Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 5 of 141
Found at i:1135888 original size:14 final size:14
Alignment explanation
Indices: 1135869--1135896 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1135859 ATCATTAGAT
1135869 AAATCAAAATTTAA
1 AAATCAAAATTTAA
1135883 AAATCAAAATTTAA
1 AAATCAAAATTTAA
1135897 GCTAAAGATT
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:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATCAAAATTTAA
Found at i:1144050 original size:13 final size:13
Alignment explanation
Indices: 1144032--1144056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1144022 ACGAAATTCA
1144032 AATTAAAAAATTT
1 AATTAAAAAATTT
1144045 AATTAAAAAATT
1 AATTAAAAAATT
1144057 CTCAAATTCC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAAAATTT
Found at i:1164856 original size:20 final size:21
Alignment explanation
Indices: 1164809--1164856 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
1164799 AATTTTTAAA
1164809 TAATTTAATGACTTAAATAAT
1 TAATTTAATGACTTAAATAAT
** * *
1164830 TTTTTTAAT-AGTTAAATGAT
1 TAATTTAATGACTTAAATAAT
1164850 TAATTTA
1 TAATTTA
1164857 TAACTTTTTG
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (21 bp):
TAATTTAATGACTTAAATAAT
Found at i:1183121 original size:32 final size:31
Alignment explanation
Indices: 1183056--1183122 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1183046 CGTAAAAACA
* *
1183056 CAATAACTTAAATAAAAACTTTTGAATAATT
1 CAATAACTTAAATAAAAAATTTTAAATAATT
* *
1183087 CAATAATTTAAATAAAAAATTTTCAAATAGTT
1 CAATAACTTAAATAAAAAATTTT-AAATAATT
1183119 CAAT
1 CAAT
1183123 GACTGTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.52, C:0.09, G:0.03, T:0.36
Consensus pattern (31 bp):
CAATAACTTAAATAAAAAATTTTAAATAATT
Found at i:1183319 original size:3 final size:3
Alignment explanation
Indices: 1183311--1183342 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1183301 GTATATTTTA
1183311 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1183343 AATAAAGTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1184113 original size:13 final size:14
Alignment explanation
Indices: 1184087--1184115 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1184077 AAAATGTTTG
1184087 TTTGTATATATTAT
1 TTTGTATATATTAT
1184101 TTTGTAT-TATTAT
1 TTTGTATATATTAT
1184114 TT
1 TT
1184116 ATCATATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (14 bp):
TTTGTATATATTAT
Found at i:1190933 original size:196 final size:197
Alignment explanation
Indices: 1190598--1190993 Score: 785
Period size: 196 Copynumber: 2.0 Consensus size: 197
1190588 TTAACAGAGT
1190598 TAATATTTTTAAAGTTTTTATGGTTTTAAAAAAAAATTCTAGACATTTTTTATACAGTAAACGTT
1 TAATATTTTTAAAGTTTTTATGGTTTTAAAAAAAAATTCTAGACATTTTTTATACAGTAAACGTT
1190663 AACTCTATTAAAAATTTGAACTTTTTTTATTCTTTTTAATAGTATAATGACTAAATTGATCTATT
66 AACTCTATTAAAAATTTGAACTTTTTTTATTCTTTTTAATAGTATAATGACTAAATTGATCTATT
1190728 TAGTGATAGAGGAACTAATTTGATCCAATCCCTATAATACAGGGACCTCCCAGGTGCTTTAACTT
131 TAGTGATAGAGGAACTAATTTGATCCAATCCCTATAATACAGGGACCTCCCAGGTGCTTTAACTT
1190793 GA
196 GA
1190795 TAATATTTTTAAA-TTTTTATGGTTTTAAAAAAAAATTCTAGACATTTTTTATACAGTAAACGTT
1 TAATATTTTTAAAGTTTTTATGGTTTTAAAAAAAAATTCTAGACATTTTTTATACAGTAAACGTT
1190859 AACTCTATTAAAAATTTGAACTTTTTTTATTCTTTTTAATAGTATAATGACTAAATTGATCTATT
66 AACTCTATTAAAAATTTGAACTTTTTTTATTCTTTTTAATAGTATAATGACTAAATTGATCTATT
1190924 TAGTGATAGAGGAACTAATTTGATCCAATCCCTATAATACAGGGACCTCCCAGGTGCTTTAACTT
131 TAGTGATAGAGGAACTAATTTGATCCAATCCCTATAATACAGGGACCTCCCAGGTGCTTTAACTT
1190989 GA
196 GA
1190991 TAA
1 TAA
1190994 AGATCATATC
Statistics
Matches: 199, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
196 186 0.93
197 13 0.07
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.41
Consensus pattern (197 bp):
TAATATTTTTAAAGTTTTTATGGTTTTAAAAAAAAATTCTAGACATTTTTTATACAGTAAACGTT
AACTCTATTAAAAATTTGAACTTTTTTTATTCTTTTTAATAGTATAATGACTAAATTGATCTATT
TAGTGATAGAGGAACTAATTTGATCCAATCCCTATAATACAGGGACCTCCCAGGTGCTTTAACTT
GA
Found at i:1191659 original size:20 final size:20
Alignment explanation
Indices: 1191634--1191678 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
1191624 AATAATTCGA
*
1191634 AAATTTTTATTTAAGTCACT
1 AAATTTTTATTTAAATCACT
*
1191654 AAATTTTTATTTAAATTACT
1 AAATTTTTATTTAAATCACT
1191674 AAATT
1 AAATT
1191679 CTTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTTTTATTTAAATCACT
Found at i:1195424 original size:13 final size:13
Alignment explanation
Indices: 1195406--1195431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1195396 TTTAAGAAGC
1195406 GGACAAATCGATT
1 GGACAAATCGATT
1195419 GGACAAATCGATT
1 GGACAAATCGATT
1195432 TGATTCTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (13 bp):
GGACAAATCGATT
Found at i:1196098 original size:60 final size:61
Alignment explanation
Indices: 1195963--1196108 Score: 161
Period size: 60 Copynumber: 2.4 Consensus size: 61
1195953 GGACCTAAAT
* * * * *
1195963 TTTTTTTTGATCCAAGTTTAAGCCCTGAATTTGGTAATTCTTCTCACATTTGGGGCATGAAC
1 TTTTTTTTGATCCAAG-TTAGGCCTTAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
* * * *
1196025 TTTTTTGT-ATCCAAGTTAGGCCTTAAACTTGGCAATTCTTTTTACA-TTGGGGCTTGAAC
1 TTTTTTTTGATCCAAGTTAGGCCTTAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
* * *
1196084 TTTTTTTTGGTCCAAATTAGTCCTT
1 TTTTTTTTGATCCAAGTTAGGCCTT
1196109 GAAAACCTTA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
59 19 0.27
60 37 0.53
61 7 0.10
62 7 0.10
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (61 bp):
TTTTTTTTGATCCAAGTTAGGCCTTAAACTTGGCAATTCTTCTCACATTTGGGGCATGAAC
Found at i:1196761 original size:30 final size:29
Alignment explanation
Indices: 1196727--1196798 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
1196717 GTCTTTGTAC
*
1196727 CTTTTATAGATTTGGAATTTAGTCTCTATA
1 CTTTTATAGATTT-GAATTTAGTCCCTATA
** *
1196757 CTTTTATTTATATGAATTTAGTCCCTATA
1 CTTTTATAGATTTGAATTTAGTCCCTATA
1196786 CATTTT-TAGATTT
1 C-TTTTATAGATTT
1196799 CAAAATTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
29 20 0.59
30 14 0.41
ACGTcount: A:0.26, C:0.11, G:0.10, T:0.53
Consensus pattern (29 bp):
CTTTTATAGATTTGAATTTAGTCCCTATA
Found at i:1197704 original size:18 final size:18
Alignment explanation
Indices: 1197677--1197716 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1197667 ACATTACGTG
1197677 AAAAACTAAATAAAATAA
1 AAAAACTAAATAAAATAA
* *
1197695 AAAAATTAAATTAAATAA
1 AAAAACTAAATAAAATAA
1197713 AAAA
1 AAAA
1197717 GGAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAACTAAATAAAATAA
Found at i:1207562 original size:116 final size:116
Alignment explanation
Indices: 1207475--1207708 Score: 405
Period size: 116 Copynumber: 2.0 Consensus size: 116
1207465 AACTCCTTTT
1207475 TTGTTCTTTTTTAATTAAATAAAAAAATTTATATTTTACTTAATAAAAAAATTAATAGAATAAAA
1 TTGTTCTTTTTT-ATTAAATAAAAAAATTTATATTTTACTTAATAAAAAAATTAATAGAATAAAA
** *
1207540 ATATTACTAAATTAAGAAAAAAATTGAAAGGGAATGGCCCGAAAATAGCGAG
65 ATATTACTAAATTAAGAAAAAAATCAAAAGGGAATGGCCCGAAAATACCGAG
1207592 TTGTTCTTTTTTATTAAATAAAAAAATTTATATTTTACTTAATAAAAAAATTAATAGAATAAAAA
1 TTGTTCTTTTTTATTAAATAAAAAAATTTATATTTTACTTAATAAAAAAATTAATAGAATAAAAA
** *
1207657 TATTACTAAATTAAGAAAAAAATTGAAAGGGAATGGCCCGAAAATAGCGAG
66 TATTACTAAATTAAGAAAAAAATCAAAAGGGAATGGCCCGAAAATACCGAG
1207708 T
1 T
1207709 CACCGGCCAT
Statistics
Matches: 117, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
116 105 0.90
117 12 0.10
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (116 bp):
TTGTTCTTTTTTATTAAATAAAAAAATTTATATTTTACTTAATAAAAAAATTAATAGAATAAAAA
TATTACTAAATTAAGAAAAAAATCAAAAGGGAATGGCCCGAAAATACCGAG
Found at i:1210975 original size:4 final size:4
Alignment explanation
Indices: 1210966--1210996 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1210956 TTGCGTGCAC
*
1210966 CATA CATA CATA CATA CATA CAAA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
1210997 GTAAAGAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:1218466 original size:14 final size:14
Alignment explanation
Indices: 1218443--1218473 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
1218433 TATTGCGTTC
*
1218443 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
1218457 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
1218471 TTA
1 TTA
1218474 AAACAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:1219829 original size:11 final size:11
Alignment explanation
Indices: 1219803--1219835 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
1219793 TTTTCATTTT
1219803 TAAAAATAAAA
1 TAAAAATAAAA
1219814 T-AAAATAAAA
1 TAAAAATAAAA
*
1219824 TAAAAATTAAA
1 TAAAAATAAAA
1219835 T
1 T
1219836 TGTGTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:1230845 original size:22 final size:23
Alignment explanation
Indices: 1230807--1230849 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
1230797 TCGTAAAATT
1230807 AAAAATGAAAAACGAATCAATCC
1 AAAAATGAAAAACGAATCAATCC
1230830 AAAAAT-AATAAA-GAATCAAT
1 AAAAATGAA-AAACGAATCAAT
1230850 TTATTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.16
Consensus pattern (23 bp):
AAAAATGAAAAACGAATCAATCC
Found at i:1232120 original size:19 final size:19
Alignment explanation
Indices: 1232098--1232134 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1232088 CTTGCCCATT
*
1232098 GCAAGAGAAGTAGAGAAAA
1 GCAAGAGAAGCAGAGAAAA
1232117 GCAAGAGAAGCAGAGAAA
1 GCAAGAGAAGCAGAGAAA
1232135 GAAAAACAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.08, G:0.32, T:0.03
Consensus pattern (19 bp):
GCAAGAGAAGCAGAGAAAA
Found at i:1232175 original size:38 final size:38
Alignment explanation
Indices: 1232119--1232194 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
1232109 AGAGAAAAGC
*
1232119 AAGAGAAGCAGAGAAAGAAAAACAGGGATTGATGAAGA
1 AAGAGAAGCAGAGAAAGAAAAACAAGGATTGATGAAGA
*
1232157 AAGATAAGCAGAGAAAGAAAAACAAGGATTGATGAAGA
1 AAGAGAAGCAGAGAAAGAAAAACAAGGATTGATGAAGA
1232195 TGAGAGAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.57, C:0.05, G:0.29, T:0.09
Consensus pattern (38 bp):
AAGAGAAGCAGAGAAAGAAAAACAAGGATTGATGAAGA
Found at i:1232535 original size:38 final size:38
Alignment explanation
Indices: 1232482--1232554 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
1232472 TACCCATTGC
* *
1232482 AAGAGAAGCAGAGAAAGAAAAATAGGGATTGATGAAGA
1 AAGAGAAGCAGAGAAAGAAAAACAGGGATCGATGAAGA
*
1232520 AAGAGAAGCATAGAAAGAAAAACAGGGATCGATGA
1 AAGAGAAGCAGAGAAAGAAAAACAGGGATCGATGA
1232555 CGAGAGAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.55, C:0.05, G:0.30, T:0.10
Consensus pattern (38 bp):
AAGAGAAGCAGAGAAAGAAAAACAGGGATCGATGAAGA
Found at i:1235921 original size:2 final size:2
Alignment explanation
Indices: 1235914--1235942 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1235904 AGAACAGAGT
1235914 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1235943 TACCTTGAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1236485 original size:15 final size:16
Alignment explanation
Indices: 1236453--1236484 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1236443 AATCCAAATT
*
1236453 ATTTAAATTAAAAAAA
1 ATTTAAACTAAAAAAA
1236469 ATTTAAACTAAAAAAA
1 ATTTAAACTAAAAAAA
1236485 TCAAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATTTAAACTAAAAAAA
Found at i:1246673 original size:24 final size:25
Alignment explanation
Indices: 1246634--1246689 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
1246624 CATAGATCAG
* *
1246634 TTTTTAATAGTAAAAATGGATGAAA
1 TTTTTAACAGTAAAAATGAATGAAA
1246659 TTTTTAACAGTAAAAATGAATGAAA
1 TTTTTAACAGTAAAAATGAATGAAA
1246684 TTTTTA
1 TTTTTA
1246690 GGAGAATGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.39
Consensus pattern (25 bp):
TTTTTAACAGTAAAAATGAATGAAA
Found at i:1250292 original size:19 final size:20
Alignment explanation
Indices: 1250247--1250292 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
1250237 TTTTTATTTA
1250247 AATTTTATTATATTATATATT
1 AATTTT-TTATATTATATATT
1250268 --TGTTTTTATATTATA-ATT
1 AAT-TTTTTATATTATATATT
1250286 AATTTTT
1 AATTTTT
1250293 AAATAGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
18 3 0.14
19 15 0.68
20 4 0.18
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
AATTTTTTATATTATATATT
Found at i:1251170 original size:143 final size:144
Alignment explanation
Indices: 1251010--1251297 Score: 569
Period size: 143 Copynumber: 2.0 Consensus size: 144
1251000 GTGATAGTGA
1251010 TACGTGAATTTTATTTTAGTGCAATTATATAGTTTAAAATTTTATTTTATTCAATTGTGCACGTT
1 TACGTGAATTTTATTTTAGTGCAATTATATAGTTTAAAATTTTATTTTATTCAATTGTGCACGTT
1251075 ACATTTCAAATTTAATTTAATTATATACATTTAAAAATAAATATATACATTCATTTATTTTAAAG
66 ACATTTCAAATTTAATTTAATTATATACATTTAAAAATAAATATATACATTCATTTATTTTAAAG
1251140 TTGGATAAATTTAT
131 TTGGATAAATTTAT
1251154 TACGTGAA-TTTATTTTAGTGCAATTATATAGTTTAAAATTTTATTTTATTCAATTGTGCACGTT
1 TACGTGAATTTTATTTTAGTGCAATTATATAGTTTAAAATTTTATTTTATTCAATTGTGCACGTT
1251218 ACATTTCAAATTTAATTTAATTATATACATTTAAAAATAAATATATACATTCATTTATTTTAAAG
66 ACATTTCAAATTTAATTTAATTATATACATTTAAAAATAAATATATACATTCATTTATTTTAAAG
1251283 TTGGATAAATTTAT
131 TTGGATAAATTTAT
1251297 T
1 T
1251298 TGTTTATATA
Statistics
Matches: 144, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 136 0.94
144 8 0.06
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.48
Consensus pattern (144 bp):
TACGTGAATTTTATTTTAGTGCAATTATATAGTTTAAAATTTTATTTTATTCAATTGTGCACGTT
ACATTTCAAATTTAATTTAATTATATACATTTAAAAATAAATATATACATTCATTTATTTTAAAG
TTGGATAAATTTAT
Found at i:1253463 original size:27 final size:27
Alignment explanation
Indices: 1253433--1253484 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
1253423 TGACTAAAAC
1253433 AGAAAAA-TTCAAATAGTTGGGTGACAA
1 AGAAAAAGTT-AAATAGTTGGGTGACAA
*
1253460 AGAAAAAGTTTAATAGTTGGGTGAC
1 AGAAAAAGTTAAATAGTTGGGTGAC
1253485 TATTTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (27 bp):
AGAAAAAGTTAAATAGTTGGGTGACAA
Found at i:1259262 original size:120 final size:120
Alignment explanation
Indices: 1259049--1259283 Score: 470
Period size: 120 Copynumber: 2.0 Consensus size: 120
1259039 AAGTCGGGTT
1259049 GTGGCTTGATTCTAAAAAATTCAAGCCCAAACTCATTTTCTATTCAACCCGCCCAAAATACTTGT
1 GTGGCTTGATTCTAAAAAATTCAAGCCCAAACTCATTTTCTATTCAACCCGCCCAAAATACTTGT
1259114 TTCATTATTCATAATCTAATAAAATATTAAAAATACATTTTTATATTAATTTTGG
66 TTCATTATTCATAATCTAATAAAATATTAAAAATACATTTTTATATTAATTTTGG
1259169 GTGGCTTGATTCTAAAAAATTCAAGCCCAAACTCATTTTCTATTCAACCCGCCCAAAATACTTGT
1 GTGGCTTGATTCTAAAAAATTCAAGCCCAAACTCATTTTCTATTCAACCCGCCCAAAATACTTGT
1259234 TTCATTATTCATAATCTAATAAAATATTAAAAATACATTTTTATATTAAT
66 TTCATTATTCATAATCTAATAAAATATTAAAAATACATTTTTATATTAAT
1259284 GTTGTATATA
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (120 bp):
GTGGCTTGATTCTAAAAAATTCAAGCCCAAACTCATTTTCTATTCAACCCGCCCAAAATACTTGT
TTCATTATTCATAATCTAATAAAATATTAAAAATACATTTTTATATTAATTTTGG
Found at i:1260430 original size:2 final size:2
Alignment explanation
Indices: 1260423--1260449 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1260413 TTACAAAAAC
1260423 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1260450 TTGATTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1261810 original size:96 final size:96
Alignment explanation
Indices: 1261646--1261843 Score: 369
Period size: 96 Copynumber: 2.1 Consensus size: 96
1261636 CAATTTAACC
* *
1261646 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTTCGGTAGCTGATTT
1 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
1261711 AATAGGTTCCAAGTCCCCAACATAATTTATT
66 AATAGGTTCCAAGTCCCCAACATAATTTATT
*
1261742 GATTTCAATACTAAAGAAGGGGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
1 GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
1261807 AATAGGTTCCAAGTCCCCAACATAATTTATT
66 AATAGGTTCCAAGTCCCCAACATAATTTATT
1261838 GATTTC
1 GATTTC
1261844 TAAAGTGGCT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (96 bp):
GATTTCAATACTAAAGAAGGAGAAACTGATATCTAGAGAAAAATAACATTTCCAGTAGCTGATTT
AATAGGTTCCAAGTCCCCAACATAATTTATT
Found at i:1267640 original size:5 final size:5
Alignment explanation
Indices: 1267630--1267654 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1267620 TTACTATCAG
1267630 CTGTA CTGTA CTGTA CTGTA CTGTA
1 CTGTA CTGTA CTGTA CTGTA CTGTA
1267655 ATGGTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (5 bp):
CTGTA
Found at i:1269702 original size:16 final size:16
Alignment explanation
Indices: 1269681--1269731 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
1269671 GATAATTATT
1269681 TTACATATAATATAAA
1 TTACATATAATATAAA
1269697 TTACATAATATATATAAA
1 TTACAT-ATA-ATATAAA
*
1269715 GTAACATAT--TATAAA
1 -TTACATATAATATAAA
1269730 TT
1 TT
1269732 TGAAGACGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 6 0.20
16 6 0.20
17 3 0.10
18 9 0.30
19 5 0.17
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (16 bp):
TTACATATAATATAAA
Found at i:1269721 original size:19 final size:18
Alignment explanation
Indices: 1269685--1269727 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
1269675 ATTATTTTAC
*
1269685 ATATAATATAAATTACATA
1 ATAT-ATATAAATAACATA
1269704 ATATATATAAAGTAACATA
1 ATATATATAAA-TAACATA
*
1269723 TTATA
1 ATATA
1269728 AATTTGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (18 bp):
ATATATATAAATAACATA
Found at i:1270941 original size:29 final size:29
Alignment explanation
Indices: 1270879--1270941 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
1270869 TTGCTACTCG
*
1270879 ACTATGAAAAGTTAAAAAATAGTCATCCA
1 ACTATAAAAAGTTAAAAAATAGTCATCCA
* * * *
1270908 GCTATAAAAAGTTACAAAATGGTCATCGA
1 ACTATAAAAAGTTAAAAAATAGTCATCCA
1270937 ACTAT
1 ACTAT
1270942 TCAATTTTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
ACTATAAAAAGTTAAAAAATAGTCATCCA
Found at i:1272892 original size:6 final size:6
Alignment explanation
Indices: 1272881--1272907 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1272871 TTTGTCATTG
1272881 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1 ATTAAA ATTAAA ATTAAA ATTAAA ATT
1272908 CACTCAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
ATTAAA
Found at i:1278082 original size:16 final size:16
Alignment explanation
Indices: 1278061--1278091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1278051 TGAATGGCTA
*
1278061 AAAATTTAAAAAATAC
1 AAAATTCAAAAAATAC
1278077 AAAATTCAAAAAATA
1 AAAATTCAAAAAATA
1278092 ATTTATAATT
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:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAATTCAAAAAATAC
Found at i:1284898 original size:22 final size:22
Alignment explanation
Indices: 1284855--1284899 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1284845 AAGTCTGAGT
* *
1284855 AAGACTCAAACTTGAATACTTA
1 AAGACTCAAACCTCAATACTTA
1284877 AAGACTCAATACCTCAAT-CTTA
1 AAGACTCAA-ACCTCAATACTTA
1284899 A
1 A
1284900 CCAATAACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (22 bp):
AAGACTCAAACCTCAATACTTA
Found at i:1303830 original size:103 final size:104
Alignment explanation
Indices: 1303701--1303907 Score: 407
Period size: 103 Copynumber: 2.0 Consensus size: 104
1303691 TATTTTTTTA
1303701 ATGGTTCAAATTAATTTGGAAGGTTGACAAATTTATAGTTATTTTTGAAAATGTTACCATTATCT
1 ATGGTTCAAATTAATTTGGAAGGTTGACAAATTTATAGTTATTTTTGAAAATGTTACCATTATCT
1303766 TTAATTGAAATTGGAAAATACAAGATCTTTTCATCCATT
66 TTAATTGAAATTGGAAAATACAAGATCTTTTCATCCATT
1303805 ATGGTTCAAA-TAATTTGGAAGGTTGACAAATTTATAGTTATTTTTGAAAATGTTACCATTATCT
1 ATGGTTCAAATTAATTTGGAAGGTTGACAAATTTATAGTTATTTTTGAAAATGTTACCATTATCT
1303869 TTAATTGAAATTGGAAAATACAAGATCTTTTCATCCATT
66 TTAATTGAAATTGGAAAATACAAGATCTTTTCATCCATT
1303908 TTATAATCTA
Statistics
Matches: 103, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 93 0.90
104 10 0.10
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (104 bp):
ATGGTTCAAATTAATTTGGAAGGTTGACAAATTTATAGTTATTTTTGAAAATGTTACCATTATCT
TTAATTGAAATTGGAAAATACAAGATCTTTTCATCCATT
Found at i:1309709 original size:20 final size:20
Alignment explanation
Indices: 1309678--1309728 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
1309668 TTTTATCACA
* *
1309678 CACACAAAAAAAAATTAAAAT
1 CACATAAAAAACAA-TAAAAT
1309699 CACATAAAAAATCAATAAAAT
1 CACATAAAAAA-CAATAAAAT
1309720 -ACATAAAAA
1 CACATAAAAA
1309729 TAAGCATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 9 0.33
21 16 0.59
22 2 0.07
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.16
Consensus pattern (20 bp):
CACATAAAAAACAATAAAAT
Found at i:1312995 original size:4 final size:4
Alignment explanation
Indices: 1312986--1313057 Score: 144
Period size: 4 Copynumber: 18.0 Consensus size: 4
1312976 GTGTTGATAG
1312986 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1313034 ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT
1313058 GTCGTTTCTC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 68 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1313605 original size:98 final size:98
Alignment explanation
Indices: 1313436--1313632 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
1313426 TTAACAGTAT
** * * *
1313436 TAACAATTGGACTTGAAGTTTGAAATCTAAAAAGTAGAGGAACTAAATTCCTGGAAATAAAAGTA
1 TAACAATTAAACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
* *
1313501 CATTTTCAAATTTGTGAAGAGTATAGGGATCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGACCTA
1313534 TAACAATTAAACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
1 TAACAATTAAACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
1313599 CATTTTCAAATTTGTGAAGAGAATAGGGACCTA
66 CATTTTCAAATTTGTGAAGAGAATAGGGACCTA
1313632 T
1 T
1313633 GACATATTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (98 bp):
TAACAATTAAACTTGAAGTTTGAAACCTAAAAAGCAGAGGAACTAAATTCCTGGAAATAAAAATA
CATTTTCAAATTTGTGAAGAGAATAGGGACCTA
Found at i:1314096 original size:6 final size:6
Alignment explanation
Indices: 1314064--1314094 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1314054 AACCACAACC
*
1314064 ACAAAT ACAAAT ACAAAT ACAAAT ATAAAT A
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT A
1314095 TATATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (6 bp):
ACAAAT
Found at i:1324594 original size:12 final size:11
Alignment explanation
Indices: 1324577--1324606 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
1324567 ACAAAGGTGC
1324577 TTTATTTATTT
1 TTTATTTATTT
1324588 GTTTATTTATTT
1 -TTTATTTATTT
1324600 TTTATTT
1 TTTATTT
1324607 TGAAATAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:1324765 original size:11 final size:12
Alignment explanation
Indices: 1324747--1324778 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
1324737 GGGTTTTTAC
1324747 TTCTTTTTTCTT
1 TTCTTTTTTCTT
1324759 TT-TTTTTTCTT
1 TTCTTTTTTCTT
1324770 TTCTTTTTT
1 TTCTTTTTT
1324779 GGCTTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTCTTTTTTCTT
Found at i:1325456 original size:3 final size:3
Alignment explanation
Indices: 1325432--1325592 Score: 91
Period size: 3 Copynumber: 54.3 Consensus size: 3
1325422 ATATCTTTGC
* * * *
1325432 TAT T-T TAT CAT TAT TTT TAT TAT TAG TAG TAT TAT TAT T-T ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* ** * * * *
1325476 TAT TAT TAT TAT TAT TAA CGT CAT CAT TAC TA- TAG TAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
1325523 TAT TACT T-T TAT TAC TAT TAT TTT TGT TAT TAT TAA TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1325568 TAG TAT TACT T-T TAT TAT TAA TAT T
1 TAT TAT TA-T TAT TAT TAT TAT TAT T
1325593 GTCACTACTA
Statistics
Matches: 123, Mismatches: 25, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
2 10 0.08
3 107 0.87
4 6 0.05
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:1327829 original size:2 final size:2
Alignment explanation
Indices: 1327822--1327861 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1327812 AGGTTGACAA
* *
1327822 AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1327862 GCATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1328746 original size:2 final size:2
Alignment explanation
Indices: 1328739--1328778 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
1328729 AGGTTGACAA
* *
1328739 AT AT AT AT AT AT AT AC AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1328779 GCATAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1331968 original size:2 final size:2
Alignment explanation
Indices: 1331963--1331988 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1331953 AGTGTGTGTG
1331963 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1331989 ACAAGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1334449 original size:12 final size:12
Alignment explanation
Indices: 1334432--1334456 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1334422 TTTTAATCAG
1334432 AATAAAGTATTT
1 AATAAAGTATTT
1334444 AATAAAGTATTT
1 AATAAAGTATTT
1334456 A
1 A
1334457 GACTAACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AATAAAGTATTT
Found at i:1343713 original size:18 final size:17
Alignment explanation
Indices: 1343685--1343719 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1343675 ATTTTTAAGA
*
1343685 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
1343702 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
1343720 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:1343973 original size:16 final size:16
Alignment explanation
Indices: 1343952--1343990 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1343942 TTGATTTGCT
*
1343952 ATTACACAGCTTTTCC
1 ATTACACAGCTATTCC
**
1343968 ATTACACCTCTATTCC
1 ATTACACAGCTATTCC
1343984 ATTACAC
1 ATTACAC
1343991 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.33, G:0.03, T:0.36
Consensus pattern (16 bp):
ATTACACAGCTATTCC
Found at i:1343991 original size:16 final size:16
Alignment explanation
Indices: 1343964--1344005 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1343954 TACACAGCTT
1343964 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
1343980 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
* *
1343996 ATCCAATACA
1 TTCCATTACA
1344006 GCGAACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.31, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:1344231 original size:23 final size:21
Alignment explanation
Indices: 1344185--1344234 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1344175 GCCAACGCCT
*
1344185 GCAAAAAAGACAGAAAAGAGA
1 GCAAAAAAGACAGAAAACAGA
1344206 GCAAAAATAG-CAGAGAAACAGTA
1 GCAAAAA-AGACAGA-AAACAG-A
1344229 GCAAAA
1 GCAAAA
1344235 GTAAATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
22 7 0.28
23 7 0.28
ACGTcount: A:0.62, C:0.12, G:0.22, T:0.04
Consensus pattern (21 bp):
GCAAAAAAGACAGAAAACAGA
Found at i:1346912 original size:18 final size:18
Alignment explanation
Indices: 1346891--1346925 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1346881 TTCGGTTTTG
*
1346891 TAAAATTACATTAAAATA
1 TAAAAATACATTAAAATA
1346909 TAAAAATACATTAAAAT
1 TAAAAATACATTAAAAT
1346926 CACATTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATACATTAAAATA
Found at i:1350517 original size:30 final size:30
Alignment explanation
Indices: 1350481--1350551 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
1350471 TTAGCTGTAC
*
1350481 TTGCATTGTTGTTTGAGACAGTTTTTCTAT
1 TTGCATTGTTGTTTGAGACAATTTTTCTAT
* *
1350511 TTGCATTGTTATTTGAGACAATTTTTGTAT
1 TTGCATTGTTGTTTGAGACAATTTTTCTAT
1350541 TTGCATTGTTG
1 TTGCATTGTTG
1350552 ACAATTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.54
Consensus pattern (30 bp):
TTGCATTGTTGTTTGAGACAATTTTTCTAT
Found at i:1357325 original size:41 final size:42
Alignment explanation
Indices: 1357280--1357372 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
1357270 TTCTAATTAT
* * * *
1357280 AAGCGTTTTTAACGGATTTG-C-AAGAAAACGTTTCCAGCTGA
1 AAGCGTTTTCAACGGA-TTGACAAAAAAAACGATTCCAACTGA
* *
1357321 AAGCGTTTTCAATGGATTGACAAAAAAAATGATTCCAACTGA
1 AAGCGTTTTCAACGGATTGACAAAAAAAACGATTCCAACTGA
1357363 AAGCGTTTTC
1 AAGCGTTTTC
1357373 TACCTCCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 3 0.07
41 15 0.34
42 26 0.59
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (42 bp):
AAGCGTTTTCAACGGATTGACAAAAAAAACGATTCCAACTGA
Found at i:1361482 original size:21 final size:22
Alignment explanation
Indices: 1361456--1361501 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1361446 AAAATCTAAA
* *
1361456 AAAAGTAAAA-ATTTAAATTTT
1 AAAAGTAAAAGAATCAAATTTT
1361477 AAAAGTAAAAGAATCAAATTTT
1 AAAAGTAAAAGAATCAAATTTT
1361499 AAA
1 AAA
1361502 TTTACGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAAGTAAAAGAATCAAATTTT
Found at i:1366245 original size:43 final size:42
Alignment explanation
Indices: 1366150--1366380 Score: 200
Period size: 43 Copynumber: 5.4 Consensus size: 42
1366140 ATGCAATATC
* * * *
1366150 CCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAG-
1 CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAAT-GT
* * * *
1366192 CTCAGCCATGGTCTTACACGAAATCACGTATCGATACCAATGT
1 C-CAGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
* * * *
1366235 CCAAGACATGGTCTTACAAG-AATCCTTATATCAATGCCATAT-C
1 CC-AGACATGGTCTTACACGAAAT-CTCATATCGATGCCA-ATGT
* * * *
1366278 CCAAATATGGTCTTACACAAAATCGCATATCGATGCCAATGT
1 CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
* *
1366320 CGCAGACATGGTCTTACACGAATTCTCATATCGATGCCATAT-C
1 C-CAGACATGGTCTTACACGAAATCTCATATCGATGCCA-ATGT
*
1366363 CCAGATATGGTCTTACAC
1 CCAGACATGGTCTTACAC
1366381 AGTAGCACAT
Statistics
Matches: 151, Mismatches: 29, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.01
42 48 0.32
43 97 0.64
44 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCTCATATCGATGCCAATGT
Found at i:1366301 original size:85 final size:85
Alignment explanation
Indices: 1366199--1366381 Score: 269
Period size: 85 Copynumber: 2.2 Consensus size: 85
1366189 TAGCTCAGCC
* * *
1366199 ATGGTCTTACACGAAATCACGTATCGATACCAATGTC-CAAGACATGGTCTTACAAGAATCCTTA
1 ATGGTCTTACACAAAATCACATATCGATACCAATGTCGC-AGACATGGTCTTACAAGAATCCTCA
1366263 TATCAATGCCATATCCCAAAT
65 TATCAATGCCATATCCCAAAT
* * * *
1366284 ATGGTCTTACACAAAATCGCATATCGATGCCAATGTCGCAGACATGGTCTTACACGAATTCTCAT
1 ATGGTCTTACACAAAATCACATATCGATACCAATGTCGCAGACATGGTCTTACAAGAATCCTCAT
* *
1366349 ATCGATGCCATATCCCAGAT
66 ATCAATGCCATATCCCAAAT
1366369 ATGGTCTTACACA
1 ATGGTCTTACACA
1366382 GTAGCACATA
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
85 87 0.99
86 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (85 bp):
ATGGTCTTACACAAAATCACATATCGATACCAATGTCGCAGACATGGTCTTACAAGAATCCTCAT
ATCAATGCCATATCCCAAAT
Found at i:1366392 original size:85 final size:84
Alignment explanation
Indices: 1366150--1366393 Score: 267
Period size: 85 Copynumber: 2.9 Consensus size: 84
1366140 ATGCAATATC
* * * * * **
1366150 CCAGATATGGTCTTACATGTAA-TCTCGTATCGATGCCAATAGCTCAGCCATGGTCTTACAC-GA
1 CCAGACATGGTCTTACAAG-AATTCTCATATCGATGCC-ATATCCCAGATATGGTCTTACACAG-
*
1366213 AATCACGTATCGATACCAATGT
63 AATCACATATCGATACCAATGT
* * * * *
1366235 CCAAGACATGGTCTTACAAGAATCCTTATATCAATGCCATATCCCAAATATGGTCTTACACAAAA
1 CC-AGACATGGTCTTACAAGAATTCTCATATCGATGCCATATCCCAGATATGGTCTTACACAGAA
* *
1366300 TCGCATATCGATGCCAATGT
65 TCACATATCGATACCAATGT
* *
1366320 CGCAGACATGGTCTTACACGAATTCTCATATCGATGCCATATCCCAGATATGGTCTTACACAGTA
1 C-CAGACATGGTCTTACAAGAATTCTCATATCGATGCCATATCCCAGATATGGTCTTACACAGAA
*
1366385 GCACATATC
65 TCACATATC
1366394 ACACCGATGC
Statistics
Matches: 131, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
85 104 0.79
86 27 0.21
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (84 bp):
CCAGACATGGTCTTACAAGAATTCTCATATCGATGCCATATCCCAGATATGGTCTTACACAGAAT
CACATATCGATACCAATGT
Found at i:1366449 original size:53 final size:53
Alignment explanation
Indices: 1366391--1366498 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
1366381 AGTAGCACAT
* * * *
1366391 ATCACACCGATGCCATATCCTAGATATGGTCTTATACAGAAA-CTCATAATCAC
1 ATCACACCAATGCCATAGCCCAGATATGGTCTTATACAGAAATCACAT-ATCAC
* *
1366444 ATCACACCAATGCCATAGCCCAGCTATGGTCTTATACGGAAATCACATATCAC
1 ATCACACCAATGCCATAGCCCAGATATGGTCTTATACAGAAATCACATATCAC
1366497 AT
1 AT
1366499 GTTGCCATGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 44 0.92
54 4 0.08
ACGTcount: A:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (53 bp):
ATCACACCAATGCCATAGCCCAGATATGGTCTTATACAGAAATCACATATCAC
Found at i:1369077 original size:6 final size:6
Alignment explanation
Indices: 1369068--1369098 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1369058 ATATTTATTG
*
1369068 GTTTTT GTTTTT GTTTTT GTATTT GTTTTT G
1 GTTTTT GTTTTT GTTTTT GTTTTT GTTTTT G
1369099 ATTCCCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.19, T:0.77
Consensus pattern (6 bp):
GTTTTT
Found at i:1369083 original size:12 final size:12
Alignment explanation
Indices: 1369063--1369098 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1369053 TACTTATATT
*
1369063 TATTGGTTTTTG
1 TATTTGTTTTTG
*
1369075 TTTTTGTTTTTG
1 TATTTGTTTTTG
1369087 TATTTGTTTTTG
1 TATTTGTTTTTG
1369099 ATTCCCAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.00, G:0.19, T:0.75
Consensus pattern (12 bp):
TATTTGTTTTTG
Found at i:1370813 original size:17 final size:17
Alignment explanation
Indices: 1370780--1370811 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1370770 TTCTAAATAT
1370780 TATTTTTTAATAATTTA
1 TATTTTTTAATAATTTA
1370797 TATTTTTT-ATAATTT
1 TATTTTTTAATAATTT
1370812 TAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTTAATAATTTA
Found at i:1371025 original size:17 final size:18
Alignment explanation
Indices: 1370975--1371025 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
1370965 TAATTTTTAC
*
1370975 ATATTTCTATA-ATTTTT
1 ATATATCTATACATTTTT
1370992 ATATAT-TATACCA-TTTT
1 ATATATCTATA-CATTTTT
1371009 ATA-ATCTATACATTTTT
1 ATATATCTATACATTTTT
1371026 TTAAATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
16 8 0.28
17 20 0.69
18 1 0.03
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATATCTATACATTTTT
Found at i:1372842 original size:31 final size:31
Alignment explanation
Indices: 1372772--1372838 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1372762 TAATTTGACC
*
1372772 AAATTTAG-TCTCTGTACTTTTTGAATTGGTT
1 AAATTTAGTTCTCTGTACTTTTCGAATT-GTT
1372803 AAATTTAGTTCT-TGTACTTTTCGAATT-TT
1 AAATTTAGTTCTCTGTACTTTTCGAATTGTT
1372832 GAAATTT
1 -AAATTT
1372839 TAGTCGTAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 2 0.06
30 6 0.18
31 22 0.67
32 3 0.09
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.52
Consensus pattern (31 bp):
AAATTTAGTTCTCTGTACTTTTCGAATTGTT
Found at i:1378981 original size:20 final size:19
Alignment explanation
Indices: 1378956--1379002 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
1378946 ATTAATTATT
1378956 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
1378976 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
1378995 TA-AAAATT
1 TATAAAATT
1379003 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:1380979 original size:9 final size:9
Alignment explanation
Indices: 1380965--1381005 Score: 73
Period size: 9 Copynumber: 4.6 Consensus size: 9
1380955 CATCCATATA
1380965 ATTTTCAAT
1 ATTTTCAAT
1380974 ATTTTCAAT
1 ATTTTCAAT
*
1380983 ATTTTTAAT
1 ATTTTCAAT
1380992 ATTTTCAAT
1 ATTTTCAAT
1381001 ATTTT
1 ATTTT
1381006 TAAAGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTCAAT
Found at i:1383517 original size:4 final size:4
Alignment explanation
Indices: 1383508--1383547 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
1383498 TTTCATGTAC
* * *
1383508 CATA CATA CATG CATG CATG CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1383548 TAAATGAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1384050 original size:41 final size:41
Alignment explanation
Indices: 1383993--1384074 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
1383983 AATGAAAAAT
* *
1383993 AAGAATAAAAATTATTAGTATGATAACAAAGTGAAGAAAGG
1 AAGAAGAAAAATTATTAGTATGAGAACAAAGTGAAGAAAGG
1384034 AAGAAGAAAAATTATTAGTATGAGAACAAAGTGAAGAAAGG
1 AAGAAGAAAAATTATTAGTATGAGAACAAAGTGAAGAAAGG
1384075 GTCCAATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (41 bp):
AAGAAGAAAAATTATTAGTATGAGAACAAAGTGAAGAAAGG
Found at i:1384784 original size:22 final size:22
Alignment explanation
Indices: 1384753--1384795 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1384743 AACTTCAATG
1384753 TTTTAATTTTAAATATTATTAAA
1 TTTTAATTTTAAATATT-TTAAA
*
1384776 TTTT-ATTTTTAATATTTTAA
1 TTTTAATTTTAAATATTTTAA
1384796 TGAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTTAATTTTAAATATTTTAAA
Found at i:1386777 original size:8 final size:8
Alignment explanation
Indices: 1386761--1386856 Score: 63
Period size: 9 Copynumber: 11.4 Consensus size: 8
1386751 TTAAGCTATC
1386761 ATATAATA
1 ATATAATA
*
1386769 ATATGATA
1 ATATAATA
*
1386777 AGTAGCAATA
1 A-TA-TAATA
1386787 ATATAAGT-
1 ATATAA-TA
1386795 A-ATAATA
1 ATATAATA
1386802 ATAATAATA
1 AT-ATAATA
1386811 ATAATAATA
1 AT-ATAATA
*
1386820 ACAATAATA
1 A-TATAATA
*
1386829 GTAATAATA
1 AT-ATAATA
1386838 ATAGTAATA
1 ATA-TAATA
1386847 ATA-AATA
1 ATATAATA
1386854 ATA
1 ATA
1386857 AAAGATGATA
Statistics
Matches: 71, Mismatches: 8, Indels: 19
0.72 0.08 0.19
Matches are distributed among these distances:
6 1 0.01
7 12 0.17
8 12 0.17
9 42 0.59
10 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.31
Consensus pattern (8 bp):
ATATAATA
Found at i:1386789 original size:3 final size:3
Alignment explanation
Indices: 1386783--1386895 Score: 106
Period size: 3 Copynumber: 36.7 Consensus size: 3
1386773 GATAAGTAGC
*
1386783 AAT AAT -AT AAGT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT AAT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
1386828 AGT AAT AAT AAT AGT AAT AAT AAAT AAT AAA AGAT GAT AAT ACATT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT A-AT AAT AAT A-A-T AAT
1386876 AAT AAT GAAT AA- AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AA
1386896 AAATGCTAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
2 6 0.07
3 71 0.78
4 12 0.13
5 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1393786 original size:21 final size:20
Alignment explanation
Indices: 1393762--1393801 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1393752 ATTTTTTTAA
*
1393762 AATTTTCTAATGATTTTTATT
1 AATTTTCTAA-AATTTTTATT
*
1393783 AATTTTTTAAAATTTTTAT
1 AATTTTCTAAAATTTTTAT
1393802 GTAGTACACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (20 bp):
AATTTTCTAAAATTTTTATT
Found at i:1394121 original size:17 final size:19
Alignment explanation
Indices: 1394082--1394127 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
1394072 TATTATCGGA
1394082 ATAAAAAATATATATTTCT
1 ATAAAAAATATATATTTCT
*
1394101 -TAAATAAT-TATATTT-T
1 ATAAAAAATATATATTTCT
1394117 AT-AAAAATATA
1 ATAAAAAATATA
1394128 ATTCAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 6 0.26
17 10 0.43
18 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAAAAAATATATATTTCT
Found at i:1412404 original size:16 final size:17
Alignment explanation
Indices: 1412385--1412417 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
1412375 GAAAATAAAT
1412385 AAGAATATA-TCTAATC
1 AAGAATATATTCTAATC
1412401 AAGAATATATTCTAATC
1 AAGAATATATTCTAATC
1412418 TGCATTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
AAGAATATATTCTAATC
Found at i:1413980 original size:2 final size:2
Alignment explanation
Indices: 1413967--1414000 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
1413957 TTGATTGCTT
1413967 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1414001 CTGCGAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1414206 original size:2 final size:2
Alignment explanation
Indices: 1414199--1414224 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1414189 NNNNNNTATG
1414199 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1414225 CTGCAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1431466 original size:22 final size:22
Alignment explanation
Indices: 1431439--1431485 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1431429 TTAAATTTTT
1431439 TAATAATACAAAGACTAAATT-A
1 TAATAATA-AAAGACTAAATTGA
* *
1431461 TAATAATAGAGGACTAAATTGA
1 TAATAATAAAAGACTAAATTGA
1431483 TAA
1 TAA
1431486 CATACCTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (22 bp):
TAATAATAAAAGACTAAATTGA
Found at i:1432227 original size:22 final size:22
Alignment explanation
Indices: 1432202--1432263 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
1432192 TGTTCATATT
1432202 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
* * *
1432224 TATTTAAGTTCATATT------
1 TATTTTAGTTTATGTTCCACCG
1432240 TATTTTAGTTTATGTTCCACCG
1 TATTTTAGTTTATGTTCCACCG
1432262 TA
1 TA
1432264 GTTGCAATGG
Statistics
Matches: 28, Mismatches: 6, Indels: 12
0.61 0.13 0.26
Matches are distributed among these distances:
16 13 0.46
22 15 0.54
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.52
Consensus pattern (22 bp):
TATTTTAGTTTATGTTCCACCG
Found at i:1433056 original size:85 final size:86
Alignment explanation
Indices: 1432950--1433120 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 86
1432940 TAATAACAAC
* * *
1432950 TTTAACTCTCAATATTTATAAATTATATTTCTTTAAAAATTTTGGTTTTAAGATTTTCAAAACTT
1 TTTAACTCTCAATATTTATAAAATAAAATTCTTTAAAAATTTTGGTTTTAAGATTTTCAAAACTT
1433015 TCACAGAAACTTTATCATTTA
66 TCACAGAAACTTTATCATTTA
1433036 TTTAACTCTC-ATATTTATAAAATAAAATTCTTTAAAAATTTTGGTTTTAAGATTTTCAAAACTT
1 TTTAACTCTCAATATTTATAAAATAAAATTCTTTAAAAATTTTGGTTTTAAGATTTTCAAAACTT
1433100 TCACAGAAACTTTATCATTTA
66 TCACAGAAACTTTATCATTTA
1433121 CTCTATTTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
85 72 0.88
86 10 0.12
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (86 bp):
TTTAACTCTCAATATTTATAAAATAAAATTCTTTAAAAATTTTGGTTTTAAGATTTTCAAAACTT
TCACAGAAACTTTATCATTTA
Found at i:1438375 original size:9 final size:9
Alignment explanation
Indices: 1438361--1438385 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1438351 AATTTCCGTT
1438361 ACGAATATA
1 ACGAATATA
1438370 ACGAATATA
1 ACGAATATA
1438379 ACGAATA
1 ACGAATA
1438386 AACTAACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.20
Consensus pattern (9 bp):
ACGAATATA
Found at i:1439599 original size:150 final size:151
Alignment explanation
Indices: 1439080--1439673 Score: 932
Period size: 150 Copynumber: 3.9 Consensus size: 151
1439070 TACTGTATTC
*
1439080 GTATCCCTACAAATAAAACTAGATAATTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
1439145 ATAAAAAAGTGATATTTTCTATTATTATTTTTTCAAGTATTTATGACCATATTTATTTTACGATC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
* *
1439210 CATGAAGATTAATC-TTTCGA
131 CATGAAGACTAATCTTTTCGG
*
1439230 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATA--
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
1439293 ATAAAAAAAGTGATATTTTCTATTATTATTAATATTAAAGTATTTATGACCATATTTATTTTATG
66 AT-AAAAAAGTGATATTTTCTATTATTATT--TTTTTAAGTATTTATGACCATATTTATTTTATG
*
1439358 ATCCATGAAGACTAAAT-TTTTTGG
128 ATCCATGAAGACT-AATCTTTTCGG
* *
1439382 GTATCCCTACAGATAAAACTAGATACTTGTGTTGGGTGTGAATTTACATGATTAGCCTTGATATC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
*
1439447 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGATCATATTTATTTTACT-AT
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTA-TGAT
*
1439511 CCATGAAGGCTAATCTTTTCGG
130 CCATGAAGACTAATCTTTTCGG
* * *
1439533 GTATCCCTACAAAT-AAACTAAATACTTGTGTTGAGTGTGAATTTACATTATTAGCCTTGATGTC
1 GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
* *
1439597 ATAAAAAAGTGATATTTTCTATTATTA-TTTTTTAAGTATTTATGATCATATTTATTTTATGGTC
66 ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
1439661 CATGAAGACTAAT
131 CATGAAGACTAAT
1439674 AGACCAATCT
Statistics
Matches: 411, Mismatches: 23, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
148 3 0.01
149 73 0.18
150 137 0.33
151 101 0.25
152 68 0.17
153 27 0.07
154 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (151 bp):
GTATCCCTACAAATAAAACTAGATACTTGTGTTGAGTGTGAATTTACATGATTAGCCTTGATATC
ATAAAAAAGTGATATTTTCTATTATTATTTTTTTAAGTATTTATGACCATATTTATTTTATGATC
CATGAAGACTAATCTTTTCGG
Found at i:1440351 original size:19 final size:18
Alignment explanation
Indices: 1440329--1440368 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
1440319 TGGGTCTTAT
1440329 AAAATATAATAATAAAT-AA
1 AAAATAT-A-AATAAATGAA
1440348 AAAATATAAATAAATGAA
1 AAAATATAAATAAATGAA
1440366 AAA
1 AAA
1440369 CTTAATACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 6 0.30
19 7 0.35
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATATAAATAAATGAA
Found at i:1440921 original size:3 final size:3
Alignment explanation
Indices: 1440913--1440942 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1440903 TTCTTTTGCT
1440913 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1440943 ATCGTCATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1441997 original size:25 final size:26
Alignment explanation
Indices: 1441954--1442002 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
1441944 AGATAAGTAA
* *
1441954 ATTAATTTTTATAGTTAAA-AATTTC
1 ATTAATTTCTATAGATAAACAATTTC
*
1441979 ATTAATTTCTATCGATAAACAATT
1 ATTAATTTCTATAGATAAACAATT
1442003 GCTCTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (26 bp):
ATTAATTTCTATAGATAAACAATTTC
Found at i:1442612 original size:10 final size:11
Alignment explanation
Indices: 1442590--1442618 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
1442580 ACATGATACG
1442590 AAAACAATGAA
1 AAAACAATGAA
1442601 AAAACAAT-AA
1 AAAACAATGAA
1442611 AAAACAAT
1 AAAACAAT
1442619 TTCTTTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.76, C:0.10, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAACAATGAA
Found at i:1454085 original size:13 final size:13
Alignment explanation
Indices: 1454067--1454091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1454057 CAAATCAAAG
1454067 TTCTTTTTTTCTT
1 TTCTTTTTTTCTT
1454080 TTCTTTTTTTCT
1 TTCTTTTTTTCT
1454092 CTCTTATCAG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTTCTT
Found at i:1454619 original size:2 final size:2
Alignment explanation
Indices: 1454612--1454640 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1454602 ATTTGAAATG
1454612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1454641 TTAACTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1455139 original size:109 final size:110
Alignment explanation
Indices: 1454948--1455148 Score: 311
Period size: 109 Copynumber: 1.8 Consensus size: 110
1454938 GCTATAAATA
*
1454948 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAATGGAGCCAAATCTTGAA
1 GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
1455013 ATAATTCTCTCTTCT-AAAAATAAAAACAAAAACAAGTTTATTAG
66 ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
* *
1455057 GCATACCTG-AATGAGTGCAGCTATAGTACCAAAAGAATTCCAC-ACGAAAGGAGCCAAATCTTG
1 GCATACCTGTAA-AAGTGCAGCAATAGTACCAAAAGAATTCCACAAC-AAAGGAGCCAAATCTTG
*
1455120 AAATAATTC-CTTGTTCTAAAAAATAAAAA
64 AAATAATTCTC-TCTTCTAAAAAATAAAAA
1455149 GGTAGACGCT
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
108 5 0.06
109 68 0.81
110 11 0.13
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.23
Consensus pattern (110 bp):
GCATACCTGTAAAAGTGCAGCAATAGTACCAAAAGAATTCCACAACAAAGGAGCCAAATCTTGAA
ATAATTCTCTCTTCTAAAAAATAAAAACAAAAACAAGTTTATTAG
Found at i:1456096 original size:113 final size:113
Alignment explanation
Indices: 1455960--1456172 Score: 345
Period size: 113 Copynumber: 1.9 Consensus size: 113
1455950 ATACCATGCA
* ** *
1455960 AGATATTGTGTAGATTGGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCGTAATTAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
1456025 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
* *
1456073 AGATATAGTGTAGATCAGCGAGAAGATTCTTAAATTTCAAGGCTCTAGATCGATTATAATTAACA
1 AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
* * *
1456138 TATTCTTAATTCAGTCCAAACTTCTAATAATAACC
66 TACTCTTAATTCAATCCAAACTTCTAACAATAACC
1456173 CCTTTCAGGT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
113 91 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (113 bp):
AGATATAGTGTAGATCAGCGAGAAGATTCTAAAATTTCAAGGCTCTAGATCGATCATAATTAACA
TACTCTTAATTCAATCCAAACTTCTAACAATAACCGCTCTCAGACGCG
Found at i:1458489 original size:12 final size:13
Alignment explanation
Indices: 1458465--1458519 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
1458455 TAAATAAATT
1458465 ATATATTTT-AAA
1 ATATATTTTAAAA
1458477 ATAT-TTTTAAAA
1 ATATATTTTAAAA
*
1458489 ATTGATATATTTTAAA
1 A-T-ATAT-TTTAAAA
*
1458505 ATATCTTTTAAAA
1 ATATATTTTAAAA
1458518 AT
1 AT
1458520 TGATATTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 4 0.11
12 8 0.23
13 9 0.26
14 5 0.14
15 2 0.06
16 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (13 bp):
ATATATTTTAAAA
Found at i:1458497 original size:28 final size:29
Alignment explanation
Indices: 1458460--1458525 Score: 118
Period size: 28 Copynumber: 2.3 Consensus size: 29
1458450 TTCCTTAAAT
1458460 AAATT-ATATATTTTAAAATAT-TTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
1458487 AAATTGATATATTTTAAAATATCTTTTAA
1 AAATTGATATATTTTAAAATATCTTTTAA
1458516 AAATTGATAT
1 AAATTGATAT
1458526 TTCTTAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
27 5 0.14
28 16 0.43
29 16 0.43
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
AAATTGATATATTTTAAAATATCTTTTAA
Found at i:1458532 original size:17 final size:16
Alignment explanation
Indices: 1458477--1458532 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
1458467 ATATTTTAAA
1458477 ATATTTTTAAAAATTG
1 ATATTTTTAAAAATTG
1458493 ATATATTTT-AAAA-T-
1 ATAT-TTTTAAAAATTG
*
1458507 AT-CTTTTAAAAATTG
1 ATATTTTTAAAAATTG
1458522 ATATTTCTTAA
1 ATATTT-TTAA
1458533 TAAAATTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
12 4 0.12
13 4 0.12
14 3 0.09
15 3 0.09
16 10 0.31
17 8 0.25
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (16 bp):
ATATTTTTAAAAATTG
Found at i:1459779 original size:21 final size:20
Alignment explanation
Indices: 1459743--1459796 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
1459733 ACTAGAGTAG
* *
1459743 GAAAAAGAAAATGAAGTAAAA
1 GAAAAAAAAAAGGAAG-AAAA
1459764 -AATAAAAAAAAGGAAGAAAA
1 GAA-AAAAAAAAGGAAGAAAA
1459784 TGAAAAAAAAAAG
1 -GAAAAAAAAAAG
1459797 AAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 6 0.21
21 20 0.71
22 2 0.07
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
GAAAAAAAAAAGGAAGAAAA
Found at i:1459781 original size:30 final size:31
Alignment explanation
Indices: 1459747--1459810 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
1459737 GAGTAGGAAA
** * *
1459747 AAGAAAATGAAGTAAAAAATAAAA-AAAAGG
1 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
1459777 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
1 AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
1459808 AAG
1 AAG
1459811 GGTTTTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (31 bp):
AAGAAAATGAAAAAAAAAAGAAAAGAAAAAG
Found at i:1459789 original size:17 final size:16
Alignment explanation
Indices: 1459762--1459806 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 16
1459752 AATGAAGTAA
*
1459762 AAAATAAAAAAAAGGAAG
1 AAAAGAAAAAAAA--AAG
1459780 AAAATGAAAAAAAAAAG
1 AAAA-GAAAAAAAAAAG
1459797 AAAAGAAAAA
1 AAAAGAAAAA
1459807 GAAGGGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 7 0.28
18 4 0.16
19 8 0.32
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.04
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:1469191 original size:129 final size:130
Alignment explanation
Indices: 1469049--1469307 Score: 511
Period size: 129 Copynumber: 2.0 Consensus size: 130
1469039 TTAATTTTAC
1469049 TGAAAACATTTTTTAATATATTTGATATATTTTTAAAATTTATTTTTATATAGAAAATAATTAAA
1 TGAAAACATTTTTTAATATATTTGATATATTTTTAAAATTTATTTTTATATAGAAAATAATTAAA
1469114 AAAAAGTTAACATAAAATAAACAAATACTCGATTTTAGAGTTTTTAATCTAAATTTTTTGGGCAA
66 AAAAAGTTAACATAAAATAAACAAATACTCGATTTTAGAGTTTTTAATCTAAATTTTTTGGGCAA
1469179 TGAAAACA-TTTTTAATATATTTGATATATTTTTAAAATTTATTTTTATATAGAAAATAATTAAA
1 TGAAAACATTTTTTAATATATTTGATATATTTTTAAAATTTATTTTTATATAGAAAATAATTAAA
1469243 AAAAAGTTAACATAAAATAAACAAATACTCGATTTTAGAGTTTTTAATCTAAATTTTTTGGGCAA
66 AAAAAGTTAACATAAAATAAACAAATACTCGATTTTAGAGTTTTTAATCTAAATTTTTTGGGCAA
1469308 AACCTAACAT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
129 121 0.94
130 8 0.06
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (130 bp):
TGAAAACATTTTTTAATATATTTGATATATTTTTAAAATTTATTTTTATATAGAAAATAATTAAA
AAAAAGTTAACATAAAATAAACAAATACTCGATTTTAGAGTTTTTAATCTAAATTTTTTGGGCAA
Found at i:1473483 original size:120 final size:118
Alignment explanation
Indices: 1473331--1473562 Score: 313
Period size: 120 Copynumber: 1.9 Consensus size: 118
1473321 ATATCAAGGA
* *
1473331 CTAACTTGGACCAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCTTAACT
1 CTAACTTGGACAAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAACT
* *
1473396 TGGA-CAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGTTCAATGC
66 TGGATC-AAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTTCAATGC
* * * *
1473449 CTAACTTGGACAAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGTCTAGTTCAGGGCCTAA
1 CTAACTTGGAC-AAAAAAAAA-TTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAA
* * * * *
1473514 TTTGGATCAAAAAAAATTCAGGCCCCAATTTGAGAATAGTTGCCAAGTT
64 CTTGGATCAAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTT
1473563 TAAGCCCCAA
Statistics
Matches: 98, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
118 11 0.11
119 8 0.08
120 78 0.80
121 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (118 bp):
CTAACTTGGACAAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGTTCAAGGCCTAACT
TGGATCAAAAAAAATTCAGACCCCAATGTGAGAACAATTGCCAAGTTCAATGC
Found at i:1473496 original size:61 final size:59
Alignment explanation
Indices: 1473324--1473562 Score: 309
Period size: 59 Copynumber: 4.0 Consensus size: 59
1473314 CAAATAAATA
* * *
1473324 TCAAGGACTAACTTGGACCAAAAAAAATTCAGACCTCAATGTCGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
*
1473383 TCAAGGCTTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
1 TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
* * *
1473442 TCAATGCCTAACTTGGACAAAAAAAAAAGTTCAGACCTCAATGTGGGAACAATTGTCTAGT
1 TCAAGGCCTAACTTGGAC-AAAAAAAAA-TTCAGACCTCAATGTGGGAACAATTGCCAAGT
* * * * * * * *
1473503 TCAGGGCCTAATTTGGATC-AAAAAAAATTCAGGCCCCAATTTGAGAATAGTTGCCAAGT
1 TCAAGGCCTAACTTGGA-CAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
1473562 T
1 T
1473563 TAAGCCCCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
59 96 0.61
60 17 0.11
61 44 0.28
62 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.23
Consensus pattern (59 bp):
TCAAGGCCTAACTTGGACAAAAAAAAATTCAGACCTCAATGTGGGAACAATTGCCAAGT
Found at i:1482559 original size:41 final size:41
Alignment explanation
Indices: 1482514--1482703 Score: 126
Period size: 41 Copynumber: 4.6 Consensus size: 41
1482504 GATCAACAAT
*
1482514 TAATTAAAATTTTAAATTTAAAAAATTAAAATAAAATACCA
1 TAATTAAAATTATAAATTTAAAAAATTAAAATAAAATACCA
* * * **
1482555 TAATTATAATTAT-AATTATAAAAAATCTACAATTAAATAATTA
1 TAATTAAAATTATAAATT-TAAAAAAT-TAAAATAAAAT-ACCA
** * * **
1482598 TAACCAAAA-T-CAAATATATAAAAATT-GTATCAAAATA--A
1 TAATTAAAATTATAAATTTA-AAAAATTAAAAT-AAAATACCA
*
1482636 TATATTAAAACCTATAAATTT-AAAAATTAAAATAAAATACCA
1 TA-ATTAAAA-TTATAAATTTAAAAAATTAAAATAAAATACCA
*
1482678 TAATTATAATTAT-AATTATAAAAAAT
1 TAATTAAAATTATAAATT-TAAAAAAT
1482704 CTACAATTAA
Statistics
Matches: 112, Mismatches: 22, Indels: 30
0.68 0.13 0.18
Matches are distributed among these distances:
38 3 0.03
39 9 0.08
40 24 0.21
41 41 0.37
42 27 0.24
43 8 0.07
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.34
Consensus pattern (41 bp):
TAATTAAAATTATAAATTTAAAAAATTAAAATAAAATACCA
Found at i:1482663 original size:40 final size:41
Alignment explanation
Indices: 1482609--1482778 Score: 122
Period size: 40 Copynumber: 4.1 Consensus size: 41
1482599 AACCAAAATC
1482609 AAATATATAAAAATTGTATCAAAATAATATATTAAAACCTAT
1 AAAT-TATAAAAATTGTATCAAAATAATATATTAAAACCTAT
** * *
1482651 AAATT-TAAAAATTAAAAT-AAAATACCATA-ATTATAA-TTAT
1 AAATTATAAAAATT-GTATCAAAATA--ATATATTAAAACCTAT
* * * * *
1482691 -AATTATAAAAAATCTA-C-AATTAA-ATAATTATAACCAAAAT
1 AAATTATAAAAATTGTATCAAAATAATAT-ATTAAAACC--TAT
1482731 CAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTAT
1 -AAAT-TATAAAAATTGTATCAAAATAATATATTAAAACCTAT
1482774 AAATT
1 AAATT
1482779 CTATGTAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 33
0.67 0.10 0.23
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 7 0.07
38 4 0.04
39 5 0.05
40 26 0.27
41 10 0.10
42 14 0.14
43 13 0.13
44 1 0.01
45 13 0.13
46 2 0.02
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (41 bp):
AAATTATAAAAATTGTATCAAAATAATATATTAAAACCTAT
Found at i:1482842 original size:123 final size:122
Alignment explanation
Indices: 1482526--1482778 Score: 425
Period size: 123 Copynumber: 2.0 Consensus size: 122
1482516 ATTAAAATTT
* * *
1482526 TAAATTTAAAAAATTAAAATAAAATACCATAATTATAATTATAATTATAAAAAATCTACAATTAA
1 TAAATTT--AAAATAAAAATAAAATACCATAATTAAAATCATAATTATAAAAAATCTACAATTAA
1482591 ATAATTATAACCAAAATCAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTA
64 ATAATTATAACCAAAATCAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTA
* * *
1482650 TAAATTTAAAAATTAAAATAAAATACCATAATTATAATTATAATTATAAAAAATCTACAATTAAA
1 TAAATTT-AAAATAAAAATAAAATACCATAATTAAAATCATAATTATAAAAAATCTACAATTAAA
1482715 TAATTATAACCAAAATCAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTA
65 TAATTATAACCAAAATCAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTA
1482773 TAAATT
1 TAAATT
1482779 CTATGTAAAA
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 122 0.95
124 7 0.05
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (122 bp):
TAAATTTAAAATAAAAATAAAATACCATAATTAAAATCATAATTATAAAAAATCTACAATTAAAT
AATTATAACCAAAATCAAATATATAAAAATTGTATCAAAATAATATATTAAAACCTA
Found at i:1485151 original size:22 final size:21
Alignment explanation
Indices: 1485126--1485178 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1485116 AAATTAAGAA
*
1485126 TATTTTTGAATTTTGTTAAATT
1 TATTTTTAAATTTT-TTAAATT
* *
1485148 TATTATTAAATTTTTTGAATT
1 TATTTTTAAATTTTTTAAATT
1485169 T-TTTTATAAA
1 TATTTT-TAAA
1485179 GTATATATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 11 0.42
22 12 0.46
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
TATTTTTAAATTTTTTAAATT
Found at i:1488288 original size:574 final size:575
Alignment explanation
Indices: 1487191--1488345 Score: 2287
Period size: 574 Copynumber: 2.0 Consensus size: 575
1487181 ATAAACATAC
1487191 TAATTTATTTTTATATTATATATATAATTATTTGTATTGCAATATGTATACTTAAAATGATGTTA
1 TAATTTA-TTTTATATTATATATATAATTATTTGTATTGCAATATGTATACTTAAAATGATGTTA
1487256 TATCGATAATTGTGTCACTAATCTGTATAAAAATTGAATTAAATTAATATTTTATGTATAAAATT
65 TATCGATAATTGTGTCACTAATCTGTATAAAAATTGAATTAAATTAATATTTTATGTATAAAATT
1487321 GTACAAAATCAACGTTTATGTATAGTTTTGAGATTTATCTCAATTAAATATTATAAAGCATGATT
130 GTACAAAATCAACGTTTATGTATAGTTTTGAGATTTATCTCAATTAAATATTATAAAGCATGATT
1487386 AAACTGATAATCAAAATATACTCAGATCAATAACTGGAATATATCCAAACCTTTAATAGAGTAAA
195 AAACTGATAATCAAAATATACTCAGATCAATAACTGGAATATATCCAAACCTTTAATAGAGTAAA
1487451 ATTTGAAGATTTAAGAGTTAGTTGACTTTGCCTTCCAATAAAGTAAATTTGAAATGAACATAGAA
260 ATTTGAAGATTTAAGAGTTAGTTGACTTTGCCTTCCAATAAAGTAAATTTGAAATGAACATAGAA
1487516 TTTAGTTTCGCAATTTGGAAACTTCGTATATTTGCGGGTTTTATCCAAAGAATAATTCACTAAGT
325 TTTAGTTTCGCAATTTGGAAACTTCGTATATTTGCGGGTTTTATCCAAAGAATAATTCACTAAGT
1487581 TGCCATCTAACTTATATACACGAACTATATATTTTCTGAGGGGGAATTAAGTTATATATTTTTAT
390 TGCCATCTAACTTATATACACGAACTATATATTTTCTGAGGGGGAATTAAGTTATATATTTTTAT
1487646 GATAACTAAAATGCAATTTCACCATTTTAATAATCTATATTTTTACAATTTTCAAAAGATTAAAT
455 GATAACTAAAATGCAATTTCACCATTTTAATAATCTATATTTTTACAATTTTCAAAAGATTAAAT
1487711 TAAAATTTTATCATTTTCGAGACGTCAAAGTATAATTTTACTATATACTAATTTAA
520 TAAAATTTTATCATTTTCGAGACGTCAAAGTATAATTTTACTATATACTAATTTAA
1487767 TAATTTA-TTTATATTATATATATAATTATTTGTATTGCAATATGTATACTTAAAATGATGTTAT
1 TAATTTATTTTATATTATATATATAATTATTTGTATTGCAATATGTATACTTAAAATGATGTTAT
1487831 ATCGATAATTGTGTCACTAATCTGTATAAAAATTGAATTAAATTAATATTTTATGTATAAAATTG
66 ATCGATAATTGTGTCACTAATCTGTATAAAAATTGAATTAAATTAATATTTTATGTATAAAATTG
1487896 TACAAAATCAACGTTTATGTATAGTTTTGAGATTTATCTCAATTAAATATTATAAAGCATGATTA
131 TACAAAATCAACGTTTATGTATAGTTTTGAGATTTATCTCAATTAAATATTATAAAGCATGATTA
1487961 AACTGATAATCAAAATATACTCAGATCAATAACTGGAATATATCCAAACCTTTAATAGAGTAAAA
196 AACTGATAATCAAAATATACTCAGATCAATAACTGGAATATATCCAAACCTTTAATAGAGTAAAA
1488026 TTTGAAGATTTAAGAGTTAGTTGACTTTGCCTTCCAATAAAGTAAATTTGAAATGAACATAGAAT
261 TTTGAAGATTTAAGAGTTAGTTGACTTTGCCTTCCAATAAAGTAAATTTGAAATGAACATAGAAT
1488091 TTAGTTTCGCAATTTGGAAACTTCGTATATTTGCGGGTTTTATCCAAAGAATAATTCACTAAGTT
326 TTAGTTTCGCAATTTGGAAACTTCGTATATTTGCGGGTTTTATCCAAAGAATAATTCACTAAGTT
1488156 GCCATCTAACTTATATACACGAACTATATATTTTCTGAGGGGGAATTAAGTTATATATTTTTATG
391 GCCATCTAACTTATATACACGAACTATATATTTTCTGAGGGGGAATTAAGTTATATATTTTTATG
1488221 ATAACTAAAATGCAATTTCACCATTTTAATAATCTATATTTTTACAATTTTCAAAAGATTAAATT
456 ATAACTAAAATGCAATTTCACCATTTTAATAATCTATATTTTTACAATTTTCAAAAGATTAAATT
1488286 AAAATTTTATCATTTTCGAGACGTCAAAGTATAATTTTACTATATACTAATTTAA
521 AAAATTTTATCATTTTCGAGACGTCAAAGTATAATTTTACTATATACTAATTTAA
1488341 -AATTT
1 TAATTT
1488346 TATAAATTAT
Statistics
Matches: 579, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
573 5 0.01
574 567 0.98
576 7 0.01
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (575 bp):
TAATTTATTTTATATTATATATATAATTATTTGTATTGCAATATGTATACTTAAAATGATGTTAT
ATCGATAATTGTGTCACTAATCTGTATAAAAATTGAATTAAATTAATATTTTATGTATAAAATTG
TACAAAATCAACGTTTATGTATAGTTTTGAGATTTATCTCAATTAAATATTATAAAGCATGATTA
AACTGATAATCAAAATATACTCAGATCAATAACTGGAATATATCCAAACCTTTAATAGAGTAAAA
TTTGAAGATTTAAGAGTTAGTTGACTTTGCCTTCCAATAAAGTAAATTTGAAATGAACATAGAAT
TTAGTTTCGCAATTTGGAAACTTCGTATATTTGCGGGTTTTATCCAAAGAATAATTCACTAAGTT
GCCATCTAACTTATATACACGAACTATATATTTTCTGAGGGGGAATTAAGTTATATATTTTTATG
ATAACTAAAATGCAATTTCACCATTTTAATAATCTATATTTTTACAATTTTCAAAAGATTAAATT
AAAATTTTATCATTTTCGAGACGTCAAAGTATAATTTTACTATATACTAATTTAA
Found at i:1492007 original size:4 final size:4
Alignment explanation
Indices: 1491998--1492023 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1491988 CAATTTAACA
1491998 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
1492024 TATTTTTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:1498174 original size:27 final size:26
Alignment explanation
Indices: 1498135--1498222 Score: 65
Period size: 27 Copynumber: 3.4 Consensus size: 26
1498125 GTAATATCAT
* *
1498135 AAAAGCAACAATTTATTGATTGAATTA
1 AAAATCAATAATTTATTGATT-AATTA
* *
1498162 AAAATCAATAATTAATT--TTATTTA
1 AAAATCAATAATTTATTGATTAATTA
* * *
1498186 AAAA-AAATATATATATCGATTAAATTA
1 AAAATCAATA-ATTTATTGATT-AATTA
1498213 AAAATCAATA
1 AAAATCAATA
1498223 GTTAATTTGA
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
23 4 0.09
24 12 0.26
25 2 0.04
26 2 0.04
27 22 0.48
28 4 0.09
ACGTcount: A:0.55, C:0.06, G:0.05, T:0.35
Consensus pattern (26 bp):
AAAATCAATAATTTATTGATTAATTA
Found at i:1498234 original size:28 final size:27
Alignment explanation
Indices: 1498150--1498234 Score: 65
Period size: 28 Copynumber: 3.2 Consensus size: 27
1498140 CAACAATTTA
*
1498150 TTGATTGAATTAAAAATCAATAATTAAT
1 TTGATTAAATTAAAAATCAAT-ATTAAT
*
1498178 TTTATTTAAA--AAAAAT--ATA-T-AT
1 TTGA-TTAAATTAAAAATCAATATTAAT
*
1498200 ATCGATTAAATTAAAAATCAATAGTTAAT
1 -TTGATTAAATTAAAAATCAATA-TTAAT
1498229 TTGATT
1 TTGATT
1498235 TAAAATATAG
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
22 7 0.16
23 3 0.07
24 7 0.16
25 2 0.05
26 3 0.07
27 6 0.14
28 9 0.21
29 6 0.14
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (27 bp):
TTGATTAAATTAAAAATCAATATTAAT
Found at i:1500963 original size:31 final size:31
Alignment explanation
Indices: 1500928--1500992 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
1500918 GATTAGAGGG
* * *
1500928 TTTAATTAAACCTTT-AAAAAATTTGAGAAAA
1 TTTAACTAAAACTTTCAAAAAATTTCA-AAAA
*
1500959 TTTAACTAAAATTTTCAAAAAATTTCAAAAA
1 TTTAACTAAAACTTTCAAAAAATTTCAAAAA
1500990 TTT
1 TTT
1500993 TAAATGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 19 0.66
32 10 0.34
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTAACTAAAACTTTCAAAAAATTTCAAAAA
Found at i:1503075 original size:18 final size:19
Alignment explanation
Indices: 1503052--1503088 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1503042 TTTCAAAACA
1503052 TATAAA-ATTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
1503070 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
1503089 AAAAATGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:1503089 original size:18 final size:19
Alignment explanation
Indices: 1503067--1503124 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
1503057 AATTTAGAAT
*
1503067 TTTTATAAAT-ATTTTGAA
1 TTTTAAAAATGATTTTGAA
*
1503085 TTTTAAAAATGATTTTAAAA
1 TTTTAAAAATGATTTT-GAA
1503105 TTTTAAAAATGA-TTTGAA
1 TTTTAAAAATGATTTTGAA
1503123 TT
1 TT
1503125 CTTTTTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.37
19 8 0.23
20 14 0.40
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTTAAAAATGATTTTGAA
Found at i:1506446 original size:27 final size:27
Alignment explanation
Indices: 1506416--1506516 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 27
1506406 CTTATATGGA
1506416 GGAGGTGGTGGTGACTTGTACATATAT
1 GGAGGTGGTGGTGACTTGTACATATAT
* * *
1506443 GGAGGTGGAGGTGGTGACTCGTGCTTATAT
1 GGAGGT---GGTGGTGACTTGTACATATAT
** *
1506473 GACAGAGGTGGTAATGACTTGTACGTATAT
1 G---GAGGTGGTGGTGACTTGTACATATAT
*
1506503 GGAGGTGGAGGTGA
1 GGAGGTGGTGGTGA
1506517 TGACTCGTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
27 16 0.28
30 36 0.63
33 5 0.09
ACGTcount: A:0.23, C:0.08, G:0.41, T:0.29
Consensus pattern (27 bp):
GGAGGTGGTGGTGACTTGTACATATAT
Found at i:1506473 original size:30 final size:30
Alignment explanation
Indices: 1505048--1506462 Score: 1582
Period size: 30 Copynumber: 47.4 Consensus size: 30
1505038 CATATATGGG
* * *
1505048 GGTGGAGATTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *** *
1505078 GGTGGTGACTTGTACACATATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *** * *
1505108 GGTGGTGACTTGTACACATATGGGGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *
1505138 GGTGGTGACTTGTACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505168 GGTGGTGACTCATACTTGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1505198 GGTGGTGACTCATATTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** ** * *
1505228 GGTGGTGACTTGTACACGTATGGGGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1505258 GGTGGAGACTCATACTTGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* ** *** *
1505288 GGTGGTGATTTGTACACATAAGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505318 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *** * *
1505348 GGTGGTGACTTGTACACATATGGGGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
**
1505378 GGTGGTGACTTGTACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1505408 GATGGTGACTCATACTTGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
1505438 GGTGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505468 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505498 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505528 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505558 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505588 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505618 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505648 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505678 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505708 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505738 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505768 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505798 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505828 GATGGTGACTCATACTTGTATGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** * *
1505858 GGTGGTGACTTGTACTCGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
**
1505888 GGTGGTGACTTGTACTTGTAT------GGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1505912 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *** * *
1505942 GGTGGTGACTTGTACACATATGGGGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** * *
1505972 GGTGGTGACTTGTACTCGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1506002 GGTGGTGACTCGTACTTGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1506032 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** ** *
1506062 GGTGGTGACTTGTACACGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1506092 GGTGGAGACTCATACTTGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* ** *** *
1506122 GGTGGTGATTTGTACACATAAGGAGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1506152 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** *
1506182 GGTGGTGACTTGTACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
*
1506212 GGTGGTGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** ** *
1506242 GGTGGTGACTTGTACACGTATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1506272 GGTGGAGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *** *
1506302 GGTGGTGACTTATACACATATGGGGGAGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* *
1506332 GGTGGCGACTCATACTTGTATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* * ** * * * *
1506362 GGTGGCGAGTTGTACATGTACGGGGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
* * * * *
1506392 GGCGGAGACTTATACTTATATGGAGGAGGT
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
** * * *
1506422 GGTGGTGACTTGTACATATATGGAGGTGGA
1 GGTGGTGACTCATACTTGTATGGAGGAGGA
1506452 GGTGGTGACTC
1 GGTGGTGACTC
1506463 GTGCTTATAT
Statistics
Matches: 1191, Mismatches: 188, Indels: 12
0.86 0.14 0.01
Matches are distributed among these distances:
24 21 0.02
30 1170 0.98
ACGTcount: A:0.22, C:0.10, G:0.40, T:0.28
Consensus pattern (30 bp):
GGTGGTGACTCATACTTGTATGGAGGAGGA
Found at i:1512070 original size:48 final size:48
Alignment explanation
Indices: 1511972--1512348 Score: 531
Period size: 48 Copynumber: 7.9 Consensus size: 48
1511962 TGAAGGTGGA
* * ** * * ** *
1511972 GGTGGAGGTGGAGACTAGTAAATGTAAGGAGGAGAAGGTGATGGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
* * *
1512020 GGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGTGATG-GGGAAAAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGG-AGAT
* *
1512068 GGTGGAGGTGGGGACTTGTAGACATATGGTGGAGGTGGTGAGAGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1512116 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1512164 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
* ** * *
1512212 GGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
* * * *
1512260 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAGGGAGAT
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
1512308 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGA
1 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGA
1512349 CTTGTAGATG
Statistics
Matches: 295, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
47 2 0.01
48 291 0.99
49 2 0.01
ACGTcount: A:0.25, C:0.03, G:0.49, T:0.23
Consensus pattern (48 bp):
GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGAT
Found at i:1512385 original size:48 final size:48
Alignment explanation
Indices: 1512333--1513608 Score: 1447
Period size: 48 Copynumber: 26.6 Consensus size: 48
1512323 TTGTAGACAT
* ** * * *
1512333 ATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* ***
1512381 ATGGTGGAGGTGGTGACTTGTAGGTGTAAGGTGGAGGAGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * *
1512429 ATGGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * *
1512477 ATGGTGGAGGTGGGGACTTGTACACATAGGGTGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * *
1512525 ATGGTGGAGGTGGGGACTTGTAGACGTAGGGTGGGGGAGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * *
1512573 ATGGTGGAGGTGGGGACTTATAGACGTAGGGTGGGGGAGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * *
1512621 ACGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGTGGTGACGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* *
1512669 ATGGAGGAGGTGGGGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * *
1512717 ATAGAGGAGGTGGGGACTTGTAGACATATGGTGGTGGAGGTGAATGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * *
1512765 ATGGTGGAGGTGGAGACTTGTAAACATATGGTGGATGAGGTGAATGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * ** * * *
1512813 ATGGTGGTGGTGGAGACTTATAAATGTAAGGAGGAGGTGGTGATGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
** * *
1512861 ATGGTGGAGGTGGGGACTTGTAGATGTAAGGGGGAGGTGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * *
1512909 ATGGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGAGGTGAATGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
*
1512957 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGGGGAGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * *
1513005 ATGGAGGAGGTGGGGACTTGTAGACATATGGTGGAGGAAGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * *
1513053 ATGGTGGTGGTGGAGACTTGTAAACATATGGTGGAGGAGGTGAATGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * ** * * *
1513101 ATGGTGGTGGTGGAGACTTATAAATGTAAGGAGGAGGTGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
** * *
1513149 ATGGTGGAGGTGGGGACTTGTAGTTATAAGGGGGAGGTGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* *
1513197 ATGGTGGAGGTGGGGACTTGTAGACATATGGTGGGGGAGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* ** * * *
1513245 ATGGTGGAGGTGGGGATTTGTAGATGTATGGAGGAGGAGGCGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * ** * * * *
1513293 ATGGTGGAGGAGGTGACTTGTAGATGTAAGGAGGTGGTGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * *
1513341 ATGGTGGAGGTGGGGACTTGTAGACATAGGGTGGGGGAGGTGAGGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * * * *
1513389 ACGGTGGAGGTGGGGACTTGTAGACATAAGGAGGAGGTGATGACGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * *
1513437 ATAGTGGAGGTGGGGACTTGTAGACATAAGGTGGGGGTGGTG-AGGCAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGG-AG
* * * * *
1513485 ATGGTGGAGGTGGCGACTTGTAGACATAGGGTGGTGGAGGCGAATGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
* * ** * *
1513533 ATGGTGGAGGTGGAGATTTGTAGATGTAAGGAGGAGGTGGTGAAGGAG
1 ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
*
1513581 ATGGTGGAGGTGGGGACTTGTAGGCATA
1 ATGGTGGAGGTGGGGACTTGTAGACATA
1513609 GGATGGTGGT
Statistics
Matches: 1065, Mismatches: 161, Indels: 4
0.87 0.13 0.00
Matches are distributed among these distances:
47 2 0.00
48 1061 1.00
49 2 0.00
ACGTcount: A:0.25, C:0.04, G:0.50, T:0.21
Consensus pattern (48 bp):
ATGGTGGAGGTGGGGACTTGTAGACATAAGGTGGAGGAGGTGAAGGAG
Found at i:1512387 original size:96 final size:95
Alignment explanation
Indices: 1512008--1512396 Score: 362
Period size: 96 Copynumber: 4.1 Consensus size: 95
1511998 AGGAGGAGAA
* * * *
1512008 GGTGATGGAGATGGTGGAGGTGGTGACTTGTAGACATATGGTGGAGGTGATG-GGGAAAATGGT-
1 GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGG-AGATGGTA
* * *
1512071 -GGAGGTGG-GGACTTGTAGACATATGGTGGAGGT
65 AGGAGGAGGTGG---TG-AAACAGATGGTGGAGGT
* *
1512104 GGTGAGAGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGG
1 GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGT-A
* * * * *
1512169 AGGTGGAGACTTGT-AGACATATGGTGGAGGT
65 AGGAGGAG-GTGGTGAAACAGATGGTGGAGGT
* ** * *
1512200 GGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGT--
1 GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGTAA
* * * *
1512263 GGAGGTGGTGATTTGTAAACATAAGGTGGAGGT
66 GGAGGAGGTG--GTG-AAACAGATGGTGGAGGT
* *
1512296 GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGACTTGTAGAT-GT
1 GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGA--GGGAGATGGT
***
1512360 AAGGAGGAGGTGGTGAGGGAGATGGTGGAGGT
64 AAGGAGGAGGTGGTGAAACAGATGGTGGAGGT
1512392 GGTGA
1 GGTGA
1512397 CTTGTAGGTG
Statistics
Matches: 243, Mismatches: 36, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
92 1 0.00
93 5 0.02
94 1 0.00
96 208 0.86
97 7 0.03
98 6 0.02
99 14 0.06
101 1 0.00
ACGTcount: A:0.23, C:0.03, G:0.50, T:0.24
Consensus pattern (95 bp):
GGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGTAA
GGAGGAGGTGGTGAAACAGATGGTGGAGGT
Found at i:1512390 original size:144 final size:142
Alignment explanation
Indices: 1511972--1512396 Score: 482
Period size: 144 Copynumber: 3.0 Consensus size: 142
1511962 TGAAGGTGGA
* ** * ** * *
1511972 GGTGGAGGTGGAGACTAGTAAATGTAAGGAGGAGAAGGTGATGGAGATGGTGGAGGTGGTGACTT
1 GGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
* * * * * **
1512037 GTAGACATATGGTGGAGGTGATG-GGGAAAATGGTGGAGGTGGGGACTTGTAGACATATGGTGGA
66 GTAGACATATGGTGGAGGTGGTGAGAGAGAA-GGAGGAGGTGGTGA--TGTAGATGTATGGTGGA
1512101 GGTGGTGAGAGAGAT
128 GGTGGTGAGAGAGAT
* *
1512116 GGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
* * * * *
1512181 GTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAG
66 GTAGACATATGGTGGAGGTGGTGAGAGAGAAGGAGGAGGTGGTGA--TGTAGATGTATGGTGGAG
*
1512246 GTGGTGAGGGAGAT
129 GTGGTGAGAGAGAT
* *
1512260 GGTGGAGGTGGTGATTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
1 GGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
*
1512325 GTAGACATATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGA-G-GGA-G-ATGGT
66 GTAGACATATGGTGGAGGTGGTGA---G-AGA-G-AAGGAGGAGGTGGTGATGTAGATGTATGGT
1512386 GGAGGTGGTGA
125 GGAGGTGGTGA
1512397 CTTGTAGGTG
Statistics
Matches: 245, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
144 218 0.89
145 6 0.02
146 2 0.01
147 2 0.01
148 2 0.01
149 1 0.00
150 14 0.06
ACGTcount: A:0.24, C:0.03, G:0.49, T:0.23
Consensus pattern (142 bp):
GGTGGAGGTGGAGACTTGTAAACATAAGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGAGACTT
GTAGACATATGGTGGAGGTGGTGAGAGAGAAGGAGGAGGTGGTGATGTAGATGTATGGTGGAGGT
GGTGAGAGAGAT
Found at i:1512469 original size:171 final size:171
Alignment explanation
Indices: 1512162--1512519 Score: 599
Period size: 171 Copynumber: 2.1 Consensus size: 171
1512152 GGTGAGGGAG
* * *
1512162 ATGGTGGAGGTGGAGACTTGTAGACATATGGTGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
* *
1512227 TTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
66 TTGTAGATGTAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
* *
1512292 AGGTGGTGAGGGAGATGGTGGAGGTGGAGACTTGTAGACAT
131 AGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTACACAT
**
1512333 ATGGTGGAGGTGGTGACTTGTAGATGTAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
1 ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
* *
1512398 TTGTAGGTGTAAGGTGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
66 TTGTAGATGTAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
*
1512463 AGGTGGTGAAGGAGATGGTGGAGGTGGGGACTTGTACACAT
131 AGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTACACAT
*
1512504 AGGGTGGAGGTGGTGA
1 ATGGTGGAGGTGGTGA
1512520 GGGAGATGGT
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
171 174 1.00
ACGTcount: A:0.24, C:0.03, G:0.49, T:0.24
Consensus pattern (171 bp):
ATGGTGGAGGTGGTGACTTGTAGACATAAGGAGGAGGTGGTGAGGGAGATGGTGGAGGTGGTGAC
TTGTAGATGTAAGGAGGAGGAGGTGAAGGAGATGGTGGAGGTGGTGATTTGTAAACATAAGGTGG
AGGTGGTGAAGGAGATGGTGGAGGTGGAGACTTGTACACAT
Found at i:1512557 original size:27 final size:27
Alignment explanation
Indices: 1512479--1512558 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
1512469 TGAAGGAGAT
* *
1512479 GGTGGAGGTGGGGACTTGTACACATAG
1 GGTGGAGGTGGGGACTTGTAGACGTAG
* * *
1512506 GGTGGAGGTGGTGA---G-GGA-G-AT
1 GGTGGAGGTGGGGACTTGTAGACGTAG
1512527 GGTGGAGGTGGGGACTTGTAGACGTAG
1 GGTGGAGGTGGGGACTTGTAGACGTAG
1512554 GGTGG
1 GGTGG
1512559 GGGAGGTGAG
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
21 14 0.36
23 1 0.03
24 2 0.05
25 2 0.05
26 1 0.03
27 19 0.49
ACGTcount: A:0.19, C:0.06, G:0.54, T:0.21
Consensus pattern (27 bp):
GGTGGAGGTGGGGACTTGTAGACGTAG
Found at i:1512584 original size:27 final size:26
Alignment explanation
Indices: 1512554--1512635 Score: 66
Period size: 27 Copynumber: 3.3 Consensus size: 26
1512544 GTAGACGTAG
1512554 GGTGGGGGAGGTGAGGGAGATGGTGGA
1 GGTGGGGGAGGTGAGGGAGA-GGTGGA
* * * * *
1512581 GGT-GGGGA-CTTA--TAGACGTAG-
1 GGTGGGGGAGGTGAGGGAGAGGTGGA
1512602 GGTGGGGGAGGTGAGGGAGACGGTGGA
1 GGTGGGGGAGGTGAGGGAGA-GGTGGA
1512629 GGTGGGG
1 GGTGGGG
1512636 ACTTGTAGAC
Statistics
Matches: 39, Mismatches: 10, Indels: 12
0.64 0.16 0.20
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
23 5 0.13
25 5 0.13
26 8 0.21
27 10 0.26
ACGTcount: A:0.18, C:0.04, G:0.62, T:0.16
Consensus pattern (26 bp):
GGTGGGGGAGGTGAGGGAGAGGTGGA
Found at i:1512656 original size:27 final size:27
Alignment explanation
Indices: 1512626--1512699 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 27
1512616 GGGAGACGGT
1512626 GGAGGTGGGGACTTGTAGACATAAGGA
1 GGAGGTGGGGACTTGTAGACATAAGGA
* *
1512653 GGAGGTGGTGAC--G--GAGAT--GGA
1 GGAGGTGGGGACTTGTAGACATAAGGA
1512674 GGAGGTGGGGACTTGTAGACATAAGG
1 GGAGGTGGGGACTTGTAGACATAAGG
1512700 TGGGGGAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
21 14 0.38
23 5 0.14
25 5 0.14
27 13 0.35
ACGTcount: A:0.27, C:0.07, G:0.49, T:0.18
Consensus pattern (27 bp):
GGAGGTGGGGACTTGTAGACATAAGGA
Done.