TTTTTA-TTTTATT
1 ATTTATTAT--TTTATTTTTTTATTTTTATT
105464407 ATTTATTATTTTATTTTTT
1 ATTTATTATTTTATTTTTT
105464426 GGGGTATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
26 4 0.10
27 3 0.08
28 22 0.56
29 6 0.15
31 4 0.10
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (29 bp):
ATTTATTATTTTATTTTTTTATTTTTATT
Found at i:105466262 original size:10 final size:10
Alignment explanation
Indices: 105466247--105466295 Score: 73
Period size: 10 Copynumber: 4.9 Consensus size: 10
105466237 TATTTTAGCT
105466247 TTTATCTTTA
1 TTTATCTTTA
105466257 TTTATCTTTA
1 TTTATCTTTA
*
105466267 ATTATCTTTA
1 TTTATCTTTA
105466277 TTTAT-TTGTA
1 TTTATCTT-TA
105466287 TTTATCTTT
1 TTTATCTTT
105466296 TAGGATTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:105466889 original size:16 final size:17
Alignment explanation
Indices: 105466863--105466894 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
105466853 GCGTCCTCTT
105466863 CCACTATAAGAAACTCG
1 CCACTATAAGAAACTCG
105466880 CCAC-ATAAGAAACTC
1 CCACTATAAGAAACTC
105466895 TCTCTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.31, G:0.09, T:0.16
Consensus pattern (17 bp):
CCACTATAAGAAACTCG
Found at i:105466965 original size:17 final size:18
Alignment explanation
Indices: 105466934--105466967 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
105466924 TATTCTCTAT
*
105466934 TTTAATTTTCGCAATTTA
1 TTTAATTTTCACAATTTA
105466952 TTTAA-TTTCACAATTT
1 TTTAATTTTCACAATTT
105466968 CAATCAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.12, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCACAATTTA
Found at i:105469815 original size:20 final size:20
Alignment explanation
Indices: 105469790--105469833 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
105469780 GCATCAAATT
105469790 ATGCCATTGGGGGAGTACCG
1 ATGCCATTGGGGGAGTACCG
105469810 ATGCCATTGGGGGAGTACCG
1 ATGCCATTGGGGGAGTACCG
105469830 ATGC
1 ATGC
105469834 AAGATGAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.39, T:0.20
Consensus pattern (20 bp):
ATGCCATTGGGGGAGTACCG
Found at i:105472565 original size:24 final size:24
Alignment explanation
Indices: 105472538--105472583 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
105472528 TATTTGTAGC
* *
105472538 AATGCTGCGAATTGTATTTACAGA
1 AATGCTACGAACTGTATTTACAGA
*
105472562 AATGTTACGAACTGTATTTACA
1 AATGCTACGAACTGTATTTACA
105472584 AAAACATCGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (24 bp):
AATGCTACGAACTGTATTTACAGA
Found at i:105472649 original size:71 final size:72
Alignment explanation
Indices: 105472512--105472790 Score: 228
Period size: 71 Copynumber: 3.9 Consensus size: 72
105472502 ACTGTGTTGC
* * * * * **
105472512 AAAATACTGTGAACTATATTTGTAGCAA-TGCTGCGAATTGTATTTACAGAAATGTTACGAACTG
1 AAAATATTGTGAACTATATTTGTAG-AATTACTACGAACTGTATTTACATAAATGTCGCGAACTG
105472576 TATTTACA
65 TATTTACA
* * * * * * * *
105472584 AAAACATCGCGAACTAT-TTTGTAGAATTACTCCGAATTGTATTTGCATAAATGTCGTGAATTGT
1 AAAATATTGTGAACTATATTTGTAGAATTACTACGAACTGTATTTACATAAATGTCGCGAACTGT
*
105472648 A--T-CGT
66 ATTTAC-A
* * * ** * * * *
105472653 AAAATATTGTAAACTGTATTTGTAGAAATGTTACGAACCGTATTTACAAAAATGTAGTGAACTGT
1 AAAATATTGTGAACTATATTTGTAGAATTACTACGAACTGTATTTACATAAATGTCGCGAACTGT
105472718 ATTTACA
66 ATTTACA
* * * * *
105472725 AAAATATTGTGAACTAT-TCTATAGAATTACTATGAACTGTATTTGCATAAATGTCGCGAATTGT
1 AAAATATTGTGAACTATATTTGTAGAATTACTACGAACTGTATTTACATAAATGTCGCGAACTGT
105472789 AT
66 AT
105472791 CGTAGAATAT
Statistics
Matches: 158, Mismatches: 43, Indels: 13
0.74 0.20 0.06
Matches are distributed among these distances:
68 1 0.01
69 13 0.08
70 40 0.25
71 74 0.47
72 29 0.18
73 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (72 bp):
AAAATATTGTGAACTATATTTGTAGAATTACTACGAACTGTATTTACATAAATGTCGCGAACTGT
ATTTACA
Found at i:105472673 original size:46 final size:47
Alignment explanation
Indices: 105472621--105472916 Score: 138
Period size: 46 Copynumber: 6.3 Consensus size: 47
105472611 TACTCCGAAT
* * *
105472621 TGTATTTGCATAAATGTCGTGAATTGTATCGTA-AAATATTGTAAAC
1 TGTATTTGCATAAATGTCGCGAACTGTATCGTACAAATATTGTGAAC
* * ** * * *
105472667 TGTATTTGTAGAAATGTTACGAACCGTAT-TTACAAAAATGTAGTGAAC
1 TGTATTTGCATAAATGTCGCGAACTGTATCGTACAAATAT-T-GTGAAC
* * * * * * * * *
105472715 TGTATTTACAAAAATATTGTGAACTAT-TC-TATAGAATTACTATGAAC
1 TGTATTTGCATAAATGTCGCGAACTGTATCGTACA-AA-TATTGTGAAC
* * **
105472762 TGTATTTGCATAAATGTCGCGAATTGTATCGTA-GAATATTGCAAAC
1 TGTATTTGCATAAATGTCGCGAACTGTATCGTACAAATATTGTGAAC
* *** * * * * *
105472808 TGTATTTAG-AAAAACACCGCTAACTGTTTTGTAGAATTATTGTGAAC
1 TGTATTT-GCATAAATGTCGCGAACTGTATCGTACAAATATTGTGAAC
* * * * * *
105472855 TATATTTGCATAAATGTTGCGAATTGTATTGTA-GAATATTGTGAAT
1 TGTATTTGCATAAATGTCGCGAACTGTATCGTACAAATATTGTGAAC
* *
105472901 TATTTTTGCATAAATG
1 TGTATTTGCATAAATG
105472917 CTGCAAATTG
Statistics
Matches: 180, Mismatches: 59, Indels: 22
0.69 0.23 0.08
Matches are distributed among these distances:
45 2 0.01
46 82 0.46
47 64 0.36
48 29 0.16
49 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (47 bp):
TGTATTTGCATAAATGTCGCGAACTGTATCGTACAAATATTGTGAAC
Found at i:105472736 original size:24 final size:24
Alignment explanation
Indices: 105472653--105472739 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
105472643 ATTGTATCGT
* **
105472653 AAAATATTGTAAACTGTATTTGTA
1 AAAATATTGTGAACTGTATTTACA
* * ** *
105472677 GAAATGTTACGAACCGTATTTACA
1 AAAATATTGTGAACTGTATTTACA
* *
105472701 AAAATGTAGTGAACTGTATTTACA
1 AAAATATTGTGAACTGTATTTACA
105472725 AAAATATTGTGAACT
1 AAAATATTGTGAACT
105472740 ATTCTATAGA
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.34
Consensus pattern (24 bp):
AAAATATTGTGAACTGTATTTACA
Found at i:105472766 original size:141 final size:141
Alignment explanation
Indices: 105472512--105472814 Score: 401
Period size: 141 Copynumber: 2.1 Consensus size: 141
105472502 ACTGTGTTGC
* * * * * ** *
105472512 AAAATACTGTGAACTATATTTGTAGCAATGCTGCGAATTGTATTTACAGAAATGTTACGAACTGT
1 AAAATATTGTAAACTGTATTTGTAGAAATGCTACGAACCGTATTTACAAAAATGTTACGAACTGT
* * * * *
105472577 ATTTACAAAAACATCGCGAACTATTTTGTAGAATTACTCCGAATTGTATTTGCATAAATGTCGTG
66 ATTTACAAAAACATCGCGAACTATTCTATAGAATTACTACGAACTGTATTTGCATAAATGTCGCG
105472642 AATTGTATCGT
131 AATTGTATCGT
* *
105472653 AAAATATTGTAAACTGTATTTGTAGAAATGTTACGAACCGTATTTACAAAAATG-TAGTGAACTG
1 AAAATATTGTAAACTGTATTTGTAGAAATGCTACGAACCGTATTTACAAAAATGTTA-CGAACTG
* * * *
105472717 TATTTACAAAAATATTGTGAACTATTCTATAGAATTACTATGAACTGTATTTGCATAAATGTCGC
65 TATTTACAAAAACATCGCGAACTATTCTATAGAATTACTACGAACTGTATTTGCATAAATGTCGC
105472782 GAATTGTATCGT
130 GAATTGTATCGT
* *
105472794 AGAATATTGCAAACTGTATTT
1 AAAATATTGTAAACTGTATTT
105472815 AGAAAAACAC
Statistics
Matches: 140, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
140 2 0.01
141 138 0.99
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (141 bp):
AAAATATTGTAAACTGTATTTGTAGAAATGCTACGAACCGTATTTACAAAAATGTTACGAACTGT
ATTTACAAAAACATCGCGAACTATTCTATAGAATTACTACGAACTGTATTTGCATAAATGTCGCG
AATTGTATCGT
Found at i:105472884 original size:24 final size:24
Alignment explanation
Indices: 105472857--105472952 Score: 81
Period size: 24 Copynumber: 4.1 Consensus size: 24
105472847 TTGTGAACTA
105472857 TATTTGCATAAATGTTGCGAATTG
1 TATTTGCATAAATGTTGCGAATTG
* * *
105472881 TA-TTG--TAGAATATTGTGAATTA
1 TATTTGCATA-AATGTTGCGAATTG
* * *
105472903 TTTTTGCATAAATGCTGCAAATTG
1 TATTTGCATAAATGTTGCGAATTG
* * *
105472927 TATTTACAGAAATGTTGCGAACTG
1 TATTTGCATAAATGTTGCGAATTG
105472951 TA
1 TA
105472953 GTCCATAATA
Statistics
Matches: 53, Mismatches: 15, Indels: 8
0.70 0.20 0.11
Matches are distributed among these distances:
21 2 0.04
22 12 0.23
23 6 0.11
24 31 0.58
25 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (24 bp):
TATTTGCATAAATGTTGCGAATTG
Found at i:105472926 original size:46 final size:47
Alignment explanation
Indices: 105472746--105472930 Score: 153
Period size: 46 Copynumber: 4.0 Consensus size: 47
105472736 AACTATTCTA
* * * * *
105472746 TAGAATTACTATGAACTGTATTTGCATAAATG-TCGCGAATTGTATCG
1 TAGAATTATTGTGAACTATATTTGCATAAATGCT-GCAAATTGTATTG
** * * ** * * * *
105472793 TAGAA-TATTGCAAACTGTATTTAG-AAAAACACCGCTAACTGTTTTG
1 TAGAATTATTGTGAACTATATTT-GCATAAATGCTGCAAATTGTATTG
* *
105472839 TAGAATTATTGTGAACTATATTTGCATAAATGTTGCGAATTGTATTG
1 TAGAATTATTGTGAACTATATTTGCATAAATGCTGCAAATTGTATTG
* *
105472886 TAGAA-TATTGTGAATTATTTTTGCATAAATGCTGCAAATTGTATT
1 TAGAATTATTGTGAACTATATTTGCATAAATGCTGCAAATTGTATT
105472931 TACAGAAATG
Statistics
Matches: 107, Mismatches: 27, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
46 68 0.64
47 39 0.36
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (47 bp):
TAGAATTATTGTGAACTATATTTGCATAAATGCTGCAAATTGTATTG
Found at i:105473050 original size:54 final size:54
Alignment explanation
Indices: 105472989--105473542 Score: 480
Period size: 54 Copynumber: 10.3 Consensus size: 54
105472979 TACAGAAGAC
* * * * *
105472989 CGTGATCATAAATCAGCGGGCTGTAAGATTTGTAAAATCTAAAAAGTAGAAGGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * *
105473043 CATGATCATAAATCAACGAGTA--GTAAGATTCGTAAAATCTCAAAAGTA-AATGGT
1 CGTGATCGTAAATCAGCG-G-ACCGTAAGATTCGTAAAATCTCAAAAGTAGAA-GGT
** * * **
105473097 TAT-AGTCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGT
1 CGTGA-TCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * * *
105473151 CGTGATCATGAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAA-T--TAGGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * ** * ** ** * *
105473202 CGTGATTGTATATCAAAGGACAGGGAGATTCGTAAAATCTTGAAAGTAGAAAGA
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * * * *
105473256 CGTGATCTTAAATCAGCGAACCGTGAGATTCGTAAAATCTCGAAAGTAGAAAGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
*
105473310 CGTGATCGTAAATTAGCGGACCGTGAA-ATTCGTAAAATCTCAAAAG-ATGAAGGT
1 CGTGATCGTAAATCAGCGGACCGT-AAGATTCGTAAAATCTCAAAAGTA-GAAGGT
* * ***
105473364 TGTGATCATAAATCAATAGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
* * * * **
105473418 CATGATCGTAAATCAGCGAACGGTTAGATTCGTAAAATCTTGAAAGTAGAAGGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
** * * * * *
105473472 TTTGATCGTAAATCAGCGAATCGTAAGA-TCTATAAAATTTCAAAAGTAGAAAGT
1 CGTGATCGTAAATCAGCGGACCGTAAGATTC-GTAAAATCTCAAAAGTAGAAGGT
* *
105473526 AGTGATTGTAAATCAGC
1 CGTGATCGTAAATCAGC
105473543 ATGACAACCC
Statistics
Matches: 401, Mismatches: 83, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
51 37 0.09
52 2 0.00
53 10 0.02
54 346 0.86
55 6 0.01
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (54 bp):
CGTGATCGTAAATCAGCGGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGT
Found at i:105473157 original size:108 final size:108
Alignment explanation
Indices: 105472991--105473542 Score: 555
Period size: 108 Copynumber: 5.1 Consensus size: 108
105472981 CAGAAGACCG
* * * * * ** *
105472991 TGATCATAAATCAGCGGGCTGTAAGATTTGTAAAATCTAAAAAGTAGAAGGTCATGATCATAAAT
1 TGATCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
* *** *
105473056 CAACGAGTAGTAAGATTCGTAAAATCTCAAAAGTA-AATGGTTA
66 CAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAA-GGTCA
* *
105473099 T-AGTCGTAAATCAGCGGACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGTCGTGATCATGAA
1 TGA-TCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAA
* *
105473163 TCAGCGAACCGTAAGATTCGTAAAATCTCAAAA-T--TAGGTCG
65 TCAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * ** * * * * *
105473204 TGATTGTATATCAAAGGACAGGGAGATTCGTAAAATCTTGAAAGTAGAAAGACGTGATCTTAAAT
1 TGATCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
* * * *
105473269 CAGCGAACCGTGAGATTCGTAAAATCTCGAAAGTAGAAAGTCG
66 CAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * ** *
105473312 TGATCGTAAATTAGCGGACCGTGAAATTCGTAAAATCTCAAAAG-ATGAAGGTTGTGATCATAAA
1 TGATCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTA-GAAGGTCGTGATCATAAA
**
105473376 TCA-ATAGACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
65 TCAGCGA-ACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
* * * ** *
105473420 TGATCGTAAATCAGCGAACGGTTAGATTCGTAAAATCTTGAAAGTAGAAGGTTTTGATCGTAAAT
1 TGATCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
* * * *
105473485 CAGCGAATCGTAAGA-TCTATAAAATTTCAAAAGTAGAAAGT-A
66 CAGCGAACCGTAAGATTC-GTAAAATCTCAAAAGTAGAAGGTCA
*
105473527 GTGATTGTAAATCAGC
1 -TGATCGTAAATCAGC
105473543 ATGACAACCC
Statistics
Matches: 367, Mismatches: 66, Indels: 22
0.81 0.15 0.05
Matches are distributed among these distances:
105 85 0.23
106 3 0.01
107 7 0.02
108 270 0.74
109 2 0.01
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (108 bp):
TGATCGTAAATCAGCGGACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGTCGTGATCATAAAT
CAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCA
Found at i:105473540 original size:162 final size:161
Alignment explanation
Indices: 105472989--105473540 Score: 566
Period size: 162 Copynumber: 3.4 Consensus size: 161
105472979 TACAGAAGAC
* ** * * * **
105472989 CGTGATCATAAATCAGCGGGCTGTAAGATTTGTAAAATCTAAAAAGTAGAAGGTCA-TGATCATA
1 CGTGATCGTAAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAA-GT-AGTGATTGTA
* * *
105473053 AATC-AACGAGTAGTAAGATTCGTAAAATCTCAAAAGTA-AATGGTTAT-AGTCGTAAATCAGCG
64 AATCAAAGGA-CAGTAAGATTCGTAAAATCTCAAAAGTAGAA-GGTCATGA-TCGTAAATCAGCG
* *
105473115 GACCGTGAGATTTGTAAAATCTTGAAAGTAGAAGGT
126 AACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGT
* * * * *
105473151 CGTGATCATGAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAATTAG--GTCGTGATTGTATA
1 CGTGATCGTAAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGTAGTGATTGTAAA
** ** * * * *
105473214 TCAAAGGACAGGGAGATTCGTAAAATCTTGAAAGTAGAAAGACGTGATCTTAAATCAGCGAACCG
66 TCAAAGGACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCATGATCGTAAATCAGCGAACCG
* *
105473279 TGAGATTCGTAAAATCTCGAAAGTAGAAAGT
131 TGAGATTCGTAAAATCTTGAAAGTAGAAGGT
* * * **
105473310 CGTGATCGTAAATTAGCGGACCGTGAA-ATTCGTAAAATCTCAAAAG-ATGAAGGTTGTGATCAT
1 CGTGATCGTAAATCAGCGAACCGT-AAGATTCGTAAAATCTCAAAAGTA-GAA-GTAGTGATTGT
*
105473373 AAATCAATA-GACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCATGATCGTAAATCAGCGA
63 AAATCAA-AGGACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCATGATCGTAAATCAGCGA
* *
105473437 ACGGTTAGATTCGTAAAATCTTGAAAGTAGAAGGT
127 ACCGTGAGATTCGTAAAATCTTGAAAGTAGAAGGT
** * * *
105473472 TTTGATCGTAAATCAGCGAATCGTAAGA-TCTATAAAATTTCAAAAGTAGAAAGTAGTGATTGTA
1 CGTGATCGTAAATCAGCGAACCGTAAGATTC-GTAAAATCTCAAAAGTAG-AAGTAGTGATTGTA
105473536 AATCA
64 AATCA
105473541 GCATGACAAC
Statistics
Matches: 318, Mismatches: 58, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
158 1 0.00
159 119 0.37
160 9 0.03
161 4 0.01
162 181 0.57
163 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (161 bp):
CGTGATCGTAAATCAGCGAACCGTAAGATTCGTAAAATCTCAAAAGTAGAAGTAGTGATTGTAAA
TCAAAGGACAGTAAGATTCGTAAAATCTCAAAAGTAGAAGGTCATGATCGTAAATCAGCGAACCG
TGAGATTCGTAAAATCTTGAAAGTAGAAGGT
Found at i:105478916 original size:18 final size:17
Alignment explanation
Indices: 105478876--105478925 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
105478866 ATTCAATTAA
* *
105478876 ATAAATAATTAACAATTT
1 ATAAATAA-TAAAAATAT
105478894 ATAAATAATAAAAATAT
1 ATAAATAATAAAAATAT
*
105478911 ATTAAAAAATAAAAA
1 A-TAAATAATAAAAA
105478926 ATCAATTCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 20 0.71
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAATAATAAAAATAT
Found at i:105485947 original size:22 final size:20
Alignment explanation
Indices: 105485914--105485953 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
105485904 ATAATATAAG
105485914 AAAAATAATATTCCAAATTAA
1 AAAAATAATATT-CAAATTAA
*
105485935 AAAAATATTTATTCAAATT
1 AAAAATA-ATATTCAAATT
105485954 CAAATATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAATAATATTCAAATTAA
Found at i:105486727 original size:41 final size:42
Alignment explanation
Indices: 105486641--105486718 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
105486631 CCTGGAAAAG
* *
105486641 AAATAAAAAAATAGAATTAAAAAGTTTTGATCTGGAAAAATA
1 AAATAAAAAAACAAAATTAAAAAGTTTTGATCTGGAAAAATA
*
105486683 AAATAAAATAACAAAATT-AAAAGTTTTGAT-TGGAAA
1 AAATAAAAAAACAAAATTAAAAAGTTTTGATCTGGAAA
105486719 TTCGAAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 6 0.18
41 12 0.36
42 15 0.45
ACGTcount: A:0.59, C:0.03, G:0.12, T:0.27
Consensus pattern (42 bp):
AAATAAAAAAACAAAATTAAAAAGTTTTGATCTGGAAAAATA
Found at i:105487456 original size:10 final size:10
Alignment explanation
Indices: 105487437--105487486 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
105487427 TTAAATTCTA
105487437 AAAGATAAAT
1 AAAGATAAAT
105487447 ACAA-ATAAAT
1 A-AAGATAAAT
*
105487457 AAAGATAATT
1 AAAGATAAAT
105487467 AAAGATAAAT
1 AAAGATAAAT
105487477 GAAA-ATAAAT
1 -AAAGATAAAT
105487487 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:105488309 original size:97 final size:97
Alignment explanation
Indices: 105488139--105488321 Score: 251
Period size: 97 Copynumber: 1.9 Consensus size: 97
105488129 TATTTATTTA
* ** * * *
105488139 TTTATTTTTACTTAGGATTATATTGAAACTTTTGACACGAAGAGAGATTACAGCCAAGTACCTCA
1 TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
*
105488204 TCCCAGTTACTTAGCCCAACATACTCCTAATT
66 TCCCAGTTACTCAGCCCAACATACTCCTAATT
* * *
105488236 TTTATTTTTTCTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
*
105488301 -CCCTAGTTACTCAGGCCAACA
66 TCCC-AGTTACTCAGCCCAACA
105488322 CATTTTTAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 3 0.04
97 71 0.96
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAAACTTTTGACACGAAGAGAGATGACAGCCAAGCACCTCA
TCCCAGTTACTCAGCCCAACATACTCCTAATT
Found at i:105489221 original size:4 final size:5
Alignment explanation
Indices: 105489185--105489223 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
105489175 TAATAAATAA
* *
105489185 TAAAA TAAAG TAAAT TAAAT TAAAT TAAAT T-AAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
105489224 AATAAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (5 bp):
TAAAT
Found at i:105494949 original size:38 final size:39
Alignment explanation
Indices: 105494884--105495010 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
105494874 TTTGAGATTG
*
105494884 AAAATATTCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
105494923 AAAATATCCGGACATGAGAT-CTCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
105494961 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
105495000 AAAATATCCGG
1 AAAATATCCGG
105495011 GTTAAAGACC
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 33 0.44
39 42 0.56
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:105495036 original size:77 final size:76
Alignment explanation
Indices: 105494883--105495036 Score: 168
Period size: 77 Copynumber: 2.0 Consensus size: 76
105494873 GTTTGAGATT
* * * * *
105494883 GAAAATATTCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCTCAG
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCGCAG
* *
105494948 GCTATATGCTA
66 GATATACGCTA
* * **
105494959 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACCCG
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGA-CCG
105495023 CAGGAT-TACGCTA
63 CAGGATATACGCTA
105495036 G
1 G
105495037 TAATGTATTC
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
76 5 0.08
77 53 0.83
78 6 0.09
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCGCAG
GATATACGCTA
Found at i:105509610 original size:39 final size:39
Alignment explanation
Indices: 105509487--105509613 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
105509477 TTTGAGATTG
*
105509487 AAAATATTCGGACTTGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTGGA
* * * *
105509526 AAAATATCCGGACATGAGAT-CTCAGGCTATATGCTAGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTGGA
* **
105509564 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTGGA
105509603 AAAATATCCGG
1 AAAATATCCGG
105509614 GTTAAAGTCC
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
38 33 0.45
39 41 0.55
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACTTGAGGTCCGCAGGCTATATGCTGGA
Found at i:105513196 original size:38 final size:38
Alignment explanation
Indices: 105513148--105513237 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 38
105513138 AGACCCTCAA
* * *
105513148 GCTTTGTGCTGGTAAAATATCCGAGTTAAATCCCGCAG
1 GCTTAGTGCTGGTAAAATATCAGAGATAAATCCCGCAG
* ** *
105513186 GCTTCGTGCTGGTATTATATCAGGGATAAATCCCGCAG
1 GCTTAGTGCTGGTAAAATATCAGAGATAAATCCCGCAG
*
105513224 GCCTAGTGCTGGTA
1 GCTTAGTGCTGGTA
105513238 TTATATTTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (38 bp):
GCTTAGTGCTGGTAAAATATCAGAGATAAATCCCGCAG
Found at i:105513302 original size:42 final size:43
Alignment explanation
Indices: 105513241--105513386 Score: 240
Period size: 43 Copynumber: 3.4 Consensus size: 43
105513231 GCTGGTATTA
*
105513241 TATTTGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
105513284 TATTCGGGCCTT-GTGCCTAGTAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
105513326 TATTTGGGTCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
105513369 TATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGTGCC
105513387 GGTGATGTGT
Statistics
Matches: 94, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.41
43 55 0.59
ACGTcount: A:0.10, C:0.23, G:0.34, T:0.34
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:105513389 original size:27 final size:27
Alignment explanation
Indices: 105513351--105513413 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
105513341 GCCTAGCAAG
105513351 CTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCGGTGATGTGTATTCGGGC
105513378 CTTCGTGCCGGTGATGTGTATTCGGGC
1 CTTCGTGCCGGTGATGTGTATTCGGGC
*
105513405 CTTTGTGCC
1 CTTCGTGCC
105513414 TAGCAGGCGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.06, C:0.24, G:0.35, T:0.35
Consensus pattern (27 bp):
CTTCGTGCCGGTGATGTGTATTCGGGC
Found at i:105513818 original size:45 final size:42
Alignment explanation
Indices: 105513751--105513858 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 42
105513741 TTGACTTGAT
* *
105513751 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
**
105513796 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
105513838 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
105513859 ACAGATGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 34 0.60
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:105517467 original size:19 final size:20
Alignment explanation
Indices: 105517443--105517490 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
105517433 TAAATTCTAA
105517443 AAGATAAATACAA-ATAAAT-
1 AAGATAAATA-AAGATAAATG
*
105517462 AAGATAATTAAAGATAAATG
1 AAGATAAATAAAGATAAATG
*
105517482 AAAATAAAT
1 AAGATAAAT
105517491 CCTAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 15 0.62
20 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (20 bp):
AAGATAAATAAAGATAAATG
Found at i:105517985 original size:20 final size:20
Alignment explanation
Indices: 105517921--105517997 Score: 59
Period size: 20 Copynumber: 3.8 Consensus size: 20
105517911 ATATACTTTT
*
105517921 TTTTAAAATATAAATTTTAGAAT
1 TTTTAAAA-AT-AATTTTA-AAA
** *
105517944 TTTTCTAAAT-ATTTT-GAA
1 TTTTAAAAATAATTTTAAAA
*
105517962 TTTTAAAAATTATTTTAAAA
1 TTTTAAAAATAATTTTAAAA
*
105517982 TTTTGAAAATAATTTT
1 TTTTAAAAATAATTTT
105517998 GATTCTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
18 9 0.21
19 5 0.12
20 21 0.49
22 2 0.05
23 6 0.14
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (20 bp):
TTTTAAAAATAATTTTAAAA
Found at i:105520117 original size:3 final size:3
Alignment explanation
Indices: 105520111--105520146 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
105520101 CTAATAACAA
105520111 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
105520147 GACTGTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:105524438 original size:33 final size:33
Alignment explanation
Indices: 105524389--105524504 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
105524379 ATAGGCTTTT
* * *
105524389 CCTTTTCTAGTTGTACACTCGAGGTGCACATTC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
105524422 CCTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
* * *
105524455 CCTTTTCAATTTGTACACTCAAAGTGCACATAA
1 CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
105524488 CCTTTTCAAG-TGTACAC
1 CCTTTTCAAGTTGTACAC
105524505 ATATAGTGTA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
32 7 0.10
33 63 0.90
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (33 bp):
CCTTTTCAAGTTGTACACTCGAAGTGCACATAC
Found at i:105524524 original size:32 final size:32
Alignment explanation
Indices: 105524416--105524633 Score: 168
Period size: 33 Copynumber: 6.7 Consensus size: 32
105524406 CTCGAGGTGC
* * *
105524416 ACATTCCCTTTTCAAGTGGTACACACGAAGTGT
1 ACATTTCCTTTTCAAGT-GTACACACAAAGTAT
** * * **
105524449 ACATACCCTTTTCAATTTGTACACTCAAAGTGC
1 ACATTTCCTTTTCAA-GTGTACACACAAAGTAT
** * * *
105524482 ACATAACCTTTTCAAGTGTACACATATAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
* * *
105524514 ACCTTTCCTTTTCAAGCAGTATACACAAAGTAT
1 ACATTTCCTTTTCAAG-TGTACACACAAAGTAT
* *
105524547 ACCTTTCCTTTTCATA-TGGTATACACAAAGTAT
1 ACATTTCCTTTTCA-AGT-GTACACACAAAGTAT
* *
105524580 ACATTTCCTTTCCAAGTGTACACACAAAGTGT
1 ACATTTCCTTTTCAAGTGTACACACAAAGTAT
**
105524612 ACATAACCTTTTCAAGTTGTAC
1 ACATTTCCTTTTCAAG-TGTAC
105524634 CATTTGGGTA
Statistics
Matches: 152, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
32 52 0.34
33 98 0.64
34 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (32 bp):
ACATTTCCTTTTCAAGTGTACACACAAAGTAT
Found at i:105524543 original size:65 final size:62
Alignment explanation
Indices: 105524386--105524633 Score: 190
Period size: 65 Copynumber: 3.8 Consensus size: 62
105524376 TTGATAGGCT
* * * * **
105524386 TTTCCTTTTCTAGTTGTACACTCGAGGTGCACATTCCCTTTTCAAGTGGTACACACGAAGTGTAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCAAGT-GTACACA--AAGTGTAC
105524451 A
62 A
** * * *
105524452 TACCCTTTTCAATTTGTACACTCAAAGTGCACATAACCTTTTCAAGTGTACACATATAGTGTACC
1 TTTCCTTTTCAA-GTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACA-A-AGTGTACA
* * ** * ** * *
105524517 TTTCCTTTTCAAGCAGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATAC
1 TTTCCTTTTCAAG-TGTACACACAAAGTGCACATAACCTTTTCA-A--GTGTACACAAAGTGTAC
105524582 A
62 A
* *
105524583 TTTCCTTTCCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAG-TGTAC
105524634 CATTTGGGTA
Statistics
Matches: 143, Mismatches: 32, Indels: 17
0.74 0.17 0.09
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 2 0.01
65 70 0.49
66 57 0.40
67 1 0.01
68 8 0.06
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (62 bp):
TTTCCTTTTCAAGTGTACACACAAAGTGCACATAACCTTTTCAAGTGTACACAAAGTGTACA
Found at i:105525360 original size:20 final size:22
Alignment explanation
Indices: 105525318--105525365 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
105525308 TGTAAAAGTG
*
105525318 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
105525340 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
105525360 AATTTA
1 -ATTTA
105525366 AAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:105531031 original size:27 final size:27
Alignment explanation
Indices: 105530992--105531043 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
105530982 TATCTGACAT
*
105530992 TAATGCCCTTGTAGGGTAAAATGACCG
1 TAATGCCCTTGTAAGGTAAAATGACCG
105531019 TAATGTCCC-TGTAAGGTAAAATGAC
1 TAATG-CCCTTGTAAGGTAAAATGAC
105531044 GACTATGCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
TAATGCCCTTGTAAGGTAAAATGACCG
Found at i:105531223 original size:27 final size:26
Alignment explanation
Indices: 105531179--105531279 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
105531169 ATGGAGGAAG
* * *
105531179 TACTG-TACTAGTGACTATGTCACAT
1 TACTGTTACTGGTGGCTATGCCACAT
105531204 TCACTGTTACTGGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGCCAC-AT
* *
105531232 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACA-T
* **
105531259 TACTGTTTCTGGCAGCTATGC
1 TACTGTTACTGGTGGCTATGC
105531280 TGCATTATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 53 0.85
28 3 0.05
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGCCACAT
Found at i:105533011 original size:17 final size:17
Alignment explanation
Indices: 105532989--105533026 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
105532979 GGAAATTTCG
*
105532989 AGGACAAAATTTCTTTA
1 AGGACAAAACTTCTTTA
105533006 AGGACAAAACTTCTTTA
1 AGGACAAAACTTCTTTA
105533023 AGGA
1 AGGA
105533027 GGGGTGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (17 bp):
AGGACAAAACTTCTTTA
Found at i:105534831 original size:27 final size:27
Alignment explanation
Indices: 105534793--105534914 Score: 172
Period size: 27 Copynumber: 4.5 Consensus size: 27
105534783 GGTCGTTATC
105534793 TGACCATAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
*
105534820 TGACCGTAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* **
105534847 TAACTGTAATGCCCCTGTAGGGTAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* *
105534874 TAACCATAATGCCCCTGTAGGATAAAA
1 TGACCATAATGCCCCTGTAGGGTAAAA
* *
105534901 TGACGATTATGCCC
1 TGACCATAATGCCC
105534915 TTATGTTCCG
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (27 bp):
TGACCATAATGCCCCTGTAGGGTAAAA
Found at i:105535097 original size:27 final size:27
Alignment explanation
Indices: 105535040--105535126 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
105535030 ATGGAGGAGG
* *
105535040 TACTG-TACTGGTGACTATGTCAC-AT
1 TACTGTTACTGGTGGCTATGCCACAAT
*
105535065 TCACTGTTACTGGTGGCTATGCCACAAC
1 T-ACTGTTACTGGTGGCTATGCCACAAT
* * *
105535093 TACTGATA-TCGGTGGCTTTGCCACATT
1 TACTGTTACT-GGTGGCTATGCCACAAT
105535120 TACTGTT
1 TACTGTT
105535127 TATGGCAGCT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
25 1 0.02
26 5 0.10
27 42 0.84
28 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACAAT
Found at i:105537044 original size:48 final size:47
Alignment explanation
Indices: 105536973--105537207 Score: 317
Period size: 48 Copynumber: 4.9 Consensus size: 47
105536963 AAGGTAAGAT
* *
105536973 GCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA
* **
105537020 CGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGA
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA
* * * * *
105537068 GCCCGATGGCATGTTCCAAACACGGTCTTACACTGGCTCACATATTGAG
1 G-CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA-TAAA
* *
105537117 GCTGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATATAAA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA
*
105537164 TACCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
1 -GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATA
105537208 ACCCTAGTAT
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
47 3 0.02
48 159 0.97
49 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATAAA
Found at i:105541246 original size:21 final size:21
Alignment explanation
Indices: 105541220--105541282 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
105541210 ACAATGAGAA
105541220 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
105541241 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
105541262 GAAAACAAAGTTGGGTGCTTT
1 GAAAACAAAGTTGGGTGCTTT
105541283 CGGGTGCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
GAAAACAAAGTTGGGTGCTTT
Found at i:105541291 original size:31 final size:31
Alignment explanation
Indices: 105541253--105541313 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
105541243 AAACAAAGTT
105541253 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
105541284 GGGTGCTTTGAAAACAAAGTTGGGTGCTTT
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTT
105541314 GAAAACAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.11, G:0.33, T:0.33
Consensus pattern (31 bp):
GGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
Found at i:105541294 original size:52 final size:52
Alignment explanation
Indices: 105541232--105541334 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
105541222 AAACAAAGTT
105541232 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
105541284 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTT
1 GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTT
105541335 ATTTTTCCTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.27, C:0.11, G:0.31, T:0.31
Consensus pattern (52 bp):
GGGTGCTTTGAAAACAAAGTTGGGTGCTTTGAAAACAAAGTTGGGTGCTTTC
Found at i:105541310 original size:21 final size:21
Alignment explanation
Indices: 105541284--105541334 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
105541274 GGGTGCTTTC
105541284 GGGTGCTTTGAAAACAAAGTT
1 GGGTGCTTTGAAAACAAAGTT
105541305 GGGTGCTTTGAAAACAAAGTT
1 GGGTGCTTTGAAAACAAAGTT
105541326 GGGTGCTTT
1 GGGTGCTTT
105541335 ATTTTTCCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (21 bp):
GGGTGCTTTGAAAACAAAGTT
Found at i:105554000 original size:50 final size:50
Alignment explanation
Indices: 105553925--105554024 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
105553915 TTCCTCCACC
105553925 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
1 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
*
105553975 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACCCACAACCCT
1 TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
105554025 CGCCCCAAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.29, C:0.41, G:0.04, T:0.26
Consensus pattern (50 bp):
TGTCCTACCCATACCTCTTAATCCACCAATTGAATCTCACACACAACCCT
Found at i:105561638 original size:62 final size:60
Alignment explanation
Indices: 105561519--105561638 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 60
105561509 TATTTGTACA
* * ****
105561519 AATTATTTTTATATTATTTTATTTAATAAAATAAAAGTTGTATTGAATATTTTAATAGTC
1 AATTATTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTC
*
105561579 AATTATTTTTATATTTTATCTTATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
1 AATTATTTTTATA--TTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAG
105561639 AAATAATACA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 13 0.25
62 38 0.75
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (60 bp):
AATTATTTTTATATTATCTTATTTAATAAAATAAAAGTTCTATTGAATAAGGCAATAGTC
Found at i:105564568 original size:20 final size:18
Alignment explanation
Indices: 105564534--105564573 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
105564524 TTTTCCTTTT
105564534 CTTTTTCTTTTTCTTTCC
1 CTTTTTCTTTTTCTTTCC
105564552 CTTTTTCCTTCTTTCTTTCC
1 CTTTTT-CTT-TTTCTTTCC
105564572 CT
1 CT
105564574 GCTATTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTCC
Found at i:105571897 original size:20 final size:18
Alignment explanation
Indices: 105571863--105571902 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 18
105571853 TTTTCCTTTT
105571863 CTTTTTCTTTTTCTTTCC
1 CTTTTTCTTTTTCTTTCC
105571881 CTTTTTCCTTCTTTCTTTCC
1 CTTTTT-CTT-TTTCTTTCC
105571901 CT
1 CT
105571903 GCTATTCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 3 0.15
20 11 0.55
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (18 bp):
CTTTTTCTTTTTCTTTCC
Found at i:105571999 original size:18 final size:17
Alignment explanation
Indices: 105571972--105572008 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
105571962 ATTCTTTATT
*
105571972 TTATTAATATATTATAA
1 TTATTAATATAATATAA
105571989 TTATATAATATAATATAA
1 TTAT-TAATATAATATAA
105572007 TT
1 TT
105572009 TACTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATTAATATAATATAA
Found at i:105574656 original size:126 final size:126
Alignment explanation
Indices: 105574431--105574971 Score: 677
Period size: 126 Copynumber: 4.3 Consensus size: 126
105574421 TTTGATACTA
* * * * **
105574431 AAAATTACTTTTTCAGGAACTACTGTAGAAAAAGAGTATCTACGTAAGAGCTTTTTTCAGTAATT
1 AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* * * *
105574496 TTGCTAATAGTGCATCCTGCTTAAAACGTTTTTGACCCTATTTTTTCAGAACCGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * *
105574557 AAAATTATTTTTTCAGGAACTACTGTAGAAAAAGAGCATCCACATGGGAGCTTTTTTAAGTAATT
1 AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* * * * * * *
105574622 TTGTTGACAGTGCATTCTGCTTGAAGTGTTTTTGACACTATTTTTTCAAAATCGTCTTCAC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* *
105574683 AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGTAATT
1 AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
* * * * *
105574748 TTGCTGACAGTGCATCCTGTTTGAAGCGTTTTTGACATTATTTTTTTAGAACTGTCTTCTC
66 TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * * * *
105574809 AAAATTATTTTTTTTTCCAAAAACTACTATAGAAAAATAGCGTCCACGTGGGAGTTTTTTTCAGT
1 AAAATTA---TTTTTT-CAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGT
* * * * * *
105574874 ACTTTTGCTAATAGTGCATCTTGCTTGAAGCGTTTTTGTCACTGTTTTTTTAGAACCGTCTTCTC
62 AATTTTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
* * *
105574939 AAAATTAATTTTTCAGAAACTACTATAAAAAAA
1 AAAATTATTTTTTCAGAAACTACTGTAGAAAAA
105574972 CAAAATCCAT
Statistics
Matches: 362, Mismatches: 49, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
126 245 0.68
127 5 0.01
129 6 0.02
130 106 0.29
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
AAAATTATTTTTTCAGAAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATT
TTGCTAACAGTGCATCCTGCTTGAAGCGTTTTTGACACTATTTTTTCAGAACCGTCTTCTC
Found at i:105575145 original size:31 final size:33
Alignment explanation
Indices: 105575068--105575149 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
105575058 TTAAAAAGTT
*
105575068 CTAAACCCTAATTTAATTAATTTTCTAAAAAACC
1 CTAAACCCTAATTT-ATTTATTTTCTAAAAAACC
* **
105575102 CTAAA-CCTAATTTATTTATTTT-T-TAAATTC
1 CTAAACCCTAATTTATTTATTTTCTAAAAAACC
105575132 CTAAACCCTAATTTATTT
1 CTAAACCCTAATTTATTT
105575150 TTTAAAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
30 9 0.21
31 13 0.30
32 8 0.19
33 8 0.19
34 5 0.12
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (33 bp):
CTAAACCCTAATTTATTTATTTTCTAAAAAACC
Found at i:105575149 original size:27 final size:28
Alignment explanation
Indices: 105575115--105575170 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
105575105 AACCTAATTT
*
105575115 ATTTATTTTTTAAATTCC-TAAACCCTA
1 ATTTATTTTTTAAAATCCTTAAACCCTA
105575142 ATTTATTTTTTAAAATCCTTAAACCCTA
1 ATTTATTTTTTAAAATCCTTAAACCCTA
105575170 A
1 A
105575171 ATAAATAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (28 bp):
ATTTATTTTTTAAAATCCTTAAACCCTA
Found at i:105577572 original size:18 final size:19
Alignment explanation
Indices: 105577522--105577611 Score: 64
Period size: 18 Copynumber: 4.9 Consensus size: 19
105577512 AATTTTATCG
*
105577522 ATTTATATATATATATTATAA
1 ATTTATATAT-TAT-TTTTAA
* *
105577543 ATTTCTA-A-T-TTTTTAT
1 ATTTATATATTATTTTTAA
*
105577559 ATTTATATATT-TTTATAA
1 ATTTATATATTATTTTTAA
** *
105577577 ATTTATA-ATTGGTTTTAG
1 ATTTATATATTATTTTTAA
105577595 ATTTATATATTATTTTT
1 ATTTATATATTATTTTT
105577612 TGAATAAAGG
Statistics
Matches: 54, Mismatches: 11, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
16 10 0.19
17 5 0.09
18 25 0.46
19 7 0.13
20 1 0.02
21 6 0.11
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTATATATTATTTTTAA
Found at i:105578293 original size:15 final size:16
Alignment explanation
Indices: 105578273--105578303 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
105578263 CAAAATTTGA
105578273 ATTTAAT-AATAAATT
1 ATTTAATAAATAAATT
105578288 ATTTAATAAATAAATT
1 ATTTAATAAATAAATT
105578304 TGAACAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATAAATAAATT
Found at i:105578717 original size:69 final size:69
Alignment explanation
Indices: 105578638--105578770 Score: 176
Period size: 69 Copynumber: 1.9 Consensus size: 69
105578628 TATAGAATCT
** *
105578638 TAGTATTAGTATTGCATTATAATCACTGCCATTCAGATTTATAAATAGTAAAGAAGTGAACTATG
1 TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
105578703 TGAG
66 TGAG
* * * ** * *
105578707 TAGTATTAGTATTGTATTATAATTACCACTACTCTTATTTATAAATAGTGAAGAAGTGAGCTAT
1 TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTAT
105578771 CTAGTCAATG
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (69 bp):
TAGTATTAGTATTGCATTATAATCACCACCACTCAGATTTATAAATAGTAAAGAAGTGAACTATG
TGAG
Found at i:105579905 original size:30 final size:30
Alignment explanation
Indices: 105579843--105579905 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
105579833 ACTTATTTTA
**
105579843 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
105579873 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
105579903 TTG
1 TTG
105579906 CTTGTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.16, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:105585467 original size:4 final size:4
Alignment explanation
Indices: 105585458--105585502 Score: 72
Period size: 4 Copynumber: 11.2 Consensus size: 4
105585448 ATAAGGTGCA
* *
105585458 AAAG AAAG AAAG AAAG AAAG AAAG AGAG AGAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
105585503 GAGCTAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:105585996 original size:7 final size:7
Alignment explanation
Indices: 105585984--105586045 Score: 74
Period size: 7 Copynumber: 8.7 Consensus size: 7
105585974 ATTTCAACAA
105585984 AAAAATT
1 AAAAATT
105585991 AAAAATT
1 AAAAATT
105585998 AAAAATT
1 AAAAATT
105586005 AAAAATT
1 AAAAATT
105586012 AAAAATCT
1 AAAAAT-T
105586020 -AAAATCT
1 AAAAAT-T
105586027 -AAAATCT
1 AAAAAT-T
*
105586034 AAAAAAT
1 AAAAATT
105586041 AAAAA
1 AAAAA
105586046 ATTATAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
7 47 0.90
8 5 0.10
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAAATT
Found at i:105586010 original size:21 final size:21
Alignment explanation
Indices: 105585984--105586054 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 21
105585974 ATTTCAACAA
105585984 AAAAATTAAAAATTAAAAATT
1 AAAAATTAAAAATTAAAAATT
105586005 AAAAATTAAAAATCT-AAAATCT
1 AAAAATTAAAAAT-TAAAAAT-T
*
105586027 -AAAATCTAAAAAATAAAAAATT
1 AAAAAT-T-AAAAATTAAAAATT
105586049 ATAAAA
1 A-AAAA
105586055 ATATTTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
21 23 0.55
22 4 0.10
23 11 0.26
24 4 0.10
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATTAAAAATTAAAAATT
Found at i:105598600 original size:62 final size:62
Alignment explanation
Indices: 105598533--105598693 Score: 250
Period size: 62 Copynumber: 2.6 Consensus size: 62
105598523 GGATACAGGT
** * * *
105598533 GTGTGCCCAGGCTGTGTAACTCACTGTTTGTATTTAAGAACCACATGGCCAGGGACACGAGC
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
*
105598595 GTGTGCCCAGGCCCTGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
* *
105598657 GTGTGCCCAGGCCATGTAACTCACTATTTGTGCTTAA
1 GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAA
105598694 AAAACCATAT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (62 bp):
GTGTGCCCAGGCCATGTAACTCACTGTTTGTACTTAAGAACCACACGGCCAGGGACACAAGC
Found at i:105611531 original size:12 final size:12
Alignment explanation
Indices: 105611514--105611539 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
105611504 AAAAATTAAT
105611514 AAAATAAAATAA
1 AAAATAAAATAA
105611526 AAAATAAAATAA
1 AAAATAAAATAA
105611538 AA
1 AA
105611540 TAGGATAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:105619133 original size:22 final size:22
Alignment explanation
Indices: 105619099--105619172 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
105619089 CACTAAGTCA
* * *
105619099 ACAGGGCGGCTCAACGTCGTAG
1 ACAGGACGACTCAACGTCATAG
* *
105619121 ACAGGACGACTCAACGTTATAA
1 ACAGGACGACTCAACGTCATAG
* *
105619143 ATAGGACGACTCAATGTCATAG
1 ACAGGACGACTCAACGTCATAG
105619165 ACAGGACG
1 ACAGGACG
105619173 GCTAAAGGCC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (22 bp):
ACAGGACGACTCAACGTCATAG
Found at i:105619449 original size:27 final size:27
Alignment explanation
Indices: 105619419--105619479 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
105619409 GGGCATAATC
105619419 GTCATTCTACCA-TACAAGGGTATTACG
1 GTCATT-TACCACTACAAGGGTATTACG
** *
105619446 GTCATTTTGCACTACAAGGGTATTTCG
1 GTCATTTACCACTACAAGGGTATTACG
*
105619473 GTGATTT
1 GTCATTT
105619480 TACAAATCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (27 bp):
GTCATTTACCACTACAAGGGTATTACG
Found at i:105622444 original size:27 final size:27
Alignment explanation
Indices: 105622398--105622450 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
105622388 CAGTAATAGT
*
105622398 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
105622425 TGGGCCTAAGCCCAGT-ACAGAATCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
105622451 TATCAGATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:105622625 original size:22 final size:22
Alignment explanation
Indices: 105622595--105622641 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
105622585 AAGTCAACAA
*
105622595 GACGGCTCAACGCCGTAGAAAG
1 GACGACTCAACGCCGTAGAAAG
* *
105622617 GACGACTCAACGTCGTAGACAG
1 GACGACTCAACGCCGTAGAAAG
105622639 GAC
1 GAC
105622642 AGCTAAAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.28, G:0.30, T:0.11
Consensus pattern (22 bp):
GACGACTCAACGCCGTAGAAAG
Found at i:105624515 original size:35 final size:35
Alignment explanation
Indices: 105624474--105624565 Score: 150
Period size: 35 Copynumber: 2.6 Consensus size: 35
105624464 ATTTCTAGTA
*
105624474 AGCATGCTTAACATGCGAATCAGAATTAGAATAAT
1 AGCATGCTTAACATGCGAATCAGAATCAGAATAAT
*
105624509 -GACATGCTTAACATGCGAATCATAATCAGAATAAT
1 AG-CATGCTTAACATGCGAATCAGAATCAGAATAAT
105624544 AGCATGCTTAACATGCGAATCA
1 AGCATGCTTAACATGCGAATCA
105624566 AAAAATCAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 1 0.02
35 51 0.96
36 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (35 bp):
AGCATGCTTAACATGCGAATCAGAATCAGAATAAT
Found at i:105624577 original size:35 final size:34
Alignment explanation
Indices: 105624474--105624577 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 34
105624464 ATTTCTAGTA
* * *
105624474 AGCATGCTTAACATGCGAATCAGAATTAGAATAAT
1 AGCATGCTTAACATGCGAATCAAAAAT-CAATAAT
*
105624509 -GACATGCTTAACATGCGAATC-ATAATCAGAATAAT
1 AG-CATGCTTAACATGCGAATCAAAAATC--AATAAT
105624544 AGCATGCTTAACATGCGAATCAAAAAATCAATAA
1 AGCATGCTTAACATGCGAATC-AAAAATCAATAA
105624578 ATCGTCGTCA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
34 3 0.05
35 49 0.84
36 1 0.02
37 5 0.09
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.24
Consensus pattern (34 bp):
AGCATGCTTAACATGCGAATCAAAAATCAATAAT
Found at i:105625096 original size:4 final size:4
Alignment explanation
Indices: 105625087--105625124 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
105625077 CAAATTAAAC
105625087 AAAG AAAG AAAG AAAG AAA- AGAA- AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG A-AAG AAAG AAAG AAAG AAA
105625125 AAGAAGAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:105625113 original size:23 final size:23
Alignment explanation
Indices: 105625087--105625132 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
105625077 CAAATTAAAC
105625087 AAAGAAAGAAAGAAAGAA-AAGAA
1 AAAGAAAGAAAGAAA-AAGAAGAA
105625110 AAAGAAAGAAAGAAAAAGAAGAA
1 AAAGAAAGAAAGAAAAAGAAGAA
105625133 GACAACGTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAAGAAAAAGAAGAA
Found at i:105626252 original size:43 final size:43
Alignment explanation
Indices: 105626204--105626286 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
105626194 GTGATTGAAT
* *
105626204 TTGAAATGGAAAAGATGAGAAATGAATATGAGATGAGAAAACA
1 TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAAACA
* * *
105626247 TTGAAATGGTAAAGATGAGAAAAGACTATGAAATGGGAAA
1 TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAA
105626287 TGAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.52, C:0.02, G:0.27, T:0.19
Consensus pattern (43 bp):
TTGAAATGGAAAAGATGAGAAAAGAATATGAAATGAGAAAACA
Found at i:105628831 original size:17 final size:17
Alignment explanation
Indices: 105628809--105628842 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
105628799 CATTGACATG
* *
105628809 AAAATGTAATGACAATA
1 AAAATGCAATGAAAATA
105628826 AAAATGCAATGAAAATA
1 AAAATGCAATGAAAATA
105628843 TATACTTATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGAAAATA
Found at i:105629608 original size:42 final size:41
Alignment explanation
Indices: 105629562--105629658 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 41
105629552 TCCTAGAAGT
105629562 GGTCTTACATGTATCAAATATCGATGCC-ACTATCCCAGACAG
1 GGTCTTACATGTATCAAATAT-GATGCCGA-TATCCCAGACAG
* * * *
105629604 GGTCTTACACGAAATCAAATATGATGCCGATGTCCCAGACAT
1 GGTCTTACATG-TATCAAATATGATGCCGATATCCCAGACAG
*
105629646 GGTCTTTCATGTA
1 GGTCTTACATGTA
105629659 GATCTCAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.02
42 35 0.76
43 10 0.22
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (41 bp):
GGTCTTACATGTATCAAATATGATGCCGATATCCCAGACAG
Found at i:105631231 original size:42 final size:43
Alignment explanation
Indices: 105631137--105631232 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 43
105631127 CTGTGTGTCA
*
105631137 CACACGGGCAACACACATGGATGTGTGACCCAAGTTAGTGAGT
1 CACACGGGCAACACACACGGATGTGTGACCCAAGTTAGTGAGT
* * * * * *
105631180 CATATGGGCAA-AGACACGGGTGTGTGTCTCAAGTTAGTGAGT
1 CACACGGGCAACACACACGGATGTGTGACCCAAGTTAGTGAGT
*
105631222 TACACGGGCAA
1 CACACGGGCAA
105631233 GGAAATGGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
42 34 0.79
43 9 0.21
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (43 bp):
CACACGGGCAACACACACGGATGTGTGACCCAAGTTAGTGAGT
Found at i:105633756 original size:25 final size:25
Alignment explanation
Indices: 105633722--105633789 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
105633712 TACACGAAAT
* *
105633722 AATGATCACACAAGCTGTAATTATA
1 AATGCTCACACAAGCTGTAACTATA
* ** *
105633747 ATTGCTCACATGAGCTATAACTATA
1 AATGCTCACACAAGCTGTAACTATA
*
105633772 AATGCTCACACAGGCTGT
1 AATGCTCACACAAGCTGT
105633790 GAAATGGACC
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTAACTATA
Found at i:105636522 original size:56 final size:56
Alignment explanation
Indices: 105636434--105636541 Score: 207
Period size: 56 Copynumber: 1.9 Consensus size: 56
105636424 GGCGTTAGAC
*
105636434 ACGCCGTGTGTCTAGGCCGTGGCAAAATAGGGCATACATACTGACTTGTCCATCTA
1 ACGCCGTGTGTCTAGGCCGTGGCAAAACAGGGCATACATACTGACTTGTCCATCTA
105636490 ACGCCGTGTGTCTAGGCCGTGGCAAAACAGGGCATACATACTGACTTGTCCA
1 ACGCCGTGTGTCTAGGCCGTGGCAAAACAGGGCATACATACTGACTTGTCCA
105636542 CATGGCCAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.23
Consensus pattern (56 bp):
ACGCCGTGTGTCTAGGCCGTGGCAAAACAGGGCATACATACTGACTTGTCCATCTA
Found at i:105637278 original size:19 final size:19
Alignment explanation
Indices: 105637254--105637292 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
105637244 CTAGCCTATA
*
105637254 CATGCCATACTTTAATGTT
1 CATGCCATACTTGAATGTT
105637273 CATGCCATACTTGAATGTT
1 CATGCCATACTTGAATGTT
105637292 C
1 C
105637293 GCATTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (19 bp):
CATGCCATACTTGAATGTT
Found at i:105638168 original size:26 final size:24
Alignment explanation
Indices: 105638127--105638177 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 24
105638117 AACATTAATC
105638127 ATTCATATCATATATTCATCAACTAA
1 ATTCATATCATATATTCA--AACTAA
105638153 ATTCATACTCAT-TATTCAAACTAA
1 ATTCATA-TCATATATTCAAACTAA
105638177 A
1 A
105638178 AAATACCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 7 0.29
26 13 0.54
27 4 0.17
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTCATATCATATATTCAAACTAA
Found at i:105638998 original size:43 final size:42
Alignment explanation
Indices: 105638927--105639076 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
105638917 CGAAAAGCTC
* * * **
105638927 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAATCAA
* * * * *
105638969 ATATTGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAAGGTCTTACATGTAATCAA
105639012 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCATA
1 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGT-AATCA-A
*
105639056 AGT-CGATGCCAACGTCCCAGA
1 A-TACGATGCCAATGTCCCAGA
105639077 TGTAGTCTTA
Statistics
Matches: 89, Mismatches: 15, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 31 0.35
43 38 0.43
44 19 0.21
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAATCAA
Found at i:105639073 original size:86 final size:85
Alignment explanation
Indices: 105638927--105639093 Score: 196
Period size: 86 Copynumber: 2.0 Consensus size: 85
105638917 CGAAAAGCTC
* ** *
105638927 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGAC
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGA-
*
105638992 AG-GGTCTTACACGAAATCAA
65 AGTAGTCTTACACGAAATCAA
* * *
105639012 ATACGATGCCAATGTCCCAGACAAGGTCTTACATGTAAATCATAA-GTCGATGCCAAC-GTCCCA
1 ATACAATGCCAACGTCCCAGACAAGGTCTTACATGT-AATCA-AATATCGATGCC-ACTGTCCCA
*
105639075 GATGTAGTCTTACACGAAA
63 GAAGTAGTCTTACACGAAA
105639094 ACACATATCG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
85 32 0.46
86 33 0.48
87 4 0.06
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (85 bp):
ATACAATGCCAACGTCCCAGACAAGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAA
GTAGTCTTACACGAAATCAA
Found at i:105640346 original size:2 final size:2
Alignment explanation
Indices: 105640339--105640390 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
105640329 TCATGATTCG
*
105640339 CA CA CA CA CA CA AA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
105640381 CA TA CA CA CA
1 CA CA CA CA CA
105640391 TATATATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.46, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:105640660 original size:43 final size:43
Alignment explanation
Indices: 105640612--105640775 Score: 183
Period size: 43 Copynumber: 3.8 Consensus size: 43
105640602 CAACGCCAAC
* * *
105640612 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
* * *
105640655 GTCCCAGACAGGGTCTTACCCGAAATCAAATA-CGATGCGA-T
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
*
105640696 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-
1 GTCCCAGACATGGTCTTACACG-AAATCA-AATATCGATGCC-ACT
* * *
105640740 GTCCCAAACGTGGTCTTACACGAAATCACATATCGA
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCGA
105640776 AAATCCTATG
Statistics
Matches: 101, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 21 0.21
42 14 0.14
43 45 0.45
44 21 0.21
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCGATGCCACT
Found at i:105640755 original size:85 final size:84
Alignment explanation
Indices: 105640612--105640767 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 84
105640602 CAACGCCAAC
* * * *
105640612 GTCCCAGACTTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACCCG
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACG
105640677 AAATCAAATACGATGCGAT
66 AAATCAAATACGATGCGAT
*
105640696 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-GTCCCAAAC-GTGGTCTTA
1 GTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAAACAG-GGTCTTA
105640758 CACGAAATCA
62 CACGAAATCA
105640768 CATATCGAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
84 22 0.35
85 37 0.59
86 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (84 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAACAGGGTCTTACACG
AAATCAAATACGATGCGAT
Found at i:105642425 original size:20 final size:20
Alignment explanation
Indices: 105642400--105642438 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
105642390 ATATGGACTA
105642400 ATATGA-AACAAAATAGAAAT
1 ATATGACAA-AAAATAGAAAT
*
105642420 ATATGACAAAAATTAGAAA
1 ATATGACAAAAAATAGAAA
105642439 CAAGAGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (20 bp):
ATATGACAAAAAATAGAAAT
Found at i:105649793 original size:18 final size:17
Alignment explanation
Indices: 105649770--105649806 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
105649760 TTTAAATCCA
*
105649770 TATCATGCTTAAGCTAAT
1 TATCATGCTAAAGC-AAT
105649788 TATCATGCTAAAGCAAT
1 TATCATGCTAAAGCAAT
105649805 TA
1 TA
105649807 AAAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (17 bp):
TATCATGCTAAAGCAAT
Found at i:105650286 original size:27 final size:26
Alignment explanation
Indices: 105650247--105650334 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
105650237 AGCAAGGCTG
* * *
105650247 CCAGAACCGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
105650273 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
105650300 CCAAAAACAGATATTTGTGGCAGAGCCA
1 CC-AGAACAGATA-TTGTGGCAGAGCCA
105650328 CCAGAAC
1 CCAGAAC
105650335 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.09
27 31 0.57
28 18 0.33
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:105654322 original size:27 final size:27
Alignment explanation
Indices: 105654292--105654487 Score: 193
Period size: 27 Copynumber: 7.3 Consensus size: 27
105654282 TACTGAAATG
*
105654292 CCCTCGATTTGTA-AGATTACCATTTTA
1 CCCTCGATTTATAGA-ATTACCATTTTA
** *
105654319 CCCTCGATTTATAGAATTACTGTTTCA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
105654346 -CCTCGATTTACAAAATTGCC-GTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
105654371 CCCTCGATTTATAGAATTACCATTTTG
1 CCCTCGATTTATAGAATTACCATTTTA
*
105654398 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
105654425 CCCTCGATTTATAAAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
105654452 CCC-CCAGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCATTTTA
*
105654479 TCCTCGATT
1 CCCTCGATT
105654488 GTGAAATTAC
Statistics
Matches: 138, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
25 3 0.02
26 35 0.25
27 97 0.70
28 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:105654392 original size:79 final size:80
Alignment explanation
Indices: 105654292--105654442 Score: 234
Period size: 79 Copynumber: 1.9 Consensus size: 80
105654282 TACTGAAATG
* *
105654292 CCCTCGATTTGTAAGATTACCATTTTACCCTCGATTTATAGAATTACTGTTTCA-CCTCGATTTA
1 CCCTCGATTTATAAGATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
105654356 CAAAATTGCCGTTTA
66 CAAAATTGCCGTTTA
* *
105654371 CCCTCGATTTAT-AGAATTACCATTTTGCCCTCGATTTATAGAATTACCGTTTTACCCTCGATTT
1 CCCTCGATTTATAAG-ATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTT
*
105654435 ATAAAATT
65 ACAAAATT
105654443 ATCATTTTAC
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 2 0.03
79 47 0.72
80 16 0.25
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.40
Consensus pattern (80 bp):
CCCTCGATTTATAAGATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTCGATTTA
CAAAATTGCCGTTTA
Found at i:105654443 original size:54 final size:53
Alignment explanation
Indices: 105654290--105654487 Score: 224
Period size: 54 Copynumber: 3.7 Consensus size: 53
105654280 GTTACTGAAA
** * *
105654290 TGCCCTCGATTTGTAAGATTACCATTTTACCCTCGATTTATAGAATTAC-TGTT
1 TGCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACAT-TT
*
105654343 T-CACCTCGATTTACAAAATTGCCG-TTTACCCTCGATTTATAGAATTACCATTT
1 TGC-CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTA-CATTT
* * *
105654396 TGCCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTATCATTT
1 TGCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTA-CATTT
* * *
105654450 TACCC-CCAGTTTACAAAATTACCGTTTTATCCTCGATT
1 TGCCCTCGA-TTTACAAAATTACCGTTTTACCCTCGATT
105654488 GTGAAATTAC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
52 24 0.19
53 41 0.33
54 59 0.48
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (53 bp):
TGCCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACATTT
Found at i:105654521 original size:27 final size:27
Alignment explanation
Indices: 105654486--105654642 Score: 140
Period size: 27 Copynumber: 5.8 Consensus size: 27
105654476 TTATCCTCGA
* * *
105654486 TTGTGAAATTACTAGAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
105654513 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* ** * *
105654540 TTGTAAAATTACCGAAATACCATTGGC
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
105654567 TTGTGAAATTATCGAAATA-CCCTAAAT
1 TTGTAAAATTACCAAAATACCCCT-AGT
105654594 TTGTAAAATTACCAAAATACCCCT-GAT
1 TTGTAAAATTACCAAAATACCCCTAG-T
**
105654621 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
105654643 TTGACTTTCT
Statistics
Matches: 105, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.04
27 97 0.92
28 4 0.04
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Done.