Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 18 of 259
Found at i:5227146 original size:21 final size:22
Alignment explanation
Indices: 5227120--5227173 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
5227110 ACCCAATAAG
*
5227120 AAATATATAATTATAT-T-TTAA
1 AAATATA-AAATATATGTCTTAA
5227141 AAATATAAAATATATGTCTT-A
1 AAATATAAAATATATGTCTTAA
5227162 AAAT-TAAAATAT
1 AAATATAAAATAT
5227174 TCTATTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 15 0.50
21 13 0.43
22 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATATAAAATATATGTCTTAA
Found at i:5236931 original size:133 final size:133
Alignment explanation
Indices: 5236690--5236991 Score: 419
Period size: 133 Copynumber: 2.3 Consensus size: 133
5236680 CCGACTCTAC
* *
5236690 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCGAAGATGGCGAATCTCGCCTTCCTGAAGT
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCAAAGATGGCGAATCTCGCCTTCATGAAGT
* * * *
5236755 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAG-G
66 TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGAG
5236819 TTGT
131 -TGT
* *
5236823 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCAAAGATGGCGAATCTCG-CTCTCATGAAG
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCAAAGATGGCGAATCTCGCCT-TCATGAAG
* * * * * *
5236887 TTGCATTGAAGCAGATTTGAGCCACCATCTTATCTCTCTGAAGTTGCAGTGGAGCAGACCGAAGA
65 TTGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGA
5236952 GTGT
130 GTGT
* * *
5236956 AGATCTTATCTCCCTGAAATTACAGTGGAGCGGATC
1 AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATC
5236992 GAAGTCACAA
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
132 2 0.01
133 145 0.98
134 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (133 bp):
AGATCTTGTCTCCCTGAAATTGCAGTGGAGCAGATCAAAGATGGCGAATCTCGCCTTCATGAAGT
TGCAGTGAAGCAGATTTAAGCCACCACCCTATCTCCCTAAAGTTGCAGTGGAGCAGACCGAAGAG
TGT
Found at i:5240341 original size:131 final size:130
Alignment explanation
Indices: 5239993--5240469 Score: 460
Period size: 131 Copynumber: 3.6 Consensus size: 130
5239983 TTATAATCAT
* * * ** * * *
5239993 TCATGTTTTCTAAAAATCCTTTAAAATGAAGGCGATGTACGATATTTGGAAATTCGCGGAATCGT
1 TCATGTTTT-TAAAAATTCTATAAAA-AAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATCGT
* * * * * * *
5240058 GCCCTAACGTGCTGGGTTGCAATTTCTCTTTTGCTCAAAATAATCGAAT-GTCTCTTTAGAATTT
64 GCCCTATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAATAATCGAATATTC-CTTTAGAATTT
*
5240122 CAT
128 CAC
* * * * * *
5240125 TCATGTTTTCTAAAAACTCTTTAAAATAAAAGGTAATATTTGATGTTTGGCAATTC-GAGAATCG
1 TCATGTTTT-TAAAAATTCTAT-AAA-AAAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATCG
**
5240189 TGCCCTATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAACCATCGAATATTCCTTT-GAAATT
63 TGCCCTATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTAG-AATT
*
5240253 TTAC
127 TCAC
* * * * *
5240257 CCATGTCTTTAAAGATTCTATAAAACAAAGGTAACGTTCGATGTTTGGCAATTCGGGGAATCGTG
1 TCATGTTTTTAAAAATTCTATAAAA-AAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
* * * *
5240322 CCCTATCGTGCTGGGTTGCGATTTCCTGTTGGTTCAAAATAATCAAATATCCCCTTTAGAATTTC
65 CCCTATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAATAATCGAATAT-TCCTTTAGAATTTC
5240387 AC
129 AC
* * * * * *
5240389 TCATGTTTCTTAAAAATTCTA-AAAATAAGGCAATGCTCGATGTCTAGAAATTCGAGGAATCGTG
1 TCATGTTT-TTAAAAATTCTATAAAAAAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATCGTG
5240453 CCCTA-CTGTGCTGGGTT
65 CCCTATC-GTGCTGGGTT
5240470 TCGGTTTTAC
Statistics
Matches: 285, Mismatches: 50, Indels: 21
0.80 0.14 0.06
Matches are distributed among these distances:
129 1 0.00
130 29 0.10
131 110 0.39
132 107 0.38
133 37 0.13
134 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (130 bp):
TCATGTTTTTAAAAATTCTATAAAAAAAGGTAATGTTCGATGTTTGGAAATTCGGGGAATCGTGC
CCTATCGTGCTGGGTTGCGATTTCCCGTTCGTTCAAAATAATCGAATATTCCTTTAGAATTTCAC
Found at i:5242076 original size:24 final size:24
Alignment explanation
Indices: 5242016--5242063 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5242006 GATAAAGAGT
*
5242016 AAACCCC-AAAAGCTCGAAAACAAA
1 AAACCCCGAAAA-CCCGAAAACAAA
5242040 AAACCCCGAAAACCCGAAAACAAA
1 AAACCCCGAAAACCCGAAAACAAA
5242064 GCACCCTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.58, C:0.31, G:0.08, T:0.02
Consensus pattern (24 bp):
AAACCCCGAAAACCCGAAAACAAA
Found at i:5246881 original size:53 final size:53
Alignment explanation
Indices: 5246727--5246881 Score: 183
Period size: 53 Copynumber: 3.0 Consensus size: 53
5246717 AGAGAGGGAA
* * * *
5246727 GCCAGAGTGAAAACCCGCAAAAGGCGCTTTGGGACTTTAA-AAAAAAG--GGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGGGACTCTAATAAAAAAGAAAGG
* * ** * *
5246777 GCTAAAGTGAAAACCCGCAAAGGGCACTTTAAGAC-CAAATAAAAATGGAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGGGACTCTAATAAAAA-AGAAAGG
5246830 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGGGACTCTAATAAAAAAGAAAG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGGGACTCTAATAAAAAAGAAAG
5246882 AAAAAGAGAA
Statistics
Matches: 84, Mismatches: 16, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
49 2 0.02
50 34 0.40
51 1 0.01
53 38 0.45
54 9 0.11
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.14
Consensus pattern (53 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGGGACTCTAATAAAAAAGAAAGG
Found at i:5255449 original size:72 final size:71
Alignment explanation
Indices: 5255223--5255450 Score: 209
Period size: 72 Copynumber: 3.2 Consensus size: 71
5255213 TCCCAAAGAG
*
5255223 ATTGGGAATTTAGCAAATTTAACTTCATTAAGACTCTCCCAAAACAAATTGAGTGGTTCAATCCC
1 ATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCCC
* *
5255288 CTTTCT
66 ATTTGT
* * * * *
5255294 GATTGGGAATTTAG-AAGCA-TT-ACGTTTC-TT-AGACCTC-ACTAAGAACAGACTGATTGGTT
1 -ATTGGGAATTTAGCAA--ATTTAAC--TTCATTAAG-CCTCTCCCAA-AACAAATTGAGTGGTT
* *
5255353 CCATTCCCA-TTGAG
59 -CAATCCCATTTG-T
*
5255367 ATTGAGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCCC
1 ATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCCC
5255432 ATCTTGT
66 AT-TTGT
*
5255439 ATTGGCAATTTA
1 ATTGGGAATTTA
5255451 TCCAATTTGT
Statistics
Matches: 120, Mismatches: 20, Indels: 32
0.70 0.12 0.19
Matches are distributed among these distances:
71 20 0.17
72 78 0.65
73 22 0.18
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (71 bp):
ATTGGGAATTTAGCAAATTTAACTTCATTAAGCCTCTCCCAAAACAAATTGAGTGGTTCAATCCC
ATTTGT
Found at i:5257865 original size:3 final size:3
Alignment explanation
Indices: 5257859--5257919 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
5257849 GTTTTTTTAA
5257859 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5257907 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
5257920 GTAGTAGTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5259319 original size:88 final size:88
Alignment explanation
Indices: 5259201--5259364 Score: 294
Period size: 88 Copynumber: 1.9 Consensus size: 88
5259191 ATGAAAAATT
5259201 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGTGGTAGGA
1 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGTGGTA-GA
5259266 A-AGATGGAAAATTTGAAAGAAAA
65 ACAGATGGAAAATTTGAAAGAAAA
* *
5259289 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTGCTTGGTAGAA
1 GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGTGGTAGAA
5259354 CAGATGGAAAA
66 CAGATGGAAAA
5259365 ATCAAAATAA
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
87 3 0.04
88 70 0.96
ACGTcount: A:0.45, C:0.05, G:0.24, T:0.26
Consensus pattern (88 bp):
GAAAGGGTAGAAAAATAGAAAGATGGAAAATATAAATTTTCTTTCCATATGTGTACGTGGTAGAA
CAGATGGAAAATTTGAAAGAAAA
Found at i:5270908 original size:6 final size:6
Alignment explanation
Indices: 5270893--5270947 Score: 85
Period size: 6 Copynumber: 9.3 Consensus size: 6
5270883 ATTGAGTTTA
* *
5270893 TTTA-T TTTATT TTTATT TTTATT TTTATT TCTATT TTTATA TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
5270940 TTTATT TT
1 TTTATT TT
5270948 CTTAGACTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
5 4 0.09
6 41 0.91
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:5272974 original size:30 final size:30
Alignment explanation
Indices: 5272938--5272999 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
5272928 TATTTTATTA
*
5272938 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
5272968 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
5272998 TT
1 TT
5273000 TGTTAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.60
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:5273776 original size:16 final size:15
Alignment explanation
Indices: 5273755--5273784 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5273745 TGGGAAACTA
5273755 GAGAGAAAAGTATAAG
1 GAGAGAAAA-TATAAG
5273771 GAGAGAAAATATAA
1 GAGAGAAAATATAA
5273785 TTTTTCTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (15 bp):
GAGAGAAAATATAAG
Found at i:5276228 original size:23 final size:22
Alignment explanation
Indices: 5276176--5276245 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
5276166 ATAATTTACA
5276176 AATAAAATATATACAAATCATAT
1 AATAAAATATATACAAAT-ATAT
5276199 AAT-AAATAATATA-AAGATATAT
1 AATAAAAT-ATATACAA-ATATAT
* *
5276221 AATAAAATCTATATAATATATAT
1 AATAAAATATATACAA-ATATAT
5276244 AA
1 AA
5276246 GAAAGATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
22 17 0.41
23 24 0.59
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (22 bp):
AATAAAATATATACAAATATAT
Found at i:5276251 original size:36 final size:35
Alignment explanation
Indices: 5276182--5276258 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 35
5276172 TACAAATAAA
*
5276182 ATATATACAAATCATATAATAAATAATATAAAGAT
1 ATATATACAAATCATATAATAAATAATAGAAAGAT
*
5276217 ATATAATA-AAATCTATATAATATAT-ATAAGAAAGAT
1 ATAT-ATACAAATC-ATATAATAAATAAT-AGAAAGAT
*
5276253 AAATAT
1 ATATAT
5276259 TGCAAGGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
35 13 0.36
36 23 0.64
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (35 bp):
ATATATACAAATCATATAATAAATAATAGAAAGAT
Found at i:5276342 original size:14 final size:14
Alignment explanation
Indices: 5276318--5276401 Score: 55
Period size: 14 Copynumber: 5.5 Consensus size: 14
5276308 ATATAATGAA
5276318 ATATGATAAAAATAT
1 ATAT-ATAAAAATAT
5276333 ATATAT-AAAATAAT
1 ATATATAAAAAT-AT
*
5276347 AATAATATAATAAGTATTT
1 -AT-ATATAA-AA--ATAT
*
5276366 TTATATAAAAATAT
1 ATATATAAAAATAT
5276380 AGTA-ATAAAAATAAT
1 A-TATATAAAAAT-AT
5276395 ATATATA
1 ATATATA
5276402 TATTAAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
13 5 0.09
14 17 0.31
15 14 0.25
16 6 0.11
17 7 0.13
18 3 0.05
19 1 0.02
20 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
ATATATAAAAATAT
Found at i:5276386 original size:33 final size:33
Alignment explanation
Indices: 5276329--5276414 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
5276319 TATGATAAAA
*
5276329 ATATATATAT-AAAATAATAATAAT-ATAATAAGT
1 ATATATATATAAAAAT-ATAATAATAAAAATAA-T
* * *
5276362 ATTTTTATATAAAAATATAGTAATAAAAATAAT
1 ATATATATATAAAAATATAATAATAAAAATAAT
5276395 ATATATATATTAAAAATATA
1 ATATATATA-TAAAAATATA
5276415 TACCATATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
33 23 0.52
34 21 0.48
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.38
Consensus pattern (33 bp):
ATATATATATAAAAATATAATAATAAAAATAAT
Found at i:5276393 original size:20 final size:20
Alignment explanation
Indices: 5276370--5276412 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
5276360 GTATTTTTAT
5276370 ATAA-AAATATAGTAATAAAA
1 ATAATAAATATA-TAATAAAA
* *
5276390 ATAATATATATATATTAAAA
1 ATAATAAATATATAATAAAA
5276410 ATA
1 ATA
5276413 TATACCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
ATAATAAATATATAATAAAA
Found at i:5276422 original size:20 final size:20
Alignment explanation
Indices: 5276385--5276423 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
5276375 AATATAGTAA
*
5276385 TAAAAATAATATATATATAT
1 TAAAAATAATATACATATAT
5276405 TAAAAAT-ATATACCATATA
1 TAAAAATAATATA-CATATA
5276424 GTATAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATAATATACATATAT
Found at i:5276526 original size:19 final size:19
Alignment explanation
Indices: 5276491--5276528 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5276481 TATGTAAAGT
*
5276491 ATATAAAATAAATTTAAAA
1 ATATAAAATAAAATTAAAA
5276510 ATATAAAA-AAAGATTAAAA
1 ATATAAAATAAA-ATTAAAA
5276529 TTGAATCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
ATATAAAATAAAATTAAAA
Found at i:5278014 original size:43 final size:44
Alignment explanation
Indices: 5277935--5278017 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
5277925 CATGTTGATA
*
5277935 TCTTCGATTTGCTCTCCGCTGAACACAGAGACGCCAAATCTGCT
1 TCTTCGATTTGCTCTCCGCTCAACACAGAGACGCCAAATCTGCT
* * * *
5277979 TCTTCGATTTGTTCTCTG-TCAATACAGAGATGCCAAATC
1 TCTTCGATTTGCTCTCCGCTCAACACAGAGACGCCAAATC
5278018 ATCTTAGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 18 0.53
44 16 0.47
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTTCGATTTGCTCTCCGCTCAACACAGAGACGCCAAATCTGCT
Found at i:5278381 original size:206 final size:207
Alignment explanation
Indices: 5277980--5278535 Score: 891
Period size: 206 Copynumber: 2.7 Consensus size: 207
5277970 AAATCTGCTT
* * * *
5277980 CTTCGATTTGTTCTCTGTCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAGTGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
* * * * * *
5278045 GTGAAAACCAAATCAGCTATGTTTTCGATTTGCTCCTTGTAAGCATAAGGATACCAAACCATTTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** *
5278110 GGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
5278174 GGAGACGCCAAA
196 GGAGACGCCAAA
*
5278186 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
* *
5278251 GTGAAAGCTAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
5278316 GGATCTTGCTTTAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCTCTCCGTC-AATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
5278380 GGAGACGCCAAA
196 GGAGACGCCAAA
* * *
5278392 CTTCGATTTGCTCTCTGACAATACAAAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
5278457 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
5278522 GGATCTTGCTTCAG
131 GGATCTTGCTTCAG
5278536 CTAGATCAGC
Statistics
Matches: 322, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
206 276 0.86
207 46 0.14
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATTGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:5290657 original size:17 final size:17
Alignment explanation
Indices: 5290635--5290668 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5290625 ATATCATATC
5290635 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
5290652 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
5290669 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:5290661 original size:5 final size:5
Alignment explanation
Indices: 5290619--5290644 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5290609 TTTAAGATTG
5290619 CATAT CATAT CATAT CATAT CATAT C
1 CATAT CATAT CATAT CATAT CATAT C
5290645 TAAGATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:5291210 original size:87 final size:87
Alignment explanation
Indices: 5291070--5291234 Score: 188
Period size: 87 Copynumber: 1.9 Consensus size: 87
5291060 ACAATACAGA
** * *
5291070 GATGCCAAATCATCTTAGATCTGCTTCAGCGTAAGCACGTGAAAGCCAAATCTGTTGTGTCTTCA
1 GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAGCACGTGAAAGCCAAATCTGCTATGTCTTCA
*
5291135 ATTTGCTCCTTGTGAACACAAG
66 ATCTGCTCCTTGTGAACACAAG
* * * * * * * *
5291157 GATGCCAAATCATCTTGGATCTGCTTTAGTAAAATCATC-TGAAGGTCAGATCTGCTATGTCTTT
1 GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAGCA-CGTGAAAGCCAAATCTGCTATGTCTTC
*
5291221 AATCTGCTTCTTGT
65 AATCTGCTCCTTGT
5291235 AAACTTATGA
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
87 62 0.98
88 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTGCTTCAGCAAAAGCACGTGAAAGCCAAATCTGCTATGTCTTCA
ATCTGCTCCTTGTGAACACAAG
Found at i:5291422 original size:261 final size:256
Alignment explanation
Indices: 5290958--5291472 Score: 710
Period size: 261 Copynumber: 2.0 Consensus size: 256
5290948 ATCATGGTCC
* *
5290958 TTAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTGCACTCCGTCGAACA
1 TTAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACACTCCGCCGAACA
* * *
5291023 CAGAGACGCCAAATCTGCTTCTTCAATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAG
66 CAGAGACGCCAAATCTGCTTCTTCAATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAG
* * * *** *
5291088 ATCTGCTTCAGCGTAAGCACGTGAAAGCCAAATCTGTTGTGTCTTCAATTTGCTCCTTGTGAACA
131 ATCTGCTTCAGCATAAGCACGCGAAAACCAAATCAACTATGTCTTCAATTTGCTCCTTGTGAACA
* *
5291153 CAAGGATGCCAAATCATCTTGGATCTGCTTTAGTAAAATCATCTGAAGGTCAGATCTGCTATGTC
196 CAAGGATGCCAAACCATCTTGGATCTGCTTCAG-----TCATCTGAAGGTCAGATCTGCTATGTC
5291218 T
256 T
* * * * * *
5291219 TTAATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTCGATCTACTCTCCGCCGAAT
1 TTAATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACACTCCGCCGAAC
* **
5291283 ACAGAGACGCCAAATCTGTTTCTTTGATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTA
65 ACAGAGACGCCAAATCTGCTTCTTCAATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTA
* * *
5291348 GATTTGCTTCAGCATAAGCACGCGAAAACCAAATCAACTATGTCTTCGATTTGTTCCTTGT-AAG
130 GATCTGCTTCAGCATAAGCACGCGAAAACCAAATCAACTATGTCTTCAATTTGCTCCTTGTGAA-
*
5291412 CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTTAGATCTGCTATGT
194 CACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGT
5291473 ATCTGTTCTC
Statistics
Matches: 225, Mismatches: 27, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
256 25 0.11
260 2 0.01
261 196 0.87
262 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (256 bp):
TTAATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCGATCTACACTCCGCCGAACA
CAGAGACGCCAAATCTGCTTCTTCAATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAG
ATCTGCTTCAGCATAAGCACGCGAAAACCAAATCAACTATGTCTTCAATTTGCTCCTTGTGAACA
CAAGGATGCCAAACCATCTTGGATCTGCTTCAGTCATCTGAAGGTCAGATCTGCTATGTCT
Found at i:5291758 original size:205 final size:205
Alignment explanation
Indices: 5291308--5292116 Score: 1319
Period size: 205 Copynumber: 4.0 Consensus size: 205
5291298 CTGTTTCTTT
* * * * *
5291308 GATTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCATAAGCACGCGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* *
5291373 AAACCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
**
5291438 CTGCTTCAG--T---CATCTGAAGGTTAGATCTGCTATGTATCTGTTCTCCGTCGAAATGGAGAT
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGAT
5291498 GCCAGACTTC
196 GCCAGACTTC
5291508 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* * *
5291573 AAGCCAAATCAGCTATGTCTTCTATTTGTCCCTTGTAAGCACAAGGACGCCAAACCATCTTGGAT
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
** *
5291638 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGGTCTCTGTCGAAATGGAGAT
131 CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGAT
5291703 GCCAGACTTC
196 GCCAGACTTC
* *
5291713 GATTTGTTCTCTGACAATACAGATATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
5291778 AAG-CAAATTCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGA
66 AAGCCAAA-TCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGA
* *
5291842 TCTGCTTCAGTATAAACATCTGATGGTTAGATCTGCTATGTATCTACTCTCCATCGAAATGGAGA
130 TCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGA
5291907 TGCCAGACTTC
195 TGCCAGACTTC
* *
5291918 TATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
* *
5291983 AAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTGAA-CACAAGGATGCCAAATCATCTTGGA
66 AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGT-AAGCACAAGGATGCCAAACCATCTTGGA
*
5292047 TCAGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
130 TCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
5292111 ATGCCA
194 ATGCCA
5292117 AATCTGTTAT
Statistics
Matches: 569, Mismatches: 31, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
200 129 0.23
202 1 0.00
204 7 0.01
205 426 0.75
206 6 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGA
AAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGAT
CTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGAT
GCCAGACTTC
Found at i:5293186 original size:18 final size:17
Alignment explanation
Indices: 5293159--5293208 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
5293149 GGCTTCTCCA
5293159 TTTTTTATTTTTTTTCT
1 TTTTTTATTTTTTTTCT
5293176 TTTTATTATTTTTTTTCT
1 TTTT-TTATTTTTTTTCT
5293194 TTTTCTT-TTTTTTTT
1 TTTT-TTATTTTTTTT
5293209 GAAATAGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 12 0.39
18 19 0.61
ACGTcount: A:0.06, C:0.06, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTTTTATTTTTTTTCT
Found at i:5294706 original size:6 final size:6
Alignment explanation
Indices: 5294692--5294726 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
5294682 TTATATATAA
*
5294692 TCTTCT TCTTTT TCTTTT TCTTTT TCTTTT T-TTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
5294727 GAAATGGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:5300017 original size:19 final size:19
Alignment explanation
Indices: 5299942--5300035 Score: 110
Period size: 19 Copynumber: 5.2 Consensus size: 19
5299932 AGATTACAAA
*
5299942 ATCATATCTTCAAGATTGCTT
1 ATCATATC-T-AAGATTGCAT
*
5299963 ATCATATC--ATA-T-CAT
1 ATCATATCTAAGATTGCAT
5299978 ATCATATCTAAGATT--AT
1 ATCATATCTAAGATTGCAT
5299995 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5300014 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
5300033 ATC
1 ATC
5300036 CTTAAAGAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
15 10 0.15
16 1 0.02
17 21 0.32
18 1 0.02
19 24 0.37
21 8 0.12
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:5301842 original size:17 final size:20
Alignment explanation
Indices: 5301803--5301851 Score: 68
Period size: 17 Copynumber: 2.6 Consensus size: 20
5301793 AGACTTTATT
5301803 TAATATTTTATATATTTTAA
1 TAATATTTTATATATTTTAA
5301823 TAATATTTTA-A-ATTTT-A
1 TAATATTTTATATATTTTAA
*
5301840 TAAAATTTTATA
1 TAATATTTTATA
5301852 AAATATATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 10 0.37
18 6 0.22
19 1 0.04
20 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTTTATATATTTTAA
Found at i:5301877 original size:16 final size:17
Alignment explanation
Indices: 5301844--5301882 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
5301834 ATTTTATAAA
*
5301844 ATTTTATAAAATATATT
1 ATTTTTTAAAATATATT
5301861 ATTTTTTAAAA-ATATT
1 ATTTTTTAAAATATATT
5301877 ATTTTT
1 ATTTTT
5301883 AATTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTTTAAAATATATT
Found at i:5301879 original size:19 final size:17
Alignment explanation
Indices: 5301845--5301892 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 17
5301835 TTTTATAAAA
5301845 TTTTATAAAATATATTATT
1 TTTTA-AAAATATATT-TT
5301864 TTTTAAAAATATTATTTT
1 TTTTAAAAATA-TATTTT
5301882 TAATTTAAAAA
1 T--TTTAAAAA
5301893 AAATTAAGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATATATTTT
Found at i:5304909 original size:9 final size:9
Alignment explanation
Indices: 5304895--5304929 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
5304885 AATTATCCAA
5304895 AAATAAATC
1 AAATAAATC
5304904 AAATAAATC
1 AAATAAATC
*
5304913 AAATAAAAC
1 AAATAAATC
*
5304922 CAATAAAT
1 AAATAAAT
5304930 AAAAGTCCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAATC
Found at i:5305829 original size:30 final size:30
Alignment explanation
Indices: 5305771--5305830 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
5305761 CATATTATTC
* *
5305771 TATATTTTCTTTTAAATCTTTATGTGTATA
1 TATATATTCTTTTAAATCTTTATATGTATA
*
5305801 TATATATTCTTTTAAAT-TTATTTATGTATA
1 TATATATTCTTTTAAATCTT-TATATGTATA
5305831 ACTTGCTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.60
Consensus pattern (30 bp):
TATATATTCTTTTAAATCTTTATATGTATA
Found at i:5306897 original size:50 final size:51
Alignment explanation
Indices: 5306820--5306918 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 51
5306810 AATTTGGTAC
5306820 CATACGTAACCGGCTCCCGAACCCTTTTTTTTTT-AAATCTACGTAGACCT
1 CATACGTAACCGGCTCCCGAACCCTTTTTTTTTTAAAATCTACGTAGACCT
*
5306870 CATACGTAACCGGCTCCCGAACTCTTTTTTTTTTAAAATCTACGTAGAC
1 CATACGTAACCGGCTCCCGAACCCTTTTTTTTTTAAAATCTACGTAGAC
5306919 TAAAATCGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 33 0.70
51 14 0.30
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (51 bp):
CATACGTAACCGGCTCCCGAACCCTTTTTTTTTTAAAATCTACGTAGACCT
Found at i:5307922 original size:11 final size:11
Alignment explanation
Indices: 5307900--5307936 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
5307890 AAGCAATTTT
5307900 TATAAAATTATA
1 TATAAAA-TATA
*
5307912 TTTAAAATATA
1 TATAAAATATA
5307923 TATAAAATATA
1 TATAAAATATA
5307934 TAT
1 TAT
5307937 CCTAAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TATAAAATATA
Found at i:5312487 original size:26 final size:26
Alignment explanation
Indices: 5312450--5312533 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5312440 TGATACAAAT
* *
5312450 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5312476 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5312502 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5312528 TGATAA
1 TGATAA
5312534 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5315614 original size:3 final size:3
Alignment explanation
Indices: 5315606--5315631 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5315596 CAAGGTGACT
5315606 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
5315632 TTCATCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5315702 original size:9 final size:8
Alignment explanation
Indices: 5315684--5315722 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
5315674 TATACATTGC
5315684 AAAAATAA
1 AAAAATAA
5315692 AAAATATAA
1 AAAA-ATAA
*
5315701 AAATATAA
1 AAAAATAA
5315709 AAAAAGTAA
1 AAAAA-TAA
5315718 AAAAA
1 AAAAA
5315723 ATTACCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:5316248 original size:17 final size:17
Alignment explanation
Indices: 5316226--5316266 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
5316216 TTTTAATTCA
5316226 ATTTTAGTCT-TTT-TTT
1 ATTTTA-TCTATTTATTT
5316242 CATTTTATCTATTTATTT
1 -ATTTTATCTATTTATTT
5316260 ATTTTAT
1 ATTTTAT
5316267 TTTCGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.71
Consensus pattern (17 bp):
ATTTTATCTATTTATTT
Found at i:5316317 original size:3 final size:3
Alignment explanation
Indices: 5316302--5316391 Score: 51
Period size: 3 Copynumber: 29.0 Consensus size: 3
5316292 TTACTAATAC
* * * **
5316302 TAT TAT T-T CTAT TAT TAT TAT TGT TAT TAT TAA TAT TCT GGT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
5316347 TAAA TAT TAT TAT T-T TAAT GTAT TAT TAT T-T CTAGT TAT TAT TAT
1 T-AT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT -TA-T TAT TAT TAT
5316392 ATATAATATT
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
2 4 0.06
3 53 0.79
4 8 0.12
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:5316370 original size:16 final size:16
Alignment explanation
Indices: 5316351--5316391 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5316341 GGTTATTAAA
5316351 TATTATTATTT-TAAT
1 TATTATTATTTCTAAT
*
5316366 GTATTATTATTTCTAGT
1 -TATTATTATTTCTAAT
5316383 TATTATTAT
1 TATTATTAT
5316392 ATATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (16 bp):
TATTATTATTTCTAAT
Found at i:5316721 original size:24 final size:22
Alignment explanation
Indices: 5316692--5316746 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
5316682 CATATATATT
5316692 TATTATTATATTATTTACTTTCA
1 TATTATTATATTATTT-CTTTCA
*
5316715 CTATTATT-T-TTATTTCTTTTA
1 -TATTATTATATTATTTCTTTCA
5316736 TCATTATTATA
1 T-ATTATTATA
5316747 CATATATGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 1 0.04
21 11 0.41
22 7 0.26
23 1 0.04
24 7 0.26
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (22 bp):
TATTATTATATTATTTCTTTCA
Found at i:5316862 original size:16 final size:17
Alignment explanation
Indices: 5316841--5316872 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5316831 TTCTTTATTA
5316841 TTTA-TTTTTTATTTTT
1 TTTATTTTTTTATTTTT
5316857 TTTATTTTTTTATTTT
1 TTTATTTTTTTATTTT
5316873 AATACTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (17 bp):
TTTATTTTTTTATTTTT
Found at i:5316918 original size:16 final size:16
Alignment explanation
Indices: 5316899--5316959 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
5316889 TTTTTTAAAA
5316899 ATATTATATTTTTCAT
1 ATATTATATTTTTCAT
* *
5316915 ATATCATGTATTTTTTTAT
1 ATAT--TATA-TTTTTCAT
* *
5316934 ATATTATATTATTCGT
1 ATATTATATTTTTCAT
*
5316950 ATATTTTATT
1 ATATTATATT
5316960 GTATTATATA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 18 0.51
17 3 0.09
18 3 0.09
19 11 0.31
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (16 bp):
ATATTATATTTTTCAT
Found at i:5317078 original size:25 final size:25
Alignment explanation
Indices: 5317050--5317107 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
5317040 AAAATATATA
**
5317050 TTTATATTATTAGTTATATATATTT
1 TTTATATTATTACATATATATATTT
* * *
5317075 TTTATACTATTTCATATATGTATTT
1 TTTATATTATTACATATATATATTT
5317100 TTTATATT
1 TTTATATT
5317108 GTCCTTATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (25 bp):
TTTATATTATTACATATATATATTT
Found at i:5317079 original size:13 final size:12
Alignment explanation
Indices: 5317050--5317107 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 12
5317040 AAAATATATA
*
5317050 TTTATATTATTA
1 TTTATATTATTT
*
5317062 GTTATATATATTT
1 TTTATAT-TATTT
*
5317075 TTTATACTATTT
1 TTTATATTATTT
**
5317087 CATATATGTATTT
1 TTTATAT-TATTT
5317100 TTTATATT
1 TTTATATT
5317108 GTCCTTATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
12 16 0.46
13 19 0.54
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:5317162 original size:25 final size:25
Alignment explanation
Indices: 5317124--5317171 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
5317114 ATTATTGTTA
* *
5317124 TTAATATTAGTATATGTATATATCT
1 TTAATATTAGTATAGGTACATATCT
5317149 TTAATATATA-TATAGGTACATAT
1 TTAATAT-TAGTATAGGTACATAT
5317172 TTATGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (25 bp):
TTAATATTAGTATAGGTACATATCT
Found at i:5323327 original size:78 final size:78
Alignment explanation
Indices: 5323198--5323356 Score: 309
Period size: 78 Copynumber: 2.0 Consensus size: 78
5323188 TTCAGAGAAG
5323198 AAGGTCAAAGTTTTTGCGATTTCCATGAAATTGTAGGACACGACATTCAATCGTGTGAGGAATTT
1 AAGGTCAAAGTTTTTGCGATTTCCATGAAATTGTAGGACACGACATTCAATCGTGTGAGGAATTT
5323263 AAAAGGTTGCTTC
66 AAAAGGTTGCTTC
*
5323276 AAGGTCAAAGTTTTTGCGATTTCCATGGAATTGTAGGACACGACATTCAATCGTGTGAGGAATTT
1 AAGGTCAAAGTTTTTGCGATTTCCATGAAATTGTAGGACACGACATTCAATCGTGTGAGGAATTT
5323341 AAAAGGTTGCTTC
66 AAAAGGTTGCTTC
5323354 AAG
1 AAG
5323357 ACCGGATGGA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (78 bp):
AAGGTCAAAGTTTTTGCGATTTCCATGAAATTGTAGGACACGACATTCAATCGTGTGAGGAATTT
AAAAGGTTGCTTC
Found at i:5329947 original size:73 final size:72
Alignment explanation
Indices: 5329781--5329991 Score: 219
Period size: 72 Copynumber: 2.8 Consensus size: 72
5329771 TATATTTTTC
* ** * * *
5329781 AAAAATCAACTCATATTGCAAGAAATGAGTTGAGCCTCTGGACACGCTGAGGTATTTT-AAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGC-GAGGTATTTTCAAATTC
*
5329845 CTACTTTC
65 CTACTTTA
* *
5329853 AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCGGGGCATGCGAGGTATTTTCAAA-TCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCGAGGTATTTTCAAATTCC
**
5329917 TGTTTTAAA
66 TACTTT--A
* *
5329926 AAAAATCAAATCATATTGCGAGAGAAGTGAGTTGAGCCTCGGGCAACATGCCGAGGTATGTTCAA
1 AAAAATCAACTCATATTGCGAGAG--GTGAGTTGAGCCTCGGG--ACATG-CGAGGTATTTTCAA
5329991 A
61 A
5329992 ATCTATTTTT
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
71 16 0.14
72 43 0.37
73 22 0.19
75 17 0.15
77 4 0.03
78 14 0.12
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACATGCGAGGTATTTTCAAATTCC
TACTTTA
Found at i:5330014 original size:13 final size:14
Alignment explanation
Indices: 5329986--5330020 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
5329976 CCGAGGTATG
5329986 TTCAAAATCTATTT
1 TTCAAAATCTATTT
*
5330000 TTCAAATTCTATTT
1 TTCAAAATCTATTT
5330014 TTCAAAA
1 TTCAAAA
5330021 AGTCAACTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (14 bp):
TTCAAAATCTATTT
Found at i:5330067 original size:90 final size:90
Alignment explanation
Indices: 5329906--5330356 Score: 562
Period size: 90 Copynumber: 5.1 Consensus size: 90
5329896 ATGCGAGGTA
* * ** * * *
5329906 TTTTCAAATCCTGTTTTAAAAAAAATCAAATCATATTGCGAGAGAAGTGAGTTGAGCCTCGGGCA
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGC--GAGAAGTGAGTTGAGCCTCGAGCC
5329971 ACATGCCGAGGTATGTTCAAAATCTAT
64 ACATGCCGAGGTATGTTCAAAATCTAT
*
5329998 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
* *
5330063 ATGCCGAGGTATGTTCAGAATCTGT
66 ATGCCGAGGTATGTTCAAAATCTAT
* * *
5330088 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCCAC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
*
5330153 ATGCCGAGGTATGTTCAAAATCT-G
66 ATGCCGAGGTATGTTCAAAATCTAT
* **
5330177 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTC-AG-GGC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
* * *
5330240 ATGCCGAGGTATTTTCAAATTCTGT
66 ATGCCGAGGTATGTTCAAAATCTAT
* * *
5330265 TTTT-AATTTCT-GTTTTC--AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC-AGGTCA
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGA-GCCA
** * *
5330325 CACACTGAGGTATTTTC-AAAT-TAT
65 CATGCCGAGGTATGTTCAAAATCTAT
5330349 TTTTCAAA
1 TTTTCAAA
5330357 AATCAACTCA
Statistics
Matches: 321, Mismatches: 34, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
84 43 0.13
85 6 0.02
86 19 0.06
87 28 0.09
88 5 0.02
89 55 0.17
90 132 0.41
92 33 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (90 bp):
TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
ATGCCGAGGTATGTTCAAAATCTAT
Found at i:5330445 original size:160 final size:161
Alignment explanation
Indices: 5329998--5330478 Score: 461
Period size: 179 Copynumber: 2.9 Consensus size: 161
5329988 CAAAATCTAT
* * **
5329998 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGCCAC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTC-AG-GGC
* * * * *
5330063 ATGCCGAGGTATGTTCAGAATCTGTTTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCG
64 ATGCCGAGGTATTTTCAAAATCT-CTTTTCAAATT-AAGTTTTCAAAAA-TCAACTCATATTGCG
** * ** *
5330128 AGAAGTGAGTTGAGCCTTGGGCCACATGCCGAGGTATGTTCAAAA
126 AGAAGTGAGTTGAGCCTCAGGTCACACACTGA-G---G-T----A
5330173 TCTGTTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGG
1 ----TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGG
* * * * **
5330238 GCATGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGTTTTC-AAAATCAACTCATATTGCGA
62 GCATGCCGAGGTATTTTCAAAATCTCTTTTCAAATTAAGTTTTCAAAAATCAACTCATATTGCGA
5330302 GAAGTGAGTTGAGCCTCAGGTCACACACTGAGGTA
127 GAAGTGAGTTGAGCCTCAGGTCACACACTGAGGTA
* * *
5330337 TTTTCAAA-T-TATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGGTTC
1 TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGGG---
*
5330398 ACATGTCGAGGTATTTTCAAAATCTACTTTTCAAATTAAG-TTTCAAAAAAATCAACTCATATTG
63 -CATGCCGAGGTATTTTCAAAATCT-CTTTTCAAATTAAGTTTTC--AAAAATCAACTCATATTG
*
5330462 CGAGAGGTGAGTTGAGC
124 CGAGAAGTGAGTTGAGC
5330479 ATTGGCTCAC
Statistics
Matches: 264, Mismatches: 30, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
156 3 0.01
157 35 0.13
158 8 0.03
159 1 0.00
160 34 0.13
161 9 0.03
163 33 0.12
164 1 0.00
168 1 0.00
169 1 0.00
172 1 0.00
173 41 0.16
174 4 0.02
175 5 0.02
176 8 0.03
177 21 0.08
178 2 0.01
179 56 0.21
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (161 bp):
TTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGAGAAGTAAGTTGAGCCTCAGGGCAT
GCCGAGGTATTTTCAAAATCTCTTTTCAAATTAAGTTTTCAAAAATCAACTCATATTGCGAGAAG
TGAGTTGAGCCTCAGGTCACACACTGAGGTA
Found at i:5330621 original size:251 final size:246
Alignment explanation
Indices: 5330088--5330650 Score: 632
Period size: 251 Copynumber: 2.3 Consensus size: 246
5330078 CAGAATCTGT
* *
5330088 TTTTCAAATTCTATTTTTCAAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGCCAC
1 TTTTCAAA-T-TATGTTTCAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCAC
* **
5330153 ATGCCGAGGTATGTTCAAAATCTGTTTTCAAATTCTATTTTTCAAAAAATCAACTCATATTGCGA
63 ATGCCGAGGTATGTTCAAAATCTCTTTTCAAATTCTAAGTTTCAAAAAATCAACTCATATTGCGA
* * * ** * * *
5330218 GAAGTAAGTTGAGCCTCAGGGCATGCCGAGGTATTTTCAAATTCTGTTTTTAATTTCTGTTTTCA
128 GAAGTAAGTTGAGCATCAGGGCACGCCGAGCTATTACCAAATTCTATTTTTAATTTATGTTTTAA
*
5330283 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTCACACACTGAGGTA
193 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACACACTGAGGTA
* *
5330337 TTTTCAAATTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCACAT
1 TTTTCAAATTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGG-CCACAT
* *
5330402 GTCGAGGTATTTTCAAAATCTACTTTTCAAA-T-TAAGTTTCAAAAAAATCAACTCATATTGCGA
65 GCCGAGGTATGTTCAAAATCT-CTTTTCAAATTCTAAGTTTC-AAAAAATCAACTCATATTGCGA
* * * * * *
5330465 GAGGTGAGTTGAGCAT-TGGCTCACGCACTGAGCTA-TACCAATTTCTATTTTTAGTTTATGTTA
128 GAAGTAAGTTGAGCATCAGG-GCACGC-C-GAGCTATTACCAAATTCTATTTTTAATTTATG-T-
* * ***
5330528 TTTAAAAATTCAATTCATGTTGCGAGAAATGAGTTGAGCCTC-GGCTCACATGTTGAGGTA
188 TTTAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-TCACACACTGAGGTA
** * *** * * *
5330588 TTTTCAGTTTCTGTTTGTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACA
1 TTTTCAAATTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCACA
5330651 CTGAGTTATT
Statistics
Matches: 267, Mismatches: 37, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
246 43 0.16
247 77 0.29
248 29 0.11
249 14 0.05
250 13 0.05
251 91 0.34
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (246 bp):
TTTTCAAATTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCACATG
CCGAGGTATGTTCAAAATCTCTTTTCAAATTCTAAGTTTCAAAAAATCAACTCATATTGCGAGAA
GTAAGTTGAGCATCAGGGCACGCCGAGCTATTACCAAATTCTATTTTTAATTTATGTTTTAAAAA
TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGTCACACACTGAGGTA
Found at i:5330641 original size:73 final size:73
Alignment explanation
Indices: 5330530--5330748 Score: 255
Period size: 73 Copynumber: 3.0 Consensus size: 73
5330520 TTATGTTATT
* * ** * * *
5330530 TAAAAATTCAATTCATGTTGCGAGAAATGAGTTGAGCCTCGGCTCACATGTTGAGGTATTTTCAG
1 TAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GCACATGCTGAGGTATTTTCAA
5330595 TTTCTGTTTG
64 TTTCTGTTTG
* * *
5330605 T-TAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGGGGCACA--CTGAGTTATTTTCAAT
1 TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGGCACATGCTGAGGTATTTTCAAT
*
5330667 TCCTGTTTG
65 TTCTGTTTG
* **
5330676 TCAAAAATAAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGGCATGCTGAGGTATTTTCAAT
1 T-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCAAT
5330741 TTCTGTTT
65 TTCTGTTT
5330749 TTTTATTTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
71 22 0.18
72 5 0.04
73 66 0.55
74 27 0.22
75 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (73 bp):
TAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCACATGCTGAGGTATTTTCAATT
TCTGTTTG
Found at i:5330759 original size:8 final size:8
Alignment explanation
Indices: 5330746--5330790 Score: 67
Period size: 8 Copynumber: 5.9 Consensus size: 8
5330736 TCAATTTCTG
5330746 TTTTTTTA
1 TTTTTTTA
5330754 -TTTTTTA
1 TTTTTTTA
5330761 -TTTTTTA
1 TTTTTTTA
5330768 TTTTTTTA
1 TTTTTTTA
5330776 TTTTTTTA
1 TTTTTTTA
*
5330784 TATTTTT
1 TTTTTTT
5330791 CAAAAAAGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTA
Found at i:5330789 original size:7 final size:7
Alignment explanation
Indices: 5330747--5330781 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
5330737 CAATTTCTGT
5330747 TTTTTTA
1 TTTTTTA
5330754 TTTTTTA
1 TTTTTTA
5330761 TTTTTTA
1 TTTTTTA
5330768 TTTTTTTA
1 -TTTTTTA
5330776 TTTTTT
1 TTTTTT
5330782 TATATTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:5332031 original size:16 final size:17
Alignment explanation
Indices: 5332002--5332034 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5331992 AATTCTTTTT
*
5332002 AAAAACTTAGAAAATTA
1 AAAAAATTAGAAAATTA
5332019 AAAAAATTA-AAAATTA
1 AAAAAATTAGAAAATTA
5332035 TATAGAAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAAAATTAGAAAATTA
Found at i:5334145 original size:144 final size:144
Alignment explanation
Indices: 5333540--5334113 Score: 1015
Period size: 144 Copynumber: 4.0 Consensus size: 144
5333530 AAACAACTGG
* * * * **
5333540 CTTGTTGGTCCAATCCCATCTTCTGTCAGCAACTTAACCAATCTTGCCTCGTTGTACCTTCAAAG
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
* * *
5333605 CAACAAACTTGATGGATCCATTCCAGAAGATAATGGGAGACTAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
5333670 TATCCTCCAATAAT
131 TATCCTCCAATAAT
5333684 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
*
5333749 CAACCAACTTAATGGATCCATTCCACAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
5333814 TATCCTCCAATAAT
131 TATCCTCCAATAAT
*
5333828 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGATCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
5333893 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
66 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
*
5333958 TATCCTCCAATAGT
131 TATCCTCCAATAAT
5333972 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
1 CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
*
5334037 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGATTAACGAATTTGGTT-AAGTTGGAT
66 CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAA-TTGGAT
5334101 CTATCCTCCAATA
130 CTATCCTCCAATA
5334114 GGCTTTCAGG
Statistics
Matches: 414, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
143 2 0.00
144 412 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (144 bp):
CTTGTTGGTCCAATACCATCTTCTGTCAGCAACTTAACTAATCTTACCTCGTTGTTCCTTCAACT
CAACCAACTTAATGGATCCATTCCAGAAGATATTGGGAGACTAACGAATTTGGTTGAATTGGATC
TATCCTCCAATAAT
Found at i:5336092 original size:29 final size:29
Alignment explanation
Indices: 5336067--5336124 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
5336057 TTCTTTAAAC
5336067 AGAA-TCCACATTTTAATATAATTTTAGAA
1 AGAAGTCCA-ATTTTAATATAATTTTAGAA
* *
5336096 ATAAGTCCAATTTTAATTTAATTTTAGAA
1 AGAAGTCCAATTTTAATATAATTTTAGAA
5336125 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (29 bp):
AGAAGTCCAATTTTAATATAATTTTAGAA
Found at i:5339248 original size:17 final size:18
Alignment explanation
Indices: 5339223--5339262 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
5339213 GATATAATTT
*
5339223 AAAAAGAAAAA-ACAAGC
1 AAAATGAAAAAGACAAGC
*
5339240 AAAATGAAAAAGAGAAGC
1 AAAATGAAAAAGACAAGC
5339258 AAAAT
1 AAAAT
5339263 AGAGAATGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAATGAAAAAGACAAGC
Found at i:5350967 original size:20 final size:21
Alignment explanation
Indices: 5350944--5350988 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
5350934 ATTGAAAATA
5350944 TTTTTCTATAAAATTT-TAAT
1 TTTTTCTATAAAATTTATAAT
* * *
5350964 TTTTTTTTTATAATTTATAAT
1 TTTTTCTATAAAATTTATAAT
5350985 TTTT
1 TTTT
5350989 ATCTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTCTATAAAATTTATAAT
Found at i:5350968 original size:21 final size:21
Alignment explanation
Indices: 5350924--5350988 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
5350914 ATTTTTCATA
* *
5350924 TTTTTTAT-AAATTGAAAATAT
1 TTTTTTATAAAATTTATAAT-T
*
5350945 TTTTCTATAAAATTT-TAATT
1 TTTTTTATAAAATTTATAATT
* *
5350965 TTTTTTTTATAATTTATAATT
1 TTTTTTATAAAATTTATAATT
5350986 TTT
1 TTT
5350989 ATCTTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 13 0.36
21 18 0.50
22 5 0.14
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTTTTATAAAATTTATAATT
Found at i:5354094 original size:26 final size:26
Alignment explanation
Indices: 5354058--5354141 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
5354048 CATGAAATTC
5354058 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
5354084 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
5354110 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
5354136 TTATCA
1 TTATCA
5354142 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:5355117 original size:57 final size:58
Alignment explanation
Indices: 5355020--5355132 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 58
5355010 GCCGGCGACG
*
5355020 GGCGGCGGTCGACGATCGGCCGGTGACCCCCCTTGGCCGGATTTCCTTTTCCCCCCTC
1 GGCGCCGGTCGACGATCGGCCGGTGACCCCCCTTGGCCGGATTTCCTTTTCCCCCCTC
5355078 GGCGCCGG-CGACGATCGGCCGGTGACCCCCCTTGGCCGGATTTCCTTTTCCCCCC
1 GGCGCCGGTCGACGATCGGCCGGTGACCCCCCTTGGCCGGATTTCCTTTTCCCCCC
5355133 CCCTTCTCTC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
57 47 0.87
58 7 0.13
ACGTcount: A:0.07, C:0.42, G:0.29, T:0.21
Consensus pattern (58 bp):
GGCGCCGGTCGACGATCGGCCGGTGACCCCCCTTGGCCGGATTTCCTTTTCCCCCCTC
Found at i:5355712 original size:15 final size:17
Alignment explanation
Indices: 5355684--5355715 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5355674 TTGTATATAT
5355684 TATATTTATATTATGTA
1 TATATTTATATTATGTA
5355701 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
5355716 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:5356339 original size:18 final size:18
Alignment explanation
Indices: 5356318--5356362 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
5356308 AAAAATCAGA
5356318 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
5356336 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
5356353 TTT-AAAAATT
1 TTTCAAAAATT
5356363 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:5361994 original size:269 final size:269
Alignment explanation
Indices: 5361498--5362030 Score: 769
Period size: 269 Copynumber: 2.0 Consensus size: 269
5361488 GCTTAGAGAC
* * *
5361498 TCAGGCAATATATGCTGTATCATACGACATGGCTAATTTCAAAGTTGGACCCAATAAAGTACATG
1 TCAGGCAATATATGCTGTATCATACGACATGACTAATTTCAAAGCTGGACCCAATAAAATACATG
* *
5361563 ATGGAATCACCCGCACTCTCAGGAAGAATGACACGATGGCAGATCTTACTATCAGAATACGACAT
66 ATGGAATCACCCGCACTCTCAGAAAGAATGACACGATGGCAGATCCTACTATCAGAATACGACAT
* * * *
5361628 CGTCTATGTGAGCCAAAAGTCAATAAAAGGGAGTGCAATAGCTGACTTATTAGCAACTCGAACAA
131 CGCCTATGTAAGCCAAAAGTCAATAAAAGGGAGCGCAATAGCTGACTTATTAGCAACTCAAACAA
* * * ** *
5361693 CGGAGGAATACGAGCCATTGAAATTTGATTTCCCAGATGGAGACTTAATGTGCATTACAGAAAAG
196 CAGAGGAATACGAGCCATTGAAATTCGATTTCCCAAATAAAGACTTAATGTGCATCACAGAAAAG
5361758 GAATGTGAG
261 GAATGTGAG
*
5361767 TCAGGCAATATATGCTGTATCATACGACATGACTAATTTCAAAGCTGGACCCAATAAAATATATG
1 TCAGGCAATATATGCTGTATCATACGACATGACTAATTTCAAAGCTGGACCCAATAAAATACATG
* * * * *
5361832 ATGGAATCACCGGTACTCTCAGAAAGAATGGCACGATGGCAGATCCTCCTATCGGAATACGACAT
66 ATGGAATCACCCGCACTCTCAGAAAGAATGACACGATGGCAGATCCTACTATCAGAATACGACAT
* * * * * * * *
5361897 TGCCTATGTAAGTCAGAAGTCGATAAAAGGGAGCGCAATAGCTGATTTCTTAGCGACTCAAACGA
131 CGCCTATGTAAGCCAAAAGTCAATAAAAGGGAGCGCAATAGCTGACTTATTAGCAACTCAAACAA
* * * *
5361962 TAGAGGAATATGAGCCCTTGAGATTCGATTTCCCAAATAAAGACTTAATGTGCATCACAGAAAAG
196 CAGAGGAATACGAGCCATTGAAATTCGATTTCCCAAATAAAGACTTAATGTGCATCACAGAAAAG
5362027 GAAT
261 GAAT
5362031 CCCAGTCATC
Statistics
Matches: 231, Mismatches: 33, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
269 231 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (269 bp):
TCAGGCAATATATGCTGTATCATACGACATGACTAATTTCAAAGCTGGACCCAATAAAATACATG
ATGGAATCACCCGCACTCTCAGAAAGAATGACACGATGGCAGATCCTACTATCAGAATACGACAT
CGCCTATGTAAGCCAAAAGTCAATAAAAGGGAGCGCAATAGCTGACTTATTAGCAACTCAAACAA
CAGAGGAATACGAGCCATTGAAATTCGATTTCCCAAATAAAGACTTAATGTGCATCACAGAAAAG
GAATGTGAG
Found at i:5363826 original size:42 final size:42
Alignment explanation
Indices: 5363779--5363858 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
5363769 ATTATGCTTG
*
5363779 AAAAGGAAACCAA-GATGAAAACCCGAAAAGGGCATCTTAAAA
1 AAAAGGAAACCAAGGA-AAAAACCCGAAAAGGGCATCTTAAAA
** * *
5363821 AAAAGGTGATCAAGGAAAAAACCCGAAAAGGGCGTCTT
1 AAAAGGAAACCAAGGAAAAAACCCGAAAAGGGCATCTT
5363859 GATTAACACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.94
43 2 0.06
ACGTcount: A:0.50, C:0.16, G:0.23, T:0.11
Consensus pattern (42 bp):
AAAAGGAAACCAAGGAAAAAACCCGAAAAGGGCATCTTAAAA
Found at i:5365060 original size:73 final size:71
Alignment explanation
Indices: 5364871--5365060 Score: 227
Period size: 72 Copynumber: 2.6 Consensus size: 71
5364861 AAGCCTTTTT
* * * *
5364871 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTAAGGTCACGCTAAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGATAAGGT
*
5364936 ATTTTCA
65 AATTTCA
* ** * * *
5364943 ATTTTTGTATTTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGATAAGGT
5365008 AATTTCA
65 AATTTCA
* *
5365015 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
5365061 ACCTTTTAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
71 3 0.03
72 69 0.70
73 26 0.27
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGATAAGGTA
ATTTCA
Found at i:5365099 original size:199 final size:187
Alignment explanation
Indices: 5364701--5365139 Score: 486
Period size: 199 Copynumber: 2.3 Consensus size: 187
5364691 TCAAGGAAAC
* * * *
5364701 TCAACTCATATTACGAGAGATGAGTTGAGCCTCAA-GACACGTTGAGGTATTTTTAATTGTTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AAGGACACGCTGAGGTATTTTCAATTGTTGTT
* * *
5364765 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTT
65 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTAGTT
** * **
5364830 TTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAA
130 TTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAA
* * * * *
5364888 TCAACTCATATTGCTAGAGGTGAGTCGAGCCTAAGGTCACGCTAAGGTATTTTCAATTTTTGTAT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGCTGAGGTATTTTCAATTGTTGT-T
* ** * *
5364953 TTTAATTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATT
65 TTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGT-A-TT---TT
* *
5365018 TCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTTTT
125 T-AGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACTTTTT
5365082 CAAAA
183 CAAAA
* ** *
5365087 TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGCTGAGGTATTTT
5365140 TAGTTTTAAA
Statistics
Matches: 207, Mismatches: 31, Indels: 16
0.81 0.12 0.06
Matches are distributed among these distances:
186 2 0.01
187 51 0.25
188 48 0.23
189 1 0.00
190 2 0.01
193 3 0.01
194 4 0.02
195 1 0.00
197 1 0.00
198 35 0.17
199 59 0.29
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (187 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTAAGGACACGCTGAGGTATTTTCAATTGTTGTTT
TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATGAGGTATTTTTAGTTT
TAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAAAA
Found at i:5365244 original size:116 final size:117
Alignment explanation
Indices: 5365036--5365255 Score: 329
Period size: 116 Copynumber: 1.9 Consensus size: 117
5365026 TCAAGAATCA
*
5365036 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
*
5365101 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 GAGAAGTGAGTCGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
* **
5365153 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTTATTT-TTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
5365216 CTAGAGGTGAGTCGAGCCT-GAGGTCACGCTGAGGTATTTT
65 CGAGAAGTGAGTCGAGCCTCG-GGGCACGCTGAGGTATTTT
5365256 CAATTTTTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
115 1 0.01
116 60 0.65
117 32 0.34
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.36
Consensus pattern (117 bp):
ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:5365335 original size:315 final size:315
Alignment explanation
Indices: 5364763--5366005 Score: 2344
Period size: 315 Copynumber: 3.9 Consensus size: 315
5364753 TTAATTGTTG
5364763 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
5364828 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
* * *
5364893 TCATATTGCTAGAGGTGAGTCGAGCCTAAGGTCACGCTAAGGTATTTTCAATTTTTGTATTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
*
5364958 TTTCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
5365023 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
261 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
5365078 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
5365143 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
*
5365208 TCATATTGCTAGAGGTGAGTCGAGCCTGAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
5365273 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
5365338 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
261 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
5365393 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
5365458 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
* *
5365523 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCGCGCTGAAGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
*
5365588 TTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
5365653 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
261 TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
5365708 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
5365773 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
66 TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
*
5365838 TCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
131 TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
* *
5365903 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT-A
196 TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
* * *
5365967 TTGTCAAAAATTCAACTCATATTGCAAGAGGTGAGTTGA
261 TTGTCAAGAA-TCAACTCATATTGCGAGAGGTGGGTTGA
5366006 GCCTCAGGAC
Statistics
Matches: 910, Mismatches: 17, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
314 9 0.01
315 901 0.99
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (315 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAG
TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTTTTCAAAATCAAC
TCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTTTGTGTTTTAA
TTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCTGT
TTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACT
Found at i:5365375 original size:73 final size:71
Alignment explanation
Indices: 5365186--5365375 Score: 245
Period size: 72 Copynumber: 2.6 Consensus size: 71
5365176 AAGCCTTTTT
* * * * *
5365186 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTGAGGTCACGCTGAGGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
*
5365251 ATTTTCA
65 AATTTCA
* **
5365258 ATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
5365323 AATTTCA
65 AATTTCA
* *
5365330 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
5365376 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
71 3 0.03
72 71 0.70
73 27 0.27
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTA
ATTTCA
Found at i:5365561 original size:116 final size:117
Alignment explanation
Indices: 5365351--5365570 Score: 318
Period size: 116 Copynumber: 1.9 Consensus size: 117
5365341 TCAAGAATCA
*
5365351 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
* * *
5365416 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAAGTATTTTTAGTTTTAAATTG
* **
5365468 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTTATTT-TTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * * *
5365531 CTAGAGGTGAGTCGAGCCTCAGGTCGCGCTGAAGTATTTT
65 CGAGAAGTGAGTCGAGCCTCAGGGCACGCTGAAGTATTTT
5365571 CAATTTTTGT
Statistics
Matches: 91, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
116 59 0.65
117 32 0.35
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (117 bp):
ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAGCCTCAGGGCACGCTGAAGTATTTTTAGTTTTAAATTG
Found at i:5365690 original size:73 final size:71
Alignment explanation
Indices: 5365501--5365690 Score: 227
Period size: 72 Copynumber: 2.6 Consensus size: 71
5365491 AAGCCTTTTT
* * * * *
5365501 ATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTCGAGCCTCAGGTCGCGCTGAAGT
1 ATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAAGT
*
5365566 ATTTTCA
65 AATTTCA
* ** * *
5365573 ATTTTTGTGTTTTAATTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGT
1 ATTTTTGT-TTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAAGT
5365638 AATTTCA
65 AATTTCA
* *
5365645 ATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 ATTTTTGTTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
5365691 ACCTTTTAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
71 3 0.03
72 69 0.70
73 26 0.27
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (71 bp):
ATTTTTGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAAGTA
ATTTCA
Found at i:5365874 original size:116 final size:117
Alignment explanation
Indices: 5365666--5365885 Score: 327
Period size: 116 Copynumber: 1.9 Consensus size: 117
5365656 TCAAGAATCA
*
5365666 ACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
1 ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
* * *
5365731 GAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
66 GAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
* **
5365783 ACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTTATTT-TTGTTTTTCAAAATCAACTCATATTG
1 ACTCATATTGCGAGAGGTGAGTTGAA-CCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTG
* * *
5365846 CTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGTATTTT
65 CGAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTATTTT
5365886 CAATTTTTGT
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
116 60 0.65
117 32 0.35
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (117 bp):
ACTCATATTGCGAGAGGTGAGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAACTCATATTGC
GAGAAGTGAGTCGAACCTCAGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
Found at i:5366096 original size:74 final size:74
Alignment explanation
Indices: 5365829--5367066 Score: 1218
Period size: 74 Copynumber: 16.5 Consensus size: 74
5365819 TTTGTTTTTC
* * * * * *
5365829 AAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
5365894 GTGTTT---T
66 GT-TTTCAAA
**
5365901 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
5365966 ATTGTC-AA
66 GTTTTCAAA
* *
5365974 AAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
5366039 GTTGTCAAA
66 GTTTTCAAA
* ** * * * *
5366048 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366113 GTCTTTC-AA
66 GT-TTTCAAA
* *
5366122 AAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366187 GTTGTT-AAA
66 GTT-TTCAAA
* **
5366196 AAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366261 GTTTTCAAA
66 GTTTTCAAA
** * *
5366270 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366335 GTTTTC--A
66 GTTTTCAAA
* ** * * * *
5366342 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
5366407 ATTTTTCAAA
66 -GTTTTCAAA
*
5366417 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
5366482 T-TTTGTCAAA
65 TGTTT-TCAAA
** * * * *
5366492 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366557 GTCTTTC-AA
66 GT-TTTCAAA
* * * *
5366566 AAAATCAACTCATACTACGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTC
5366630 TGCTTTT-AAA
65 TG-TTTTCAAA
** ** * * *** * * * * ** *
5366640 TTTATATTTTTCAA-AAAAATTTAACTCGTATTCCGAGAGGTGAG-TTGAGCCTCAGGAC--ACG
1 ---A-A--AATCAACTCATA-TT---GCG-A-GAGGTGAGTTGAGCCTCAG-GACACG-CTGA-G
* * ** * * *
5366701 CTGAGGTAATTTCAATTTCTGTTGTAAAA
51 GTAATTTCA-----ATTTCTGTTTTCAAA
** * * * *
5366730 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366795 GTCTTTCAAA
66 GT-TTTCAAA
* * *
5366805 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAATTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366870 GTTTTC--A
66 GTTTTCAAA
* ** * * *
5366877 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
5366942 GTTTTCAAA
66 GTTTTCAAA
* * *
5366951 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
5367015 TCTGTCTTTCAAA
63 TCTGT-TTTCAAA
*
5367028 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
5367067 ATCACACACT
Statistics
Matches: 967, Mismatches: 148, Indels: 96
0.80 0.12 0.08
Matches are distributed among these distances:
71 2 0.00
72 180 0.19
73 77 0.08
74 422 0.44
75 87 0.09
76 81 0.08
77 43 0.04
78 3 0.00
79 16 0.02
80 9 0.01
81 2 0.00
83 4 0.00
84 9 0.01
85 17 0.02
86 1 0.00
87 1 0.00
89 3 0.00
90 10 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTCAAA
Found at i:5366175 original size:148 final size:147
Alignment explanation
Indices: 5365829--5367066 Score: 1437
Period size: 148 Copynumber: 8.3 Consensus size: 147
5365819 TTTGTTTTTC
* * * * * *
5365829 AAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*** ** **
5365894 G-TGT-TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
5365957 TCAATTTCTATTGTCAA
131 TCAATTTCTGTTTTCAA
* *
5365974 AAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * *
5366039 GTTGTCAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
*
5366104 TCAATTTTTGTCTTTCAA
131 TCAATTTCTGT-TTTCAA
* *
5366122 AAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* *
5366187 GTTGTTAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
5366252 TCAATTTCTGTTTTCAAA
131 TCAATTTCTGTTTTC-AA
** * *
5366270 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * *
5366335 GTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* *
5366398 TCAATTTATATTTTTCAAA
131 TCAATTTCT-GTTTTC-AA
*
5366417 AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
* * * *
5366482 TTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATT
65 TGTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
*
5366547 TTCAATTTTTGTCTTTCAA
130 TTCAATTTCTGT-TTTCAA
* * * *
5366566 AAAATCAACTCATACTACGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGGTAATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAATTTCAATTTC
* * * * **
5366630 TGCTTTTAAATTTATATTTTTCAAAAAAATTTAACTCGTATTCCGAGAGGTGAGTTGAGCCTCAG
65 TG---------------TTGTCAAAAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
**
5366695 GACACGCTGAGGTAATTTCAATTTCTGTTGTAAAA
114 GACACGCTGAGGTAATTTCAATTTCTGTT-TTCAA
** * * * *
5366730 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* ** * *
5366795 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAAT
66 GT-TGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAAT
*
5366860 TTCAATTTTTGTTTTC-A
130 TTCAATTTCTGTTTTCAA
* ** * * *
5366877 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * ** *
5366942 GTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
66 GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTA
*
5367006 TTTTCAATTTCTGTCTTTCAAA
128 ATTTCAATTTCTGT-TTTC-AA
*
5367028 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
5367067 ATCACACACT
Statistics
Matches: 953, Mismatches: 105, Indels: 64
0.85 0.09 0.06
Matches are distributed among these distances:
145 61 0.06
146 106 0.11
147 139 0.15
148 339 0.36
149 72 0.08
150 77 0.08
151 35 0.04
163 14 0.01
164 110 0.12
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (147 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTTCAA
Found at i:5366271 original size:222 final size:222
Alignment explanation
Indices: 5365829--5367066 Score: 1596
Period size: 222 Copynumber: 5.5 Consensus size: 222
5365819 TTTGTTTTTC
* ** * * * * *
5365829 AAAATCAACTCATATTGCTAGAGGTGAGTCGAACCTCAGGTCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
* * **
5365894 GTGTTT--TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 GTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* * * *
5365957 TCAATTTCTATTG-TCAAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGCT
131 TCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
*
5366021 GAGGTAATTTCAATTTCTGTTGTCAAA
196 GAGGTAATTTCAATTTCTGTTTTCAAA
*
5366048 AAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
* *
5366113 GTCTTTCAAAAAATCAACTCATACTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATT
66 GTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* **
5366178 TCAATTTCTGTTGTTAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACGCT
131 TCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
5366243 GAGGTAATTTCAATTTCTGTTTTCAAA
196 GAGGTAATTTCAATTTCTGTTTTCAAA
* ** * * *
5366270 AAAATCAACTCATATTGCGAGAAATGAATTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
* ** * * *
5366335 GT-TTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
66 GTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
* * * *
5366398 TCAATTTATATTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACG
131 TCAATTTCTGTTGTT-AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
5366463 CTGAGGTAATTTCAATTTCT-TTTGTCAAA
194 CTGAGGTAATTTCAATTTCTGTTT-TCAAA
5366492 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
* * * *
5366557 GTCTTTCAAAAAATCAACTCATACTACGAGAGGTAAGTTGAGCCTCAAGG-CACGTTGAGGTAAT
66 GTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTAAT
* * * *
5366621 TTCAATTTCTGCTTTTAAATTTATATTTTTCAAAAAAATTTAACTCGTATTCCGAGAGGTGAGTT
130 TTCAATTTCTG--------------TTGTT-AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTT
* *
5366686 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTAAAA
179 GAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAA
5366730 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
* *
5366795 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAAT
66 GTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * ** * *
5366860 TTCAATTTTTGTT-TT-CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
130 TTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
5366923 TGAGGTATTTTCAATTTCTGTTTTCAAA
195 TGAGGTAATTTCAATTTCTGTTTTCAAA
* ** *
5366951 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTGAGGTATTTTCAATT
* *
5367015 TCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
63 TTTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
5367067 ATCACACACT
Statistics
Matches: 897, Mismatches: 93, Indels: 54
0.86 0.09 0.05
Matches are distributed among these distances:
219 61 0.07
220 62 0.07
221 172 0.19
222 258 0.29
223 75 0.08
224 56 0.06
225 4 0.00
238 149 0.17
239 60 0.07
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (222 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
GTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTAATTTCAATTTCTGTTTTCAAA
Found at i:5366790 original size:164 final size:156
Alignment explanation
Indices: 5366482--5367061 Score: 579
Period size: 164 Copynumber: 3.7 Consensus size: 156
5366472 TTTCAATTTC
** * * *
5366482 TTTTGTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATT
1 TTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * * ** * *
5366547 TTCAATTTTTGTCTTTCAAAAAATCAACTCATACTACGAGAGGTAAGTTGAGCCTCAAGGCACGT
65 TTCAATTTTTG--TTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
*
5366612 TGAGGTAATTTCAATTTCTGCTTTTAAATTTATA
128 TGAGGTATTTTCAATTTCTG-TTTT---TTT-TA
* * *
5366646 TTTTTCAAAAAAATTTAACTCGTATTCCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
1 TTTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
* * *
5366711 TTCAATTTCTGTTGTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
65 TTCAATTTTTGTT-T-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
*
5366776 TGAGGTATTTTCAA---------TTTTTG
128 TGAGGTATTTTCAATTTCTGTTTTTTTTA
* * *
5366796 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGATACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
** *
5366861 TCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
66 TCAATTTTTGTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
5366926 GGTATTTTCAATTTCTG---------
131 GGTATTTTCAATTTCTGTTTTTTTTA
* *
5366943 -TTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTA
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTA
* * **
5367006 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 ATTTCAATTT-T-TGTTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
5367062 TTCAGATCAC
Statistics
Matches: 358, Mismatches: 43, Indels: 43
0.81 0.10 0.10
Matches are distributed among these distances:
145 2 0.01
146 43 0.12
147 58 0.16
148 21 0.06
149 59 0.16
150 17 0.05
151 35 0.10
154 1 0.00
162 2 0.01
163 10 0.03
164 110 0.31
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (156 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTTTGTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
GGTATTTTCAATTTCTGTTTTTTTTA
Found at i:5367614 original size:16 final size:16
Alignment explanation
Indices: 5367593--5367627 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
5367583 AAGCTACAAG
5367593 GCGTATATCATAAGAT
1 GCGTATATCATAAGAT
5367609 GCGTATATCATAAGAT
1 GCGTATATCATAAGAT
5367625 GCG
1 GCG
5367628 GTGGACTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (16 bp):
GCGTATATCATAAGAT
Found at i:5368972 original size:15 final size:17
Alignment explanation
Indices: 5368944--5368975 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
5368934 TTGTATATAT
5368944 TATATTTATATTATGTA
1 TATATTTATATTATGTA
5368961 TATATTT-T-TTATGTA
1 TATATTTATATTATGTA
5368976 CGTTTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (17 bp):
TATATTTATATTATGTA
Found at i:5369600 original size:18 final size:18
Alignment explanation
Indices: 5369579--5369623 Score: 76
Period size: 17 Copynumber: 2.6 Consensus size: 18
5369569 AAATTTCAGG
5369579 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
5369597 TTTC-AAAATTTTCGTGT
1 TTTCAAAAATTTTCGTGT
5369614 TTT-AAAAATT
1 TTTCAAAAATT
5369624 CTCATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 22 0.85
18 4 0.15
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTTCAAAAATTTTCGTGT
Found at i:5376468 original size:144 final size:144
Alignment explanation
Indices: 5376282--5376872 Score: 1110
Period size: 144 Copynumber: 4.1 Consensus size: 144
5376272 TTCTTTTGGG
* *
5376282 ATAGAACCTTTTAATAGATTAGAACCAAGGCTTAAGTACTGCATCTTTGATAAACTACCAATACA
1 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTACCAATACA
5376347 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
66 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
5376412 AAATTTCTTGGGGA
131 AAATTTCTTGGGGA
*
5376426 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTGCCAATACA
1 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTACCAATACA
*
5376491 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGCTTAC
66 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
5376556 AAATTTCTTGGGGA
131 AAATTTCTTGGGGA
*
5376570 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTGCCAATACA
1 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTACCAATACA
5376635 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
66 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
5376700 AAATTTCTTGGGGA
131 AAATTTCTTGGGGA
*
5376714 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGTACTGCATCTTTGATAAACTACCAATACA
1 ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTACCAATACA
* *
5376779 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATACAGTTAAATTTGCTACATTAC
66 AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
5376844 AAATTTCTTGGGGA
131 AAATTTCTTGGGGA
5376858 ATAGGACCTTTTAAT
1 ATAGGACCTTTTAAT
5376873 TTGTTTTGGG
Statistics
Matches: 438, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 438 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (144 bp):
ATAGGACCTTTTAATAGATTAGAACCAAGGCTTAAGGACTGCATCTTTGATAAACTACCAATACA
AGAAGGGATTGAACCACTCAATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTAC
AAATTTCTTGGGGA
Found at i:5376915 original size:72 final size:72
Alignment explanation
Indices: 5376798--5376939 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
5376788 TGAACCACTC
5376798 AATTTGTTTTGGGAGAGGTACAATACAGTTAAATTTGCTACATTACAAATTTCTTGGGGAATAGG
1 AATTTGTTTTGGGAGAGGTACAATACAGTTAAATTTGCTACATTACAAATTTCTTGGGGAATAGG
5376863 ACCTTTT
66 ACCTTTT
* *
5376870 AATTTGTTTTGGGAGAGGTACAATCCAGTTAAATTTGCTAGATTACAAATTTCTTGGGGAATAGG
1 AATTTGTTTTGGGAGAGGTACAATACAGTTAAATTTGCTACATTACAAATTTCTTGGGGAATAGG
5376935 ACCTT
66 ACCTT
5376940 GAAGTTGGTT
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (72 bp):
AATTTGTTTTGGGAGAGGTACAATACAGTTAAATTTGCTACATTACAAATTTCTTGGGGAATAGG
ACCTTTT
Found at i:5379443 original size:11 final size:10
Alignment explanation
Indices: 5379385--5379483 Score: 62
Period size: 11 Copynumber: 9.9 Consensus size: 10
5379375 GCTTGTCAAG
5379385 TTATTAAAATA
1 TTATTAAAA-A
*
5379396 TTTTTAAAAA
1 TTATTAAAAA
*
5379406 -T-GTAAAAA
1 TTATTAAAAA
*
5379414 TTATAAAAAAA
1 TTAT-TAAAAA
5379425 TTA-TAAAAA
1 TTATTAAAAA
*
5379434 TTATTGAAAA
1 TTATTAAAAA
*
5379444 TATATTAATAA
1 T-TATTAAAAA
*
5379455 TTTTTAAAAA
1 TTATTAAAAA
* *
5379465 GTTCTGAAAAA
1 -TTATTAAAAA
5379476 TTA-TAAAA
1 TTATTAAAA
5379484 TATAACTTGA
Statistics
Matches: 68, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
8 6 0.09
9 14 0.21
10 16 0.24
11 32 0.47
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:5380433 original size:24 final size:25
Alignment explanation
Indices: 5380390--5380444 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
5380380 AATTTTTTTC
*
5380390 AAATTGAGTCGAGTGAAATC-A-TG
1 AAATTGAGTCGAGCGAAATCGAGTG
5380413 AAATTCGAGTCGAGACG-AATCGAGTG
1 AAATT-GAGTCGAG-CGAAATCGAGTG
5380439 AAATTG
1 AAATTG
5380445 TTTGAGTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 5 0.19
24 12 0.44
25 3 0.11
26 7 0.26
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (25 bp):
AAATTGAGTCGAGCGAAATCGAGTG
Found at i:5381811 original size:11 final size:11
Alignment explanation
Indices: 5381787--5381820 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
5381777 GTGATTTTAG
5381787 ATTTTCTTTT-T
1 ATTTT-TTTTCT
5381798 ATTTTTTTTCT
1 ATTTTTTTTCT
5381809 ATTTTTTTTCT
1 ATTTTTTTTCT
5381820 A
1 A
5381821 ATCTGTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTCT
Found at i:5382723 original size:29 final size:27
Alignment explanation
Indices: 5382691--5382758 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 27
5382681 TACACATGCA
*
5382691 TTTTTCATATTAATATATATACA-TATATG
1 TTTTTAATATT-ATAT-TAT-CAGTATATG
5382720 TTTTTAATATTATATTATCATGTATATG
1 TTTTTAATATTATATTATCA-GTATATG
5382748 -TTTTAATATTA
1 TTTTTAATATTA
5382759 CTAGCTATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 2 0.06
27 14 0.39
28 10 0.28
29 10 0.28
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTTTAATATTATATTATCAGTATATG
Found at i:5382936 original size:21 final size:21
Alignment explanation
Indices: 5382895--5382936 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5382885 TCTAATATAA
* *
5382895 ATATATATATCATATAGGTTT
1 ATATACATATCATACAGGTTT
*
5382916 ATATACATATCATACATGTTT
1 ATATACATATCATACAGGTTT
5382937 CTTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATACATATCATACAGGTTT
Found at i:5383257 original size:20 final size:19
Alignment explanation
Indices: 5383193--5383261 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
5383183 ATATATCTTT
*
5383193 TTATATTGTATTTTTATATA
1 TTATATTATATTTTTA-ATA
* *
5383213 TCATGCA-TATATTTTGAATA
1 TTAT--ATTATATTTTTAATA
*
5383233 CTATATTATATTTTTACATA
1 TTATATTATATTTTTA-ATA
5383253 TTATATTAT
1 TTATATTAT
5383262 GTATATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 1 0.03
19 9 0.24
20 19 0.50
21 8 0.21
22 1 0.03
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (19 bp):
TTATATTATATTTTTAATA
Found at i:5383308 original size:45 final size:47
Alignment explanation
Indices: 5383218--5383314 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 47
5383208 ATATATCATG
* *
5383218 CATATATTTTGAATACTATATTATATTTTTACATATTATATTATGTA
1 CATATATTTTCAATACTATATTATATTTTTACATACTATATTATGTA
* *
5383265 TATATATTTTCAATA-T-TATTAGT-TTTTTATATACTAT-TCTATGTA
1 CATATATTTTCAATACTATATTA-TATTTTTACATACTATAT-TATGTA
5383310 CATAT
1 CATAT
5383315 CTCCATATCA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 1 0.02
45 27 0.63
46 2 0.05
47 13 0.30
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.55
Consensus pattern (47 bp):
CATATATTTTCAATACTATATTATATTTTTACATACTATATTATGTA
Found at i:5395660 original size:28 final size:28
Alignment explanation
Indices: 5395629--5395686 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
5395619 AATACCCCTT
* *
5395629 TAAATAATGTTGTCTCTAAAATTAAACC
1 TAAACAATATTGTCTCTAAAATTAAACC
*
5395657 TAAACAATATTGTCTCTAAGATTAAACC
1 TAAACAATATTGTCTCTAAAATTAAACC
5395685 TA
1 TA
5395687 CATTCTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.07, T:0.34
Consensus pattern (28 bp):
TAAACAATATTGTCTCTAAAATTAAACC
Found at i:5403895 original size:5 final size:6
Alignment explanation
Indices: 5403869--5403902 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
5403859 TTGTGGCCCT
*
5403869 AAACAA AAATCAA AAACAA AAACAA AAATAA AAA
1 AAACAA AAA-CAA AAACAA AAACAA AAACAA AAA
5403903 TAAGTCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (6 bp):
AAACAA
Found at i:5405384 original size:3 final size:3
Alignment explanation
Indices: 5405376--5405417 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
5405366 TCCATTCGCA
5405376 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5405418 AAATTTAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:5408327 original size:144 final size:144
Alignment explanation
Indices: 5408096--5408820 Score: 1171
Period size: 144 Copynumber: 5.0 Consensus size: 144
5408086 TGTGACCTGA
* *
5408096 AAGCCTATTGAAGGATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
* * *
5408161 ATCCATTAAGTTGGTTGTTTTGAAGGAACAACGAGACAAGATTGGTTAAGTAACTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
5408226 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* * * *
5408240 AAGACTATTGAAGGATAGATCGAATGAAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5408305 ATCCATTAAGTTGGTTCCTTTGAAGGAACAACGAGGCAAGATCGGCTAAGTAGATGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
5408370 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* *
5408384 AAGCATATTGGAGGATAGATCCAATGCAACCAATTTCCTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
* * *
5408449 ATCCGTTAAGTTGGTTCCTTTGAAGGAACAAAGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
5408514 GGGATTGGACCAAC
131 GGGATTGGACCAAC
* * *
5408528 AGGCCTATTGGAGGATAGATCTAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
* * * *
5408593 ATCCATTAAGTTTGTTGTTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
*
5408658 GAGATTGGACCAAC
131 GGGATTGGACCAAC
* *
5408672 AAGCCTATTGGAGGATAGATCTAATGCAACCAAATTCCTTAGTCTCCAAATTTCTTGTGGAATGG
1 AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
* * *
5408737 ATCCATTAAGTTTGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
66 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
5408802 GGGATTGGACCAAC
131 GGGATTGGACCAAC
5408816 AAGCC
1 AAGCC
5408821 AGTTGTTTGA
Statistics
Matches: 541, Mismatches: 40, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
144 541 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (144 bp):
AAGCCTATTGGAGGATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATTTCTTGTGGAATGG
ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTAGCTGACAGAAGAT
GGGATTGGACCAAC
Found at i:5410974 original size:23 final size:23
Alignment explanation
Indices: 5410928--5410974 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
5410918 TTTTCAATTG
*
5410928 TAATTCTAAAATGAAATTAAGATT
1 TAATTCTAAAA-GAAAATAAGATT
5410952 TAATTCTAAAA-AAAATAATGATT
1 TAATTCTAAAAGAAAATAA-GATT
5410975 GAAACAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
24 11 0.52
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (23 bp):
TAATTCTAAAAGAAAATAAGATT
Found at i:5414926 original size:144 final size:144
Alignment explanation
Indices: 5414695--5415014 Score: 455
Period size: 144 Copynumber: 2.2 Consensus size: 144
5414685 CCTATTGAAA
* *
5414695 GATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATCTCTTGTGGAACGGATCCATTAAGTTT
1 GATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATCTCTTGTGGAACGCATCCATTAAGTTT
* *
5414760 GTTGCATTGAAGGAGCAACGAGGTAAGATCGGTTAAGTAGCTGACAAAAGATGGGATTGGACCAA
66 GTTGCATTGAAGGAACAACGAGGCAAGATCGGTTAAGTAGCTGACAAAAGATGGGATTGGACCAA
*
5414825 CAAGACTATTAG-AG
131 CAAGACTACT-GTAG
* * * * *
5414839 GATAGATCCAATTCAACCAAATTCCTTAGTCTTCTAATTTCATT-TGGAATGCATCCATTAAGTT
1 GATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATCTC-TTGTGGAACGCATCCATTAAGTT
* * * * *
5414903 TGTTGCTTTGAAGGAACAGCGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCA
65 TGTTGCATTGAAGGAACAACGAGGCAAGATCGGTTAAGTAGCTGACAAAAGATGGGATTGGACCA
*
5414968 ACAAGCCTACTGTAG
130 ACAAGACTACTGTAG
*
5414983 GATAGATCGAATGCAACCAAATTCCTTAGTCT
1 GATAGATCCAATGCAACCAAATTCCTTAGTCT
5415015 ATAGATCAAA
Statistics
Matches: 156, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
143 1 0.01
144 153 0.98
145 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (144 bp):
GATAGATCCAATGCAACCAAATTCCTTAGTCTCCCAATCTCTTGTGGAACGCATCCATTAAGTTT
GTTGCATTGAAGGAACAACGAGGCAAGATCGGTTAAGTAGCTGACAAAAGATGGGATTGGACCAA
CAAGACTACTGTAG
Found at i:5415019 original size:31 final size:31
Alignment explanation
Indices: 5414984--5415045 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
5414974 CTACTGTAGG
*
5414984 ATAGATCGAATGCAACCAAATTCCTTAGTCT
1 ATAGATCAAATGCAACCAAATTCCTTAGTCT
*
5415015 ATAGATCAAATGCAACCAAATTCTTTAGTCT
1 ATAGATCAAATGCAACCAAATTCCTTAGTCT
5415046 CCCAATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (31 bp):
ATAGATCAAATGCAACCAAATTCCTTAGTCT
Found at i:5415131 original size:174 final size:175
Alignment explanation
Indices: 5414840--5415185 Score: 491
Period size: 174 Copynumber: 2.0 Consensus size: 175
5414830 CTATTAGAGG
* * * * *
5414840 ATAGATCCAATTCAACCAAATTCCTTAGTCTTCTAATTTCATTTGGAATGCATCCATTAAGTTTG
1 ATAGATCAAATGCAACCAAATTCCTTAGTCTCCCAATTTCATTTGGAATGCATCCATTAAGTTGG
* *
5414905 TTGCTTTGAAGGAACAGCGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
66 TTGCTTTGAAGGAACAACGAGGCAAGATTAGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
* * *
5414970 AAGCCTACTGTAGGATAGATCGA-ATGCAACCAAATTCCTTAGTCT
131 AAGACTACTGGAGGATAGATCCAGA-GCAACCAAATTCCTTAGTCT
* * *
5415015 ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTC-TTGTGGGATGGATCCATT-AGTTG
1 ATAGATCAAATGCAACCAAATTCCTTAGTCTCCCAATTTCATT-TGGAATGCATCCATTAAGTTG
* * *
5415078 GTTGCTTTGAAGGTACAACGAGGCATGATTAGTTAAGTTGCTGATAGAAGATGGGATTGGACCAA
65 GTTGCTTTGAAGGAACAACGAGGCAAGATTAGTTAAGTTGCTGACAGAAGATGGGATTGGACCAA
* *
5415143 CAAGACTATTGGAGGATAGATCCAGAGCAACCAAATTCTTTAG
130 CAAGACTACTGGAGGATAGATCCAGAGCAACCAAATTCCTTAG
5415186 GCTCCCAATT
Statistics
Matches: 151, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
174 102 0.68
175 49 0.32
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (175 bp):
ATAGATCAAATGCAACCAAATTCCTTAGTCTCCCAATTTCATTTGGAATGCATCCATTAAGTTGG
TTGCTTTGAAGGAACAACGAGGCAAGATTAGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
AAGACTACTGGAGGATAGATCCAGAGCAACCAAATTCCTTAGTCT
Found at i:5415274 original size:318 final size:319
Alignment explanation
Indices: 5414696--5415333 Score: 987
Period size: 318 Copynumber: 2.0 Consensus size: 319
5414686 CTATTGAAAG
* *
5414696 ATAGATCCAATGCAACCAAATTCGTTAGTCTCCCAATCTCTTGTGGAACGGATCCATTAAGTTTG
1 ATAGATCAAATGCAACCAAATTCGTTAGTCTCCCAATCTCTTGTGGAACGGATCCATTAAGTTGG
* *
5414761 TTGCATTGAAGGAGCAACGAGGTAAGATCGGTTAAGTAGCTGACAAAAGATGGGATTGGACCAAC
66 TTGCATTGAAGGAGCAACGAGGCAAGATCAGTTAAGTAGCTGACAAAAGATGGGATTGGACCAAC
* * * *
5414826 AAGACTATTAGAGGATAGATCCAATTCAACCAAATTCCTTAGTCTTCTAATTTCATTTGGAATGC
131 AAGACTATTAGAGGATAGATCCAATGCAACCAAATTCCTTAGGCTCCCAATTTCATTTGGAATGC
* *
5414891 ATCCATTAAGTTTGTTGCTTTGAAGGAACAGCGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
196 ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
*
5414956 GGGATTGGACCAACAAGCCTACTGTAGGATAGATCGAATGCAACCAAATTCCTTAGTCT
261 GGGATTGGACCAACAAGCCTACTGTAGGATAGATCGAATGCAACCAAATTCCTTAATCT
* * * *
5415015 ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGGATGGATCCATT-AGTTGG
1 ATAGATCAAATGCAACCAAATTCGTTAGTCTCCCAATCTCTTGTGGAACGGATCCATTAAGTTGG
* * * * * *
5415079 TTGCTTTGAAGGTA-CAACGAGGCATGATTAGTTAAGTTGCTGATAGAAGATGGGATTGGACCAA
66 TTGCATTGAAGG-AGCAACGAGGCAAGATCAGTTAAGTAGCTGACAAAAGATGGGATTGGACCAA
* *
5415143 CAAGACTATTGGAGGATAGATCCAGA-GCAACCAAATTCTTTAGGCTCCCAATTTC-TTGTGGAA
130 CAAGACTATTAGAGGATAGATCCA-ATGCAACCAAATTCCTTAGGCTCCCAATTTCATT-TGGAA
*
5415206 TGGATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAA
193 TGCATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAA
* *
5415271 GATGGGATTGGACCAATAAGCCTATTGTAGGATAGATCGAATGCAACCAAATTCCTTAATCT
258 GATGGGATTGGACCAACAAGCCTACTGTAGGATAGATCGAATGCAACCAAATTCCTTAATCT
5415333 A
1 A
5415334 CCAATTTCTT
Statistics
Matches: 290, Mismatches: 26, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
317 2 0.01
318 233 0.80
319 55 0.19
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (319 bp):
ATAGATCAAATGCAACCAAATTCGTTAGTCTCCCAATCTCTTGTGGAACGGATCCATTAAGTTGG
TTGCATTGAAGGAGCAACGAGGCAAGATCAGTTAAGTAGCTGACAAAAGATGGGATTGGACCAAC
AAGACTATTAGAGGATAGATCCAATGCAACCAAATTCCTTAGGCTCCCAATTTCATTTGGAATGC
ATCCATTAAGTTGGTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGAT
GGGATTGGACCAACAAGCCTACTGTAGGATAGATCGAATGCAACCAAATTCCTTAATCT
Found at i:5415463 original size:144 final size:144
Alignment explanation
Indices: 5415015--5415442 Score: 671
Period size: 144 Copynumber: 3.0 Consensus size: 144
5415005 TCCTTAGTCT
*
5415015 ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGGATGGATCCATT-AGTTGG
1 ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGG
* * *
5415079 TTGCTTTGAAGGTACAACGAGGCATGATTAGTTAAGTTGCTGATAGAAGATGGGATTGGACCAAC
66 TTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
*
5415144 AAGACTATTGGAGG
131 AAGACTATTGTAGG
* *
5415158 ATAGATCCAGA-GCAACCAAATTCTTTAGGCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
1 ATAGAT-CAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTG
*
5415222 GTTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAA
65 GTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAA
* *
5415287 TAAGCCTATTGTAGG
130 CAAGACTATTGTAGG
* * * * * *
5415302 ATAGATCGAATGCAACCAAATTCCTTAATCTACCAATTTCTTGTGGAATAGATCCATTAAGTTTG
1 ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGG
*
5415367 TTGCTTTAAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
66 TTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
*
5415432 AAGACTGTTGT
131 AAGACTATTGT
5415443 TTGAGAGATC
Statistics
Matches: 259, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
143 53 0.20
144 206 0.80
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (144 bp):
ATAGATCAAATGCAACCAAATTCTTTAGTCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGG
TTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
AAGACTATTGTAGG
Found at i:5415482 original size:144 final size:144
Alignment explanation
Indices: 5415015--5415496 Score: 600
Period size: 144 Copynumber: 3.4 Consensus size: 144
5415005 TCCTTAGTCT
* * * *
5415015 ATAGATCAA-ATGCAACCAAATTCTTTA-GTCTCCCAATTTCTTGTGGGATGGATCCATT-AGTT
1 ATAGATCAAGAT-CAACCAAATTCTCTAGGT-TACCAATTTCTTGTGGAATAGATCCATTAAGTT
* * *
5415077 GGTTGCTTTGAAGGTACAACGAGGCATGATTAGTTAAGTTGCTGATAGAAGATGGGATTGGACCA
64 GGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCA
*
5415142 ACAAGACTATTGGAGG
129 ACAAGACTATTGTAGG
* * * * * *
5415158 ATAGATCCAGAGCAACCAAATTCTTTAGGCTCCCAATTTCTTGTGGAATGGATCCATTAAGTTGG
1 ATAGATCAAGATCAACCAAATTCTCTAGGTTACCAATTTCTTGTGGAATAGATCCATTAAGTTGG
* *
5415223 TTGCTTTGAAGGAACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAT
66 TTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
*
5415288 AAGCCTATTGTAGG
131 AAGACTATTGTAGG
* *
5415302 ATAGATCGA-ATGCAACCAAATTC-CTTA-ATCTACCAATTTCTTGTGGAATAGATCCATTAAGT
1 ATAGATCAAGAT-CAACCAAATTCTC-TAGGT-TACCAATTTCTTGTGGAATAGATCCATTAAGT
* *
5415364 TTGTTGCTTTAAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACC
63 TGGTTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACC
* **
5415429 AACAAGACTGTTGTTTG
128 AACAAGACTATTGTAGG
* * * * *
5415446 AGAGATCAAGATCAACCATACTCTCTAGGTTTCCAATATT-TGGTGGAATAG
1 ATAGATCAAGATCAACCAAATTCTCTAGGTTACCAAT-TTCTTGTGGAATAG
5415497 GACCACGGAG
Statistics
Matches: 296, Mismatches: 33, Indels: 19
0.85 0.09 0.05
Matches are distributed among these distances:
143 51 0.17
144 239 0.81
145 6 0.02
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (144 bp):
ATAGATCAAGATCAACCAAATTCTCTAGGTTACCAATTTCTTGTGGAATAGATCCATTAAGTTGG
TTGCTTTGAAGGTACAACGAGGCAAGATTGGTTAAGTTGCTGACAGAAGATGGGATTGGACCAAC
AAGACTATTGTAGG
Found at i:5417057 original size:21 final size:23
Alignment explanation
Indices: 5417033--5417081 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
5417023 AATTTCATTG
*
5417033 AAATTTTCT-C-AAAATTCTATC
1 AAATTTTCTACAAAAATTCTAAC
5417054 AAA-TTTCTACAAAAATTCTAAC
1 AAATTTTCTACAAAAATTCTAAC
5417076 -AATTTT
1 AAATTTT
5417082 ATTTGTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTTTCTACAAAAATTCTAAC
Found at i:5417348 original size:48 final size:47
Alignment explanation
Indices: 5417215--5417349 Score: 166
Period size: 48 Copynumber: 2.8 Consensus size: 47
5417205 AGTGATAATT
* * * *
5417215 TTAAATTTTCAATACTATTCGATTTTTTCTTAATTTACGCAAATTTAA
1 TTAAAATTTCAATACTATT-GATTTTTTTTTCATTTATGCAAATTTAA
*
5417263 TT-AAATTTGCAATACTATTTGATATTTTTTTCATTTATGC-AATTATAA
1 TTAAAATTT-CAATACTA-TTGATTTTTTTTTCATTTATGCAAATT-TAA
5417311 TTAAAATTTCAATACTACTTGATTTTTTTTTCATTTATG
1 TTAAAATTTCAATACTA-TTGATTTTTTTTTCATTTATG
5417350 ATGTTTGCAT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
47 9 0.12
48 59 0.78
49 8 0.11
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.53
Consensus pattern (47 bp):
TTAAAATTTCAATACTATTGATTTTTTTTTCATTTATGCAAATTTAA
Found at i:5418989 original size:18 final size:18
Alignment explanation
Indices: 5418948--5418982 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5418938 GCTAGGTGCG
*
5418948 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
5418966 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
5418983 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:5423067 original size:16 final size:17
Alignment explanation
Indices: 5423046--5423078 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
5423036 AAACCTTAAA
5423046 CCCTAA-TTTAATCAAT
1 CCCTAATTTTAATCAAT
5423062 CCCTAATTTTAATCAAT
1 CCCTAATTTTAATCAAT
5423079 TAACCCTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (17 bp):
CCCTAATTTTAATCAAT
Found at i:5423192 original size:22 final size:22
Alignment explanation
Indices: 5423167--5423213 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5423157 TTTTTTTTAT
* *
5423167 AAACCCCAACCCTAAATCCTAA
1 AAACCCCAACCCTAAAACATAA
* *
5423189 AAACCCTATCCCTAAAACATAA
1 AAACCCCAACCCTAAAACATAA
5423211 AAA
1 AAA
5423214 AACCATAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (22 bp):
AAACCCCAACCCTAAAACATAA
Found at i:5424842 original size:19 final size:20
Alignment explanation
Indices: 5424802--5424843 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
5424792 TTTATAACAC
*
5424802 TTTTTATCTAAAATTTTTAA
1 TTTTTATCTAAAATTTTAAA
5424822 TTTTTAT-TATAAA-TTTAAA
1 TTTTTATCTA-AAATTTTAAA
5424841 TTT
1 TTT
5424844 CATACTACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTATCTAAAATTTTAAA
Found at i:5429385 original size:18 final size:18
Alignment explanation
Indices: 5429345--5429408 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
5429335 TATGTAGATT
* * *
5429345 TTTTTTATTTGTGTGTTTT
1 TTTTTTATTT-TTTATTTA
5429364 TTTTTTATTTTTTATTTA
1 TTTTTTATTTTTTATTTA
* *
5429382 TTTTTGATTTTTAATTTCTA
1 TTTTTTATTTTTTA-TT-TA
5429402 TTTTTTA
1 TTTTTTA
5429409 ATGGGCCCAG
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 17 0.46
19 12 0.32
20 8 0.22
ACGTcount: A:0.14, C:0.02, G:0.06, T:0.78
Consensus pattern (18 bp):
TTTTTTATTTTTTATTTA
Found at i:5430163 original size:31 final size:31
Alignment explanation
Indices: 5430125--5430203 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
5430115 TGTCAATTAT
*
5430125 TTCAATATCCAACAAGCTT-AAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAACATAATAAA
* * *
5430156 TTCAATATCTAACAAATTCCAGACATAATAAT
1 TTCAATATCCAACAAATT-CAAACATAATAAA
*
5430188 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
5430204 CTAAAATTTC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.05
31 14 0.35
32 24 0.60
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.27
Consensus pattern (31 bp):
TTCAATATCCAACAAATTCAAACATAATAAA
Found at i:5432298 original size:41 final size:41
Alignment explanation
Indices: 5432227--5432444 Score: 330
Period size: 41 Copynumber: 5.3 Consensus size: 41
5432217 AGCAATTTCG
5432227 AAACGCCGCT-AAAAATAGAGCATTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
** *
5432267 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGTTTTTGGTA
1 AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
* *
5432308 AAACGCCGCTAAAAAATAGAACATTAGGGGCGCTTTTGGTA
1 AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
* * *
5432349 AAACGCTGCCAAAAAATAGAGCATTAGCCGCGCTTTTGGTA
1 AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
**
5432390 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
*
5432431 AAACGCCACTAAAA
1 AAACGCCGCTAAAA
5432445 GTCATATAAC
Statistics
Matches: 158, Mismatches: 19, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
40 10 0.06
41 148 0.94
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAAATAGAGCATTAGCGGCGCTTTTGGTA
Found at i:5432510 original size:29 final size:29
Alignment explanation
Indices: 5432477--5432571 Score: 69
Period size: 29 Copynumber: 3.4 Consensus size: 29
5432467 AAACGCCAAA
* *
5432477 AAAATCATAAACACTAATCTATAACCCCT
1 AAAACCATAAACACTAAACTATAACCCCT
* *
5432506 AAAA-TAGTAAAC-C---CCTA-AA-CCCT
1 AAAACCA-TAAACACTAAACTATAACCCCT
*
5432529 AACAAACCCTAAACACTAAACTATAACCCCT
1 AA-A-ACCATAAACACTAAACTATAACCCCT
5432560 AAAACCATAAAC
1 AAAACCATAAAC
5432572 GTCGCAATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 20
0.66 0.08 0.26
Matches are distributed among these distances:
23 6 0.12
24 3 0.06
25 9 0.18
26 1 0.02
28 2 0.04
29 20 0.40
30 3 0.06
31 6 0.12
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.18
Consensus pattern (29 bp):
AAAACCATAAACACTAAACTATAACCCCT
Found at i:5433076 original size:24 final size:24
Alignment explanation
Indices: 5433049--5433097 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5433039 CGTATATTTG
5433049 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
5433073 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
5433097 T
1 T
5433098 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:5435124 original size:25 final size:25
Alignment explanation
Indices: 5435075--5435146 Score: 62
Period size: 24 Copynumber: 2.9 Consensus size: 25
5435065 TATGCATAAC
*
5435075 AACATATAAGAATATGATAAT-AAA
1 AACATATATGAATATGATAATAAAA
*
5435099 AACATATATGCATAATGAT-ATGAAAA
1 AACATATATGAAT-ATGATAAT-AAAA
5435125 ATACATATAT-ATATAT-ATAATA
1 A-ACATATATGA-ATATGATAATA
5435147 TACTATTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 13 0.33
25 8 0.21
26 8 0.21
27 10 0.26
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.31
Consensus pattern (25 bp):
AACATATATGAATATGATAATAAAA
Found at i:5436003 original size:15 final size:15
Alignment explanation
Indices: 5435972--5436011 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
5435962 AAGGTAAAAC
*
5435972 TTTATATTTTTTTTGT
1 TTTATA-TTTATTTGT
*
5435988 TTTTTATTTATTTGT
1 TTTATATTTATTTGT
5436003 TTTATATTT
1 TTTATATTT
5436012 CCTTGTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (15 bp):
TTTATATTTATTTGT
Found at i:5440704 original size:47 final size:47
Alignment explanation
Indices: 5440635--5440806 Score: 228
Period size: 47 Copynumber: 3.7 Consensus size: 47
5440625 GGATGGTTGA
5440635 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
5440682 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
*
5440730 G--TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
*
5440775 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
5440807 ACTTATGGAT
Statistics
Matches: 107, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 28 0.26
47 59 0.55
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5440757 original size:46 final size:46
Alignment explanation
Indices: 5440685--5440857 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
5440675 TAACTAGGCA
5440685 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
5440731 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
5440776 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5440824 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5440858 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:5440778 original size:93 final size:93
Alignment explanation
Indices: 5440638--5440852 Score: 369
Period size: 93 Copynumber: 2.3 Consensus size: 93
5440628 TGGTTGAGCA
* *
5440638 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCGTTGAGTTG
*
5440703 AGTCCGAGTTCACTTATGGATGCGAATG
66 AGTCCGAGTTCACTTATGGATGCGAACG
5440731 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCGTTGAGTTG
5440796 AGTCCGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* *
5440824 CCCGAGCTCGTTGAGTTGAG-TCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTTC-GAGTTC
5440853 ACTTAGGGGC
Statistics
Matches: 116, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.02
93 114 0.98
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTTCGAGTTCGTGAGATGTAACTAGGCATCCAAACTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:5452752 original size:12 final size:12
Alignment explanation
Indices: 5452735--5452760 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
5452725 CAAAATAGGC
5452735 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5452747 TTTTAGCGGCGT
1 TTTTAGCGGCGT
5452759 TT
1 TT
5452761 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Done.