Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 122 of 199
Found at i:40830818 original size:80 final size:79
Alignment explanation
Indices: 40830682--40830898 Score: 301
Period size: 80 Copynumber: 2.7 Consensus size: 79
40830672 TGAATGATAT
* * *
40830682 CCGGGCTAAGTCCCGAAGGAAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCC-GGCTAAGATCCGAAGGCATTTG
* *
40830747 TGCGAGTTGCTATAC
65 TGCGAGTTACTAAAC
*
40830762 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGG-CTAAGATCCGAAGGCATTTG
*
40830827 TGCGAGTTACTAAAT
65 TGCGAGTTACTAAAC
* * * *
40830842 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCCGGCTAA-ATTCCGAAG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGA-TCCGAAG
40830899 AAACTTGGGT
Statistics
Matches: 123, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 13 0.11
80 109 0.89
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGCTAAGATCCGAAGGCATTTGT
GCGAGTTACTAAAC
Found at i:40845579 original size:18 final size:18
Alignment explanation
Indices: 40845558--40845596 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
40845548 AAAGGAAGAC
40845558 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
40845576 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
40845594 AGA
1 AGA
40845597 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:40847782 original size:22 final size:21
Alignment explanation
Indices: 40847750--40847791 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
40847740 TTGGTATTTA
40847750 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
40847771 GGAAGTTGGTACGAATTGGTA
1 GGAA-TTGGTACGAAATGGTA
40847792 ATGGTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.29
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:40850120 original size:10 final size:10
Alignment explanation
Indices: 40850107--40850144 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
40850097 CAGCTCTTTC
40850107 AGCTCAATCG
1 AGCTCAATCG
*
40850117 AGCTCATTTC-
1 AGCTCA-ATCG
40850127 AGCTCAATCG
1 AGCTCAATCG
40850137 AGCTCAAT
1 AGCTCAAT
40850145 TTAGCTACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.83
11 2 0.08
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (10 bp):
AGCTCAATCG
Found at i:40850167 original size:20 final size:20
Alignment explanation
Indices: 40850098--40850166 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
40850088 AGCTCGTTTC
40850098 AGCTC-TTTCAGCTCAATCG
1 AGCTCATTTCAGCTCAATCG
40850117 AGCTCATTTCAGCTCAATCG
1 AGCTCATTTCAGCTCAATCG
40850137 AGCTCAATTT-AGCTACAATTC-
1 AGCTC-ATTTCAGCT-CAA-TCG
40850158 AGCTCATTT
1 AGCTCATTT
40850167 ATTTTATTGG
Statistics
Matches: 46, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.11
20 27 0.59
21 12 0.26
22 2 0.04
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAATCG
Found at i:40853417 original size:16 final size:15
Alignment explanation
Indices: 40853387--40853470 Score: 61
Period size: 15 Copynumber: 5.7 Consensus size: 15
40853377 TTTTCACTTG
40853387 CTTTTTCTTTTTCAT
1 CTTTTTCTTTTTCAT
40853402 CTTTTTC-TTTTC-T
1 CTTTTTCTTTTTCAT
*
40853415 CATTTT-TTTTTCACT
1 CTTTTTCTTTTTCA-T
**
40853430 CTTTTT-TTTTGAAT
1 CTTTTTCTTTTTCAT
* *
40853444 TTTCTTTCTTTTT-TT
1 CTT-TTTCTTTTTCAT
40853459 CATTTTTCTTTT
1 C-TTTTTCTTTT
40853471 CTTTTTCTCT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
13 11 0.20
14 8 0.15
15 30 0.55
16 6 0.11
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (15 bp):
CTTTTTCTTTTTCAT
Found at i:40853455 original size:19 final size:20
Alignment explanation
Indices: 40853433--40853476 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
40853423 TTTCACTCTT
*
40853433 TTTTTTTGAATTTTC-TTTC
1 TTTTTTTCAATTTTCTTTTC
*
40853452 TTTTTTTCATTTTTCTTTTC
1 TTTTTTTCAATTTTCTTTTC
40853472 TTTTT
1 TTTTT
40853477 CTCTCATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTTTTCAATTTTCTTTTC
Found at i:40863384 original size:40 final size:40
Alignment explanation
Indices: 40863300--40863485 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
40863290 TTGAATGATG
* * * * *
40863300 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
40863340 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40863380 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
40863420 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40863461 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
40863486 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40863503 original size:80 final size:79
Alignment explanation
Indices: 40863301--40863518 Score: 210
Period size: 80 Copynumber: 2.7 Consensus size: 79
40863291 TGAATGATGT
** * * * *
40863301 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
40863364 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** * *
40863381 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTG
*
40863446 TGCGAGTTACT-ATAA
65 TGCGAGATACTAAT-A
* * *
40863461 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
40863519 TACGTGATTT
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
79 18 0.16
80 89 0.77
81 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:40871269 original size:40 final size:40
Alignment explanation
Indices: 40871185--40871370 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
40871175 TTGAATGATG
* * * * *
40871185 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
40871225 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
40871265 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
40871305 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
40871346 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
40871371 AACGATGAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40871388 original size:80 final size:79
Alignment explanation
Indices: 40871186--40871393 Score: 208
Period size: 80 Copynumber: 2.6 Consensus size: 79
40871176 TGAATGATGT
** * * * *
40871186 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAAG-TCCCGAAGGCATT
*
40871249 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** *
40871266 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAGTCCCGAAGGCATTTG
*
40871331 TGCGAGTTACT-ATAA
65 TGCGAGATACTAAT-A
* *
40871346 CCGGGCTATGTCCCGAAGGCATTTGAACGA-TGAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAA
40871394 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 14, Indels: 11
0.81 0.10 0.08
Matches are distributed among these distances:
79 11 0.10
80 89 0.82
81 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAGTCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:40873114 original size:23 final size:23
Alignment explanation
Indices: 40873076--40873131 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
40873066 GGCAAAAACA
40873076 CTTG-TTTTTTCATTTTCACACT
1 CTTGTTTTTTTCATTTTCACACT
* **
40873098 CTTTTTCTTTTTC-TTTTGTCACT
1 CTTGTT-TTTTTCATTTTCACACT
40873121 CTTGTTTTTTT
1 CTTGTTTTTTT
40873132 ATCAATCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 8 0.29
23 14 0.50
24 6 0.21
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (23 bp):
CTTGTTTTTTTCATTTTCACACT
Found at i:40879025 original size:47 final size:47
Alignment explanation
Indices: 40878959--40879197 Score: 379
Period size: 47 Copynumber: 5.1 Consensus size: 47
40878949 GAAATGATAG
40878959 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
40879006 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40879053 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40879100 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * *
40879147 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
40879194 TAAG
1 TAAG
40879198 TCCCGAAGGG
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 177 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40879372 original size:37 final size:37
Alignment explanation
Indices: 40879316--40879394 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
40879306 CCGAGCTCTA
* *
40879316 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
40879353 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
40879390 AAGAC
1 AAGAC
40879395 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:40881306 original size:43 final size:43
Alignment explanation
Indices: 40881258--40881360 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
40881248 TTGGTTTTCA
40881258 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40881301 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
40881344 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
40881361 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:40881377 original size:29 final size:29
Alignment explanation
Indices: 40881342--40881415 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
40881332 GTTGTGAGAT
* *
40881342 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
40881371 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
40881400 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
40881416 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:40881849 original size:40 final size:40
Alignment explanation
Indices: 40881805--40882268 Score: 784
Period size: 40 Copynumber: 11.6 Consensus size: 40
40881795 GAGTTACTAA
*
40881805 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
40881845 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
40881885 ATCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
40881925 ATCCGGGCTAAGTCCTGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
40881965 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
40882005 ATCCGTGCTAAATCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
40882045 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
40882085 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
40882125 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
40882165 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
40882205 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* *
40882245 ATCCGTGCTAAATCCCGAAGAGCA
1 ATCCGGGCTAAGTCCCGAAGAGCA
40882269 ATCACGCTGG
Statistics
Matches: 399, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 399 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:40886041 original size:47 final size:47
Alignment explanation
Indices: 40885974--40886065 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
40885964 GAAATGATAG
* *
40885974 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
40886021 TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGT
1 TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGT
40886066 AATGTGACAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:40887932 original size:27 final size:28
Alignment explanation
Indices: 40887848--40887945 Score: 119
Period size: 27 Copynumber: 3.5 Consensus size: 28
40887838 CATGAGATTG
* * *
40887848 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
40887877 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40887905 GCACTAAGTGTGCGAG-TTGATTTTATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
40887932 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
40887946 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
27 23 0.37
28 21 0.33
29 19 0.30
ACGTcount: A:0.24, C:0.13, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:40887958 original size:27 final size:27
Alignment explanation
Indices: 40887876--40887958 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
40887866 TAAATTGTTC
* *
40887876 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* * *
40887904 AGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
40887931 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
40887958 A
1 A
40887959 TATTTTTGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 28 0.58
28 20 0.42
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:40891599 original size:16 final size:15
Alignment explanation
Indices: 40891560--40891605 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
40891550 GTTCATTTCA
40891560 AGCTCATTTCAGCTC
1 AGCTCATTTCAGCTC
*
40891575 AGCACATTTCCAGCT-
1 AGCTCATTT-CAGCTC
40891590 AGCTCAATTTCAGCTC
1 AGCTC-ATTTCAGCTC
40891606 CACCAGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.24, C:0.33, G:0.13, T:0.30
Consensus pattern (15 bp):
AGCTCATTTCAGCTC
Found at i:40895604 original size:66 final size:66
Alignment explanation
Indices: 40895520--40895652 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
40895510 CTGATTGTTG
*
40895520 TTTCGAACAAGTGATTCTTCTTTTCCAAGTAGTGAATTCATTCTATACGCCACATCTTCAAACCT
1 TTTCAAACAAGTGATTCTTCTTTTCCAAGTAGTGAATTCATTCTATACGCCACATCTTCAAACCT
40895585 T
66 T
40895586 TTTCAAACAAGTGATTCTTCTTTTCCAAGTAGTGAATTCATTCTATACGCCACATCTTCAAACCT
1 TTTCAAACAAGTGATTCTTCTTTTCCAAGTAGTGAATTCATTCTATACGCCACATCTTCAAACCT
40895651 T
66 T
40895652 T
1 T
40895653 CTTTCTTTCG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (66 bp):
TTTCAAACAAGTGATTCTTCTTTTCCAAGTAGTGAATTCATTCTATACGCCACATCTTCAAACCT
T
Found at i:40903941 original size:16 final size:15
Alignment explanation
Indices: 40903900--40903938 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
40903890 TAGCTTCTTC
40903900 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
40903915 TTTTTTTTTCACGAA
1 TTTTTTTTTCACGAA
40903930 TTTTTTTTT
1 TTTTTTTTT
40903939 TCAACTTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (15 bp):
TTTTTTTTTCACGAA
Found at i:40905676 original size:29 final size:30
Alignment explanation
Indices: 40905626--40905683 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
40905616 TGAGTGATAA
40905626 AAAAAGAGAGAGTGATTCAAAA-GAAAAAG
1 AAAAAGAGAGAGTGATTCAAAATGAAAAAG
*
40905655 AAAAAGAGATGAGTGA-TGAAAATGAAAAA
1 AAAAAGAGA-GAGTGATTCAAAATGAAAAA
40905684 AAGAGTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.62, C:0.02, G:0.24, T:0.12
Consensus pattern (30 bp):
AAAAAGAGAGAGTGATTCAAAATGAAAAAG
Found at i:40913059 original size:28 final size:26
Alignment explanation
Indices: 40913015--40913074 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
40913005 CAACACTTCA
* *
40913015 CTTTTTTTATAACTTCGTATTTTTTT
1 CTTTTTTTATAACTTCGTAATTCTTT
*
40913041 CTTTTTTTATGAATTTTCGTAATTCTTT
1 CTTTTTTTAT-AA-CTTCGTAATTCTTT
40913069 -TTTTTT
1 CTTTTTT
40913075 ACTTTTCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 8 0.28
28 11 0.38
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.70
Consensus pattern (26 bp):
CTTTTTTTATAACTTCGTAATTCTTT
Found at i:40915935 original size:20 final size:20
Alignment explanation
Indices: 40915906--40915947 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
40915896 ATTCACTGAT
40915906 TTAAAATAAGACAC-AATTAA
1 TTAAAATAAGAC-CTAATTAA
*
40915926 TTAAATTAAGACCTAATTAA
1 TTAAAATAAGACCTAATTAA
40915946 TT
1 TT
40915948 CGGTTAGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (20 bp):
TTAAAATAAGACCTAATTAA
Found at i:40916256 original size:803 final size:803
Alignment explanation
Indices: 40914712--40916319 Score: 2675
Period size: 803 Copynumber: 2.0 Consensus size: 803
40914702 GTAAGATGCA
** *
40914712 ACTTTTGCTGAAAAGTGACCAACAATTAAAAGAAAATTGGACAGCCATTTGAAGTGTGAATGCTC
1 ACTTTTGCTGAAAAGTGACCAACAATTAAAAGAAAATTGGACAGCCAAATGAAGTGTGAAAGCTC
* * * *
40914777 TGCTTTGAAGAGTCCTTGAGTGTGAATACCATGAACTGAACAGCTAAAATGAGTCCAGCAATGTG
66 AGCTTTGAAGAGTCCTTGAGTGTGAACACCATGAACCGAACAGCCAAAATGAGTCCAGCAATGTG
* *
40914842 AAAGAAATAAATGGCAGCTTTGGAGTAGGAAACATCATCTCCTTTGGCCGAATAGTCACATAGGA
131 AAAGAAATAAATAGCAGCTTTGAAGTAGGAAACATCATCTCCTTTGGCCGAATAGTCACATAGGA
40914907 AACTTCAAAAATCAACACACCATTTTAATTGCATTCCATGCATGTATTGCCAAATACATTGAATC
196 AACTTCAAAAATCAACACACCATTTTAATTGCATTCCATGCATGTATTGCCAAATACATTGAATC
*
40914972 CAACGTGCATGCATCTTTTAAATGCACTCCCACATTCGGCCAACCTACAAAAGGAGCAAATGAAC
261 CAACGTGCATGCATCTTTTAAATGCAATCCCACATTCGGCCAACCTACAAAAGGAGCAAATGAAC
* *
40915037 TTAAATTAATTTGTATTCAGCTGAAACATAATTAAAACATAATCTGGACAATTTAAATTCACATA
326 TTAAATTAATTTATATTCAGCTGAAACATAATTAAAACACAATCTGGACAATTTAAATTCACATA
*
40915102 TTTAAAACAAGACACAATTAATTAAATTAAGACCTAATTAATTCGATTAGGACAATACACATTAA
391 TTTAAAACAAGACACAATTAATTAAATTAAGACCTAATTAATTCGATTAGGACAAGACACATTAA
*
40915167 AACATGCTATAAAACATATTTATAAGCTGTAGAAATTAAGATGACTTAAAAACATGTAAGAAACA
456 AACATGCTATAAAACATATTTATAAGCTCTAGAAATTAAGATGACTTAAAAACATGTAAGAAACA
40915232 CAATTAACATGCATAATTAAATTCGTCCAGATTTAAGACCAATTAAACAATAAAAATTAATTGAG
521 CAATTAACATGCATAATTAAATTCGTCCAGATTTAAGACCAATTAAACAATAAAAATTAATTGAG
* *
40915297 TTGTATATAACTAAATTAACTAACTCAAATAATTATTTCAGCAACTATATTATCGCATAAATGGA
586 CTGTATATAACTAAATTAACTAACTCAAATAATTATTTCAACAACTATATTATCGCATAAATGGA
*** * * *
40915362 ATTAAGCTAGATTTGAGCTAATTTGTGCTCTTGGAGCTGGAAACGAGCTAAGCGGAGCTCAATGA
651 ATTAAGCTAGATTTGAGCTAATTCAAGCTCTTGGAGCTCGAAACGAGCTAAACGGAGCTCAACGA
* *
40915427 AATTGAATTGAACTAATTCAGCTCGCATGCGTTTGCAAGCAATGCTTAGGGAGCTGGTCCAAAAG
716 AATGGAATTGAACTAATTCAGCTCGCATGCGTTTGCAAGCAATGCTTAGGAAGCTGGTCCAAAAG
*
40915492 TGAGTCCGGGGCGTGGTTGTATC
781 TGAGCCCGGGGCGTGGTTGTATC
* *
40915515 ACTTTTGCTGAAAAGTGACCAGCAATTAAAAGGAAATT-GAGCAGCCAAATGAAGTGTGAAAGCT
1 ACTTTTGCTGAAAAGTGACCAACAATTAAAAGAAAATTGGA-CAGCCAAATGAAGTGTGAAAGCT
*
40915579 CAGCTTTGAAGAGT-TTTGAAGTGTGAACACCATGAACCGAACAGCCAAAATGTA-TCCAGCAAT
65 CAGCTTTGAAGAGTCCTTG-AGTGTGAACACCATGAACCGAACAGCCAAAATG-AGTCCAGCAAT
* * * * *
40915642 GTGAAAGAATTCATTAGCAGCTTTGAAGTAGGAAACATCATCTCCTTTGGCCGGATAGTCACTTA
128 GTGAAAGAAATAAATAGCAGCTTTGAAGTAGGAAACATCATCTCCTTTGGCCGAATAGTCACATA
* *
40915707 GGAAACTTCAAAAATCAGCACATCATTTTAATTGCATTCCATGCATGTATTGCCAAATACATTGA
193 GGAAACTTCAAAAATCAACACACCATTTTAATTGCATTCCATGCATGTATTGCCAAATACATTGA
*
40915772 ATCCAATGTGCATGCATCTTTTAAATGCAATCCCACATTCGGCCAACCTACAAAAGGAGCAAATG
258 ATCCAACGTGCATGCATCTTTTAAATGCAATCCCACATTCGGCCAACCTACAAAAGGAGCAAATG
*
40915837 AACTTACATTAATTTATATTCAGCTGAAACATAATTAAAACACAATCTGGACAATTTAAATTCAC
323 AACTTAAATTAATTTATATTCAGCTGAAACATAATTAAAACACAATCTGGACAATTTAAATTCAC
* * *
40915902 -TGATTTAAAATAAGACACAATTAATTAAATTAAGACCTAATTAATTCGGTTAGGACAAGACAGA
388 AT-ATTTAAAACAAGACACAATTAATTAAATTAAGACCTAATTAATTCGATTAGGACAAGACACA
* * *
40915966 TTAAAACATGCTATAAAATATATTTATAAGCTCTAGGAATTAAGATGACTTAAAAATATGTAAGA
452 TTAAAACATGCTATAAAACATATTTATAAGCTCTAGAAATTAAGATGACTTAAAAACATGTAAGA
* *
40916031 AACACAATTAACGTGCATAATTAAATTCGTCCAGATTTAAGACCAATTAAACAATGAAAATTAAT
517 AACACAATTAACATGCATAATTAAATTCGTCCAGATTTAAGACCAATTAAACAATAAAAATTAAT
* *
40916096 TGAGCTGTATATAACTAAATTAACTAACTCAAATAATTATTTCAATAACTATATTATCGTATAAA
582 TGAGCTGTATATAACTAAATTAACTAACTCAAATAATTATTTCAACAACTATATTATCGCATAAA
* * *
40916161 TGGAATTAAGCTAGATTTGAGCTGATTCAAGCTCTTGGAGTTCGAAACGAGCTAAATGGAGCTCA
647 TGGAATTAAGCTAGATTTGAGCTAATTCAAGCTCTTGGAGCTCGAAACGAGCTAAACGGAGCTCA
* *
40916226 ACGAAATGGAATTGAACTAATTCAGCTCGCATGGGTTTGCAAGCAATGCTTAGGAAGCTGGTCTA
712 ACGAAATGGAATTGAACTAATTCAGCTCGCATGCGTTTGCAAGCAATGCTTAGGAAGCTGGTCCA
*
40916291 AAAGTGTGCCCGGGGCGTGGTTGTATC
777 AAAGTGAGCCCGGGGCGTGGTTGTATC
40916318 AC
1 AC
40916320 GATGGGCCTT
Statistics
Matches: 748, Mismatches: 53, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
802 6 0.01
803 741 0.99
804 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (803 bp):
ACTTTTGCTGAAAAGTGACCAACAATTAAAAGAAAATTGGACAGCCAAATGAAGTGTGAAAGCTC
AGCTTTGAAGAGTCCTTGAGTGTGAACACCATGAACCGAACAGCCAAAATGAGTCCAGCAATGTG
AAAGAAATAAATAGCAGCTTTGAAGTAGGAAACATCATCTCCTTTGGCCGAATAGTCACATAGGA
AACTTCAAAAATCAACACACCATTTTAATTGCATTCCATGCATGTATTGCCAAATACATTGAATC
CAACGTGCATGCATCTTTTAAATGCAATCCCACATTCGGCCAACCTACAAAAGGAGCAAATGAAC
TTAAATTAATTTATATTCAGCTGAAACATAATTAAAACACAATCTGGACAATTTAAATTCACATA
TTTAAAACAAGACACAATTAATTAAATTAAGACCTAATTAATTCGATTAGGACAAGACACATTAA
AACATGCTATAAAACATATTTATAAGCTCTAGAAATTAAGATGACTTAAAAACATGTAAGAAACA
CAATTAACATGCATAATTAAATTCGTCCAGATTTAAGACCAATTAAACAATAAAAATTAATTGAG
CTGTATATAACTAAATTAACTAACTCAAATAATTATTTCAACAACTATATTATCGCATAAATGGA
ATTAAGCTAGATTTGAGCTAATTCAAGCTCTTGGAGCTCGAAACGAGCTAAACGGAGCTCAACGA
AATGGAATTGAACTAATTCAGCTCGCATGCGTTTGCAAGCAATGCTTAGGAAGCTGGTCCAAAAG
TGAGCCCGGGGCGTGGTTGTATC
Found at i:40916750 original size:64 final size:64
Alignment explanation
Indices: 40916649--40916776 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
40916639 AAATCAAGAT
*
40916649 TCACTTTCTTCCTTTCAAGAAAATTAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCG
1 TCACTTTCTTCCTTTCAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCG
** * *
40916713 TCACTTTCTTGTTTTCAAGAAAATCAAGAAATCGAATCTTGGTCCGATTTTGCTGTTTTGAGCG
1 TCACTTTCTTCCTTTCAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCG
40916777 ATTTCAAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (64 bp):
TCACTTTCTTCCTTTCAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCG
Found at i:40919169 original size:19 final size:16
Alignment explanation
Indices: 40919130--40919163 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
40919120 AAAAAGAATG
40919130 AATTTTGAATTAAAAA
1 AATTTTGAATTAAAAA
40919146 AATTTTGAATTAAAAA
1 AATTTTGAATTAAAAA
40919162 AA
1 AA
40919164 AAATTTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (16 bp):
AATTTTGAATTAAAAA
Found at i:40935487 original size:12 final size:12
Alignment explanation
Indices: 40935472--40935505 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
40935462 AAGTATGATA
40935472 GAAAAAGAAATT
1 GAAAAAGAAATT
40935484 GAAAAAGAAATT
1 GAAAAAGAAATT
40935496 GAAAAAGAAA
1 GAAAAAGAAA
40935506 AAGAGAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (12 bp):
GAAAAAGAAATT
Found at i:40935492 original size:18 final size:18
Alignment explanation
Indices: 40935484--40935521 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
40935474 AAAAGAAATT
40935484 GAAAAAGA-AATTGAAAAA
1 GAAAAAGAGAA-TGAAAAA
40935502 GAAAAAGAGAATGAAAAA
1 GAAAAAGAGAATGAAAAA
40935520 GA
1 GA
40935522 GCAAAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.08
Consensus pattern (18 bp):
GAAAAAGAGAATGAAAAA
Found at i:40940838 original size:33 final size:34
Alignment explanation
Indices: 40940795--40940869 Score: 125
Period size: 33 Copynumber: 2.2 Consensus size: 34
40940785 GAGTTAGTTT
*
40940795 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
*
40940828 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
40940862 ATTAATTT
1 ATTAATTT
40940870 GTTTAAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (34 bp):
ATTAATTTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:40941534 original size:64 final size:64
Alignment explanation
Indices: 40941432--40941559 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
40941422 AAATCAAGAT
*
40941432 TCACTTTCTTGTTTTCAAGAAAATCAAGAAACCGAATCTTGGTCCAATTTTGCTGTTTTGAGCG
1 TCACTTTCTTGTTTTCAAGAAAATCAAGAAACCAAATCTTGGTCCAATTTTGCTGTTTTGAGCG
*
40941496 TCACTTTCTTGTTTTCAAGAAAATCAAGAAATCAAATCTTGGTCCAATTTTGCTGTTTTGAGCG
1 TCACTTTCTTGTTTTCAAGAAAATCAAGAAACCAAATCTTGGTCCAATTTTGCTGTTTTGAGCG
40941560 ATTTCAAGAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (64 bp):
TCACTTTCTTGTTTTCAAGAAAATCAAGAAACCAAATCTTGGTCCAATTTTGCTGTTTTGAGCG
Found at i:40950950 original size:79 final size:81
Alignment explanation
Indices: 40950814--40950998 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
40950804 TTGAATGATG
* * *
40950814 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
40950878 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
40950893 TTCCGGGCTAAG-CCCGAAGGCATTTGCGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
40950955 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
40950973 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
40950999 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGCGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:40951005 original size:40 final size:39
Alignment explanation
Indices: 40950815--40950998 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
40950805 TGAATGATGT
* * * *
40950815 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
40950855 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
40950895 CCGGGCTAAG-CCCGAAGGCATTTGCGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
40950933 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
40950974 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
40950999 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:40951020 original size:79 final size:79
Alignment explanation
Indices: 40950867--40951031 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
40950857 GGACTAAGAT
* * **
40950867 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGCGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
40950932 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
40950946 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
40951009 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
40951025 CCGAAGG
1 CCGAAGG
40951032 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:40954934 original size:14 final size:14
Alignment explanation
Indices: 40954915--40954941 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
40954905 ATACATTGAC
40954915 TAGATTCATGCATA
1 TAGATTCATGCATA
40954929 TAGATTCATGCAT
1 TAGATTCATGCAT
40954942 GGGAAGATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (14 bp):
TAGATTCATGCATA
Found at i:40969847 original size:24 final size:25
Alignment explanation
Indices: 40969788--40969854 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
40969778 GAAAAAAAAT
**
40969788 TTGAAATTTAAAAAAAAAATATTCA
1 TTGAAATTTAAAAAAAAAATATGAA
* *
40969813 TACGAAA-TTAAAAAAAAAA-GTGAA
1 T-TGAAATTTAAAAAAAAAATATGAA
40969837 TTGAAATTTAAAAAAAAA
1 TTGAAATTTAAAAAAAAA
40969855 TTCGAGAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 4 0.11
24 14 0.40
25 13 0.37
26 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.25
Consensus pattern (25 bp):
TTGAAATTTAAAAAAAAAATATGAA
Found at i:40974211 original size:23 final size:23
Alignment explanation
Indices: 40974185--40974246 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
40974175 TTGAACCATA
* **
40974185 ACCATTTTGTACCAAATCGTATT
1 ACCATTTCGTACCAAATCACATT
*
40974208 ACCATTTCGAACCAAATCACATT
1 ACCATTTCGTACCAAATCACATT
*
40974231 ACCATTTCGTAACAAA
1 ACCATTTCGTACCAAA
40974247 CCCAAAACCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (23 bp):
ACCATTTCGTACCAAATCACATT
Found at i:40974650 original size:19 final size:19
Alignment explanation
Indices: 40974605--40974651 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
40974595 TTCAGCTCAA
40974605 TTTTAGCTCAATGAGCTCGT
1 TTTTAGCTCAA-GAGCTCGT
**
40974625 TCCTAGCTCACA-AGCTCGT
1 TTTTAGCTCA-AGAGCTCGT
40974644 TTTTAGCT
1 TTTTAGCT
40974652 TACTTTAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 13 0.59
20 8 0.36
21 1 0.05
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (19 bp):
TTTTAGCTCAAGAGCTCGT
Found at i:40989446 original size:20 final size:21
Alignment explanation
Indices: 40989412--40989469 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
40989402 AGGTGGAATT
* **
40989412 GAGCTC-AAGTGAGCTGATTG
1 GAGCTCGAATTGAGCTGAAAG
40989432 GAG-TCGAATTGAGCT-AAAG
1 GAGCTCGAATTGAGCTGAAAG
*
40989451 GAGCTGGAATTGAGCTGAA
1 GAGCTCGAATTGAGCTGAA
40989470 GTCAGATTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 7 0.23
20 22 0.71
21 2 0.06
ACGTcount: A:0.31, C:0.12, G:0.34, T:0.22
Consensus pattern (21 bp):
GAGCTCGAATTGAGCTGAAAG
Found at i:40991008 original size:29 final size:30
Alignment explanation
Indices: 40990958--40991015 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
40990948 TAAGTGATAA
40990958 AAAAAGATAGAACGATGCAAAA-GAAAAAG
1 AAAAAGATAGAACGATGCAAAATGAAAAAG
**
40990987 AAAAAGATACGAGTGATG-AAAATGAAAAA
1 AAAAAGATA-GAACGATGCAAAATGAAAAA
40991016 AAGAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.64, C:0.05, G:0.21, T:0.10
Consensus pattern (30 bp):
AAAAAGATAGAACGATGCAAAATGAAAAAG
Found at i:40992117 original size:17 final size:17
Alignment explanation
Indices: 40992095--40992128 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
40992085 ATTGTTTAAC
*
40992095 TCATGCACCTTTATTAG
1 TCATGCACCTCTATTAG
40992112 TCATGCACCTCTATTAG
1 TCATGCACCTCTATTAG
40992129 CATTACCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (17 bp):
TCATGCACCTCTATTAG
Found at i:40993792 original size:16 final size:17
Alignment explanation
Indices: 40993755--40993792 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
40993745 AATCATTCTG
40993755 AAGAGGAGGGGAATGAAC
1 AAGAGGAGGGGAAT-AAC
*
40993773 AAGAGGAGGTGAAT-AC
1 AAGAGGAGGGGAATAAC
40993789 AAGA
1 AAGA
40993793 CTAAGAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
18 13 0.68
ACGTcount: A:0.47, C:0.05, G:0.39, T:0.08
Consensus pattern (17 bp):
AAGAGGAGGGGAATAAC
Found at i:40994132 original size:20 final size:20
Alignment explanation
Indices: 40994079--40994133 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
40994069 TTAATTTTTC
* *
40994079 TTGTCTTAGTTAAATTAAAT
1 TTGTCTTAATTTAATTAAAT
* *
40994099 ATGTCTTGAA-TTAATTAAGT
1 TTGTCTT-AATTTAATTAAAT
40994119 TTGTCTTAATTTAAT
1 TTGTCTTAATTTAAT
40994134 ACATGTGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.33, C:0.05, G:0.11, T:0.51
Consensus pattern (20 bp):
TTGTCTTAATTTAATTAAAT
Found at i:41002082 original size:40 final size:40
Alignment explanation
Indices: 41001935--41002158 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
41001925 TTGAATGATG
* * * *
41001935 TCCGGGC-AAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41001974 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41002014 TCTGGGCTATG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41002053 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41002093 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41002134 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41002159 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 39 0.24
40 111 0.69
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41002130 original size:80 final size:79
Alignment explanation
Indices: 41001935--41002158 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 79
41001925 TTGAATGATG
* * * * * *
41001935 TCCGGGC-AAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
41001997 TTGTGCGAGATACTAAT
63 TTGTGCGAGATACTAAA
* * * *
41002014 TCTGGGCTATGCCCGAAGGCATTGGTGCGAGTTACTA-AATCTGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
*
41002078 GTGCGAGTTACTAAA
65 GTGCGAGATACTAAA
* * *
41002093 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
41002158 G
65 G
41002159 AACGAGGAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.02
79 61 0.51
80 55 0.46
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:41002176 original size:80 final size:79
Alignment explanation
Indices: 41002025--41002181 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 79
41002015 CTGGGCTATG
* * ** *
41002025 CCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACT
41002090 AAATCCGGGTTAAGT
66 AAATCC-GGTTAAGT
* *
41002105 CCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-
*
41002168 CTATATCCGGTTAA
64 CTAAATCCGGTTAA
41002182 ATTCGAAGGT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 7 0.10
80 58 0.87
81 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACT
AAATCCGGTTAAGT
Found at i:41002180 original size:119 final size:119
Alignment explanation
Indices: 41001942--41002181 Score: 265
Period size: 119 Copynumber: 2.0 Consensus size: 119
41001932 ATGTCCGGGC
*
41001942 AAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGA
1 AAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGA
* * ** * *
41002007 TACTAATTCTGGGCTATGCCCGAAGGCATTGGTGCGAGTTACTAAATCTGGGTT
66 TACTAATACCGGGCTATGCCCGAAGGCATTGGAACGAGTGACTAAATCTCGGTT
* * * **
41002061 AAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGA
1 AAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGA
* * *
41002124 GTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATC-CGGTT
64 GATACTAAT-ACCGGGCTATG-CCCGAAGGCATTGGAACGAGTGA-CTAAATCTCGGTT
41002180 AA
1 AA
41002182 ATTCGAAGGT
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
118 3 0.03
119 68 0.67
120 30 0.30
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (119 bp):
AAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGA
TACTAATACCGGGCTATGCCCGAAGGCATTGGAACGAGTGACTAAATCTCGGTT
Found at i:41010049 original size:40 final size:39
Alignment explanation
Indices: 41009835--41010057 Score: 249
Period size: 39 Copynumber: 5.7 Consensus size: 39
41009825 TTGAATGATG
* * *
41009835 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
41009875 TCCGGACTAAGAT-CCGAAGGCATATTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCAT-TTGTGCGAGTTACTAA
*
41009915 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
41009955 TCTGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
41009993 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
41010033 ACCGGGCTATGTCCCGAA-GCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41010058 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
38 13 0.08
39 76 0.48
40 47 0.30
41 17 0.11
42 6 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:41010079 original size:78 final size:77
Alignment explanation
Indices: 41009874--41010080 Score: 199
Period size: 78 Copynumber: 2.6 Consensus size: 77
41009864 AAGTGACCAT
* ** *
41009874 ATCCGGACTAAGATCCGAAGGCATATTGTGCGAGAT-ACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATCCGGGCTAAG-TCCGAAGGCAT-TTGAACGAG-TGACTAA-TCCGGGTTAAGCCCGAAGGCAT
41009938 TGGTGCGAGTTACTAA
62 TGGTGCGAGTTACTAA
* * ** * *
41009954 ATCTGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATCCGGGTTAAGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCGAAGGCATTTGAACGAGTGACTAATCCGGGTTAAG-CCCGAAGGCATTGG
41010019 TGCGAGTTACTATA
65 TGCGAGTTACTA-A
*
41010033 A-CCGGGCTATGTCCCGAA-GCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGT-CCGAAGGCATTTGAACGAGTGA-CTA-ATCCGGGTTAA
41010081 TACTCTAGAA
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
77 12 0.11
78 67 0.61
79 22 0.20
80 9 0.08
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (77 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGAACGAGTGACTAATCCGGGTTAAGCCCGAAGGCATTGGT
GCGAGTTACTAA
Found at i:41014869 original size:40 final size:40
Alignment explanation
Indices: 41014631--41014855 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
41014621 TTGAATGATG
* * * *
41014631 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
41014671 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41014711 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41014750 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41014790 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41014831 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41014856 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41014877 original size:119 final size:119
Alignment explanation
Indices: 41014631--41014888 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
41014621 TTGAATGATG
* *
41014631 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
41014696 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
41014750 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
41014813 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
41014870 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
41014889 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:41017834 original size:40 final size:41
Alignment explanation
Indices: 41017777--41018041 Score: 187
Period size: 40 Copynumber: 6.6 Consensus size: 41
41017767 TTGAATGATG
*
41017777 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCATA
* *
41017817 TCCGGACTAAGAT-CCGAAGGCCTTTGTGC-GAGAT-ACTA-A
1 TCCGGACTAAG-TCCCGAAGGCCTTTGTGCTAAG-TGACCATA
*
41017856 TTCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACCATA
1 -TCCGGACTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCATA
* *
41017897 TCCGGACTAAGAT-CCGAAGGCCTTTGTGC-GAGAT-ACTA-A
1 TCCGGACTAAG-TCCCGAAGGCCTTTGTGCTAAG-TGACCATA
* * * * * *
41017936 TTCCGGGCTAA-ACCCGAAGGCATTTGTGCT-AGTTACTAAA
1 -TCCGGACTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCATA
** * * * *
41017976 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATA
1 TCCGGACTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCATA
* * * *
41018016 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGACTAAGTCCCGAAGGCCTTTG
41018042 AACGAGGAGC
Statistics
Matches: 188, Mismatches: 19, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
38 1 0.01
39 42 0.22
40 123 0.65
41 22 0.12
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (41 bp):
TCCGGACTAAGTCCCGAAGGCCTTTGTGCTAAGTGACCATA
Found at i:41017910 original size:80 final size:81
Alignment explanation
Indices: 41017777--41018041 Score: 373
Period size: 80 Copynumber: 3.3 Consensus size: 81
41017767 TTGAATGATG
41017777 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTT
41017841 TGTGCGAGATACTAAT
66 TGTGCGAGATACTAAT
41017857 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTT
41017921 TGTGCGAGATACTAAT
66 TGTGCGAGATACTAAT
* * * * ** *
41017937 TCCGGGCTAA-ACCCGAAGGCATTTGTGCT-AGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCCT
41017999 TTGTGCGA-ATTACT-AT
65 TTGTGCGAGA-TACTAAT
* *
41018015 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
41018042 AACGAGGAGC
Statistics
Matches: 170, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
78 4 0.02
79 54 0.32
80 112 0.66
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTT
TGTGCGAGATACTAAT
Found at i:41018060 original size:119 final size:120
Alignment explanation
Indices: 41017814--41018060 Score: 270
Period size: 119 Copynumber: 2.1 Consensus size: 120
41017804 CTAAGTGACC
* * *
41017814 ATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATACTAATTCCGGGCTAAGTCCCGAAGGCT
1 ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCT
* * * **
41017879 TTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCCTTTGTGCGAGATACT
66 TTGTGCGAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAACGAGATACT
* * * *
41017934 A-ATTCCGGGCTAA-ACCCGAAGGCATTTGTGCTAGTTACTAAATCCGGGTTAAGTCCCGAAGGC
1 ATA-TCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGC
* * * * *
41017997 ATTTGTGCGAA-TTACTATAACCGGGCTATG-TCCCGAAGGCATTTGAACGAGGA-GCT
65 -TTTGTGCGAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTGAACGA-GATACT
41018053 ATATCCGG
1 ATATCCGG
41018061 TTAAATTTCG
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
118 1 0.01
119 82 0.78
120 22 0.21
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (120 bp):
ATATCCGGACTAAGACCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCT
TTGTGCGAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAACGAGATACT
Found at i:41025237 original size:10 final size:11
Alignment explanation
Indices: 41025210--41025242 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
41025200 AATGTCTAAA
*
41025210 TGAAATTGAGC
1 TGAATTTGAGC
41025221 TGAATTTGAGC
1 TGAATTTGAGC
41025232 TG-ATTTGAGC
1 TGAATTTGAGC
41025242 T
1 T
41025243 CATGGAGCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.36
Consensus pattern (11 bp):
TGAATTTGAGC
Found at i:41038563 original size:11 final size:11
Alignment explanation
Indices: 41038540--41038568 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
41038530 AGCTTGATCC
41038540 AGCTCAA-TTT
1 AGCTCAATTTT
41038550 AGCTCAATTTT
1 AGCTCAATTTT
41038561 AGCTCAAT
1 AGCTCAAT
41038569 GAGTTCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (11 bp):
AGCTCAATTTT
Found at i:41043236 original size:12 final size:12
Alignment explanation
Indices: 41043219--41043262 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
41043209 AGTGATTGTG
41043219 AAAAATTTTGAA
1 AAAAATTTTGAA
41043231 AAAAATTTT-AA
1 AAAAATTTTGAA
*
41043242 AAAAA-ATTGAA
1 AAAAATTTTGAA
*
41043253 AAAAAATTTG
1 AAAAATTTTG
41043263 TACATGATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 2 0.07
11 14 0.50
12 12 0.43
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
AAAAATTTTGAA
Found at i:41048886 original size:11 final size:12
Alignment explanation
Indices: 41048870--41048902 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
41048860 TTTCAATGTT
41048870 ATTATTATTATC
1 ATTATTATTATC
41048882 A-TATTA-TATC
1 ATTATTATTATC
41048892 ATTATTATTAT
1 ATTATTATTAT
41048903 TTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.26
11 10 0.53
12 4 0.21
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:41049729 original size:108 final size:109
Alignment explanation
Indices: 41049501--41049839 Score: 576
Period size: 108 Copynumber: 3.1 Consensus size: 109
41049491 TACGCATACT
*
41049501 AATATCCTTTTAAAAGATTTCAAAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
1 AATATCCTTTTAAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGC
*
41049566 CCTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAACCA
65 CCTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
**
41049611 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTAAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
41049676 C-AATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
*
41049719 AATATTCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
41049784 CTAATGTGCTGGGTTTTGA--TTTCTCATTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
*
41049826 AATATCCTCTTAAA
1 AATATCCTTTTAAA
41049840 TCGTAATCCA
Statistics
Matches: 216, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
107 34 0.16
108 103 0.48
109 64 0.30
110 15 0.07
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
Found at i:41055134 original size:45 final size:45
Alignment explanation
Indices: 41055085--41055535 Score: 328
Period size: 45 Copynumber: 10.1 Consensus size: 45
41055075 ACAGATCAGT
* * * * *
41055085 GAAGATAGTAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * *
41055130 GAAGATAGTAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * * *
41055175 GAAGACACCAG-CCTTGCCTTCCTGTACTAGCAGCGAAGCAGA-C
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* ** *
41055218 TGAAGATAGCAGATCTTGCCTTCTTGTACTGATAGCGAAGCAGATT
1 -GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * * * * * * *
41055264 AAAAACACCAG-CCTTACCTTCCTGTACTGGCAGCGGAGTAGA-C
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * * *
41055307 TGAAGAAAGAAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATC
1 -GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * * * *
41055353 GGAGACACCAG--CGTTGCCTTCCTGTACTGGCAG-TAGAGCA-AAC
1 GAAGATAGCAGATC-TTGCCTTCCTGTACTGGCAGCGA-AGCAGATC
* * ** *
41055396 TGAAGATAGCAGATCTTGCATTCCTCTACTAACAGCGAAGCAAATC
1 -GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
* * * * * *
41055442 GAAGACACCAG-CCTTGCCTTCCTGTACTGACAGC-AGAGAAGATT
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGA-AGCAGATC
* * * * **
41055486 GAAGATAACAAATCTCGTCTTCCTGTACTAACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
41055531 GAAGA
1 GAAGA
41055536 CACCATAGTT
Statistics
Matches: 312, Mismatches: 78, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
43 6 0.02
44 129 0.41
45 171 0.55
46 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGCCTTCCTGTACTGGCAGCGAAGCAGATC
Found at i:41055258 original size:89 final size:89
Alignment explanation
Indices: 41055098--41055540 Score: 532
Period size: 89 Copynumber: 5.0 Consensus size: 89
41055088 GATAGTAGAT
* * * * *
41055098 CTTGTCTTCCTGTATTGGCAGCAAAGTAGA-TCGAAGATAGTAGATCTTGCCTTCCTGTACTGAC
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGACT-GAAGATAGCAGATCTTGCCTTCCTGTACTGAC
*
41055162 AGTGAAGCAGATCGAAGACACCAGC
65 AGCGAAGCAGATCGAAGACACCAGC
* * *
41055187 CTTGCCTTCCTGTACTAGCAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCTTGTACTGATA
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
** *
41055252 GCGAAGCAGATTAAAAACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
41055276 CTTACCTTCCTGTACTGGCAGCGGAGTAGACTGAAGAAAGAAGATCTTGCCTTCCTGTACTGACA
1 CTTGCCTTCCTGTACTGGCAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* *
41055341 GTGAAGCAGATCGGAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * * *
41055365 GTTGCCTTCCTGTACTGGCAG-TAGAGCAAACTGAAGATAGCAGATCTTGCATTCCTCTACTAAC
1 CTTGCCTTCCTGTACTGGCAGCGA-AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGAC
*
41055429 AGCGAAGCAAATCGAAGACACCAGC
65 AGCGAAGCAGATCGAAGACACCAGC
* * * * * * * *
41055454 CTTGCCTTCCTGTACTGACAGC-AGAGAAGATTGAAGATAACAAATCTCGTCTTCCTGTACTAAC
1 CTTGCCTTCCTGTACTGGCAGCGA-AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGAC
41055518 AGCGAAGCAGATCGAAGACACCA
65 AGCGAAGCAGATCGAAGACACCA
41055541 TAGTTTGCAG
Statistics
Matches: 300, Mismatches: 51, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
89 299 1.00
90 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (89 bp):
CTTGCCTTCCTGTACTGGCAGCGAAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
GCGAAGCAGATCGAAGACACCAGC
Found at i:41055699 original size:45 final size:45
Alignment explanation
Indices: 41055563--41056012 Score: 359
Period size: 45 Copynumber: 10.1 Consensus size: 45
41055553 AAGCGGATTA
* * * ** * *
41055563 AAGATAGTAGATCTTGACTTCCTGTACTGATAGCAAAGCAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * ** * * *
41055608 AA-ACAGCAG-TCTTG-CCTCTCTGGGTTTGTAGCAAAGTAGA-CTG
1 AAGATAGCAGATCTTGTCTTC-CTGTATTGGCAGCGAAGTAGATC-G
* *
41055651 AAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
41055696 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* *** * * * * *
41055741 AAGATAGCCA-ATCTTGTCTCCCTG-AGCAGTAGTGGAGTAGGTTG
1 AAGATAG-CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
41055785 AAGATAGCA-AGTTTTGTCTTCCTATATTGGCAGTGAAGTAGATCG
1 AAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * * *
41055830 AAGTTAGCAGATCTTGTC-TCC-CTA--AGCAGCAGTAGAGTAGGTCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGC-G-A-AGTAGATCG
* * *
41055874 AATATAGCA-AGTCTTGTCTTCTTGTATTGGCAACGAAGTAGA-CTG
1 AAGATAGCAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-G
* * *
41055919 AAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
* * *
41055964 AGGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
41056009 AAGA
1 AAGA
41056013 CGAGATCCAA
Statistics
Matches: 319, Mismatches: 65, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.01
42 5 0.02
43 30 0.09
44 66 0.21
45 197 0.62
46 12 0.04
47 1 0.00
48 4 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
AAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCG
Found at i:41055802 original size:44 final size:44
Alignment explanation
Indices: 41055687--41055892 Score: 157
Period size: 44 Copynumber: 4.6 Consensus size: 44
41055677 TTGGCAGCGA
* * *** * *
41055687 AGTAGGTCGAAGATAGC-AGATCTTGTCTTCCTGTATTGGCAGCGA
1 AGTAGGTCGAAGATAGCAAG-TCTTGTCTCCCT-AAGCAGCAGTGG
* * *
41055732 AGTAGATCGAAGATAGCCAA-TCTTGTCTCCCTGAGCAGTAGTGG
1 AGTAGGTCGAAGATAG-CAAGTCTTGTCTCCCTAAGCAGCAGTGG
* * * *** *
41055776 AGTAGGTTGAAGATAGCAAGTTTTGTCTTCCTATATTGGCAGTGA
1 AGTAGGTCGAAGATAGCAAGTCTTGTCTCCCTA-AGCAGCAGTGG
* * *
41055821 AGTAGATCGAAGTTAGC-AGATCTTGTCTCCCTAAGCAGCAGTAG
1 AGTAGGTCGAAGATAGCAAG-TCTTGTCTCCCTAAGCAGCAGTGG
*
41055865 AGTAGGTCGAATATAGCAAGTCTTGTCT
1 AGTAGGTCGAAGATAGCAAGTCTTGTCT
41055893 TCTTGTATTG
Statistics
Matches: 123, Mismatches: 32, Indels: 13
0.73 0.19 0.08
Matches are distributed among these distances:
43 3 0.02
44 59 0.48
45 59 0.48
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (44 bp):
AGTAGGTCGAAGATAGCAAGTCTTGTCTCCCTAAGCAGCAGTGG
Found at i:41055802 original size:89 final size:89
Alignment explanation
Indices: 41055641--41056012 Score: 385
Period size: 89 Copynumber: 4.2 Consensus size: 89
41055631 GTTTGTAGCA
* * *** * *
41055641 AAGTAGA-CTGAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCGAAGATAGCA
1 AAGTAGATC-GAAGATAGCAGATCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTCGAAGATAGCA
*
41055705 GATCTTGTCTTCCTGTATTGGCAGCG
64 GATCTTGTCTTCCTATATTGGCAGCG
* *
41055731 AAGTAGATCGAAGATAGCCA-ATCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATAGCA-
1 AAGTAGATCGAAGATAG-CAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATAGCAG
* *
41055794 AGTTTTGTCTTCCTATATTGGCAGTG
65 A-TCTTGTCTTCCTATATTGGCAGCG
* * * *
41055820 AAGTAGATCGAAGTTAGCAGATCTTGTCTCCCTAAGCAGCAGTAGAGTAGGTCGAATATAGCA-A
1 AAGTAGATCGAAGATAGCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATAGCAGA
* * *
41055884 GTCTTGTCTTCTTGTATTGGCAACG
66 -TCTTGTCTTCCTATATTGGCAGCG
* * * *** * * *
41055909 AAGTAGA-CTGAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAGGATAGCA
1 AAGTAGATC-GAAGATAGCAGATCTTGTCTCCCTG-AGCAGCAGTGGAGTAGGTCGAAGATAGCA
*
41055973 GATCTTGTCTTCCTATATTGGTAGCG
64 GATCTTGTCTTCCTATATTGGCAGCG
41055999 AAGTAGATCGAAGA
1 AAGTAGATCGAAGA
41056013 CGAGATCCAA
Statistics
Matches: 234, Mismatches: 40, Indels: 16
0.81 0.14 0.06
Matches are distributed among these distances:
88 4 0.02
89 145 0.62
90 80 0.34
91 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (89 bp):
AAGTAGATCGAAGATAGCAGATCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATAGCAGA
TCTTGTCTTCCTATATTGGCAGCG
Found at i:41055817 original size:134 final size:135
Alignment explanation
Indices: 41055641--41056012 Score: 434
Period size: 134 Copynumber: 2.8 Consensus size: 135
41055631 GTTTGTAGCA
* *
41055641 AAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCGAAGATAGCAG
1 AAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAG
*
41055706 ATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCCAA-TCTTGTCTCCCTG-AGCA
66 ATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAG-CAAGTCTTGTCTCCCTGTAGCA
* **
41055769 GTAGTG
130 GCAACG
* ** * *
41055775 GAGTAGGTTGAAGATAGCA-AGTTTTGTCTTCCTATATTGGCAGTGAAGTAGATCGAAGTTAGCA
1 AAGTAGACTGAAGATAGCAGA-TTTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCA
* * * * *
41055839 GATCTTGTCTCCCTA-A---GCAGCAGTAGAGTAGGTCGAATATAGCAAGTCTTGTCTTCTTGTA
65 GATCTTGTCTTCCTATATTGGCAGC-G-A-AGTAGATCGAAGATAGCAAGTCTTGTCTCCCTGTA
***
41055900 TTGGCAACG
127 GCAGCAACG
* * * *
41055909 AAGTAGACTGAAGATTGTAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAGGATAGCAG
1 AAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAG
*
41055974 ATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGA
66 ATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGA
41056013 CGAGATCCAA
Statistics
Matches: 195, Mismatches: 32, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
130 5 0.03
131 1 0.01
132 4 0.02
133 27 0.14
134 139 0.71
135 13 0.07
136 1 0.01
137 1 0.01
138 4 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (135 bp):
AAGTAGACTGAAGATAGCAGATTTTGTCTTCCTGTATTGGCAGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCTTGTCTCCCTGTAGCAG
CAACG
Found at i:41056163 original size:44 final size:43
Alignment explanation
Indices: 41056022--41056322 Score: 171
Period size: 44 Copynumber: 6.9 Consensus size: 43
41056012 ACGAGATCCA
* *
41056022 AATCTTATCTCCCTGAAGTTGTAGTGGAACAGATTAAAGCCAC
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAC
* * * * ** *
41056065 AAGTTTTACCTCCCTGAAGTTGCAGTGGAGCAAACAGAAGAAAC-C
1 AA-TCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTAA-AACCAC
* *
41056110 AATAC-TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAACCAC
1 AAT-CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAC
* * * * *** **
41056153 AGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA-TCGTA-TTC
1 A-ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAC
* * * * *
41056195 AGTCTTATCTCCTTGAAGTTGCAGTGTGGAGTAGATTGAAGAAAC-C
1 AATCTTATCTCCCTGAAGTTGTA--GTGGAGCAGATT-AA-AACCAC
* * * * ** *
41056241 AATCTTATCTCCCTGAAATTGCAGTGGAGCATATTGAGGCTAC
1 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAC
* *
41056284 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
1 -AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA
41056323 TTGATGAATC
Statistics
Matches: 189, Mismatches: 54, Indels: 29
0.69 0.20 0.11
Matches are distributed among these distances:
41 19 0.10
42 5 0.03
43 18 0.10
44 118 0.62
45 5 0.03
46 24 0.13
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAACCAC
Found at i:41057799 original size:11 final size:12
Alignment explanation
Indices: 41057781--41057813 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
41057771 TCATTTTAAT
41057781 ATTATTATTATC
1 ATTATTATTATC
41057793 A-TATTA-TATC
1 ATTATTATTATC
41057803 ATTATTATTAT
1 ATTATTATTAT
41057814 TTATTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.26
11 10 0.53
12 4 0.21
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (12 bp):
ATTATTATTATC
Found at i:41058601 original size:109 final size:109
Alignment explanation
Indices: 41058408--41058748 Score: 562
Period size: 109 Copynumber: 3.1 Consensus size: 109
41058398 TACGCATACT
* *
41058408 AATAT-CTGTTTAAAAATATTTCAAAATAAGGTAATGTTTTGCATTTGGAAATTCTAGAAAACGT
1 AATATCCT-TTTAAAAAT-TTT-AAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGT
*
41058472 GCCCCAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
63 GCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
41058519 AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
*
41058584 CTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
41058628 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
*
41058693 CTAATGTGCTGGGTTTCGA--TTTCTCGTTGGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
41058735 AATATCCTCTTAAA
1 AATATCCTTTTAAA
41058749 TCTTAATCCA
Statistics
Matches: 220, Mismatches: 9, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
107 34 0.15
109 167 0.76
110 3 0.01
111 14 0.06
112 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTTAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:41059419 original size:50 final size:52
Alignment explanation
Indices: 41059293--41059424 Score: 137
Period size: 50 Copynumber: 2.6 Consensus size: 52
41059283 ATGAACAAAT
* *
41059293 GAGTTACTTAATGCA-AGACTTAATTTAATGATGCAGACTTAAACTAACATAG
1 GAGTTACATAATGCATA-ACTTTATTTAATGATGCAGACTTAAACTAACATAG
* ** * * *
41059345 GAGTAACATAATGCATGCCATTATTT-ATGATGCATACTT-AACTAGCAT-G
1 GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
*
41059394 GAAGTTACATAATGCATAACTTTATTAAATG
1 G-AGTTACATAATGCATAACTTTATTTAATG
41059425 CAAAACACAA
Statistics
Matches: 64, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
49 2 0.03
50 28 0.44
51 15 0.23
52 19 0.30
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATAG
Found at i:41064230 original size:30 final size:32
Alignment explanation
Indices: 41064158--41064233 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 32
41064148 TAATGCATGT
* *
41064158 CATAATTAAAAGATGTAGATTAATAATGCAAGA
1 CATAATT-AAAGATGCAGATTAATAATACAAGA
*
41064191 CATTAATTAAAGATGCA-TTTAATAA-ACAAGA
1 CA-TAATTAAAGATGCAGATTAATAATACAAGA
41064222 CATAATTAAAGA
1 CATAATTAAAGA
41064234 CTCATATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 10 0.26
31 7 0.18
32 7 0.18
33 10 0.26
34 5 0.13
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.28
Consensus pattern (32 bp):
CATAATTAAAGATGCAGATTAATAATACAAGA
Found at i:41066456 original size:20 final size:20
Alignment explanation
Indices: 41066431--41066475 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
41066421 GTACTAACCG
41066431 AATTAATTAG-GTCTTAG-TTT
1 AATTAATT-GTGTCTT-GTTTT
41066451 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTGTTTT
41066471 AATTA
1 AATTA
41066476 TGTGAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
AATTAATTGTGTCTTGTTTT
Found at i:41068771 original size:30 final size:27
Alignment explanation
Indices: 41068722--41068781 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
41068712 AAAGAAATTG
* **
41068722 AAGAAAGAAGAGAAAACGAGTTAGAAA
1 AAGAAAGAAGAAAAAACGAGCGAGAAA
41068749 AAGAAATGAAAGAAAAAGACGAGCGAGAAA
1 AAGAAA-G-AAGAAAAA-ACGAGCGAGAAA
41068779 AAG
1 AAG
41068782 TGAGGAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 6 0.22
28 1 0.04
29 7 0.26
30 13 0.48
ACGTcount: A:0.63, C:0.05, G:0.27, T:0.05
Consensus pattern (27 bp):
AAGAAAGAAGAAAAAACGAGCGAGAAA
Found at i:41080926 original size:16 final size:16
Alignment explanation
Indices: 41080885--41080927 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
41080875 TTAAAAGACT
41080885 TTTAATTAAGATTTCAA
1 TTTAATTAAG-TTTCAA
*
41080902 TTTAA-TAAGTTTGAA
1 TTTAATTAAGTTTCAA
41080917 TTTAATTAAGT
1 TTTAATTAAGT
41080928 CATGCATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 9 0.38
17 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (16 bp):
TTTAATTAAGTTTCAA
Found at i:41081017 original size:17 final size:18
Alignment explanation
Indices: 41080997--41081030 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
41080987 TAACTTCAAT
41080997 TTGCATT-TAATTATGTC
1 TTGCATTATAATTATGTC
41081014 TTGCATTATAATTATGT
1 TTGCATTATAATTATGT
41081031 TTCTTATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (18 bp):
TTGCATTATAATTATGTC
Found at i:41084311 original size:18 final size:19
Alignment explanation
Indices: 41084290--41084340 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
41084280 AAACTTTAAT
*
41084290 AAAAATATAAAATATT-TA
1 AAAAATATAAAATATTAGA
*
41084308 AAAATTACTAAAA-ATTAGA
1 AAAAATA-TAAAATATTAGA
41084327 AAAAATCATAAAAT
1 AAAAAT-ATAAAAT
41084341 GGATACCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 9 0.35
19 16 0.62
20 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATATAAAATATTAGA
Found at i:41084319 original size:10 final size:9
Alignment explanation
Indices: 41084235--41084330 Score: 65
Period size: 10 Copynumber: 10.6 Consensus size: 9
41084225 CATGTGACAA
41084235 AAAAATTAT
1 AAAAATTAT
41084244 AAAAA--AT
1 AAAAATTAT
*
41084251 AAAAATCAAT
1 AAAAAT-TAT
* *
41084261 TAAAGTTAT
1 AAAAATTAT
41084270 AAAAATTATT
1 AAAAATTA-T
**
41084280 AAACTTTAAT
1 AAAAATT-AT
41084290 AAAAA-TAT
1 AAAAATTAT
41084298 AAAATATT-T
1 AAAA-ATTAT
41084307 AAAAATTACT
1 AAAAATTA-T
*
41084317 AAAAATTAG
1 AAAAATTAT
41084326 AAAAA
1 AAAAA
41084331 ATCATAAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
7 7 0.10
8 9 0.13
9 25 0.37
10 26 0.38
11 1 0.01
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:41084633 original size:9 final size:9
Alignment explanation
Indices: 41084606--41084656 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
41084596 TTATATTTCT
*
41084606 TTTTCTATA
1 TTTTATATA
41084615 TTTCTATATA
1 TTT-TATATA
41084625 TTTTATATA
1 TTTTATATA
41084634 TTTTATGAT-
1 TTTTAT-ATA
41084643 TTTTATAATA
1 TTTTAT-ATA
41084653 TTTT
1 TTTT
41084657 TCTAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 23 0.62
10 14 0.38
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTTATATA
Found at i:41084633 original size:19 final size:18
Alignment explanation
Indices: 41084605--41084656 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
41084595 TTTATATTTC
*
41084605 TTTTTCTATATTTCTAT-A
1 TTTTTATATATTT-TATGA
41084623 TATTTTATATATTTTATGA
1 T-TTTTATATATTTTATGA
41084642 TTTTTATAATATTTT
1 TTTTTAT-ATATTTT
41084657 TCTAATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 10 0.33
19 20 0.67
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTTATATATTTTATGA
Found at i:41084681 original size:29 final size:29
Alignment explanation
Indices: 41084649--41084715 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
41084639 TGATTTTTAT
41084649 AATATTTTTCTA-ATTTTTAATGAAAATTA
1 AATATTTTT-TATATTTTTAATGAAAATTA
* * * *
41084678 AATATTTCTTATATTTTTTATTAAAATTT
1 AATATTTTTTATATTTTTAATGAAAATTA
*
41084707 AATAATTTT
1 AATATTTTT
41084716 GATAACTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (29 bp):
AATATTTTTTATATTTTTAATGAAAATTA
Found at i:41085087 original size:86 final size:86
Alignment explanation
Indices: 41084873--41085095 Score: 263
Period size: 85 Copynumber: 2.5 Consensus size: 86
41084863 TGCATTTTGG
* **
41084873 CAATTGAGTGCAAAAAAAAAAAGCAGGGATTAATTGTTTTTTTGAAAAAGTTTGAGGGCCCTTTT
1 CAATTGAGTGC-AAAAAAAAGAG--GGGATTAATTG-TTTTTTGAAAAAAATTGAGGGCCCTTTT
*
41084938 GATGCATTTTGTCAGTTCAAGTATC
62 GATGCATTTTGCCAGTTCAAGTATC
* * * *
41084963 CAATTGAGTGC-AAAAAAAGA-GAGCTTAATTACATTTTTTGAAAAAAATTGA-GGCCTTTTTGA
1 CAATTGAGTGCAAAAAAAAGAGGGGATTAATT--GTTTTTTGAAAAAAATTGAGGGCCCTTTTGA
41085025 TGCATTTTGCCAGTTCAAGTATC
64 TGCATTTTGCCAGTTCAAGTATC
* * *
41085048 TAATTGAGTGCAAAAAAAAGTAGGGGTTTAATTGTTTTTTTAAAAAAA
1 CAATTGAGTGCAAAAAAAAG-AGGGGATTAATTGTTTTTTGAAAAAAA
41085096 AAGTTTAAGG
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
85 50 0.43
86 37 0.32
87 1 0.01
88 16 0.14
90 11 0.10
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (86 bp):
CAATTGAGTGCAAAAAAAAGAGGGGATTAATTGTTTTTTGAAAAAAATTGAGGGCCCTTTTGATG
CATTTTGCCAGTTCAAGTATC
Found at i:41087065 original size:17 final size:17
Alignment explanation
Indices: 41087022--41087075 Score: 72
Period size: 19 Copynumber: 3.0 Consensus size: 17
41087012 TGAATAAATT
41087022 ACTCATCTTAGTTAATTGA
1 ACTCATCTTAGTTAA-T-A
*
41087041 ATTCATCTTAGTTAATA
1 ACTCATCTTAGTTAATA
41087058 ACTCATCTTAGTTTAATA
1 ACTCATCTTAG-TTAATA
41087076 CATGAGTTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 11 0.34
18 7 0.22
19 14 0.44
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (17 bp):
ACTCATCTTAGTTAATA
Found at i:41088242 original size:50 final size:52
Alignment explanation
Indices: 41088184--41088302 Score: 188
Period size: 50 Copynumber: 2.3 Consensus size: 52
41088174 TTAATAAAGT
* *
41088184 CATGCATTATGTAACTCTCATGTTAG-TTAAGTTTGCATCA-TAAATTATGA
1 CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTATGA
*
41088234 CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTATGT
1 CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTATGA
*
41088286 CATGCATTAAGTAACTC
1 CATGCATTATGTAACTC
41088303 ATTTGTTCAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 25 0.40
51 13 0.21
52 25 0.40
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (52 bp):
CATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTATGA
Found at i:41088887 original size:27 final size:27
Alignment explanation
Indices: 41088849--41088900 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
41088839 AGTTTGTAGG
*
41088849 TACATGCATGGACAGCATTGAAGATAA
1 TACATGCATGGACAGCAATGAAGATAA
41088876 TACATGCATGGACAGCAATGAAGAT
1 TACATGCATGGACAGCAATGAAGAT
41088901 GCTTCAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.21
Consensus pattern (27 bp):
TACATGCATGGACAGCAATGAAGATAA
Found at i:41089602 original size:21 final size:24
Alignment explanation
Indices: 41089557--41089606 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
41089547 GCTGAATTCA
41089557 TGAACCATCTTTAATGTTTTAGTG
1 TGAACCATCTTTAATGTTTTAGTG
*
41089581 TGAACCCT-TTTAAT-TTTT-GTG
1 TGAACCATCTTTAATGTTTTAGTG
41089602 TGAAC
1 TGAAC
41089607 ACATTAGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
22 4 0.16
23 6 0.24
24 7 0.28
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (24 bp):
TGAACCATCTTTAATGTTTTAGTG
Found at i:41091636 original size:20 final size:20
Alignment explanation
Indices: 41091613--41091660 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
41091603 GAGCTGAAAC
*
41091613 GAGCTGAATTAAGCTCATGT
1 GAGCTGAATTAAACTCATGT
41091633 GAGCTGAATTAAACTCATGT
1 GAGCTGAATTAAACTCATGT
41091653 GAGCTGAA
1 GAGCTGAA
41091661 CCGAGGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (20 bp):
GAGCTGAATTAAACTCATGT
Found at i:41093734 original size:13 final size:12
Alignment explanation
Indices: 41093716--41093746 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
41093706 AGAGAGAAAG
41093716 AAAAAAATTGAA
1 AAAAAAATTGAA
41093728 TAAAAAAATTGAA
1 -AAAAAAATTGAA
41093741 AAAAAA
1 AAAAAA
41093747 GAGAAGAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (12 bp):
AAAAAAATTGAA
Found at i:41093744 original size:44 final size:42
Alignment explanation
Indices: 41093671--41093754 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 42
41093661 AAAGAAAATC
*
41093671 GAAAAAAATTCAAAAAAAATCGAGCAAAAAAAAAGAGAGAGAAA
1 GAAAAAAATTAAAAAAAAATCGA-CAAAAAAAAAGA-AGAGAAA
* *
41093715 GAAAAAAATTGAATAAAAAAATTGA-AAAAAAAGAGAAGAG
1 GAAAAAAATT-AA-AAAAAAATCGACAAAAAAAAAGAAGAG
41093755 GATTTCGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
43 4 0.11
44 20 0.57
45 1 0.03
46 10 0.29
ACGTcount: A:0.70, C:0.04, G:0.17, T:0.10
Consensus pattern (42 bp):
GAAAAAAATTAAAAAAAAATCGACAAAAAAAAAGAAGAGAAA
Found at i:41094906 original size:21 final size:20
Alignment explanation
Indices: 41094881--41094937 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
41094871 TGCAAGCGAG
41094881 AAAGAGAAATCGAAAAAAGA
1 AAAGAGAAATCGAAAAAAGA
* *
41094901 AGAAGAAAAGATTG-AAAAAGA
1 A-AAGAGAA-ATCGAAAAAAGA
*
41094922 AAA-AGAAATCCAAAAA
1 AAAGAGAAATCGAAAAA
41094938 GGGAGTGAGG
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.07
19 7 0.24
20 3 0.10
21 14 0.48
22 3 0.10
ACGTcount: A:0.70, C:0.05, G:0.18, T:0.07
Consensus pattern (20 bp):
AAAGAGAAATCGAAAAAAGA
Found at i:41099660 original size:45 final size:42
Alignment explanation
Indices: 41099605--41099726 Score: 140
Period size: 45 Copynumber: 2.8 Consensus size: 42
41099595 TTTTCTCTTA
41099605 TTTCT-TCAATTTCTTTTTCGATTTTCTCTTTTTCACTTCCTT
1 TTTCTCTCAATTTCTTTTTC-ATTTTCTCTTTTTCACTTCCTT
** *
41099647 TTTCAATCTCAATTTCTTTTTCAATTTTCTCTTTTTCTTTTTCTT
1 TTTC--TCTCAATTTCTTTTTC-ATTTTCTCTTTTTCACTTCCTT
* *
41099692 TTTCTCTCACTTCTCTTTTTC-TTTTCTCATTTTCA
1 TTTCTCTCAATT-TCTTTTTCATTTTCTCTTTTTCA
41099727 TATTCATTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 16 0.23
43 7 0.10
44 9 0.13
45 37 0.54
ACGTcount: A:0.11, C:0.24, G:0.01, T:0.65
Consensus pattern (42 bp):
TTTCTCTCAATTTCTTTTTCATTTTCTCTTTTTCACTTCCTT
Found at i:41099750 original size:18 final size:17
Alignment explanation
Indices: 41099682--41099776 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 17
41099672 TTTCTCTTTT
41099682 TCTTTTTCTTTTTC-TC
1 TCTTTTTCTTTTTCTTC
* *
41099698 TCACTTCTCTTTTTCTTTTC
1 TC-TTTTTCTTTTTC--TTC
* * *
41099718 TCATTTTCATATTCATTC
1 TCTTTTTCTTTTTC-TTC
**
41099736 TCTTTTTCTTTTTCACC
1 TCTTTTTCTTTTTCTTC
*
41099753 TACCTTTTCTTTTTCTTC
1 T-CTTTTTCTTTTTCTTC
41099771 T-TTTTT
1 TCTTTTT
41099777 GATTTTATTA
Statistics
Matches: 58, Mismatches: 16, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
16 6 0.10
17 12 0.21
18 28 0.48
19 8 0.14
20 4 0.07
ACGTcount: A:0.07, C:0.25, G:0.00, T:0.67
Consensus pattern (17 bp):
TCTTTTTCTTTTTCTTC
Found at i:41099769 original size:6 final size:6
Alignment explanation
Indices: 41099659--41099749 Score: 58
Period size: 6 Copynumber: 14.7 Consensus size: 6
41099649 TCAATCTCAA
* ** *
41099659 TTTCTT TTTCAATT TTCTCTT TTTCTT TTTCTT TTTCTC TCAC-T TCTCTT
1 TTTCTT TTTC--TT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
* * * * *
41099709 TTTCTT TTCTCAT TTTCAT ATTCAT TCTCTT TTTCTT TTTC
1 TTTCTT TT-TCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC
41099750 ACCTACCTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 3 0.04
6 50 0.74
7 9 0.13
8 4 0.06
9 2 0.03
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCTT
Found at i:41102244 original size:20 final size:20
Alignment explanation
Indices: 41102221--41102270 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
41102211 TGAGCTCAAA
* *
41102221 TGAGCTGAATTAAGCTTATG
1 TGAGCTGAATTAAACTCATG
*
41102241 TGAGTTGAATTAAACTCATG
1 TGAGCTGAATTAAACTCATG
41102261 TGAGCTGAAT
1 TGAGCTGAAT
41102271 CGAGGTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
TGAGCTGAATTAAACTCATG
Found at i:41104039 original size:13 final size:13
Alignment explanation
Indices: 41104021--41104046 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41104011 ACCTGAAAGC
41104021 AATTTAATTCATA
1 AATTTAATTCATA
41104034 AATTTAATTCATA
1 AATTTAATTCATA
41104047 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:41104461 original size:20 final size:21
Alignment explanation
Indices: 41104436--41104474 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
41104426 TCAAACAAGC
41104436 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
41104456 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
41104475 CAACGAGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:41105772 original size:18 final size:18
Alignment explanation
Indices: 41105751--41105802 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
41105741 CTCTCTTTCT
41105751 TTTTCAATCTCATTTTGC
1 TTTTCAATCTCATTTTGC
* *
41105769 TTTTCACTCT-ATTTTGT
1 TTTTCAATCTCATTTTGC
*
41105786 TTTTAAAATCTCATTTT
1 TTTT-CAATCTCATTTT
41105803 CATATTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 10 0.36
18 13 0.46
19 5 0.18
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTCAATCTCATTTTGC
Found at i:41105816 original size:6 final size:6
Alignment explanation
Indices: 41105807--41105905 Score: 74
Period size: 6 Copynumber: 16.0 Consensus size: 6
41105797 CATTTTCATA
* * * **
41105807 TTTTTC TTTTTC AATTTTC TTTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC
1 TTTTTC TTTTTC -TTTTTC -TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
* * **
41105858 GTTTTC TTTTTC TTTTT- TGTTTTC TTTTTC TTCTTC ACTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
41105906 GAATTCATTA
Statistics
Matches: 70, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
5 1 0.01
6 56 0.80
7 10 0.14
8 3 0.04
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTC
Found at i:41108079 original size:13 final size:13
Alignment explanation
Indices: 41108061--41108086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41108051 ACTTGAAAGC
41108061 AATTTAATTCATA
1 AATTTAATTCATA
41108074 AATTTAATTCATA
1 AATTTAATTCATA
41108087 TTAGGACACA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AATTTAATTCATA
Found at i:41108501 original size:20 final size:21
Alignment explanation
Indices: 41108476--41108514 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
41108466 TCAAACAAGC
41108476 AAATGAGCTCAA-TGAGCTGG
1 AAATGAGCTCAATTGAGCTGG
*
41108496 AAATGAGCTGAATTGAGCT
1 AAATGAGCTCAATTGAGCT
41108515 CAACGAGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (21 bp):
AAATGAGCTCAATTGAGCTGG
Found at i:41110059 original size:16 final size:17
Alignment explanation
Indices: 41110018--41110066 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
41110008 CGGATAGTAT
41110018 CATGAAAATGCATGATC
1 CATGAAAATGCATGATC
41110035 CATTGAAAATGCATG-TAC
1 CA-TGAAAATGCATGAT-C
41110053 C-TGAAAATGCATGA
1 CATGAAAATGCATGA
41110067 ATGTTGGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.41
17 3 0.10
18 14 0.48
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (17 bp):
CATGAAAATGCATGATC
Found at i:41113959 original size:15 final size:13
Alignment explanation
Indices: 41113920--41113961 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
41113910 AGTGTGAGGA
41113920 AAAAGAGAAAATAG
1 AAAAGAGAAAA-AG
41113934 AAAAG-GAAAAAG
1 AAAAGAGAAAAAG
41113946 AAATGAGAGAAAAAG
1 AAA--AGAGAAAAAG
41113961 A
1 A
41113962 GGCAAGTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 5 0.20
13 5 0.20
14 7 0.28
15 8 0.32
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (13 bp):
AAAAGAGAAAAAG
Found at i:41115457 original size:36 final size:36
Alignment explanation
Indices: 41115406--41115477 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
41115396 AAGTTTGAAT
41115406 GGGTTGTCGAAAAGTTATTTTCTGTTCAAAATTCAA
1 GGGTTGTCGAAAAGTTATTTTCTGTTCAAAATTCAA
* *
41115442 GGGTTTTCGAGAAGTTATTTTCTGTTCAAAATTCAA
1 GGGTTGTCGAAAAGTTATTTTCTGTTCAAAATTCAA
41115478 AGTGTCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.40
Consensus pattern (36 bp):
GGGTTGTCGAAAAGTTATTTTCTGTTCAAAATTCAA
Found at i:41122961 original size:40 final size:40
Alignment explanation
Indices: 41122906--41123137 Score: 356
Period size: 40 Copynumber: 5.8 Consensus size: 40
41122896 ATTTGAATAC
*
41122906 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
41122946 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
41122988 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * * *
41123028 ATCCGGGCTAAGACTCGAAGGCAATTGTGCAAATTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
41123068 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
41123108 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
41123138 TTGTGGTTAT
Statistics
Matches: 175, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 135 0.77
42 40 0.23
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:41123002 original size:82 final size:81
Alignment explanation
Indices: 41122898--41123137 Score: 374
Period size: 82 Copynumber: 3.0 Consensus size: 81
41122888 GCATGAGCAT
* *
41122898 TTGAATACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
* * *
41122963 AAGGCATTTGTGCGAG
66 AAGGCAATTGTGCAAA
*
41122979 TTGACATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACTC
1 TTGA-ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCC
41123044 GAAGGCAATTGTGCAAA
65 GAAGGCAATTGTGCAAA
* * * *
41123061 TTG-ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCG
1 TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
41123125 AAGGCAATTGTGC
66 AAGGCAATTGTGC
41123138 TTGTGGTTAT
Statistics
Matches: 147, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
80 69 0.47
81 4 0.03
82 74 0.50
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (81 bp):
TTGAATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAGACCCG
AAGGCAATTGTGCAAA
Found at i:41126851 original size:15 final size:16
Alignment explanation
Indices: 41126817--41126858 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
41126807 AAAAGAGAGT
41126817 GAAAAGAGAGTGAGAAAA
1 GAAAA-AGA-TGAGAAAA
41126835 GAAAAAGATGA-AAAA
1 GAAAAAGATGAGAAAA
41126850 GAAAAAGAT
1 GAAAAAGAT
41126859 TGCGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.54
16 3 0.12
17 3 0.12
18 5 0.21
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.07
Consensus pattern (16 bp):
GAAAAAGATGAGAAAA
Found at i:41139845 original size:47 final size:46
Alignment explanation
Indices: 41139777--41139900 Score: 126
Period size: 47 Copynumber: 2.7 Consensus size: 46
41139767 AACAAACCAG
* * * *
41139777 CACATATGTGGACAAAGCCACCAAATTTGCAGATAAGCTACCAATA
1 CACATTTGTGGATAAAGCCACCAAATTTGCAGACAAGCTACCAAAA
* * * * *
41139823 CACATAGTTGTGG-TCAAGCCACCAAAATCGCAGACAAGCTGCTAAAA
1 CACAT--TTGTGGATAAAGCCACCAAATTTGCAGACAAGCTACCAAAA
41139870 CACATTTGTGGATAAAG-CACCAATATTTGCA
1 CACATTTGTGGATAAAGCCACCAA-ATTTGCA
41139901 TATTATTAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
45 12 0.19
46 14 0.23
47 31 0.50
48 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (46 bp):
CACATTTGTGGATAAAGCCACCAAATTTGCAGACAAGCTACCAAAA
Found at i:41143999 original size:33 final size:34
Alignment explanation
Indices: 41143948--41144022 Score: 116
Period size: 33 Copynumber: 2.2 Consensus size: 34
41143938 AGATTTAAAC
*
41143948 AAATTAATTACTAACACTTATTTAAGCTGAATTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
41143982 AAATTAATT-CTAACACTTATTTGAGCTGAACTA
1 AAATTAATTACTAACACTTATTTAAGCTGAACTA
*
41144015 AATTTAAT
1 AAATTAAT
41144023 AAACTAACTC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 29 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGCTGAACTA
Found at i:41145814 original size:18 final size:18
Alignment explanation
Indices: 41145788--41145831 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
41145778 CAATATCTTT
41145788 TTTTCTCTTTTTC-ATTGTC
1 TTTT-TCTTTTTCAATT-TC
41145807 TTTTTCTTTTTCAATTTC
1 TTTTTCTTTTTCAATTTC
41145825 TTTTTCT
1 TTTTTCT
41145832 GTCTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTTTCAATTTC
Found at i:41147507 original size:22 final size:22
Alignment explanation
Indices: 41147477--41147520 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
41147467 TTTTATATTT
41147477 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
41147499 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
41147521 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:41148359 original size:31 final size:32
Alignment explanation
Indices: 41148314--41148380 Score: 77
Period size: 31 Copynumber: 2.1 Consensus size: 32
41148304 ACATGCATGC
*
41148314 ACCTTGCTAAAATGAATCTCCA-A-ATTCGGCTA
1 ACCTTGCTAAAATG-ATC-CCACACATTCGGCCA
*
41148346 ACCTTG-TTAAATGATCCCACACATTCGGCCA
1 ACCTTGCTAAAATGATCCCACACATTCGGCCA
41148377 ACCT
1 ACCT
41148381 ATATAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 3 0.10
30 4 0.13
31 18 0.58
32 6 0.19
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (32 bp):
ACCTTGCTAAAATGATCCCACACATTCGGCCA
Found at i:41162039 original size:40 final size:40
Alignment explanation
Indices: 41162002--41162173 Score: 240
Period size: 40 Copynumber: 4.3 Consensus size: 40
41161992 GCTACTCGTT
* * *
41162002 CAAATGCCTTTGGGACATAGCCCGG-TTACAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
41162042 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
41162082 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
41162122 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
41162162 CAAATGCCTTCG
1 CAAATGCCTTCG
41162174 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.96
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:41162204 original size:39 final size:40
Alignment explanation
Indices: 41162031--41162225 Score: 229
Period size: 40 Copynumber: 4.9 Consensus size: 40
41162021 GCCCGGTTAC
* **
41162031 AGTAACTCGCACAAATGCCTTCGGGA-CATAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTT
**
41162071 AGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTT
1 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTT
41162111 AGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT
1 AGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT
* *
41162151 AGTAACTCGTACAAATGCCTTC-GATCTTAGTCCGGATAT
1 AGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT
* * * *
41162190 GGTCACTAGCACAAA-GCCTTCGGGA-CTTAGCCCGGA
1 AGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
41162226 CATCATTCAA
Statistics
Matches: 142, Mismatches: 10, Indels: 7
0.89 0.06 0.04
Matches are distributed among these distances:
38 6 0.04
39 40 0.28
40 96 0.68
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT
Found at i:41169969 original size:40 final size:40
Alignment explanation
Indices: 41169932--41170159 Score: 266
Period size: 40 Copynumber: 5.7 Consensus size: 40
41169922 GCTACTCGTT
* *
41169932 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41169972 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41170012 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
41170052 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCG--CA
* ** * * * *
41170094 AAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
41170135 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41170160 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 3 0.02
40 123 0.72
41 10 0.06
42 31 0.18
43 4 0.02
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41170158 original size:122 final size:120
Alignment explanation
Indices: 41169932--41170159 Score: 284
Period size: 122 Copynumber: 1.9 Consensus size: 120
41169922 GCTACTCGTT
*
41169932 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCGG
* *
41169997 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
41170052 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGTACAAAAATGCCTTC-GGATCTTAG
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCG--CAAAAATGCCTTCGGGA-CTTAA
* * * *
41170114 TCCGGATATGGTCACCTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
61 CCCGGATATAGT-AACTAGCACAAATGCCTTCGGGACTTAACCCGGA
41170160 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
119 3 0.03
120 29 0.32
121 5 0.05
122 45 0.49
123 10 0.11
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41172934 original size:20 final size:19
Alignment explanation
Indices: 41172880--41172927 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
41172870 CGAACTAAAA
41172880 TGAGCTTAAGATGAGCTAAT
1 TGAGC-TAAGATGAGCTAAT
**
41172900 TGAGCTAAGAATGAGCTCGT
1 TGAGCTAAG-ATGAGCTAAT
41172920 TGAGCTAA
1 TGAGCTAA
41172928 AGTTGAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (19 bp):
TGAGCTAAGATGAGCTAAT
Found at i:41177591 original size:28 final size:28
Alignment explanation
Indices: 41177538--41177594 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
41177528 AATGTGTTTT
* *
41177538 ATTTTATTACATGTTATTAATGTGTCTA
1 ATTTTATTACATGCTATTAATATGTCTA
41177566 ATTTTATTACATGCT-TTAATAATGTCTA
1 ATTTTATTACATGCTATTAAT-ATGTCTA
41177594 A
1 A
41177595 GTCTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (28 bp):
ATTTTATTACATGCTATTAATATGTCTA
Found at i:41181368 original size:28 final size:28
Alignment explanation
Indices: 41181305--41181455 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
41181295 ATATTAAGTC
*
41181305 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
41181332 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41181360 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41181388 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41181416 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41181445 CGCACACTTAG
1 CGCACACTTAG
41181456 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41189568 original size:28 final size:28
Alignment explanation
Indices: 41189505--41189655 Score: 223
Period size: 28 Copynumber: 5.4 Consensus size: 28
41189495 ATATTAAGTC
*
41189505 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
41189532 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41189560 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
41189588 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
41189616 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
41189645 CGCACACTTAG
1 CGCACACTTAG
41189656 CGCCAATCTC
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.67
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:41215481 original size:79 final size:81
Alignment explanation
Indices: 41215345--41215529 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
41215335 TTGAATGATG
*
41215345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
41215409 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
41215424 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
41215486 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
41215504 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41215530 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Done.