Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold341
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: 1349338
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 9
Found at i:756247 original size:34 final size:38
Alignment explanation
Indices: 756195--756271 Score: 108
Period size: 36 Copynumber: 2.1 Consensus size: 38
756185 AAGATAAATA
* *
756195 TTAATTTTTAATTACTATTATTTAATAT-AATAT-ATT
1 TTAATATTTAATTACTATTATTCAATATAAATATAATT
756231 TTAATATTT-ATT-CTATTATTCAATATAAATATAATT
1 TTAATATTTAATTACTATTATTCAATATAAATATAATT
756267 TTAAT
1 TTAAT
756272 TACTTTTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
34 13 0.35
35 8 0.22
36 16 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (38 bp):
TTAATATTTAATTACTATTATTCAATATAAATATAATT
Found at i:756269 original size:29 final size:31
Alignment explanation
Indices: 756188--756275 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 31
756178 TATTTTTAAG
*
756188 ATAAATATTAATTTTTAATTACTATTATTTAAT
1 ATAAATATTAA-TTTT-ATTACTATTATTCAAT
756221 ATAATATATTTTAATATTTATT-CTATTATTCAAT
1 ATAA-ATA--TTAAT-TTTATTACTATTATTCAAT
756255 ATAAATA-TAATTTTAATTACT
1 ATAAATATTAATTTT-ATTACT
756276 TTTTTAGTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
29 3 0.06
30 7 0.15
31 2 0.04
33 7 0.15
34 18 0.38
35 4 0.08
36 7 0.15
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (31 bp):
ATAAATATTAATTTTATTACTATTATTCAAT
Found at i:756439 original size:35 final size:35
Alignment explanation
Indices: 756343--756440 Score: 101
Period size: 35 Copynumber: 2.7 Consensus size: 35
756333 TATTTATTGA
756343 ATAATTTTAATAATTTTTAATTAGTATTCAACATAAAT
1 ATAATTTTAATAA-TTTTAATTA-T-TTCAACATAAAT
* * *
756381 ATAGTTTTATTTATATTTT-ATTATTT-AATATAAAT
1 ATAATTTTA-ATA-ATTTTAATTATTTCAACATAAAT
756416 ATAATTTTAATAAGTTTTAATTATT
1 ATAATTTTAATAA-TTTTAATTATT
756441 GTATACATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
33 1 0.02
34 6 0.12
35 22 0.43
36 2 0.04
37 1 0.02
38 12 0.24
39 6 0.12
40 1 0.02
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (35 bp):
ATAATTTTAATAATTTTAATTATTTCAACATAAAT
Found at i:757014 original size:30 final size:30
Alignment explanation
Indices: 756963--757024 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
756953 TTAACGTTGT
* * *
756963 TTATGAATTTGTATAAAGTGAAGTAGATAA
1 TTATGAATTCGTATAAAGTGAAATACATAA
*
756993 TTATGAATTCG-AGTAATGTGAAATACATAA
1 TTATGAATTCGTA-TAAAGTGAAATACATAA
757023 TT
1 TT
757025 TCAGATTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (30 bp):
TTATGAATTCGTATAAAGTGAAATACATAA
Found at i:757965 original size:2 final size:2
Alignment explanation
Indices: 757958--758002 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
757948 ACTGCAAAAC
*
757958 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
758000 AT A
1 AT A
758003 AAGTTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:759813 original size:18 final size:18
Alignment explanation
Indices: 759790--759826 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
759780 ATACTTTTTT
* *
759790 TAAAAATTTAATTTTATA
1 TAAAAAATTAATTGTATA
759808 TAAAAAATTAATTGTATA
1 TAAAAAATTAATTGTATA
759826 T
1 T
759827 CTTAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TAAAAAATTAATTGTATA
Found at i:765038 original size:16 final size:16
Alignment explanation
Indices: 765017--765106 Score: 90
Period size: 16 Copynumber: 5.6 Consensus size: 16
765007 ATTGAGCGGG
765017 TTCGGGTTCGGGCTCA
1 TTCGGGTTCGGGCTCA
* *
765033 TTCGGGTTCAGGTTCA
1 TTCGGGTTCGGGCTCA
* *
765049 TTCGGGTTTGGGCTCG
1 TTCGGGTTCGGGCTCA
*
765065 TTCGGATTCGGGCTCA
1 TTCGGGTTCGGGCTCA
** * *
765081 TTTTGATTTGGGCTCA
1 TTCGGGTTCGGGCTCA
*
765097 TTCAGGTTCG
1 TTCGGGTTCG
765107 AGCTTTTTTG
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.09, C:0.20, G:0.33, T:0.38
Consensus pattern (16 bp):
TTCGGGTTCGGGCTCA
Found at i:765740 original size:99 final size:99
Alignment explanation
Indices: 765544--765742 Score: 215
Period size: 99 Copynumber: 2.0 Consensus size: 99
765534 TATGAAATAT
* * *
765544 TTACGTGAATAAAGAATTCACATTTAATAAGAAAATTATTTCATGTTTTAATCTAAACAAAAAAT
1 TTACGTGAATAAAGAATTCACAATTAATAAGAAAATTATCTCATATTTTAATCTAAACAAAAAAT
* ** *
765609 CATTAATTAATTAAGAATATAATGGTCTATACTA
66 CATTAATTAATTAAGAACATAATAATCAATACTA
* * * * *
765643 TTACGTTAATAAAGAATTCA-AGATTAATAATAAAATTA-CTCAATATTTTAATTTTAATAAAAG
1 TTACGTGAATAAAGAATTCACA-ATTAATAAGAAAATTATCTC-ATATTTTAATCTAAACAAAA-
* **
765706 TATCATTAATTAATT-AGTCCATAATAATCAATACTA
63 AATCATTAATTAATTAAGAACATAATAATCAATACTA
765742 T
1 T
765743 AAATTGTTAA
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
98 3 0.04
99 65 0.79
100 14 0.17
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (99 bp):
TTACGTGAATAAAGAATTCACAATTAATAAGAAAATTATCTCATATTTTAATCTAAACAAAAAAT
CATTAATTAATTAAGAACATAATAATCAATACTA
Found at i:775616 original size:220 final size:220
Alignment explanation
Indices: 775234--775671 Score: 849
Period size: 220 Copynumber: 2.0 Consensus size: 220
775224 TGACTAGAAC
775234 CAAAGTTATAACAATCTTGATCGTCACAAGTTATTTTGATAAGATCAGTTTGAGTTCTTATTTAA
1 CAAAGTTATAACAATCTTGATCGTCACAAGTTATTTTGATAAGATCAGTTTGAGTTCTTATTTAA
775299 AAAACAAAGAAGAAGTTCTCACAAAGTGAAGAAACTCTAAAAATATTTGTCTCTATTCAAATCTA
66 AAAACAAAGAAGAAGTTCTCACAAAGTGAAGAAACTCTAAAAATATTTGTCTCTATTCAAATCTA
*
775364 CTGAATTACATGAGTAAGACATCTTTTTATAAGCTTAGAATCTGTAGAGTCCTAACTAAACAAGG
131 CTGAATTACATGAGTAAGACATCTTTTTATAAGCTTAGAATATGTAGAGTCCTAACTAAACAAGG
775429 ATTCTTCTATCCAATAAGTAAAAAA
196 ATTCTTCTATCCAATAAGTAAAAAA
775454 CAAAGTTATAACAATCTTGATCGTCACAAGTTATTTTGATAAGATCAGTTTGAGTTCTTATTTAA
1 CAAAGTTATAACAATCTTGATCGTCACAAGTTATTTTGATAAGATCAGTTTGAGTTCTTATTTAA
* *
775519 AAAACAAAGAAGAAGTTCTCACAAAGTGAAGAAACTGTAAAAATATTTGTCTCTATTCAAATTTA
66 AAAACAAAGAAGAAGTTCTCACAAAGTGAAGAAACTCTAAAAATATTTGTCTCTATTCAAATCTA
775584 CTGAATTACATGAGTAAGACATCTTTTTATAAGCTTAGAATATGTAGAGTCCTAACTAAACAAGG
131 CTGAATTACATGAGTAAGACATCTTTTTATAAGCTTAGAATATGTAGAGTCCTAACTAAACAAGG
775649 ATTCTTCTATCCAATAAGTAAAA
196 ATTCTTCTATCCAATAAGTAAAA
775672 GTTTATTCAA
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
220 215 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (220 bp):
CAAAGTTATAACAATCTTGATCGTCACAAGTTATTTTGATAAGATCAGTTTGAGTTCTTATTTAA
AAAACAAAGAAGAAGTTCTCACAAAGTGAAGAAACTCTAAAAATATTTGTCTCTATTCAAATCTA
CTGAATTACATGAGTAAGACATCTTTTTATAAGCTTAGAATATGTAGAGTCCTAACTAAACAAGG
ATTCTTCTATCCAATAAGTAAAAAA
Found at i:775689 original size:11 final size:11
Alignment explanation
Indices: 775669--775699 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
775659 CCAATAAGTA
*
775669 AAAGTTTATTC
1 AAAGTCTATTC
775680 AAAGTCTATTC
1 AAAGTCTATTC
775691 AAAGTCTAT
1 AAAGTCTAT
775700 ACCTTATCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (11 bp):
AAAGTCTATTC
Found at i:776498 original size:17 final size:17
Alignment explanation
Indices: 776473--776511 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
776463 GCAATATCTT
*
776473 TAAACATCTAAATTTAC
1 TAAATATCTAAATTTAC
*
776490 TAAATATCTAAATTTAT
1 TAAATATCTAAATTTAC
776507 TAAAT
1 TAAAT
776512 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATATCTAAATTTAC
Found at i:777338 original size:23 final size:23
Alignment explanation
Indices: 777287--777350 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
777277 GATTATATAG
*
777287 TATAAATATAATA-AAAAAATAA
1 TATAAATATAATATAAATAATAA
777309 T-TAAAATATAATATAAATAATAA
1 TAT-AAATATAATATAAATAATAA
*
777332 TATAAATATACTATAAATA
1 TATAAATATAATATAAATA
777351 TATGAAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.30
23 24 0.65
24 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TATAAATATAATATAAATAATAA
Found at i:777346 original size:11 final size:11
Alignment explanation
Indices: 777281--777352 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
777271 CAACATGATT
*
777281 ATATAGTATAA
1 ATATAATATAA
*
777292 ATATAATAAAA
1 ATATAATATAA
*
777303 AAATAAT-TAAA
1 ATATAATAT-AA
777314 ATATAATATAA
1 ATATAATATAA
777325 ATAATAATATAA
1 AT-ATAATATAA
*
777337 ATATACTATAA
1 ATATAATATAA
777348 ATATA
1 ATATA
777353 TGAAAATCTC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
11 40 0.77
12 12 0.23
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
ATATAATATAA
Found at i:782883 original size:31 final size:31
Alignment explanation
Indices: 782848--782909 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
782838 AAATTCATAA
*
782848 CCTGATATGTTATGACAACTAGTATTTTATT
1 CCTGATATGTTATGACAACTAATATTTTATT
782879 CCTGATATGTTATGACAACTAATATTTTATT
1 CCTGATATGTTATGACAACTAATATTTTATT
782910 TCATTGGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.45
Consensus pattern (31 bp):
CCTGATATGTTATGACAACTAATATTTTATT
Found at i:784013 original size:3 final size:3
Alignment explanation
Indices: 784005--784050 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
783995 TGTGACTTTC
784005 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
784051 GTAAGTTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:784569 original size:18 final size:19
Alignment explanation
Indices: 784520--784571 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
784510 AAATAAATTT
*
784520 TTAATTTATATTTAAATAAG
1 TTAATTTATA-TTAAATAAA
**
784540 TTTTTTTA-ATTAAA-AAA
1 TTAATTTATATTAAATAAA
784557 TTAATTTATATTAAA
1 TTAATTTATATTAAA
784572 GTTTATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 1 0.04
20 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATTTATATTAAATAAA
Found at i:786106 original size:20 final size:19
Alignment explanation
Indices: 786077--786115 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
786067 AGGTCAGAAC
786077 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
786096 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
786116 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:786267 original size:13 final size:13
Alignment explanation
Indices: 786249--786287 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
786239 TACACACAAG
786249 ATGTATCGATACA
1 ATGTATCGATACA
*
786262 ATGTATCGATAGA
1 ATGTATCGATACA
786275 ATGTATCGATACA
1 ATGTATCGATACA
786288 TCCCAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:792492 original size:13 final size:13
Alignment explanation
Indices: 792474--792498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
792464 CAGCATTCTC
792474 TGTATCGATACAT
1 TGTATCGATACAT
792487 TGTATCGATACA
1 TGTATCGATACA
792499 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:794941 original size:20 final size:19
Alignment explanation
Indices: 794912--794950 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
794902 AGGTCAAAAC
794912 CCTTAAATGTATCGATACA
1 CCTTAAATGTATCGATACA
794931 CCTTCAAATGTATCGATACA
1 CCTT-AAATGTATCGATACA
794951 TAATGCACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (19 bp):
CCTTAAATGTATCGATACA
Found at i:794999 original size:20 final size:21
Alignment explanation
Indices: 794974--795024 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
794964 CGATACATTA
*
794974 TATCGATACATG-ACCA-AATG
1 TATCGATACATGCA-AAGAATG
*
794994 TATCGATACTTGCAAAGAATG
1 TATCGATACATGCAAAGAATG
795015 TATCGATACA
1 TATCGATACA
795025 GGTGATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGCAAAGAATG
Found at i:795109 original size:20 final size:20
Alignment explanation
Indices: 795066--795117 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
795056 CTTAACTGTT
*
795066 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
795085 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
795105 TGTATCGATACAT
1 TGTATCGATACAT
795118 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:798908 original size:26 final size:26
Alignment explanation
Indices: 798879--798931 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
798869 CTATGCAAGG
* *
798879 GTAATTAGTTATCTTGTGTGTTTAAT
1 GTAATTAATTATCTTGTGTATTTAAT
*
798905 GTAATTAATTGTCTTGTGTATTTAAT
1 GTAATTAATTATCTTGTGTATTTAAT
798931 G
1 G
798932 ACATGTACAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.19, T:0.53
Consensus pattern (26 bp):
GTAATTAATTATCTTGTGTATTTAAT
Found at i:800370 original size:16 final size:17
Alignment explanation
Indices: 800349--800389 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
800339 GCAAGTGCAA
800349 AATTAATTAAT-TTTTT
1 AATTAATTAATATTTTT
800365 AATTAATTAATATTTTT
1 AATTAATTAATATTTTT
*
800382 ATTTAATT
1 AATTAATT
800390 TAGATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTAATTAATATTTTT
Found at i:802228 original size:14 final size:14
Alignment explanation
Indices: 802209--802245 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
802199 ACGTTCTTTG
802209 TAATTTTTTTAAAA
1 TAATTTTTTTAAAA
802223 TAA-TTTTTTAAAA
1 TAATTTTTTTAAAA
802236 TAATTTTTTT
1 TAATTTTTTT
802246 TTTATTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TAATTTTTTTAAAA
Found at i:802314 original size:19 final size:18
Alignment explanation
Indices: 802290--802343 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
802280 TAGTGTAAAT
802290 AAAAATTTTTAAATATAA
1 AAAAATTTTTAAATATAA
**
802308 AATAAA-TAATAAATATAA
1 AA-AAATTTTTAAATATAA
*
802326 AAATATTTTTAAAATATA
1 AAAAATTTTT-AAATATA
802344 TTAAATTGTC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.07
18 16 0.57
19 10 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATTTTTAAATATAA
Found at i:812340 original size:174 final size:174
Alignment explanation
Indices: 812040--812389 Score: 538
Period size: 174 Copynumber: 2.0 Consensus size: 174
812030 GCACAAGTGC
*
812040 CATGGGAGGTACGCTTGGATTGGATGTGGATGAGTTAAACGGCTCACTTGGTTAGGAAGTCACAT
1 CATGAGAGGTACGCTTGGATTGGATGTGGATGAGTTAAACGGCTCACTTGGTTAGGAAGTCACAT
* * * * ** *
812105 CGTTTTTATAGACGACGTCAATTGTTGATGCAACTTCGAGAATTTTTTATTGATAGCTGAGTAAG
66 CATTCTCATAGACGACGCCAATTACTAATGCAACTTCGAGAATTTTTTATTGATAGCTGAGTAAG
812170 TCTGAATGATGGTTGGTGATCCTTCAATTGAGAATTCTGCAAGA
131 TCTGAATGATGGTTGGTGATCCTTCAATTGAGAATTCTGCAAGA
* *
812214 CATGAGAGGTACGCTTGGATTGGATGTGGATGAGTTAATCGGCTCACTTGGTTAGGAAGTCACGT
1 CATGAGAGGTACGCTTGGATTGGATGTGGATGAGTTAAACGGCTCACTTGGTTAGGAAGTCACAT
* * *
812279 CATTCTCATAGACGACGCCAATTACTAATGTAACTTCGAGAATTTTTTATTGATGGCTGAGTAGG
66 CATTCTCATAGACGACGCCAATTACTAATGCAACTTCGAGAATTTTTTATTGATAGCTGAGTAAG
* * * * *
812344 TTTGAATGATTGTTGGTGATCTTTTAATTGAGAATTTTGCAAGA
131 TCTGAATGATGGTTGGTGATCCTTCAATTGAGAATTCTGCAAGA
812388 CA
1 CA
812390 AGAAAAAGGT
Statistics
Matches: 158, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 158 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (174 bp):
CATGAGAGGTACGCTTGGATTGGATGTGGATGAGTTAAACGGCTCACTTGGTTAGGAAGTCACAT
CATTCTCATAGACGACGCCAATTACTAATGCAACTTCGAGAATTTTTTATTGATAGCTGAGTAAG
TCTGAATGATGGTTGGTGATCCTTCAATTGAGAATTCTGCAAGA
Found at i:816219 original size:2 final size:2
Alignment explanation
Indices: 816212--816248 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
816202 CTTTATTGAT
816212 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
816249 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:816253 original size:2 final size:2
Alignment explanation
Indices: 816248--816298 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
816238 TCTCTCTCTC
816248 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
816290 TA TA TA TA T
1 TA TA TA TA T
816299 GTATTCTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:817197 original size:2 final size:2
Alignment explanation
Indices: 817190--817216 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
817180 GTAAATAGTT
817190 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
817217 TTGCATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:820574 original size:43 final size:43
Alignment explanation
Indices: 820527--820616 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
820517 TTGTCTATGC
820527 TAAATCAATTTGAGAACCACCAAAACATATGCCAAAACAATAG
1 TAAATCAATTTGAGAACCACCAAAACATATGCCAAAACAATAG
* *
820570 TAAATCAGTTTGAGAACCACCAAAACATATGCCAAAAGAATAG
1 TAAATCAATTTGAGAACCACCAAAACATATGCCAAAACAATAG
820613 TAAA
1 TAAA
820617 CCGGCAATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.19
Consensus pattern (43 bp):
TAAATCAATTTGAGAACCACCAAAACATATGCCAAAACAATAG
Found at i:827371 original size:12 final size:12
Alignment explanation
Indices: 827354--827380 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
827344 AAAAAAACGT
827354 AATACCAAAAGC
1 AATACCAAAAGC
827366 AATACCAAAAGC
1 AATACCAAAAGC
827378 AAT
1 AAT
827381 TCAAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.22, G:0.07, T:0.11
Consensus pattern (12 bp):
AATACCAAAAGC
Found at i:832211 original size:25 final size:25
Alignment explanation
Indices: 832183--832242 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
832173 ATATTAACAC
*
832183 AAAGCTTCTAGGAAGTTCAACAATT
1 AAAGCTTCCAGGAAGTTCAACAATT
832208 AAAGCTTCCAGGAAGTTCAACAATT
1 AAAGCTTCCAGGAAGTTCAACAATT
832233 AAAGCTTCCA
1 AAAGCTTCCA
832243 ATGAGCTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAGCTTCCAGGAAGTTCAACAATT
Found at i:832390 original size:29 final size:29
Alignment explanation
Indices: 832357--832414 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
832347 CAAAAGGTAG
* *
832357 ATGTAATTATTGTAGTAATAAAATTTTGT
1 ATGTAATTATTGTAGTAAAAAAAATTTGT
832386 ATGTAATTATTGTAGTAAAAAAAATTTGT
1 ATGTAATTATTGTAGTAAAAAAAATTTGT
832415 TTTGATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (29 bp):
ATGTAATTATTGTAGTAAAAAAAATTTGT
Found at i:835688 original size:16 final size:16
Alignment explanation
Indices: 835669--835783 Score: 124
Period size: 16 Copynumber: 7.2 Consensus size: 16
835659 GAAATGATTG
*
835669 GAATTCGAAATGACCC
1 GAATCCGAAATGACCC
*
835685 GAATCC-AGAATGACCT
1 GAATCCGA-AATGACCC
* * *
835701 GAACCCTAAATGATCC
1 GAATCCGAAATGACCC
*
835717 GAATCCGAAATAACCC
1 GAATCCGAAATGACCC
835733 GAATCCGAAATGACCC
1 GAATCCGAAATGACCC
* *
835749 GAACCCGAAATGACCT
1 GAATCCGAAATGACCC
* *
835765 GAATCTGAAATAACCC
1 GAATCCGAAATGACCC
835781 GAA
1 GAA
835784 CCTAAAATGA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
15 1 0.01
16 79 0.98
17 1 0.01
ACGTcount: A:0.40, C:0.28, G:0.17, T:0.16
Consensus pattern (16 bp):
GAATCCGAAATGACCC
Found at i:835726 original size:48 final size:48
Alignment explanation
Indices: 835654--835799 Score: 163
Period size: 48 Copynumber: 3.0 Consensus size: 48
835644 AACTGATCCA
* ** * *
835654 AACCTGAAATGATTGGAATTCGAAATGACCCGAATCCAGAATGACCTG
1 AACCCGAAATGATCCGAATCCGAAATAACCCGAATCCAGAATGACCTG
* *
835702 AACCCTAAATGATCCGAATCCGAAATAACCCGAATCC-GAAATGACCCG
1 AACCCGAAATGATCCGAATCCGAAATAACCCGAATCCAG-AATGACCTG
* *
835750 AACCCGAAATGA-CCTGAATCTGAAATAACCCGAA-CCTAAAATGACCTG
1 AACCCGAAATGATCC-GAATCCGAAATAACCCGAATCC-AGAATGACCTG
835798 AA
1 AA
835800 TAATTAACCA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
47 5 0.06
48 78 0.94
ACGTcount: A:0.40, C:0.26, G:0.16, T:0.17
Consensus pattern (48 bp):
AACCCGAAATGATCCGAATCCGAAATAACCCGAATCCAGAATGACCTG
Found at i:835791 original size:16 final size:16
Alignment explanation
Indices: 835723--835791 Score: 68
Period size: 16 Copynumber: 4.3 Consensus size: 16
835713 ATCCGAATCC
835723 GAAATAACCCGAATCC-
1 GAAATAACCCGAA-CCT
* *
835739 GAAATGACCCGAACCC
1 GAAATAACCCGAACCT
* * *
835755 GAAATGACCTGAATCT
1 GAAATAACCCGAACCT
835771 GAAATAACCCGAACCT
1 GAAATAACCCGAACCT
*
835787 AAAAT
1 GAAAT
835792 GACCTGAATA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
15 2 0.05
16 42 0.95
ACGTcount: A:0.43, C:0.28, G:0.14, T:0.14
Consensus pattern (16 bp):
GAAATAACCCGAACCT
Found at i:835800 original size:32 final size:32
Alignment explanation
Indices: 835669--835800 Score: 120
Period size: 32 Copynumber: 4.1 Consensus size: 32
835659 GAAATGATTG
* * * *
835669 GAATTCGAAATGACCCGAATCCAGAATGACCT
1 GAATCCGAAATAACCCGAACCCAAAATGACCT
* * * * * * * *
835701 GAACCCTAAATGATCCGAATCCGAAATAACCC
1 GAATCCGAAATAACCCGAACCCAAAATGACCT
* *
835733 GAATCCGAAATGACCCGAACCCGAAATGACCT
1 GAATCCGAAATAACCCGAACCCAAAATGACCT
* *
835765 GAATCTGAAATAACCCGAACCTAAAATGACCT
1 GAATCCGAAATAACCCGAACCCAAAATGACCT
835797 GAAT
1 GAAT
835801 AATTAACCAG
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 82 1.00
ACGTcount: A:0.40, C:0.27, G:0.16, T:0.17
Consensus pattern (32 bp):
GAATCCGAAATAACCCGAACCCAAAATGACCT
Found at i:835892 original size:21 final size:22
Alignment explanation
Indices: 835857--835897 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
835847 AAAAAACATC
*
835857 AAGTTAATAAAATAATATTTAT
1 AAGTTAATAAAATAAAATTTAT
*
835879 AAGTT-ATAATATAAAATTT
1 AAGTTAATAAAATAAAATTT
835898 TGATTTAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (22 bp):
AAGTTAATAAAATAAAATTTAT
Found at i:836868 original size:53 final size:53
Alignment explanation
Indices: 836770--836871 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
836760 TGAACCTAAT
**
836770 TTAACCCGAATGTTAAACCCAATTAACCCGAATCCAGAATGACTCGAACTCGA
1 TTAACCCGAATGTTAAACCCAATTAACCCGAATCCAGAACAACTCGAACTCGA
* * * *
836823 TTAACCCGAGTGTTAAACCCGATTGACCCGAACTCGA-AACAACTCGAAC
1 TTAACCCGAATGTTAAACCCAATTAACCCGAA-TCCAGAACAACTCGAAC
836872 CCAAAATGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 39 0.93
54 3 0.07
ACGTcount: A:0.36, C:0.29, G:0.15, T:0.20
Consensus pattern (53 bp):
TTAACCCGAATGTTAAACCCAATTAACCCGAATCCAGAACAACTCGAACTCGA
Found at i:836882 original size:32 final size:32
Alignment explanation
Indices: 836846--836994 Score: 81
Period size: 32 Copynumber: 4.6 Consensus size: 32
836836 TAAACCCGAT
836846 TGACCCGAACTCGAAACAACTCGAACCCAAAA
1 TGACCCGAACTCGAAACAACTCGAACCCAAAA
* * * * * *
836878 TGACCC-AAATCCAAA-ATGACCCAAATCCAAAG
1 TGACCCGAACTCGAAACA--ACTCGAACCCAAAA
* ** * * * *
836910 TGACCCGAACCCAGAATGACCT-GAATCTAAAG
1 TGACCCGAACTC-GAAACAACTCGAACCCAAAA
* **
836942 TGACTCGAACTCGAAATGAC-CAGAACCCAAAA
1 TGACCCGAACTCGAAACAACTC-GAACCCAAAA
836974 TGACCCGAACTCGAAAACAAC
1 TGACCCGAACTCG-AAACAAC
836995 CCAAAAATTA
Statistics
Matches: 83, Mismatches: 26, Indels: 15
0.67 0.21 0.12
Matches are distributed among these distances:
30 1 0.01
31 11 0.13
32 59 0.71
33 9 0.11
34 2 0.02
35 1 0.01
ACGTcount: A:0.43, C:0.31, G:0.14, T:0.12
Consensus pattern (32 bp):
TGACCCGAACTCGAAACAACTCGAACCCAAAA
Found at i:836893 original size:16 final size:16
Alignment explanation
Indices: 836872--836930 Score: 82
Period size: 16 Copynumber: 3.7 Consensus size: 16
836862 CAACTCGAAC
836872 CCAAAATGACCCAAAT
1 CCAAAATGACCCAAAT
836888 CCAAAATGACCCAAAT
1 CCAAAATGACCCAAAT
* * *
836904 CCAAAGTGACCCGAAC
1 CCAAAATGACCCAAAT
*
836920 CCAGAATGACC
1 CCAAAATGACC
836931 TGAATCTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.44, C:0.34, G:0.12, T:0.10
Consensus pattern (16 bp):
CCAAAATGACCCAAAT
Found at i:836919 original size:48 final size:48
Alignment explanation
Indices: 836867--836979 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 48
836857 CGAAACAACT
836867 CGAACCCAAAATGACCCAAATCCAAAATGAC-CCAAATCCAAAGTGACC
1 CGAACCCAAAATGACCCAAATCCAAAATGACTCCAAATCCAAA-TGACC
* ** * * * * *
836915 CGAACCCAGAATGACCTGAATCTAAAGTGACTCGAACTCGAAATGACC
1 CGAACCCAAAATGACCCAAATCCAAAATGACTCCAAATCCAAATGACC
*
836963 AGAACCCAAAATGACCC
1 CGAACCCAAAATGACCC
836980 GAACTCGAAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 45 0.85
49 8 0.15
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.12
Consensus pattern (48 bp):
CGAACCCAAAATGACCCAAATCCAAAATGACTCCAAATCCAAATGACC
Found at i:836961 original size:16 final size:15
Alignment explanation
Indices: 836924--836989 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 15
836914 CCGAACCCAG
*
836924 AATGACCTGAA-TCTA
1 AATGACC-GAACTCGA
836939 AAGTGACTCGAACTCGA
1 AA-TGAC-CGAACTCGA
* *
836956 AATGACCAGAACCCAA
1 AATGACC-GAACTCGA
836972 AATGACCCGAACTCGA
1 AATGA-CCGAACTCGA
836988 AA
1 AA
836990 ACAACCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 3 0.07
16 30 0.73
17 8 0.20
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.15
Consensus pattern (15 bp):
AATGACCGAACTCGA
Found at i:845327 original size:25 final size:26
Alignment explanation
Indices: 845276--845327 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
845266 GTTAGGATAT
* **
845276 TTTTAATTATTTTTAAAATATTTATA
1 TTTTAATTATATTTAAAATATAAATA
*
845302 TTTTATTTATATTT-AAATATAAATA
1 TTTTAATTATATTTAAAATATAAATA
845327 T
1 T
845328 AAAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTAATTATATTTAAAATATAAATA
Found at i:846364 original size:16 final size:18
Alignment explanation
Indices: 846321--846365 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
846311 AATATTTAAG
* *
846321 ATATACAATTAATTTTTT
1 ATATAAAATTAAATTTTT
846339 ATATAAAATTAAATTTTT
1 ATATAAAATTAAATTTTT
846357 A-A-AAAATTA
1 ATATAAAATTA
846366 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 7 0.28
17 1 0.04
18 17 0.68
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATAAAATTAAATTTTT
Found at i:846377 original size:10 final size:11
Alignment explanation
Indices: 846349--846381 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
846339 ATATAAAATT
*
846349 AAATTTTTAAA
1 AAATTATTAAA
846360 AAATTATTAAA
1 AAATTATTAAA
846371 AAA-TATTAAA
1 AAATTATTAAA
846381 A
1 A
846382 TTAATAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AAATTATTAAA
Found at i:848154 original size:2 final size:2
Alignment explanation
Indices: 848147--848175 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
848137 ATTTAAACTT
848147 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
848176 GTTTTGCAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:851122 original size:1 final size:1
Alignment explanation
Indices: 851116--851274 Score: 120
Period size: 1 Copynumber: 159.0 Consensus size: 1
851106 AAATCTTCAC
* * ** * * * **
851116 TTTTTTTTTTGTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * ** * * * *
851181 TTTTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTCTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
851246 CTTTTTTTTTGTTTTGTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
851275 CCAATTGCCA
Statistics
Matches: 122, Mismatches: 36, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 122 1.00
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:851173 original size:35 final size:34
Alignment explanation
Indices: 851116--851275 Score: 265
Period size: 35 Copynumber: 4.7 Consensus size: 34
851106 AAATCTTCAC
851116 TTTTTT-TTTTG-TTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCTT
851148 TTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTG-TTTTTTTTTTTTCTTTTTCCTT
851183 TTTTTTGTTTTG--TTTTTTTTTTCTTTTTCCTT
1 TTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCTT
851215 TTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCTTT
1 TTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCC-TT
851250 TTTTTTGTTTTGTTTTTTTCTTTTTC
1 TTTTTTGTTTTGTTTTTTT-TTTTTC
851276 CAATTGCCAT
Statistics
Matches: 121, Mismatches: 0, Indels: 10
0.92 0.00 0.08
Matches are distributed among these distances:
32 38 0.31
33 5 0.04
34 18 0.15
35 54 0.45
36 6 0.05
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.86
Consensus pattern (34 bp):
TTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCTT
Found at i:851221 original size:67 final size:67
Alignment explanation
Indices: 851116--851268 Score: 274
Period size: 67 Copynumber: 2.3 Consensus size: 67
851106 AAATCTTCAC
851116 TTTTTT-TTTTGTTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTC
1 TTTTTTGTTTTG-TTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTG-TTTTTTTTTTTTCTTTTTC
851180 C-TT
64 CTTT
851183 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCT
1 TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCT
851248 TT
66 TT
851250 TTTTTTGTTTTGTTTTTTT
1 TTTTTTGTTTTGTTTTTTT
851269 CTTTTTCCAA
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
66 20 0.24
67 59 0.70
68 5 0.06
ACGTcount: A:0.00, C:0.08, G:0.06, T:0.86
Consensus pattern (67 bp):
TTTTTTGTTTTGTTTTTTTTTTCTTTTTCCTTTTTTTTGTTTTGTTTTTTTTTTTTCTTTTTCCT
TT
Found at i:860154 original size:39 final size:37
Alignment explanation
Indices: 860111--860247 Score: 110
Period size: 35 Copynumber: 3.7 Consensus size: 37
860101 TTAAAAAGTG
860111 TATATATATATATAATAAATAATTAAAAATTATTAAAAT
1 TATAT-TATATATAAT-AATAATTAAAAATTATTAAAAT
* * *
860150 TATATT-TATAT--TGAATAA-TAAAATATAAATAAAAC
1 TATATTATATATAAT-AATAATTAAAA-ATTATTAAAAT
*
860185 TATATT-TATGTTGAATAATAATTAAAAATTATTAAAAT
1 TATATTATAT-AT-AATAATAATTAAAAATTATTAAAAT
860223 TATTCATTA-A-ATAATAA-AATTAAAA
1 TA-T-ATTATATATAATAATAATTAAAA
860248 TTTTATTTAT
Statistics
Matches: 80, Mismatches: 9, Indels: 21
0.73 0.08 0.19
Matches are distributed among these distances:
34 5 0.06
35 23 0.29
36 9 0.11
37 10 0.12
38 17 0.21
39 12 0.15
40 4 0.05
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.40
Consensus pattern (37 bp):
TATATTATATATAATAATAATTAAAAATTATTAAAAT
Found at i:860167 original size:35 final size:36
Alignment explanation
Indices: 860127--860225 Score: 121
Period size: 35 Copynumber: 2.7 Consensus size: 36
860117 TATATATAAT
860127 AAATAATTAAAAATTATTAAAATTATATTTATATTG
1 AAATAATTAAAAATTATTAAAATTATATTTATATTG
* * * *
860163 -AATAA-TAAAATATAAATAAAACTATATTTATGTTG
1 AAATAATTAAAA-ATTATTAAAATTATATTTATATTG
860198 AATAATAATTAAAAATTATTAAAATTAT
1 -A-AATAATTAAAAATTATTAAAATTAT
860226 TCATTAAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
34 5 0.10
35 25 0.49
38 16 0.31
39 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.03, T:0.40
Consensus pattern (36 bp):
AAATAATTAAAAATTATTAAAATTATATTTATATTG
Found at i:860247 original size:26 final size:28
Alignment explanation
Indices: 860215--860268 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
860205 ATTAAAAATT
860215 ATTAAAA-TTATTCA-TTAAATAATAAA
1 ATTAAAATTTATTCATTTAAATAATAAA
*
860241 ATTAAAATTTTATTTATTTAAATAATAA
1 ATTAAAA-TTTATTCATTTAAATAATAA
860269 TTGAAATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
28 6 0.25
29 11 0.46
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
ATTAAAATTTATTCATTTAAATAATAAA
Found at i:860394 original size:30 final size:33
Alignment explanation
Indices: 860313--860426 Score: 99
Period size: 33 Copynumber: 3.4 Consensus size: 33
860303 ATTATATTTT
* * *
860313 TATTGAATAATAAAATAAATATTAAATATATTA
1 TATTAAATAATAAATTAAAAATTAAATATATTA
860346 TATTAAATAATAGTAATTAAAAATT-AATAT-TTA
1 TATTAAATAATA--AATTAAAAATTAAATATATTA
* * **
860379 TCTTAAA-AATAAATTAATAAAATAAATATTAAAA
1 TATTAAATAATAAATTAA-AAATTAAATA-TATTA
*
860413 TAATAAATAATAAA
1 TATTAAATAATAAA
860427 AAGTGAAAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
30 6 0.09
31 4 0.06
32 8 0.12
33 21 0.32
34 11 0.17
35 15 0.23
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.37
Consensus pattern (33 bp):
TATTAAATAATAAATTAAAAATTAAATATATTA
Found at i:860401 original size:32 final size:34
Alignment explanation
Indices: 860326--860408 Score: 84
Period size: 32 Copynumber: 2.4 Consensus size: 34
860316 TGAATAATAA
860326 AATAAATATTAAATATATTATATTAAATAATAGTAATT
1 AATAAA-ATT-AATAT-TTATATTAAATAATAG-AATT
*
860364 -A-AAAATTAATATTTATCTTAAA-AATA-AATT
1 AATAAAATTAATATTTATATTAAATAATAGAATT
*
860394 AATAAAATAAATATT
1 AATAAAATTAATATT
860409 AAAATAATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
30 4 0.10
31 1 0.02
32 15 0.37
33 9 0.22
34 5 0.12
35 3 0.07
36 3 0.07
37 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (34 bp):
AATAAAATTAATATTTATATTAAATAATAGAATT
Found at i:872251 original size:28 final size:28
Alignment explanation
Indices: 872200--872368 Score: 103
Period size: 28 Copynumber: 5.9 Consensus size: 28
872190 TAACTTAGCT
*
872200 TAAAACATGCTTACTTTAAATATTATCTTGA
1 TAAAACAAGCTTA-TTT--ATATTATCTTGA
* *
872231 TAAGACAAGCTTATTTATATTGTC-T--
1 TAAAACAAGCTTATTTATATTATCTTGA
* * **
872256 TAACACATA-TTTATTTTAGATATTATCTTTT
1 TAAAACA-AGCTTA-TTT--ATATTATCTTGA
* * *
872287 TAAAATAAGCTTATCTATGTTATCTTGA
1 TAAAACAAGCTTATTTATATTATCTTGA
* * *
872315 TAAAATAAGCTTATTCATATTGTCTTGA
1 TAAAACAAGCTTATTTATATTATCTTGA
* * *
872343 TAAGACAAGCATATTTATATTGTCTT
1 TAAAACAAGCTTATTTATATTATCTT
872369 AACACATGTT
Statistics
Matches: 109, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
25 9 0.08
26 4 0.04
27 1 0.01
28 69 0.63
29 1 0.01
30 6 0.06
31 19 0.17
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (28 bp):
TAAAACAAGCTTATTTATATTATCTTGA
Found at i:872279 original size:56 final size:55
Alignment explanation
Indices: 872214--872403 Score: 170
Period size: 56 Copynumber: 3.4 Consensus size: 55
872204 ACATGCTTAC
872214 TTTAAATATTATCTTGATAAGACAAGCTTATTTATATTGTCTTAACACATATTTA
1 TTTAAATATTATCTTGATAAGACAAGCTTATTTATATTGTCTTAACACATATTTA
* ** * * * * * * *
872269 TTTTAGATATTATCTTTTTAAAATAAGCTTATCTATGTTATCTTGATA-AAATAAGCTTA
1 -TTTAAATATTATCTTGATAAGACAAGCTTATTTATATTGTCTT-A-ACACAT-A-TTTA
* * * *
872328 -TT-CATATTGTCTTGATAAGACAAGCATATTTATATTGTCTTAACACATGTTTA
1 TTTAAATATTATCTTGATAAGACAAGCTTATTTATATTGTCTTAACACATATTTA
*
872381 CTTTAAATATTATCTTGTTAAGA
1 -TTTAAATATTATCTTGATAAGA
872404 TAATTTTATC
Statistics
Matches: 100, Mismatches: 26, Indels: 16
0.70 0.18 0.11
Matches are distributed among these distances:
53 3 0.03
54 1 0.01
55 6 0.06
56 79 0.79
57 6 0.06
58 2 0.02
59 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.46
Consensus pattern (55 bp):
TTTAAATATTATCTTGATAAGACAAGCTTATTTATATTGTCTTAACACATATTTA
Found at i:872423 original size:112 final size:112
Alignment explanation
Indices: 872219--872424 Score: 297
Period size: 112 Copynumber: 1.8 Consensus size: 112
872209 CTTACTTTAA
* * *
872219 ATATTATCTTGATAAGACAAGCTTATTTATATTGTCTTAACACATATTTATTTTAGATATTATCT
1 ATATTATCTTGATAAGACAAGCATATTTATATTGTCTTAACACATATTTACTTTAAATATTATCT
* * *
872284 TTTTAAAATAAGCTTATCTATGTTATCTTGATAAAATAAGCTTATTC
66 TGTTAAAATAAGCTTATCCATGATATCTTGATAAAATAAGCTTATTC
* *
872331 ATATTGTCTTGATAAGACAAGCATATTTATATTGTCTTAACACATGTTTACTTTAAATATTATCT
1 ATATTATCTTGATAAGACAAGCATATTTATATTGTCTTAACACATATTTACTTTAAATATTATCT
* **
872396 TGTTAAGATAATTTTATCCACT-ATATCTT
66 TGTTAAAATAAGCTTATCCA-TGATATCTT
872425 ATTAAGACAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
112 81 0.99
113 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (112 bp):
ATATTATCTTGATAAGACAAGCATATTTATATTGTCTTAACACATATTTACTTTAAATATTATCT
TGTTAAAATAAGCTTATCCATGATATCTTGATAAAATAAGCTTATTC
Found at i:876114 original size:21 final size:20
Alignment explanation
Indices: 876088--876135 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
876078 TTTTTGTGGG
* *
876088 ATATTTTTTTTATAATATTG
1 ATATTTTTTTTAAAATATTA
876108 ATCATTTTTTTTAAAATATTA
1 AT-ATTTTTTTTAAAATATTA
876129 ATATTTT
1 ATATTTT
876136 AAAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
ATATTTTTTTTAAAATATTA
Found at i:876495 original size:24 final size:23
Alignment explanation
Indices: 876459--876521 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 23
876449 TAATTTAATT
* * *
876459 CATAATAATATATATTTGATATAA
1 CATATTAA-ATATAATTAATATAA
876483 CATATTTAAATATAATTAATATAA
1 CATA-TTAAATATAATTAATATAA
*
876507 GATATTAAATATAAT
1 CATATTAAATATAAT
876522 ATTAACATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.32
24 20 0.59
25 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (23 bp):
CATATTAAATATAATTAATATAA
Found at i:876771 original size:23 final size:23
Alignment explanation
Indices: 876740--876787 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
876730 TTTTGATACA
876740 TTAATAATATATATTTTATAAATT
1 TTAATAATATATATTTT-TAAATT
*
876764 TTAA-AATATATATTTTTATATT
1 TTAATAATATATATTTTTAAATT
876786 TT
1 TT
876788 CTTATCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 12 0.52
24 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAATAATATATATTTTTAAATT
Found at i:877156 original size:3 final size:3
Alignment explanation
Indices: 877142--877193 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
877132 AGGTATGTCT
*
877142 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
877190 TTA T
1 TTA T
877194 GTGAATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:879433 original size:21 final size:22
Alignment explanation
Indices: 879403--879462 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 22
879393 ACATATTATT
*
879403 TAATTGATTTATTTT-TAAAAA
1 TAATTAATTTATTTTATAAAAA
879424 TAATTAATTTATTTTAAATAAAAA
1 TAATTAATTTATTTT--ATAAAAA
*
879448 TAATATAATATATTT
1 TAAT-TAATTTATTT
879463 ATATCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.42
24 10 0.30
25 9 0.27
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TAATTAATTTATTTTATAAAAA
Found at i:879437 original size:25 final size:25
Alignment explanation
Indices: 879372--879465 Score: 73
Period size: 25 Copynumber: 3.6 Consensus size: 25
879362 TATTAACAAA
* *
879372 AATTAATTTTTTTATCAATAAACATATT
1 AATTAATTTATTTATAAATAAA-A-A-T
* * ***
879400 ATTTAATTGATTTATTTTTAAAAAT
1 AATTAATTTATTTATAAATAAAAAT
879425 AATTAATTTATTT-TAAATAAAAAT
1 AATTAATTTATTTATAAATAAAAAT
*
879449 AATATAATATATTTATA
1 AAT-TAATTTATTTATA
879466 TCAAATTTAA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 11 0.21
25 21 0.40
26 3 0.06
27 1 0.02
28 16 0.31
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (25 bp):
AATTAATTTATTTATAAATAAAAAT
Found at i:879463 original size:50 final size:53
Alignment explanation
Indices: 879358--879464 Score: 118
Period size: 50 Copynumber: 2.1 Consensus size: 53
879348 TTCTCAAAGA
* *
879358 TATTTATTAACAAAAATTAATTTTTTTATCAATAAACATATTATTTAATTGATT
1 TATTTATTAACAAAAATTAATTTTTTTA-CAATAAACATATAATATAATTGATT
879412 TATTT-TTAA-AAATAATTAATTTATTTTA-AATAAA-A-ATAATATAATAT-ATT
1 TATTTATTAACAAA-AATTAATTT-TTTTACAATAAACATATAATATAAT-TGATT
879462 TAT
1 TAT
879465 ATCAAATTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
50 14 0.29
51 2 0.04
52 9 0.19
53 13 0.27
54 10 0.21
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.50
Consensus pattern (53 bp):
TATTTATTAACAAAAATTAATTTTTTTACAATAAACATATAATATAATTGATT
Found at i:879481 original size:20 final size:20
Alignment explanation
Indices: 879453--879500 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
879443 AAAAATAATA
879453 TAATATATTTATATCAAATT
1 TAATATATTTATATCAAATT
* *
879473 TAATGTATTTATCTCAAATT
1 TAATATATTTATATCAAATT
879493 TAATATAT
1 TAATATAT
879501 GATTAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (20 bp):
TAATATATTTATATCAAATT
Found at i:880306 original size:10 final size:10
Alignment explanation
Indices: 880277--880376 Score: 62
Period size: 10 Copynumber: 9.7 Consensus size: 10
880267 ATTATATATC
*
880277 ATATATTTAC
1 ATATATTTAT
*
880287 ATAAATTTAT
1 ATATATTTAT
880297 ATATATTTAT
1 ATATATTTAT
*
880307 AATTTATTTTAT
1 -ATATA-TTTAT
*
880319 ATAAATTT-T
1 ATATATTTAT
*
880328 GATA-AATTA-
1 -ATATATTTAT
*
880337 ATATATTCAT
1 ATATATTTAT
880347 ATCATATTTAT
1 AT-ATATTTAT
*
880358 ATATTTTTTAT
1 ATA-TATTTAT
880369 ATTATATT
1 A-TATATT
880377 ATTTTTTTAA
Statistics
Matches: 69, Mismatches: 12, Indels: 17
0.70 0.12 0.17
Matches are distributed among these distances:
8 3 0.04
9 7 0.10
10 26 0.38
11 26 0.38
12 7 0.10
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (10 bp):
ATATATTTAT
Found at i:880375 original size:22 final size:23
Alignment explanation
Indices: 880340--880403 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
880330 TAAATTAATA
*
880340 TATTCATATCATATTTATATATTT
1 TATT-ATATTATATTTATATATTT
*
880364 T-TTATATTATA-TTAT-TTTTT
1 TATTATATTATATTTATATATTT
*
880384 TAATTATTTTATATTTATAT
1 T-ATTATATTATATTTATAT
880404 CGTATAATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 5 0.15
21 4 0.12
22 16 0.48
23 6 0.18
24 2 0.06
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTATATTATATTTATATATTT
Found at i:880389 original size:17 final size:18
Alignment explanation
Indices: 880361--880395 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
880351 TATTTATATA
880361 TTTTTTATATTATATTAT
1 TTTTTTATATTATATTAT
*
880379 TTTTTTA-ATTATTTTAT
1 TTTTTTATATTATATTAT
880396 ATTTATATCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATATTATATTAT
Found at i:891487 original size:13 final size:13
Alignment explanation
Indices: 891469--891493 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
891459 AATTATGCTT
891469 TGTATCGATACAA
1 TGTATCGATACAA
891482 TGTATCGATACA
1 TGTATCGATACA
891494 TGTTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:891524 original size:20 final size:20
Alignment explanation
Indices: 891478--891534 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 20
891468 TTGTATCGAT
*
891478 ACAA-TGTATCGATACATGT
1 ACAATTGTATCGATACATGG
*
891497 TC-ATTGTATCGATACATGG
1 ACAATTGTATCGATACATGG
891516 ACAATTGTATCGATACATG
1 ACAATTGTATCGATACATG
891535 AAATTGGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
ACAATTGTATCGATACATGG
Found at i:891597 original size:13 final size:13
Alignment explanation
Indices: 891579--891631 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
891569 CGATATATGG
*
891579 TACATTGTATTGA
1 TACATTGTATCGA
891592 TACATTGTATCGA
1 TACATTGTATCGA
891605 TACA-TG-AT-G-
1 TACATTGTATCGA
891614 -A-ATTGTATCGA
1 TACATTGTATCGA
891625 TACATTG
1 TACATTG
891632 CTTCTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:891605 original size:33 final size:33
Alignment explanation
Indices: 891563--891631 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
891553 CTATCACTGT
* * *
891563 TTGTATCGATATATGGT-ACATTGTATTGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
891596 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
891629 TTG
1 TTG
891632 CTTCTAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:895057 original size:15 final size:15
Alignment explanation
Indices: 895020--895061 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
895010 GGCAAAAAGG
895020 ATAAAAAAAATAATA
1 ATAAAAAAAATAATA
* *
895035 ATACAAAAATTAA-A
1 ATAAAAAAAATAATA
895049 ATTAAAAAAAATA
1 A-TAAAAAAAATA
895062 CATTTTTGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAAAAATAATA
Found at i:897225 original size:52 final size:51
Alignment explanation
Indices: 897158--897499 Score: 185
Period size: 52 Copynumber: 6.6 Consensus size: 51
897148 TTAAGTTTCT
* * *
897158 CAATTGTTCATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGGTTTTATTT-CAAAAACAC
* * ***** * *
897210 CAATTTTTCACAATCGAGGATACTCCAAC-CTCGTTATTTCATCGGGGATACTC
1 CAATTTTTCACAATCGGGGATACTCCAACTC-CGGT-TTT-ATTTCAAAAACAC
** * * * * *
897263 CAACCCCGTTACCTC-CAA--GGGGATACTCCAACCCCGGCTTTATTTCTAAAATAT
1 CAA-----TT-TTTCACAATCGGGGATACTCCAACTCCGGTTTTATTTCAAAAACAC
** * * * *
897317 TGATTTCTCATAATCGGGGATA-TCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACTCCGGTTTTATTTCAAAAACAC
* * *
897367 TAATTTTCCACAATCGAGGATACTCCAA-TCCCGGTTTTATCTTC-AAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACT-CCGGTTTTAT-TTCAAAAACAC
* ** * * * *
897418 CAATTTTCCTTTAATCGGGGATATTCCAACTCTGATTTTATTTTCAAAAGCAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACTCCGGTTTTA-TTTCAAAAACAC
*
897471 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTTCACAATCGGGGATACTCCAAC
897500 CTCGTTATTT
Statistics
Matches: 219, Mismatches: 51, Indels: 40
0.71 0.16 0.13
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 42 0.19
51 38 0.17
52 73 0.33
53 26 0.12
54 7 0.03
55 3 0.01
56 15 0.07
57 1 0.00
58 5 0.02
59 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACTCCGGTTTTATTTCAAAAACAC
Found at i:897258 original size:28 final size:29
Alignment explanation
Indices: 897222--897298 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
897212 ATTTTTCACA
* * * *
897222 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
897250 ATCGGGGATACTCCAACCCCGTTACCTCC
1 ATCGGGGATACTCCAACCCCGTTACCTCC
*
897279 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
897299 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 40 0.93
29 3 0.07
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACCTCC
Found at i:897357 original size:50 final size:51
Alignment explanation
Indices: 897281--897500 Score: 214
Period size: 52 Copynumber: 4.3 Consensus size: 51
897271 TTACCTCCAA
* * * * *
897281 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTC-CACAATC
897332 GGGGATA-TCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
* * * **
897382 GAGGATACTCCAATCCCGGTTTTATCTTC-AAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTAT-TTCTAAAACACTAATTTTCC-ACAATC
* * * * * *
897434 GGGGATATTCCAACTCTGATTTTATTT-TCAAAAGCACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCT-AAAA-CACTAATTTTCCACAATC
*
897486 GAGGATACTCCAACC
1 GGGGATACTCCAACC
897501 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 22, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
50 39 0.28
51 44 0.31
52 46 0.33
53 11 0.08
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCCACAATC
Found at i:897534 original size:28 final size:31
Alignment explanation
Indices: 897483--897557 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 31
897473 ATTTTTCACA
* *
897483 ATCGAGGATACTCCAA-CCTCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCTCGTTACCTTCG
897511 ATCGGGGATACTCCAACCCT-GTTACCTTCG
1 ATCGGGGATACTCCAACCCTCGTTACCTTCG
897541 A--GGGGATACTCCAACCC
1 ATCGGGGATACTCCAACCC
897558 CGGCTTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 35 0.83
29 6 0.14
30 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (31 bp):
ATCGGGGATACTCCAACCCTCGTTACCTTCG
Found at i:897645 original size:79 final size:79
Alignment explanation
Indices: 897514--897694 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 79
897504 TTATTTCATC
* ** * *
897514 GGGGATACTCCAACCCTGTTACCTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
* *
897579 GATTTCTCATAATT
66 GATTTCTCAGAACT
* * * * *
897593 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTATTTCCTAATTATC
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
*
897658 GATTTTTCAGAACT
66 GATTTCTCAGAACT
*
897672 GGAGATACTCCAACCCCGTTATT
1 GGGGATACTCCAACCCCGTTATT
897695 ATCTCCAAAA
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 88 1.00
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
GATTTCTCAGAACT
Found at i:901987 original size:19 final size:18
Alignment explanation
Indices: 901963--902060 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
901953 TAGCTTACAT
901963 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
901982 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
901995 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
902014 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
902027 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
*
902047 TGTATCAATACAAA
1 TGTATCGATACAAA
902061 TCATTGAAAT
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.37
20 12 0.18
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:901999 original size:32 final size:32
Alignment explanation
Indices: 901958--902058 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
901948 GGCAGTAGCT
*
901958 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
901990 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
902022 TACATTGTATCGATACAACACTTTATGTATCAA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
902055 TACA
1 TACA
902059 AATCATTGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 52 0.79
33 14 0.21
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:902000 original size:13 final size:13
Alignment explanation
Indices: 901982--902038 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
901972 ACAAAACTTA
901982 TGTATCGATACAT
1 TGTATCGATACAT
901995 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
902013 ATGTATCGATACAT
1 -TGTATCGATACAT
902027 TGTATCGATACA
1 TGTATCGATACA
902039 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:903098 original size:43 final size:43
Alignment explanation
Indices: 903033--903354 Score: 320
Period size: 43 Copynumber: 7.1 Consensus size: 43
903023 TAAAGATGGA
* * *
903033 AAAGGTGCCAATATGCTAATTCAAGGCCAGCTATGTTAGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
903076 AAAGGTGCTAATGTGCTGATTCAAGGCCAACTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
903119 AAAGAAGAAGGTGCCAATATGCTGATTCAATGCCAGCTATATTGGACTT
1 -----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
903168 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
*
903211 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
** * *
903260 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
903303 AAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
903352 AAA
1 AAA
903355 AGGGTTGCCA
Statistics
Matches: 231, Mismatches: 30, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
43 114 0.49
44 1 0.00
45 1 0.00
47 1 0.00
48 1 0.00
49 113 0.49
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:903168 original size:92 final size:92
Alignment explanation
Indices: 902989--903354 Score: 554
Period size: 92 Copynumber: 3.9 Consensus size: 92
902979 AAAATGATGT
* * *
902989 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTAATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAATATGCTGATT
* * *
903054 CAAGGCCAGCTATGTTAGACTTAAAGGTGC
63 CAAGGCCAGCGATATTGGACTTAAAGGTGC
* *
903084 TAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
* *
903149 TGCCAGCTATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
* *
903176 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
**
903241 GGCCAGCGATATTGGACTTGGAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
903268 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-AATGAAGGTGCCAATATGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA-GAAGGTGCCAATATGCTGATTCA
*
903332 AGGCCAACGATATTGGACTTAAA
65 AGGCCAGCGATATTGGACTTAAA
903355 AGGGTTGCCA
Statistics
Matches: 249, Mismatches: 21, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
91 1 0.00
92 211 0.85
95 37 0.15
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (92 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGC
Found at i:903355 original size:49 final size:48
Alignment explanation
Indices: 902989--903355 Score: 377
Period size: 49 Copynumber: 7.8 Consensus size: 48
902979 AAAATGATGT
* * *
902989 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-AT-G--AAGGTGC
* * *
903041 CAATATGCTAATTCAAGGCCAGCTATGTTAGACTT---A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAATGAAGGTGC
* * * * *
903084 TAATGTGCTGATTCAAGGCCAACTACATTGGACTTAAAGAAGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-ATGAAGGTGC
*
903133 CAATATGCTGATTCAATGCCAGCTATATTGGACTT---A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAATGAAGGTGC
* * *
903176 CAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-ATGAAGGTGC
* *
903225 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T----TGGAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAATGAAGGTGC
* *
903268 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAAATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AAAATGAAGGTGC
* *
903317 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAA
903356 GGGTTGCCAC
Statistics
Matches: 263, Mismatches: 34, Indels: 40
0.78 0.10 0.12
Matches are distributed among these distances:
43 111 0.42
44 1 0.00
45 1 0.00
47 2 0.01
48 6 0.02
49 113 0.43
52 29 0.11
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAATGAAGGTGC
Found at i:903437 original size:32 final size:33
Alignment explanation
Indices: 903354--903520 Score: 245
Period size: 32 Copynumber: 5.2 Consensus size: 33
903344 TTGGACTTAA
903354 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
* * *
903387 AATGGTTGCCACCAACTTGTGTGGACTTTAGA-
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
*
903419 AAGGGTTGGCACCGACTTGTGTGGGCTTT-GAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
903451 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
*
903484 --GGGATTGCCACCAACTTGTGTGGGCTTT-GAG
1 AAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAG
903515 AAGGGT
1 AAGGGT
903521 GAAAGATGCC
Statistics
Matches: 120, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
31 8 0.07
32 77 0.64
33 35 0.29
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (33 bp):
AAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG
Found at i:903631 original size:100 final size:100
Alignment explanation
Indices: 903527--904040 Score: 471
Period size: 100 Copynumber: 5.2 Consensus size: 100
903517 GGGTGAAAGA
* * ** * *
903527 TGCCACGAAGTTGTGGACTTAAAA-GAACAAGGTGCCATGAAGTTGTGGACTTTAAACTGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAA-AGGGAAA
903591 AAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
65 AAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
*
903627 TGCCACGGAGTCGTGGACTTAAAAGGAACAA---GCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
*
903689 AGAGTACCACGGAA-TTGTGGGCTTTGAAAAGAAGG
66 AGAGTGCCAC-GAAGTTGTGGGCTTTGAAAAGAAGG
903724 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
* *
903789 AGAGTGTCACGGAGTTGTGGGCTTT-AAAAG--GG
66 AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
* * * * * * * *
903821 TACAACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAA-CG---
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGAAA
* * * *
903880 --G-GTGCCACGGAGTTGTGGACTTAGAAAGAAAAAGAG
65 AAGAGTGCCACGAAGTTGTGGGCTTTG-AA-AAGAAG-G
* * * * * *
903916 TGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTTTGAAAA--G-
1 TGCCACGGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGGGTTGTGGACTTT-AAAAGGGA
* *
903978 --AAG-GTGCCACGAAGTCGTGGACTTTGAAAAGAAGAAGG
63 AAAAGAGTGCCACGAAGTTGTGGGCTTTG--AA-AAGAAGG
*
904016 TGCCACGGAGTCGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
904041 AGGTATTTGA
Statistics
Matches: 358, Mismatches: 35, Indels: 43
0.82 0.08 0.10
Matches are distributed among these distances:
89 19 0.05
90 1 0.00
91 2 0.01
92 2 0.01
94 1 0.00
95 17 0.05
96 23 0.06
97 111 0.31
98 40 0.11
99 14 0.04
100 113 0.32
101 15 0.04
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (100 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
Found at i:903699 original size:36 final size:35
Alignment explanation
Indices: 903522--904040 Score: 304
Period size: 34 Copynumber: 15.9 Consensus size: 35
903512 GAGAAGGGTG
* *
903522 AAAGATGCCACGAAGTTGTGGAC-TTAAAA--GAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* * * * *
903554 CAAGGTGCCATGAAGTTGTGGACTTTAAACTGGAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAA-AGGGAA
* *
903590 AAAGAGTGCCACGAAGTTGTGGGCTTTGAAAA--G--
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGGAA
*
903623 -AAGGTGCCACGGAGTCGTGGAC-TTAAAA-GGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* *
903655 CAA---GCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* * *
903687 AAAGAGTACCACGGAATTGTGGGCTTTGAAAA--G--
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGGAA
903720 -AAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* *
903752 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* *
903787 AAAGAGTGTCACGGAGTTGTGGGCTTTAAAA--G--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* * *
903819 ---GGTACAACGGAGTTGTGGAC-TTAGAA-GGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* * *
903849 AAAGAGTGCCACAGAGTTGTGGGC-TT-AAA-CG--
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGGAA
903880 ---GGTGCCACGGAGTTGTGGAC-TTAGAAA--GAA
1 AAAGGTGCCACGGAGTTGTGGACTTTA-AAAGGGAA
* *
903910 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGGAA
* * *
903946 AAAGATGCCACAGAGTTGTGGGCTTTGAAAA--G--
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAA
* *
903978 -AAGGTGCCACGAAGTCGTGGACTTTGAAAA--GAA
1 AAAGGTGCCACGGAGTTGTGGACTTT-AAAAGGGAA
* *
904011 GAAGGTGCCACGGAGTCGTGGACTTTAAAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAA
904041 AGGTATTTGA
Statistics
Matches: 391, Mismatches: 50, Indels: 91
0.73 0.09 0.17
Matches are distributed among these distances:
27 24 0.06
28 18 0.05
29 12 0.03
30 21 0.05
31 64 0.16
32 32 0.08
33 37 0.09
34 70 0.18
35 31 0.08
36 55 0.14
37 24 0.06
38 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (35 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
Found at i:903707 original size:97 final size:98
Alignment explanation
Indices: 903527--903848 Score: 431
Period size: 97 Copynumber: 3.3 Consensus size: 98
903517 GGGTGAAAGA
* * ** * *
903527 TGCCACGAAGTTGTGGACTTAAAA-GAACAAGGTGCCATGAAGTTGTGGACTTTAAACTGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-G-GCCACGGGGTTGTGGACTTTAAA-AGGGAAA
903591 AAGAGTGCCAC-GAAGTTGTGGGCTTTGAAAAGAAGG
63 AAGAGTGCCACGGAA-TTGTGGGCTTTGAAAAGAAGG
*
903627 TGCCACGGAGTCGTGGACTTAAAAGGAACAA-GCCACGGGGTTGTGGACTTTAAAAGGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAG
*
903691 AGTACCACGGAATTGTGGGCTTTGAAAAGAAGG
66 AGTGCCACGGAATTGTGGGCTTTGAAAAGAAGG
903724 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAACAA-G-GCCACGGGGTTGTGGACTTTAAAAGGGAAAA
* *
903789 AGAGTGTCACGGAGTTGTGGGCTTT-AAAAG--GG
64 AGAGTGCCACGGAATTGTGGGCTTTGAAAAGAAGG
* * *
903821 TACAACGGAGTTGTGGACTTAGAAGGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGAA
903849 AAAGAGTGCC
Statistics
Matches: 202, Mismatches: 15, Indels: 13
0.88 0.07 0.06
Matches are distributed among these distances:
97 93 0.46
98 23 0.11
99 5 0.02
100 75 0.37
101 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (98 bp):
TGCCACGGAGTTGTGGACTTAAAAGGAACAAGGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAG
AGTGCCACGGAATTGTGGGCTTTGAAAAGAAGG
Found at i:903730 original size:67 final size:63
Alignment explanation
Indices: 903623--904040 Score: 182
Period size: 64 Copynumber: 6.5 Consensus size: 63
903613 CTTTGAAAAG
* * * *** *
903623 AAGGTGCCACGGAGTCGTGGAC-TTAAAAGGAACAAGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAGGTACCACGGAATTGTGGACTTTAAAA-GAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGAA
903687 A
63 A
* *
903688 AAGAGTACCACGGAATTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAC
1 AAG-GTACCACGGAATTGTGGACTTT-AAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
* ** * *
903753 AAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTGTCACGGAGTTGTGGGCTTTAAAA
1 AAGGTACCACGGAATTGTGGACTTTAAAA--G---AAG-GTGCCACGGAGTTGTGGAC-TTAAAA
903818 -G---
59 GGAAA
* * * * * * *
903819 --GGTACAACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT-AAACG-
1 AAGGTACCACGGAATTGTGGACTT-TAA--AAGAAG-GTGCCACGGAGTTGTGGACTTAAAAGGA
903880 --
62 AA
* * *
903880 --GGTGCCACGGAGTTGTGGAC-TTAGAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAGGTACCACGGAATTGTGGACTTTA-AAAG---AAG-GTGCCACGGAGTTGTGGAC-TT-AAAA
903942 GGAAA
59 GGAAA
* * * * * * *
903947 AAGATGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGAAGTCGTGGACTTTGAAAA-GAA
1 AAGGTACCACGGAATTGTGGACTTT-AAAAGAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAA
*
904011 G
63 A
* * *
904012 AAGGTGCCACGGAGTCGTGGACTTTAAAA
1 AAGGTACCACGGAATTGTGGACTTTAAAA
904041 AGGTATTTGA
Statistics
Matches: 285, Mismatches: 40, Indels: 57
0.75 0.10 0.15
Matches are distributed among these distances:
58 2 0.01
59 1 0.00
60 5 0.02
61 43 0.15
62 23 0.08
63 4 0.01
64 45 0.16
65 37 0.13
66 44 0.15
67 26 0.09
68 7 0.02
69 35 0.12
70 12 0.04
71 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (63 bp):
AAGGTACCACGGAATTGTGGACTTTAAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAAA
Found at i:903900 original size:158 final size:164
Alignment explanation
Indices: 903661--903977 Score: 443
Period size: 158 Copynumber: 2.0 Consensus size: 164
903651 GGAACAAGCC
* *
903661 ACGGGGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACGGAATTGTGGGCTTTGAAAAGAAGGTG
1 ACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAATTGTGGGCTTTGAAAAG-AGGTG
* * *
903726 CCACGGAGTTGTGGACTTA-AAAGGAACAAG-GTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
65 CCACGGAGTTGTGGACTTAGAAA-GAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGGAAAA
* *
903789 AGAGTGTCACGGAGTTGTGGGCTTT-AAAAGGGTACA
129 AGA-TGCCACAGAGTTGTGGGCTTTGAAAAGGGTACA
* * * *
903825 ACGGAGTTGTGGAC-TTAGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGC-TT-AAACG-GGTGC
1 ACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAATTGTGGGCTTTGAAAAGAGGTGC
*
903885 CACGGAGTTGTGGACTTAGAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAG
66 CACGGAGTTGTGGACTTAGAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGGAAAAAG
903950 ATGCCACAGAGTTGTGGGCTTTGAAAAG
131 ATGCCACAGAGTTGTGGGCTTTGAAAAG
903978 AAGGTGCCAC
Statistics
Matches: 138, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
158 48 0.35
159 41 0.30
160 4 0.03
161 2 0.01
162 25 0.18
163 5 0.04
164 13 0.09
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (164 bp):
ACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTACCACAGAATTGTGGGCTTTGAAAAGAGGTGC
CACGGAGTTGTGGACTTAGAAAGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAGGAAAAAG
ATGCCACAGAGTTGTGGGCTTTGAAAAGGGTACA
Found at i:903905 original size:61 final size:61
Alignment explanation
Indices: 903723--903940 Score: 265
Period size: 61 Copynumber: 3.4 Consensus size: 61
903713 TGAAAAGAAG
* * *
903723 GTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAA
1 GTGCCACGGAGTTGTGGGCTTAAAA-G-----GGTGCCACGGAGTTGTGGAC-TTAGAA-GGAAA
903788 AAGA
58 AAGA
* * *
903792 GTGTCACGGAGTTGTGGGCTTTAAAAGGGTACAACGGAGTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
* * *
903854 GTGCCACAGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAGAAAGAAAAAGA
1 GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
903915 GTGCCACGGAGTTGTGGGCTTTAAAA
1 GTGCCACGGAGTTGTGGGC-TTAAAA
903941 AGGAAAAAGA
Statistics
Matches: 133, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
61 56 0.42
62 31 0.23
63 5 0.04
64 17 0.13
69 18 0.14
70 6 0.05
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (61 bp):
GTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGA
Found at i:905323 original size:14 final size:14
Alignment explanation
Indices: 905304--905349 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
905294 CCTTTGCACC
905304 TTTTTTGTTTGTGT
1 TTTTTTGTTTGTGT
905318 TTTTTTG-TTGT-T
1 TTTTTTGTTTGTGT
* *
905330 GTTTTTGTTTTTGT
1 TTTTTTGTTTGTGT
905344 TTTTTT
1 TTTTTT
905350 TTTCATCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 7 0.26
13 7 0.26
14 13 0.48
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTGTTTGTGT
Found at i:905331 original size:6 final size:6
Alignment explanation
Indices: 905305--905352 Score: 53
Period size: 6 Copynumber: 7.8 Consensus size: 6
905295 CTTTGCACCT
* *
905305 TTTTTG TTTGTGTT TTTTTG TTGTTG TTTTTG TTTTTG TTTTT- TTTTT
1 TTTTTG TTT-T-TG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
905353 CATCATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
5 5 0.14
6 25 0.69
7 2 0.06
8 4 0.11
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (6 bp):
TTTTTG
Found at i:905841 original size:20 final size:20
Alignment explanation
Indices: 905818--905891 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
905808 ACAATTCAAA
905818 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
905838 GTATCGATACATGAAAAAAAAT
1 GTATCGATACATG--TTGCAAT
905860 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
905880 GTATCGATACAT
1 GTATCGATACAT
905892 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 28 0.64
22 16 0.36
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:905908 original size:41 final size:42
Alignment explanation
Indices: 905818--905912 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
905808 ACAATTCAAA
905818 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
**
905860 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
905901 GTATCGATACAT
1 GTATCGATACAT
905913 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 19 0.37
42 32 0.63
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAAAAT
Found at i:905969 original size:13 final size:13
Alignment explanation
Indices: 905951--905976 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
905941 TACAGCAAGT
905951 ATGTATCGATACA
1 ATGTATCGATACA
905964 ATGTATCGATACA
1 ATGTATCGATACA
905977 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:910058 original size:15 final size:15
Alignment explanation
Indices: 910038--910068 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
910028 TAAAAATGTC
*
910038 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
910053 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
910068 C
1 C
910069 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:912165 original size:13 final size:13
Alignment explanation
Indices: 912147--912185 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
912137 ACATTTTTCC
912147 TTGTATCGATACA
1 TTGTATCGATACA
912160 TTGTATCGATACA
1 TTGTATCGATACA
*
912173 CTGTATCGATACA
1 TTGTATCGATACA
912186 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:914080 original size:48 final size:48
Alignment explanation
Indices: 914026--914121 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
914016 GGGGAGATAA
914026 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
914074 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
914122 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:914702 original size:20 final size:20
Alignment explanation
Indices: 914679--914751 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
914669 ACAATTCAAA
914679 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
914699 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
914720 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
914740 GTATCGATACAT
1 GTATCGATACAT
914752 AAAAAGGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:914722 original size:21 final size:21
Alignment explanation
Indices: 914696--914772 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
914686 TACATGTTGC
914696 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
914717 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
914737 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
*
914757 GGATGTATCGATACAT
1 -AATGTATCGATACAT
914773 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:914730 original size:41 final size:41
Alignment explanation
Indices: 914679--914772 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
914669 ACAATTCAAA
914679 GTATCGATACATGTTGCAATGTATCGATACATGAAAAA-AAT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAGAAT
*
914720 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
914761 GTATCGATACAT
1 GTATCGATACAT
914773 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAGAAT
Found at i:914829 original size:13 final size:13
Alignment explanation
Indices: 914811--914836 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
914801 TACAGCAAGT
914811 ATGTATCGATACA
1 ATGTATCGATACA
914824 ATGTATCGATACA
1 ATGTATCGATACA
914837 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:922395 original size:13 final size:13
Alignment explanation
Indices: 922377--922401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
922367 CAAAGATCAG
922377 TGTATCGATACAA
1 TGTATCGATACAA
922390 TGTATCGATACA
1 TGTATCGATACA
922402 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:922480 original size:32 final size:33
Alignment explanation
Indices: 922439--922572 Score: 236
Period size: 32 Copynumber: 4.1 Consensus size: 33
922429 GGCAGTAGCT
922439 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
922471 TACATTGTATCGATACAACAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
922503 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
922536 TACATTGTATCGATACAAAACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
922569 TACA
1 TACA
922573 ACACTTTATG
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
32 52 0.53
33 47 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:922481 original size:13 final size:13
Alignment explanation
Indices: 922463--922552 Score: 63
Period size: 13 Copynumber: 5.9 Consensus size: 13
922453 ACAAAACTTA
922463 TGTATCGATACAT
1 TGTATCGATACAT
922476 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
922494 ATGTATCGATACAT
1 -TGTATCGATACAT
922508 TGTATCGATACAACACTTT
1 TGTATCGAT---ACA---T
922527 ATGTATCGATACAT
1 -TGTATCGATACAT
922541 TGTATCGATACA
1 TGTATCGATACA
922553 AAACTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 30 0.47
14 2 0.03
16 9 0.14
17 3 0.05
18 1 0.02
19 10 0.16
20 9 0.14
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:922572 original size:53 final size:53
Alignment explanation
Indices: 922508--922625 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
922498 ATCGATACAT
*
922508 TGTATCGATACAACACTTTATGTATCGATACATTGTATCGATACAAAACTTTA
1 TGTATCGATACAACACTTTATGTATCAATACATTGTATCGATACAAAACTTTA
*
922561 TGTATCGATACAACACTTTATGTATCAATACATTGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTATGTATCAATACATTGTATCGATACAAAACTTTA
922614 TGTATCGATACA
1 TGTATCGATACA
922626 TTGTATCGAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (53 bp):
TGTATCGATACAACACTTTATGTATCAATACATTGTATCGATACAAAACTTTA
Found at i:922596 original size:86 final size:85
Alignment explanation
Indices: 922476--922659 Score: 341
Period size: 86 Copynumber: 2.2 Consensus size: 85
922466 ATCGATACAT
*
922476 TGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCAATACATTGTATCGATACAACACTTTATGTATCGATACAT
922541 TGTATCGATACAAAACTTTA
66 TGTATCGATACAAAACTTTA
922561 TGTATCGATACAACACTTTATGTATCAATACATTGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACAC-TTATGTATCAATACATTGTATCGATACAACACTTTATGTATCGATACA
*
922626 TTGTATCGATACAACACTTTA
65 TTGTATCGATACAAAACTTTA
922647 TGTATCGATACAA
1 TGTATCGATACAA
922660 ATCGTTGAAA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 16 0.17
86 80 0.83
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (85 bp):
TGTATCGATACAACACTTATGTATCAATACATTGTATCGATACAACACTTTATGTATCGATACAT
TGTATCGATACAAAACTTTA
Found at i:922598 original size:33 final size:33
Alignment explanation
Indices: 922561--922658 Score: 187
Period size: 33 Copynumber: 3.0 Consensus size: 33
922551 CAAAACTTTA
*
922561 TGTATCGATACAACACTTTATGTATCAATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
922594 TGTATCGATACAACACTTTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
922627 TGTATCGATACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
922659 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:922632 original size:13 final size:13
Alignment explanation
Indices: 922614--922638 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
922604 CAACACTTTA
922614 TGTATCGATACAT
1 TGTATCGATACAT
922627 TGTATCGATACA
1 TGTATCGATACA
922639 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:922715 original size:14 final size:14
Alignment explanation
Indices: 922696--922724 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
922686 CGTTGGGACC
922696 TTGTATCGATACAT
1 TTGTATCGATACAT
922710 TTGTATCGATACAT
1 TTGTATCGATACAT
922724 T
1 T
922725 CTAACAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (14 bp):
TTGTATCGATACAT
Found at i:923979 original size:4 final size:4
Alignment explanation
Indices: 923970--923996 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
923960 TTTTGAGGTG
923970 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
923997 GTCTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:934299 original size:10 final size:10
Alignment explanation
Indices: 934264--934316 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
934254 ATTCTTTTTC
*
934264 AAAAAAAAAC
1 AAAAAAAAAG
*
934274 ACAAAAAAAATC
1 A-AAAAAAAA-G
934286 AAAAAAAAAG
1 AAAAAAAAAG
*
934296 -AAAAAAGAG
1 AAAAAAAAAG
934305 AAAAAAAAAG
1 AAAAAAAAAG
934315 AA
1 AA
934317 GAATCTGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.22
10 11 0.30
11 16 0.43
12 2 0.05
ACGTcount: A:0.85, C:0.06, G:0.08, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:934299 original size:19 final size:19
Alignment explanation
Indices: 934265--934316 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
934255 TTCTTTTTCA
* *
934265 AAAAAAAACACAAAAAAAATC
1 AAAAAAAA-AGAAAAAAGA-C
*
934286 AAAAAAAAAGAAAAAAGAG
1 AAAAAAAAAGAAAAAAGAC
934305 AAAAAAAAAGAA
1 AAAAAAAAAGAA
934317 GAATCTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 8 0.29
21 8 0.29
ACGTcount: A:0.85, C:0.06, G:0.08, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAGAC
Found at i:935375 original size:62 final size:62
Alignment explanation
Indices: 935279--935483 Score: 248
Period size: 62 Copynumber: 3.5 Consensus size: 62
935269 CTTTTCCTTC
* *
935279 CACTTTTC-AATCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * *
935340 CACTTTTCTAGCCCTCAAAGAGCGGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* * * *
935402 CA-TTTTCCATTCCTCAAAGAGCAGGAC-AC---T--TTTTAAAACCCACACAAGTTGGTGG
1 CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
* *
935457 CAC-TTCCTAGTCCTTAAAGAGCAGGAC
1 CACTTTTCTAGTCCTCAAAGAGCAGGAC
935484 ACTCTCTCCT
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
55 45 0.36
57 1 0.01
60 1 0.01
61 29 0.23
62 50 0.40
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (62 bp):
CACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGG
Found at i:935476 original size:55 final size:55
Alignment explanation
Indices: 935315--935486 Score: 193
Period size: 55 Copynumber: 3.0 Consensus size: 55
935305 TGCCTTTTCC
* * * *
935315 TTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGCCCTCAAAGAGCGGGACGCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAGAGCAGGAC-AC--T
* *
935374 TCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-ATTCCTCAAAGAGCAGGACACT
1 T--TTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACACT
* *
935432 TTTTAAAACCCACACAAGTTGGTGGCACTTCCTAGTCCTTAAAGAGCAGGACACT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACT
935487 CTCTCCTTTC
Statistics
Matches: 98, Mismatches: 10, Indels: 14
0.80 0.08 0.11
Matches are distributed among these distances:
54 4 0.04
55 42 0.43
56 3 0.03
58 2 0.02
59 1 0.01
60 1 0.01
61 19 0.19
62 26 0.27
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGACACT
Found at i:935547 original size:211 final size:211
Alignment explanation
Indices: 935313--935693 Score: 613
Period size: 211 Copynumber: 1.8 Consensus size: 211
935303 GATGCCTTTT
935313 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGCCCT-CAAAGAGCGGGACGCCTTTTCC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGCCCTCCAAA-AGCGGGACGCCTTTTCC
* * *
935377 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCATTCCTCAAAGAGCAGGACACTTTTTAAAACC
65 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACACTTTTCAAAACC
* *
935442 CACACAAGTTGGTGGCA-CTTCCTAGTCCTTAAAGAGCAGGACACTCTCTCCTTTCGCCTTTTTG
130 CACACAAGTTGGGGGCACCTTCC-AGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCCTTTTTG
935506 TCCTCAAAGAGCAGGATG
194 TCCTCAAAGAGCAGGATG
* *
935524 CCTTTTAAAGCCCACACAAGTTGGTGGTACTTTTCTAGTCCTCCAAAAGCGGGACGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGCCCTCCAAAAGCGGGACGCCTTTTCCT
* * * *
935589 TTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGGCGCTTTTCAAAGCCC
66 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACACTTTTCAAAACCC
* *
935654 ACACCAGTTGGGGGCACCTTTCAGTCCTCAAAGAGCAGGA
131 ACACAAGTTGGGGGCACCTTCCAGTCCTCAAAGAGCAGGA
935694 TGCCTTTTAA
Statistics
Matches: 155, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
211 147 0.95
212 8 0.05
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (211 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGCCCTCCAAAAGCGGGACGCCTTTTCCT
TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACACTTTTCAAAACCC
ACACAAGTTGGGGGCACCTTCCAGTCCTCAAAGAGCAGGACACTCTCTCCTTTCGCCTTTTTGTC
CTCAAAGAGCAGGATG
Found at i:935724 original size:110 final size:110
Alignment explanation
Indices: 935505--936153 Score: 669
Period size: 110 Copynumber: 5.7 Consensus size: 110
935495 TCGCCTTTTT
* * * *
935505 GTCCTCAAAGAGCAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGTACTTTTCTAGTCCTCCA
1 GTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCT-CA
* * *
935569 AA-AGCGGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCA
63 AAGAGCAGGA------TGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCA
* * * * *
935622 GTCCTCAAAGAACAGGGCGCTTTTCAAAGCCCACACCAGTTGGGGGCACCTTT-CAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTCCTCAAA
*
935686 GAGCAGGATGCCTTTTAAAGCCTACACAAGTTGGTGGCAC-TTCCTA
65 GAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCC-A
* * * *
935732 GTCCCCAAAGAGCAGGACGCCTTTCAAAGCCTACACGAGTTGGTGGCATTTTCCAGTCCTCAAAA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAG
* * *
935797 AGCAGGATGCCTCTTAAAGCCCACGCAAGTTGGTGGCACTTCCCA
66 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCA
* * * *
935842 ATCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAA
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAG
* * *
935907 AGCAGGATGCCTCTTAAAGCCCACGCAAGTTGGTGGCATTTTCCA
66 AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCA
* ** * *
935952 GTCCTCAAAGAGTAGGAAACTTTTCAAAGCCCGCACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAG
* ** * *
936017 AGAAGGATGCTTTCTCTTTGCAAAGCCCACATGAGTTGATGGCACCTTCCA
66 AGCAGGATGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCACTTTCCA
* * * *
936068 GTCCTCAAAGAGTAGGACGTCTTTCCTTTTCAAAGCCCATATGAGTTGGTGGCACTTTT-TAGTC
1 GTCCTCAAAGAGCAGGACG------CTTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCCAGTC
936132 CTCAAAGAGCAGGATGCACTTT
59 CTCAAAGAGCAGGATGC-CTTT
936154 ATTTTCCTCT
Statistics
Matches: 457, Mismatches: 57, Indels: 34
0.83 0.10 0.06
Matches are distributed among these distances:
109 7 0.02
110 288 0.63
111 3 0.01
113 2 0.00
114 2 0.00
115 4 0.01
116 58 0.13
117 40 0.09
119 2 0.00
120 2 0.00
122 45 0.10
123 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (110 bp):
GTCCTCAAAGAGCAGGACGCTTTTCAAAGCCCACACGAGTTGGTGGCATTTTCCAGTCCTCAAAG
AGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCA
Done.