Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 313 of 427
Found at i:91167852 original size:32 final size:32
Alignment explanation
Indices: 91167816--91167975 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
91167806 TATAACTATG
91167816 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
91167848 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* * *
91167880 CTACTTTTTTATATGTGAACCTAATGTATAAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
91167912 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
91167944 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
91167976 ATTTTTTATG
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 115 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:91174814 original size:31 final size:31
Alignment explanation
Indices: 91174779--91174842 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
91174769 ATAGTCCAAC
* *
91174779 GACTTAAATAAAAAATTTCGAATAATTTAGT
1 GACTTAAATAAAAAATTTCAAATAATTCAGT
* *
91174810 GACTTAAATGAAAACTTTCAAATAATTCAGT
1 GACTTAAATAAAAAATTTCAAATAATTCAGT
91174841 GA
1 GA
91174843 TCATTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (31 bp):
GACTTAAATAAAAAATTTCAAATAATTCAGT
Found at i:91178699 original size:4 final size:4
Alignment explanation
Indices: 91178690--91178718 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
91178680 GGCGAAAGAT
91178690 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
91178719 ATGGTAGGCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:91179112 original size:30 final size:31
Alignment explanation
Indices: 91179078--91179144 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
91179068 TTAAAAGTGA
*
91179078 ATATCTTAGCATT-ATTAG-AC-ATATCATATT
1 ATATCTTA--ATTAATTAGCACAATATCATATC
91179108 ATATC-TAATTAATTAGCACAATATCATATC
1 ATATCTTAATTAATTAGCACAATATCATATC
91179138 ATATCTT
1 ATATCTT
91179145 TCTTTATTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 3 0.09
28 5 0.16
29 4 0.12
30 19 0.59
31 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.42
Consensus pattern (31 bp):
ATATCTTAATTAATTAGCACAATATCATATC
Found at i:91182343 original size:7 final size:8
Alignment explanation
Indices: 91182328--91182352 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
91182318 TGAAAGTGAT
91182328 ATAAAAAA
1 ATAAAAAA
91182336 ATAAAAAA
1 ATAAAAAA
91182344 ATAAAAAA
1 ATAAAAAA
91182352 A
1 A
91182353 ATATTTCGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:91189043 original size:13 final size:13
Alignment explanation
Indices: 91189025--91189069 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
91189015 AAAAAGACAA
91189025 AATAATTACATTG
1 AATAATTACATTG
*
91189038 AATAATTACA--A
1 AATAATTACATTG
91189049 AATAATTACATTG
1 AATAATTACATTG
91189062 AATAATTA
1 AATAATTA
91189070 TAATTGAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.36
13 18 0.64
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (13 bp):
AATAATTACATTG
Found at i:91189048 original size:24 final size:24
Alignment explanation
Indices: 91189021--91189069 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
91189011 CAACAAAAAG
91189021 ACAAAATAATTACATTGAATAATT
1 ACAAAATAATTACATTGAATAATT
91189045 ACAAAATAATTACATTGAATAATT
1 ACAAAATAATTACATTGAATAATT
91189069 A
1 A
91189070 TAATTGAGTT
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:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
ACAAAATAATTACATTGAATAATT
Found at i:91194529 original size:32 final size:31
Alignment explanation
Indices: 91194459--91194546 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 31
91194449 ATTGTCAATG
*
91194459 ATTTCAATATCCAACAAGCTTAAAACATAATA
1 ATTTCAATATCCAACAA-ATTAAAACATAATA
* * * *
91194491 AATTCAATATCTAACAAATTCAAGACATGATA
1 ATTTCAATATCCAACAAATT-AAAACATAATA
* *
91194523 ATTTCAAAATCCAACAAACTAAAA
1 ATTTCAATATCCAACAAATTAAAA
91194547 TTTCAATATC
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 5 0.11
32 40 0.89
ACGTcount: A:0.52, C:0.18, G:0.03, T:0.26
Consensus pattern (31 bp):
ATTTCAATATCCAACAAATTAAAACATAATA
Found at i:91196603 original size:16 final size:18
Alignment explanation
Indices: 91196571--91196603 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
91196561 CCATTTAGAC
91196571 TAGATTCTTTTTCTATCT
1 TAGATTCTTTTTCTATCT
91196589 TAGATT-TTTTT-TATC
1 TAGATTCTTTTTCTATC
91196604 ATCCTAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 5 0.33
18 6 0.40
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (18 bp):
TAGATTCTTTTTCTATCT
Found at i:91197701 original size:17 final size:17
Alignment explanation
Indices: 91197681--91197731 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
91197671 AGCAGTTGAA
91197681 AGATGCAAAATCCAAAC
1 AGATGCAAAATCCAAAC
* *
91197698 AGAT--TAAA--CAAAT
1 AGATGCAAAATCCAAAC
91197711 AGATGCAAAATCCAAAC
1 AGATGCAAAATCCAAAC
91197728 AGAT
1 AGAT
91197732 TCTTCAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 8 0.31
15 6 0.23
17 12 0.46
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.16
Consensus pattern (17 bp):
AGATGCAAAATCCAAAC
Found at i:91198392 original size:23 final size:23
Alignment explanation
Indices: 91198352--91198397 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
91198342 ATTATTTCTC
* * *
91198352 TTTCTTTATTTTTTTTTTCTAAT
1 TTTCTTTATTATTCTTTTATAAT
*
91198375 TTTCTTTCTTATTCTTTTATAAT
1 TTTCTTTATTATTCTTTTATAAT
91198398 GTTTGCCAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTATTATTCTTTTATAAT
Found at i:91199251 original size:55 final size:55
Alignment explanation
Indices: 91199150--91199253 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
91199140 AAATTTTTTA
* * * * *
91199150 AAATTTTAACTTTTTTATATATATTTTAGAATTTTAATAATTTTTTAAAAAATAT
1 AAATTTTAACTTTTTTATAAATACTTTAGAAATTAAAAAATTTTTTAAAAAATAT
91199205 AAATTTTCAA-TTTTTTATAAATACTTT-GAAATTAAAAAATTGTTTTAAA
1 AAATTTT-AACTTTTTTATAAATACTTTAGAAATTAAAAAATT-TTTTAAA
91199254 TTTTTGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
54 11 0.26
55 29 0.69
56 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (55 bp):
AAATTTTAACTTTTTTATAAATACTTTAGAAATTAAAAAATTTTTTAAAAAATAT
Found at i:91200825 original size:15 final size:15
Alignment explanation
Indices: 91200807--91200846 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
91200797 ATATTATTAC
91200807 TATTATTTTTATCAT
1 TATTATTTTTATCAT
91200822 TATTATTTTTATCAT
1 TATTATTTTTATCAT
91200837 TATT-TTTTTA
1 TATTATTTTTA
91200847 AACTGTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.24
15 19 0.76
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTATTTTTATCAT
Found at i:91200993 original size:21 final size:21
Alignment explanation
Indices: 91200926--91201005 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 21
91200916 CTCTTTTAGT
91200926 TTTTATTTGTTTATTTAT-TTA
1 TTTTATTT-TTTATTTATCTTA
**
91200947 TTATTGCTTTTTATTTAATTGGCTTA
1 TT-TTATTTTTTATTT-A-T--CTTA
91200973 TTTTATTTTTTATTTATCTTA
1 TTTTATTTTTTATTTATCTTA
91200994 TTTTTATTTTTT
1 -TTTTATTTTTT
91201006 TCGTTATTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
21 13 0.27
22 16 0.33
23 2 0.04
24 1 0.02
25 11 0.23
26 5 0.10
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTTATTTATCTTA
Found at i:91202488 original size:58 final size:58
Alignment explanation
Indices: 91202394--91202516 Score: 160
Period size: 58 Copynumber: 2.1 Consensus size: 58
91202384 GTTTTTTTCT
* * *
91202394 AATAAAGATTTTTATTAGATTATTTAATATATTGTTAGT-AGAATTTTTAGATTTAACG
1 AATAAAGATTTTTATTAGATTATTTAATATACTGTTAATGA-AATTTTTAAATTTAACG
* * *
91202452 AATAAATATTTTTCTTTGATTATTTAATATACTGTTAATGAAATTTTTAAATTTAAC-
1 AATAAAGATTTTTATTAGATTATTTAATATACTGTTAATGAAATTTTTAAATTTAACG
91202509 AAGTAAAG
1 AA-TAAAG
91202517 TTAGGAGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
57 2 0.04
58 53 0.95
59 1 0.02
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (58 bp):
AATAAAGATTTTTATTAGATTATTTAATATACTGTTAATGAAATTTTTAAATTTAACG
Found at i:91204397 original size:19 final size:19
Alignment explanation
Indices: 91204373--91204411 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
91204363 ATAATTATTT
* *
91204373 AACTATTTAAAAGTTGTTA
1 AACTATTAAAAAGATGTTA
91204392 AACTATTAAAAAGATGTTA
1 AACTATTAAAAAGATGTTA
91204411 A
1 A
91204412 GTATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (19 bp):
AACTATTAAAAAGATGTTA
Found at i:91204416 original size:18 final size:18
Alignment explanation
Indices: 91204371--91204416 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
91204361 AAATAATTAT
* *
91204371 TTAACTATTTAAAAGTTG
1 TTAACTATTAAAAAGATG
91204389 TTAAACTATTAAAAAGATG
1 TT-AACTATTAAAAAGATG
*
91204408 TTAAGTATT
1 TTAACTATT
91204417 TTTTAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.41
Consensus pattern (18 bp):
TTAACTATTAAAAAGATG
Found at i:91210830 original size:21 final size:21
Alignment explanation
Indices: 91210804--91210871 Score: 136
Period size: 21 Copynumber: 3.2 Consensus size: 21
91210794 CCATACTGTC
91210804 TGCCATCGCCCCATACCCTCG
1 TGCCATCGCCCCATACCCTCG
91210825 TGCCATCGCCCCATACCCTCG
1 TGCCATCGCCCCATACCCTCG
91210846 TGCCATCGCCCCATACCCTCG
1 TGCCATCGCCCCATACCCTCG
91210867 TGCCA
1 TGCCA
91210872 AGGGCCAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.15, C:0.51, G:0.15, T:0.19
Consensus pattern (21 bp):
TGCCATCGCCCCATACCCTCG
Found at i:91221776 original size:2 final size:2
Alignment explanation
Indices: 91221769--91221793 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
91221759 ATTCTATCTT
91221769 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 T
91221794 CCATTGCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:91222671 original size:2 final size:2
Alignment explanation
Indices: 91222666--91222709 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
91222656 TTTTGTTTGA
91222666 AT AT AT AT AT 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
91222708 AT
1 AT
91222710 TTATTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91225207 original size:24 final size:20
Alignment explanation
Indices: 91225158--91225196 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
91225148 ATTCCGATAT
91225158 TTTATTATA-AATAATTTAA
1 TTTATTATATAATAATTTAA
*
91225177 TTAATTATATAATAATTTAA
1 TTTATTATATAATAATTTAA
91225197 ACTATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTATTATATAATAATTTAA
Found at i:91227786 original size:17 final size:18
Alignment explanation
Indices: 91227747--91227790 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
91227737 TTACACGAGT
91227747 AATTT-TAAAAGTTCAAA
1 AATTTATAAAAGTTCAAA
*
91227764 ATATTTATAAAA-TTCTAA
1 A-ATTTATAAAAGTTCAAA
91227782 AATTTATAA
1 AATTTATAA
91227791 TTTTTTAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 10 0.42
19 5 0.21
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTTATAAAAGTTCAAA
Found at i:91228723 original size:9 final size:9
Alignment explanation
Indices: 91228706--91228757 Score: 61
Period size: 10 Copynumber: 5.7 Consensus size: 9
91228696 ATTAATTTTT
91228706 AAATATAAA
1 AAATATAAA
*
91228715 AAAT-TTAA
1 AAATATAAA
91228723 AAATATGAAA
1 AAATAT-AAA
91228733 AAATATAAA
1 AAATATAAA
*
91228742 AATTATGAAA
1 AAATAT-AAA
91228752 AAATAT
1 AAATAT
91228758 TTTTAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 7 0.19
9 13 0.36
10 16 0.44
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (9 bp):
AAATATAAA
Found at i:91228735 original size:18 final size:18
Alignment explanation
Indices: 91228706--91228757 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
91228696 ATTAATTTTT
*
91228706 AAATAT-AAAAAATTTAA
1 AAATATGAAAAAATATAA
91228723 AAATATGAAAAAATATAA
1 AAATATGAAAAAATATAA
91228741 AAATTATGAAAAAATAT
1 AAA-TATGAAAAAATAT
91228758 TTTTAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 6 0.19
18 13 0.41
19 13 0.41
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATATGAAAAAATATAA
Found at i:91228743 original size:19 final size:19
Alignment explanation
Indices: 91228706--91228757 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
91228696 ATTAATTTTT
*
91228706 AAATAT-AAAAAAT-TTAA
1 AAATATGAAAAAATATAAA
91228723 AAATATGAAAAAATATAAA
1 AAATATGAAAAAATATAAA
*
91228742 AATTATGAAAAAATAT
1 AAATATGAAAAAATAT
91228758 TTTTAATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.19
18 7 0.23
19 18 0.58
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATATGAAAAAATATAAA
Found at i:91229307 original size:21 final size:20
Alignment explanation
Indices: 91229247--91229326 Score: 62
Period size: 18 Copynumber: 4.2 Consensus size: 20
91229237 TTGAAATACT
*
91229247 TTAATAT-AAAAT-ATTAAA
1 TTAATATAAAAATAATTATA
* * *
91229265 TTAATGT-AATATAA-AATA
1 TTAATATAAAAATAATTATA
* *
91229283 -TAATTTAAAAATAAATTATT
1 TTAATATAAAAAT-AATTATA
91229303 TTAATATAAAAATAATTATA
1 TTAATATAAAAATAATTATA
91229323 TTAA
1 TTAA
91229327 GAATATTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
17 5 0.11
18 16 0.34
19 3 0.06
20 12 0.26
21 11 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (20 bp):
TTAATATAAAAATAATTATA
Found at i:91229380 original size:24 final size:23
Alignment explanation
Indices: 91229316--91229380 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 23
91229306 ATATAAAAAT
*
91229316 AATTATA-TTAAGAATATTATTA
1 AATTATATTTAATAATATTATTA
*
91229338 AATTATATATT-AT--TTTTATTA
1 AATTATAT-TTAATAATATTATTA
91229359 AATTATATTTAATAATAGTTAT
1 AATTATATTTAATAATA-TTAT
91229381 ATTAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 7 0.21
23 2 0.06
24 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:91235002 original size:127 final size:129
Alignment explanation
Indices: 91234826--91235109 Score: 319
Period size: 127 Copynumber: 2.2 Consensus size: 129
91234816 ACGAAAAACT
* * *
91234826 GAAACCCAACAC-AGTAGGGCACGATTCCTCAAATTCCTAAACATTGAACATTGCCTT-GTTTT-
1 GAAACCCAGCACGA-TAGGGCACGATTCCCCAAATTCCTAAACATCGAACATTGCCTTCGTTTTA
* * * * *
91234888 A-GAATTTAGAAAATA-TGAGTGAAA-TTCTAAAGGAATATTCGATTATTTCGAACAAACGGTAA
65 AGGAATTTACAAAATACGGA-TGAAATTTC-AAAGGAATATTCAATTATTT-GAACAAACAGAAA
*
91234950 ATT
127 ATA
* * *
91234953 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTGCCTTCGTTTTAA
1 GAAACCCAGCACGATAGGGCACGATTCCCCAAATTCCTAAACATCGAACATTGCCTTCGTTTTAA
* * * **
91235018 GGAATTTTCAAAGTACGGATGAAATTTCAAAGGAATATTTAATTATTTGGGCAAACAGAAAATA
66 GGAATTTACAAAATACGGATGAAATTTCAAAGGAATATTCAATTATTTGAACAAACAGAAAATA
* *
91235082 GAAACCCAGCACGGTTGGGCACGATTCC
1 GAAACCCAGCACGATAGGGCACGATTCC
91235110 TCGAGTTCCC
Statistics
Matches: 131, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
127 49 0.37
128 6 0.05
129 37 0.28
130 34 0.26
131 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (129 bp):
GAAACCCAGCACGATAGGGCACGATTCCCCAAATTCCTAAACATCGAACATTGCCTTCGTTTTAA
GGAATTTACAAAATACGGATGAAATTTCAAAGGAATATTCAATTATTTGAACAAACAGAAAATA
Found at i:91235144 original size:129 final size:128
Alignment explanation
Indices: 91234826--91235158 Score: 343
Period size: 129 Copynumber: 2.6 Consensus size: 128
91234816 ACGAAAAACT
* * *
91234826 GAAACCCAACACAGTAGGGCACGATTCCTCAAATTCCTAAACATTGAACATTGCC-TTGTTTTA-
1 GAAACCCAGCACGGTAGGGCACGATTCCTCGAATTCCTAAACA-TGAACATTGCCTTTGTTTTAG
** * * * * *
91234889 GAATTTAGAAAATATGAGTGAAATTCTAAAGGAATATTCGATTATTTCGAACAAACGGTAAATT
65 GAATTTTCAAAATAGGAGTGAAATTCTAAAGGAATATTCAATTATTTCGAACAAACAGAAAATA
* * * * *
91234953 GCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACATCGAACATTGCCTTCGTTTTAA
1 GAAACCCAGCACGGTAGGGCACGATTCCTCGAATTCCTAAACAT-GAACATTGCCTTTGTTTT-A
* * **
91235018 GGAATTTTCAAAGTACGGA-TGAAATT-TCAAAGGAATATTTAATTATTT-GGGCAAACAGAAAA
64 GGAATTTTCAAAATA-GGAGTGAAATTCT-AAAGGAATATTCAATTATTTCGAACAAACAGAAAA
91235080 TA
127 TA
* * * * *
91235082 GAAACCCAGCACGGTTGGGCACGATTCCTCGAGTTCCCAAACATAAACTATTACCTTTGTTTTAG
1 GAAACCCAGCACGGTAGGGCACGATTCCTCGAATTCCTAAACATGAAC-ATTGCCTTTGTTTTAG
*
91235147 TGAATCTTCAAA
65 -GAATTTTCAAA
91235159 TAAACAATTG
Statistics
Matches: 168, Mismatches: 30, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
126 1 0.01
127 46 0.27
128 11 0.07
129 72 0.43
130 36 0.21
131 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (128 bp):
GAAACCCAGCACGGTAGGGCACGATTCCTCGAATTCCTAAACATGAACATTGCCTTTGTTTTAGG
AATTTTCAAAATAGGAGTGAAATTCTAAAGGAATATTCAATTATTTCGAACAAACAGAAAATA
Found at i:91236895 original size:20 final size:20
Alignment explanation
Indices: 91236870--91236926 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
91236860 TTTTGTTTTT
91236870 AAATGCAAATAAAAAAAAGA
1 AAATGCAAATAAAAAAAAGA
* * *
91236890 AAATGCACATAAAACAATGA
1 AAATGCAAATAAAAAAAAGA
*
91236910 AAGAAGCAAATAAAAAA
1 AA-ATGCAAATAAAAAA
91236927 CGCAAAAGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (20 bp):
AAATGCAAATAAAAAAAAGA
Found at i:91242644 original size:26 final size:24
Alignment explanation
Indices: 91242604--91242663 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
91242594 TTATTTCATT
* * *
91242604 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
91242628 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
91242654 AAATAAATAT
1 AAATAAATAT
91242664 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:91242675 original size:22 final size:22
Alignment explanation
Indices: 91242634--91242692 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
91242624 ATAATAAATC
* *
91242634 AAATATAT-TTAAAA-ACATAA
1 AAATAAATATTAAAACAAATAA
91242654 AAATAAATATTAAAACAAATAA
1 AAATAAATATTAAAACAAATAA
*
91242676 AAAT-AATACTAAAACAA
1 AAATAAATATTAAAACAA
91242693 TTCTTAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 18 0.53
22 9 0.26
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAAATATTAAAACAAATAA
Found at i:91242769 original size:15 final size:16
Alignment explanation
Indices: 91242739--91242771 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
91242729 AAATAGTTAT
91242739 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
91242756 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
91242771 A
1 A
91242772 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:91243644 original size:20 final size:20
Alignment explanation
Indices: 91243616--91243654 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
91243606 AAACAGGGTC
*
91243616 ACACGCCCGTGTGGATAGGG
1 ACACACCCGTGTGGATAGGG
*
91243636 ACACACCCGTGTGGGTAGG
1 ACACACCCGTGTGGATAGG
91243655 CCGTGTAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (20 bp):
ACACACCCGTGTGGATAGGG
Found at i:91244842 original size:52 final size:50
Alignment explanation
Indices: 91244686--91244845 Score: 159
Period size: 52 Copynumber: 3.2 Consensus size: 50
91244676 CCCATATATG
* * *
91244686 GTCTTACACAGAAGCACATA--TATCAC-CGATGCCATA-TCTCAGATATA
1 GTCTTATACGGAAGCACATATCTATCACACGATGCCATAGTCT-AGCTATA
* * *
91244733 GTCTTATACGGAAGC-CAATAATCAAATCTCACCGATGCCATAGCCTAGCTATA
1 GTCTTATACGGAAGCAC-AT-ATC-TATCACA-CGATGCCATAGTCTAGCTATA
*
91244786 GTCTTATACGGAAGCACATATCTCATCACACTGATGCCATAGTCTAGCTATG
1 GTCTTATACGGAAGCACATATCT-ATCACAC-GATGCCATAGTCTAGCTATA
91244838 GTCTTATA
1 GTCTTATA
91244846 ATTGCCATGG
Statistics
Matches: 92, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
46 1 0.01
47 15 0.16
48 1 0.01
51 5 0.05
52 34 0.37
53 33 0.36
54 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (50 bp):
GTCTTATACGGAAGCACATATCTATCACACGATGCCATAGTCTAGCTATA
Found at i:91248064 original size:4 final size:4
Alignment explanation
Indices: 91248050--91248081 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
91248040 CCAGCCAGCC
*
91248050 AGCG AGGG AGCG AGCG AGCG AGCG AGCG AGCG
1 AGCG AGCG AGCG AGCG AGCG AGCG AGCG AGCG
91248082 CTAGAGGGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.53, T:0.00
Consensus pattern (4 bp):
AGCG
Found at i:91249394 original size:263 final size:264
Alignment explanation
Indices: 91248917--91249435 Score: 968
Period size: 263 Copynumber: 2.0 Consensus size: 264
91248907 ACTTTTACAA
91248917 CCTTCACTCTTATGTTTAAATAGCCCAAGCTGGGGCATGAACTCTTTTAAGCTTTCTTCTATACA
1 CCTTCACTCTTATGTTTAAATAGCCCAAGCTGGGGCATGAACTCTTTTAAGCTTTCTTCTATACA
*
91248982 AGTTTGTCTACTAGTGTTATTGCTAGTTTGCGAGCTTGACCAACTGCTAAATAACCTATCTTTCT
66 AGTTTGTCTACTAGTGTTATTGCTAGTTTGCGAGCTTGACCAACTGCTAAATAACCTAACTTTCT
*
91249047 TTCCTTTCCTTTCTTTATTCGATTCCTTTTTTATTTTATGTTGTTCATTGATTATGTTTTTCTAT
131 TTCCTTTCCTTTCTTTATTCGATTCCTTTTTTATTTAATGTTGTTCATTGATTATGTTTTTCTAT
*
91249112 TGTCTAGGAGCGAACTACGGGTCAATCCCGTGGTTTTGGTTATGTAACGTTTGCATCGGCTTTTT
196 TGTCCAGGAGCGAACTACGGGTCAATCCCGTGGTTTTGGTTATGTAACGTTTGCATCGGCTTTTT
91249177 AGAG
261 AGAG
91249181 CCTTCACTC-TATGTTTAAATAGCCCAAGCTGGGGCATGAACTCTTTTAAGCTTTCTTCTATACA
1 CCTTCACTCTTATGTTTAAATAGCCCAAGCTGGGGCATGAACTCTTTTAAGCTTTCTTCTATACA
91249245 AGTTTGTCTACTAGTGTTATTGCTAGTTTGCGAGCTTGACCAACTGCTAAATAACCTAACTTTCT
66 AGTTTGTCTACTAGTGTTATTGCTAGTTTGCGAGCTTGACCAACTGCTAAATAACCTAACTTTCT
* * *
91249310 TTCCTTTCTTTTCTTTATTCGATTCTTTTTTTGTTTAATGTTGTTCATTGATTATGTTTTTCTAT
131 TTCCTTTCCTTTCTTTATTCGATTCCTTTTTTATTTAATGTTGTTCATTGATTATGTTTTTCTAT
*
91249375 TGTCCAGGAGCGAACTACGGGTCGATCCCGTGGTTTTGGTTATGTAACGTTTGCATCGGCT
196 TGTCCAGGAGCGAACTACGGGTCAATCCCGTGGTTTTGGTTATGTAACGTTTGCATCGGCT
91249436 GATGATGCGA
Statistics
Matches: 248, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
263 239 0.96
264 9 0.04
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (264 bp):
CCTTCACTCTTATGTTTAAATAGCCCAAGCTGGGGCATGAACTCTTTTAAGCTTTCTTCTATACA
AGTTTGTCTACTAGTGTTATTGCTAGTTTGCGAGCTTGACCAACTGCTAAATAACCTAACTTTCT
TTCCTTTCCTTTCTTTATTCGATTCCTTTTTTATTTAATGTTGTTCATTGATTATGTTTTTCTAT
TGTCCAGGAGCGAACTACGGGTCAATCCCGTGGTTTTGGTTATGTAACGTTTGCATCGGCTTTTT
AGAG
Found at i:91263686 original size:50 final size:51
Alignment explanation
Indices: 91263627--91263736 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 51
91263617 TGTGATCTAT
* *
91263627 ACGGGCAAGGTTAATTTGAGCTATGTAGGCCACACGAGCG-GTGGGCCCAC
1 ACGGGCAAGGCTAATTTGAGATATGTAGGCCACACGAGCGTGTGGGCCCAC
* * *
91263677 ACGGGCAAGGCTAATTTGGGATATGTTGGCCACACGAGTGTGTGGGCCCAC
1 ACGGGCAAGGCTAATTTGAGATATGTAGGCCACACGAGCGTGTGGGCCCAC
*
91263728 ACAGGCAAG
1 ACGGGCAAG
91263737 ACACACGAAC
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
50 35 0.66
51 18 0.34
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.18
Consensus pattern (51 bp):
ACGGGCAAGGCTAATTTGAGATATGTAGGCCACACGAGCGTGTGGGCCCAC
Found at i:91264136 original size:40 final size:40
Alignment explanation
Indices: 91264087--91264162 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
91264077 TTATAGTACC
* *
91264087 ACTTGGTGTGTAGGGCTAGATGAGTCGATTTTATCCCCAT
1 ACTTAGTGTGTAGGGCTAGATGAGTCAATTTTATCCCCAT
* * *
91264127 ACTTAGTGTGTAGGGCTGGGTGGGTCAATTTTATCC
1 ACTTAGTGTGTAGGGCTAGATGAGTCAATTTTATCC
91264163 TTACATGGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (40 bp):
ACTTAGTGTGTAGGGCTAGATGAGTCAATTTTATCCCCAT
Found at i:91268539 original size:5 final size:5
Alignment explanation
Indices: 91268505--91268532 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
91268495 TTAATTGTAT
91268505 TATTA TATTA TATTA TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
91268533 ATTATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:91268540 original size:2 final size:2
Alignment explanation
Indices: 91268508--91268550 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
91268498 ATTGTATTAT
91268508 TA TA T- TA TA T- TA TA T- TA TA T- TA TA TA T- 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
91268545 TA TA TA
1 TA TA TA
91268551 AACTAAAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
1 5 0.14
2 31 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:91268546 original size:15 final size:15
Alignment explanation
Indices: 91268502--91268549 Score: 64
Period size: 15 Copynumber: 3.2 Consensus size: 15
91268492 GTTTTAATTG
91268502 TATTAT-TATAT-TA
1 TATTATATATATATA
91268515 TATTATATTATATTATA
1 TATTATA-TATA-TATA
91268532 TATTATATATATATA
1 TATTATATATATATA
91268547 TAT
1 TAT
91268550 AAACTAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.19
15 11 0.35
16 5 0.16
17 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTATATATATATA
Found at i:91268548 original size:10 final size:10
Alignment explanation
Indices: 91268508--91268550 Score: 51
Period size: 9 Copynumber: 4.8 Consensus size: 10
91268498 ATTGTATTAT
91268508 TATAT-TATA
1 TATATATATA
91268517 T-TATAT-TA
1 TATATATATA
91268525 TAT-TATATA
1 TATATATATA
91268534 T-TATATATA
1 TATATATATA
91268543 TATATATA
1 TATATATA
91268551 AACTAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 10 0.34
9 13 0.45
10 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATATATA
Found at i:91269838 original size:15 final size:15
Alignment explanation
Indices: 91269818--91269874 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
91269808 CGATGAATTT
91269818 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
91269833 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
91269848 ATTGAATTTATATTG
1 ATTGAATTTATATTG
91269863 ATTGAA-TTATAT
1 ATTGAATTTATAT
91269875 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:91270275 original size:23 final size:23
Alignment explanation
Indices: 91270245--91270331 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
91270235 GCTTTATCGA
* *
91270245 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
91270268 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
91270289 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
91270311 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
91270332 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:91280768 original size:25 final size:24
Alignment explanation
Indices: 91280740--91280801 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
91280730 GAAGAGCTAT
*
91280740 TAACGGGAAGCTCACAAGAACCATA
1 TAACGGGAAGCTCAAAAGAA-CATA
* *
91280765 TAACAGGAAGCTCAAAAGGACATA
1 TAACGGGAAGCTCAAAAGAACATA
* *
91280789 TATCGGGATGCTC
1 TAACGGGAAGCTC
91280802 TTTTGAGCTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 14 0.45
25 17 0.55
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (24 bp):
TAACGGGAAGCTCAAAAGAACATA
Found at i:91280976 original size:20 final size:20
Alignment explanation
Indices: 91280951--91280989 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
91280941 AAAATTACAC
91280951 AATTC-ACATATACAATATTT
1 AATTCAACATAT-CAATATTT
91280971 AATTCAAACATATCAATAT
1 AATTC-AACATATCAATAT
91280990 ACATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAACATATCAATATTT
Found at i:91283180 original size:3 final size:3
Alignment explanation
Indices: 91283172--91283224 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
91283162 AAATAGATAT
91283172 TTA TTA 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
91283220 TTA TT
1 TTA TT
91283225 GTTAACTAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91284860 original size:46 final size:46
Alignment explanation
Indices: 91284808--91284900 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
91284798 AGAATTGAAA
*
91284808 TTGAGATATGAGATTGAAAGCATGAACTAAAGGTTCATGAAATGAT
1 TTGAGATATGAGATTAAAAGCATGAACTAAAGGTTCATGAAATGAT
91284854 TTGAGATATGAGATTAAAAGCATGAACTAAAGGTTCATGAAATGAT
1 TTGAGATATGAGATTAAAAGCATGAACTAAAGGTTCATGAAATGAT
91284900 T
1 T
91284901 GAAGTTCGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (46 bp):
TTGAGATATGAGATTAAAAGCATGAACTAAAGGTTCATGAAATGAT
Found at i:91288306 original size:26 final size:26
Alignment explanation
Indices: 91288275--91288382 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
91288265 TGAAATTCCC
*
91288275 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
91288301 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
91288327 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
91288353 ATCATAGAAGATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
91288379 ATCA
1 ATCA
91288383 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:91289913 original size:25 final size:23
Alignment explanation
Indices: 91289846--91289929 Score: 68
Period size: 24 Copynumber: 3.7 Consensus size: 23
91289836 ATTTGTTTTA
*
91289846 ATTATATAATT-AATTATAT-TT
1 ATTATATAATTAAATTATATGAT
* *
91289867 A-AATATAATTTATATTATATGA-
1 ATTATATAA-TTAAATTATATGAT
91289889 ATTTATGATAATTAAATTATAATGAT
1 A-TTAT-ATAATTAAATTAT-ATGAT
*
91289915 ATTATATTATTAAAT
1 ATTATATAATTAAAT
91289930 AAATCAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
20 6 0.12
21 3 0.06
22 8 0.16
24 19 0.39
25 12 0.24
26 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
ATTATATAATTAAATTATATGAT
Found at i:91289917 original size:35 final size:34
Alignment explanation
Indices: 91289846--91289927 Score: 94
Period size: 35 Copynumber: 2.4 Consensus size: 34
91289836 ATTTGTTTTA
* * *
91289846 ATTATATAATTAATTATATTTAAATATAATTTAT
1 ATTATATAATTAATGATAATTAAATATAATTGAT
*
91289880 ATTATATGAATTTATGATAATTAAATTATAA-TGAT
1 ATTATAT-AATTAATGATAATTAAA-TATAATTGAT
*
91289915 ATTATATTATTAA
1 ATTATATAATTAA
91289928 ATAAATCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 11 0.28
35 24 0.60
36 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (34 bp):
ATTATATAATTAATGATAATTAAATATAATTGAT
Found at i:91290238 original size:14 final size:15
Alignment explanation
Indices: 91290190--91290242 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
91290180 AATTAAATAT
* * *
91290190 AAAATAAAGTAAATG
1 AAAAGAAAGAAAAAG
91290205 AAATAGAAAGAAAAAG
1 AAA-AGAAAGAAAAAG
*
91290221 AAAAGAAA-AAAAAT
1 AAAAGAAAGAAAAAG
91290235 AAAAGAAA
1 AAAAGAAA
91290243 CAAAGCTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 13 0.39
15 8 0.24
16 12 0.36
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.09
Consensus pattern (15 bp):
AAAAGAAAGAAAAAG
Found at i:91290254 original size:15 final size:15
Alignment explanation
Indices: 91290209--91290246 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
91290199 TAAATGAAAT
* *
91290209 AGAAAGAAAAAGAAA
1 AGAAACAAAAATAAA
91290224 AGAAA-AAAAATAAA
1 AGAAACAAAAATAAA
91290238 AGAAACAAA
1 AGAAACAAA
91290247 GCTAAAAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (15 bp):
AGAAACAAAAATAAA
Found at i:91290914 original size:45 final size:45
Alignment explanation
Indices: 91290862--91290970 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 45
91290852 CTACTGTTAT
*
91290862 TGTTACCGTTACTGTTACCGATT-TGACACTTTGTGTGTCGAATAC
1 TGTTACCGTTACTGTTACCGATTCAG-CACTTTGTGTGTCGAATAC
* * *
91290907 TTTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATAC
1 TGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATAC
* *
91290952 TGTTACTGTTACTGCTACC
1 TGTTACCGTTACTGTTACC
91290971 ATTACTGATT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (45 bp):
TGTTACCGTTACTGTTACCGATTCAGCACTTTGTGTGTCGAATAC
Found at i:91293311 original size:24 final size:25
Alignment explanation
Indices: 91293248--91293312 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
91293238 AATATTTGAA
91293248 ATATATACATAA-AATAGTAAGAAT
1 ATATATACATAATAATAGTAAGAAT
* *
91293272 ATATATA-ATTAGTAAT-GCTAA-AGT
1 ATATATACA-TAATAATAG-TAAGAAT
91293296 ATATATACATAATAATA
1 ATATATACATAATAATA
91293313 TATATAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
23 1 0.03
24 25 0.76
25 7 0.21
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.34
Consensus pattern (25 bp):
ATATATACATAATAATAGTAAGAAT
Found at i:91293508 original size:24 final size:25
Alignment explanation
Indices: 91293461--91293512 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
91293451 AATAATATGG
91293461 TATTAAGAGTATACATATAAATATAA
1 TATTAAGAGTATA-ATATAAATATAA
* *
91293487 TATTGAGAGTAT-ATATACATATAA
1 TATTAAGAGTATAATATAAATATAA
91293511 TA
1 TA
91293513 AAACGCACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.54
26 11 0.46
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (25 bp):
TATTAAGAGTATAATATAAATATAA
Found at i:91293697 original size:26 final size:26
Alignment explanation
Indices: 91293637--91293699 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
91293627 AAGTGTACGC
*
91293637 ATAGCATT-AAAAATATATACATAAT
1 ATAGCATTAAAAAATACATACATAAT
* *
91293662 ATGGCGTTAAAAAATACATACATAAT
1 ATAGCATTAAAAAATACATACATAAT
*
91293688 ATAGTATTAAAA
1 ATAGCATTAAAA
91293700 TATTTATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
25 6 0.19
26 25 0.81
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.30
Consensus pattern (26 bp):
ATAGCATTAAAAAATACATACATAAT
Found at i:91293767 original size:3 final size:3
Alignment explanation
Indices: 91293743--91293804 Score: 63
Period size: 3 Copynumber: 19.7 Consensus size: 3
91293733 AAGTACCTAT
*
91293743 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA T-AA TAA
*
91293791 TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TA
91293805 GCAAAAATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 1 0.02
3 40 0.80
4 9 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:91293774 original size:16 final size:17
Alignment explanation
Indices: 91293755--91293802 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
91293745 ATAATATTAT
91293755 ATAAAT-ATAATAAATA
1 ATAAATAATAATAAATA
91293771 ATAATAATAATAATAAATA
1 AT-A-AATAATAATAAATA
*
91293790 AT-AATAACAATAA
1 ATAAATAATAATAA
91293803 TAGCAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.43
17 1 0.04
18 3 0.11
19 12 0.43
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAATAATAATAAATA
Found at i:91293777 original size:19 final size:20
Alignment explanation
Indices: 91293755--91293796 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
91293745 ATAATATTAT
91293755 ATAAAT-ATAATAAATAATA
1 ATAAATAATAATAAATAATA
91293774 AT-AATAATAATAAATAATA
1 ATAAATAATAATAAATAATA
91293793 ATAA
1 ATAA
91293797 CAATAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 17 0.81
20 1 0.05
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAATAATAATAAATAATA
Found at i:91293801 original size:19 final size:19
Alignment explanation
Indices: 91293761--91293804 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
91293751 TTATATAAAT
*
91293761 ATAATAAATAATAATAATA
1 ATAATAAATAATAATAACA
91293780 ATAATAAATAATAATAACA
1 ATAATAAATAATAATAACA
91293799 ATAATA
1 ATAATA
91293805 GCAAAAATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAATAAATAATAATAACA
Found at i:91293976 original size:3 final size:3
Alignment explanation
Indices: 91293968--91294082 Score: 92
Period size: 3 Copynumber: 37.3 Consensus size: 3
91293958 AATATTTATA
* *
91293968 AAT AAT AAT AGT AA- ATAT AAT AAT AAT AAT AAT AAT AAT AAT ATT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
91294013 AAGT -AT AGT -AT AAAT AAT ATGT ACAT AAC AGT AAT AAT AAT AAGT
1 AA-T AAT AAT AAT -AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T
*
91294058 AAC AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
91294083 TAGAAATTCA
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
2 3 0.03
3 75 0.84
4 11 0.12
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:91296058 original size:15 final size:15
Alignment explanation
Indices: 91296034--91296065 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
91296024 TATGCATGCA
*
91296034 AAATATAAAAGACAT
1 AAATACAAAAGACAT
91296049 AAATACAAAAGACAT
1 AAATACAAAAGACAT
91296064 AA
1 AA
91296066 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:91296841 original size:22 final size:22
Alignment explanation
Indices: 91296782--91296827 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
91296772 TTAAAATGAA
**
91296782 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAAAAAATTATATTT
91296802 ATTAAAATAAAAAATTATATTT
1 ATTAAAATAAAAAATTATATTT
91296824 ATTA
1 ATTA
91296828 TATTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 2 0.09
22 8 0.36
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAAAATAAAAAATTATATTT
Found at i:91297711 original size:26 final size:26
Alignment explanation
Indices: 91297682--91297791 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
91297672 TGATACAAAT
91297682 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
91297708 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91297734 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
91297760 TGATAATGGTTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91297786 TGATAA
1 TGATAA
91297792 GAATTTCATG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91297767 original size:13 final size:13
Alignment explanation
Indices: 91297751--91297791 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
91297741 GGGTTAGGTA
91297751 AATGTTTCATGAT
1 AATGTTTCATGAT
91297764 AATGGTTT-A-GAT
1 AAT-GTTTCATGAT
91297776 AAATGTTTCATGAT
1 -AATGTTTCATGAT
91297790 AA
1 AA
91297792 GAATTTCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
12 7 0.29
13 10 0.42
14 7 0.29
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (13 bp):
AATGTTTCATGAT
Found at i:91297790 original size:14 final size:14
Alignment explanation
Indices: 91297749--91297791 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
91297739 ATGGGTTAGG
91297749 TAAATGTTTCATGA
1 TAAATGTTTCATGA
91297763 T-AATGGTTT-A-GA
1 TAAAT-GTTTCATGA
91297775 TAAATGTTTCATGA
1 TAAATGTTTCATGA
91297789 TAA
1 TAA
91297792 GAATTTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.28
13 8 0.32
14 10 0.40
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (14 bp):
TAAATGTTTCATGA
Found at i:91299301 original size:26 final size:25
Alignment explanation
Indices: 91299261--91299316 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
91299251 TATGTATGGA
**
91299261 AAATTACTGTTATACCCCTAGGAGAT
1 AAATTACTGAAATACCCCTAGG-GAT
* *
91299287 AAATTACTGAAATACCTCTAGGGTT
1 AAATTACTGAAATACCCCTAGGGAT
91299312 AAATT
1 AAATT
91299317 GACCTAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 7 0.27
26 19 0.73
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (25 bp):
AAATTACTGAAATACCCCTAGGGAT
Found at i:91304737 original size:19 final size:18
Alignment explanation
Indices: 91304686--91304738 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
91304676 TTTTAGAAAA
*
91304686 ATTTTAACATATTTTTAAT
1 ATTTTAA-ATATTTATAAT
* *
91304705 ATTTTTAATAATTTATATTT
1 ATTTTAAAT-ATTTATA-AT
91304725 ATTTTAAATATTTA
1 ATTTTAAATATTTA
91304739 GAATTACTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 17 0.61
20 9 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTAAATATTTATAAT
Found at i:91307597 original size:43 final size:43
Alignment explanation
Indices: 91307549--91307634 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
91307539 TATGCAATTG
91307549 ATATTGAAAT-GACAAATATAAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGA-AAATATAAGAAATGAATATGAGATGAGAAA
* * *
91307592 ATATTGAAATGGAAAATATGATAAATGAATATGAGATGGGAAA
1 ATATTGAAATGGAAAATATAAGAAATGAATATGAGATGAGAAA
91307635 TGAAAAAATG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 37 0.95
44 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.21, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATAAGAAATGAATATGAGATGAGAAA
Found at i:91313797 original size:18 final size:18
Alignment explanation
Indices: 91313774--91313808 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
91313764 TGCTCATTTA
91313774 ATGTTTGAGAACATGTTC
1 ATGTTTGAGAACATGTTC
*
91313792 ATGTTTGTGAACATGTT
1 ATGTTTGAGAACATGTT
91313809 TGTTTAACTT
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:0.26, C:0.09, G:0.23, T:0.43
Consensus pattern (18 bp):
ATGTTTGAGAACATGTTC
Found at i:91321698 original size:126 final size:126
Alignment explanation
Indices: 91321472--91321979 Score: 766
Period size: 126 Copynumber: 4.0 Consensus size: 126
91321462 TTTCTGCAAG
* * * * *
91321472 AATAATTCTGAGCAGACATTTCTGGAA-AAATAGTGTCGGAAAACGTTTCAAGCAGGATACACTG
1 AATAATTCTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTG
* *
91321536 TCAGCAAAATTTCTGGAAAAAACTCCTACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
64 TCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
* * * * *
91321599 AATAATTTTGAGTAGACGTTTCTGAATAAATAGTGCCAAAAACACTTCAAACAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
91321664 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
* * * *
91321725 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTACCGAAAACGCTTCAAGCAGGATGCATTGTT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
* * * *
91321790 AGTAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGTTCGCGGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
* *
91321851 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGTTTCAAGCAAGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
91321916 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGAGGCTCTTTTGCTATAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
91321977 AAT
1 AAT
91321980 GAGGCTATAA
Statistics
Matches: 345, Mismatches: 35, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
126 317 0.92
127 28 0.08
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTGGAAA
Found at i:91329406 original size:18 final size:17
Alignment explanation
Indices: 91329371--91329419 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
91329361 AATGATTAGT
*
91329371 ATTCATTTTATTTTTAAA
1 ATTC-TTTTATTTCTAAA
91329389 ATTCTTTTATTTACTAAA
1 ATTCTTTTATTT-CTAAA
91329407 ATT-TTCTTATTTC
1 ATTCTT-TTATTTC
91329420 ATAATGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 11 0.39
18 17 0.61
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTCTTTTATTTCTAAA
Found at i:91330494 original size:11 final size:11
Alignment explanation
Indices: 91330478--91330511 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 11
91330468 ATATTAACGA
91330478 ATTTAAATATT
1 ATTTAAATATT
91330489 ATTTAAATATATT
1 ATTT-AA-ATATT
91330502 ATTTAAATAT
1 ATTTAAATAT
91330512 ATCTTTACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 8 0.38
12 4 0.19
13 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
ATTTAAATATT
Found at i:91330502 original size:13 final size:13
Alignment explanation
Indices: 91330484--91330513 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
91330474 ACGAATTTAA
91330484 ATATTATTTAAAT
1 ATATTATTTAAAT
91330497 ATATTATTTAAAT
1 ATATTATTTAAAT
91330510 ATAT
1 ATAT
91330514 CTTTACTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATTATTTAAAT
Found at i:91330854 original size:19 final size:20
Alignment explanation
Indices: 91330819--91330866 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
91330809 GTTTTTTACA
91330819 TGTTTTG-TTACTATTATAT
1 TGTTTTGCTTACTATTATAT
* *
91330838 TGTTTTGCTT-CTTTTATGT
1 TGTTTTGCTTACTATTATAT
91330857 TAGTTTTGCT
1 T-GTTTTGCT
91330867 ACAATCTTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.12, C:0.08, G:0.15, T:0.65
Consensus pattern (20 bp):
TGTTTTGCTTACTATTATAT
Found at i:91334021 original size:15 final size:15
Alignment explanation
Indices: 91333981--91334022 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
91333971 ACTGTTGAAA
91333981 TCATCATCATCTTCT
1 TCATCATCATCTTCT
* *
91333996 TCCTCCTCATCTTCT
1 TCATCATCATCTTCT
*
91334011 TCATCAGCATCT
1 TCATCATCATCT
91334023 GAAAACTGAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.38, G:0.02, T:0.43
Consensus pattern (15 bp):
TCATCATCATCTTCT
Found at i:91337142 original size:22 final size:22
Alignment explanation
Indices: 91337114--91337171 Score: 89
Period size: 22 Copynumber: 2.6 Consensus size: 22
91337104 GCAAGTATAT
*
91337114 ATTCAAGACTTATCATGAGCTG
1 ATTCAAGACTTATCATAAGCTG
*
91337136 ATTCAAGACTTACCATAAGCTG
1 ATTCAAGACTTATCATAAGCTG
*
91337158 ATTCAACACTTATC
1 ATTCAAGACTTATC
91337172 CTTGGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (22 bp):
ATTCAAGACTTATCATAAGCTG
Found at i:91338932 original size:13 final size:13
Alignment explanation
Indices: 91338916--91338951 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
91338906 TTAAAAACTA
91338916 AAATTAACTAATT
1 AAATTAACTAATT
91338929 AAATTAACTAATT
1 AAATTAACTAATT
91338942 AAATTAACTA
1 AAATTAACTA
91338952 TAAACACGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTAACTAATT
Found at i:91342546 original size:24 final size:24
Alignment explanation
Indices: 91342519--91342566 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
91342509 TCACAGTAAG
*
91342519 TCAGTTCAATATGTTGTTCTCTAA
1 TCAGTTCAATATGTCGTTCTCTAA
91342543 TCAGTTCAATATGTCGTTCTCTAA
1 TCAGTTCAATATGTCGTTCTCTAA
91342567 CACATACTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (24 bp):
TCAGTTCAATATGTCGTTCTCTAA
Found at i:91346137 original size:48 final size:49
Alignment explanation
Indices: 91346077--91346187 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 49
91346067 GTCATTATAG
* * *
91346077 TTAGCAATTAACATGACCTACTAGTGGCCCAATTTATCCA-CTATCTAA
1 TTAGCAACTAACATGACCTACTAGTAGCCCAATTTATCCACCAATCTAA
* * * **
91346125 TTAGCAACTAACATGCCCTACTTGTAGCCCATTTTATCCACCAATCTTT
1 TTAGCAACTAACATGACCTACTAGTAGCCCAATTTATCCACCAATCTAA
91346174 TTAGCAACTAACAT
1 TTAGCAACTAACAT
91346188 CTACCAGCAG
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
48 35 0.65
49 19 0.35
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.32
Consensus pattern (49 bp):
TTAGCAACTAACATGACCTACTAGTAGCCCAATTTATCCACCAATCTAA
Found at i:91347963 original size:16 final size:17
Alignment explanation
Indices: 91347931--91347963 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
91347921 CGATGTTTTA
91347931 ATATTTGAGTCCCAAAT
1 ATATTTGAGTCCCAAAT
*
91347948 ATATTTG-GTGCCAAAT
1 ATATTTGAGTCCCAAAT
91347964 TCATCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (17 bp):
ATATTTGAGTCCCAAAT
Found at i:91349009 original size:14 final size:15
Alignment explanation
Indices: 91348990--91349019 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
91348980 GTTGGAATCT
91348990 ATATTTT-TTTTTTA
1 ATATTTTCTTTTTTA
91349004 ATATTTTCTTTTTTA
1 ATATTTTCTTTTTTA
91349019 A
1 A
91349020 GTCATAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
ATATTTTCTTTTTTA
Found at i:91352165 original size:19 final size:19
Alignment explanation
Indices: 91352141--91352230 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
91352131 AGTTTAAGGT
*
91352141 ATTAGGGTTAATTAATTAA
1 ATTAGGGTTAATTGATTAA
91352160 ATTAGGG---ATTGATTAA
1 ATTAGGGTTAATTGATTAA
91352176 ATTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTGATTAA
*
91352195 ATTTAGGTTTAATTGATTAA
1 A-TTAGGGTTAATTGATTAA
*
91352215 TTTAGGGTTAATTGAT
1 ATTAGGGTTAATTGAT
91352231 ACATAATCCT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
16 15 0.24
19 31 0.49
20 17 0.27
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (19 bp):
ATTAGGGTTAATTGATTAA
Found at i:91352210 original size:39 final size:35
Alignment explanation
Indices: 91352141--91352230 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 35
91352131 AGTTTAAGGT
* *
91352141 ATTAGGGTTAATTAATTAAATTAGGGATTGATTAA
1 ATTAGGGTTAATTGATTAAATTAGGAATTGATTAA
91352176 ATTAGGGTTAATTGATTAAATTTAGGTTTAATTGATTAA
1 ATTAGGGTTAATTGATTAAA-TTAGG---AATTGATTAA
*
91352215 TTTAGGGTTAATTGAT
1 ATTAGGGTTAATTGAT
91352231 ACATAATCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 19 0.40
36 5 0.10
39 24 0.50
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
ATTAGGGTTAATTGATTAAATTAGGAATTGATTAA
Found at i:91352758 original size:7 final size:7
Alignment explanation
Indices: 91352743--91352772 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
91352733 TGTTTTTGTC
91352743 TTAGGGT
1 TTAGGGT
*
91352750 TTAGAGT
1 TTAGGGT
91352757 TTAGGGT
1 TTAGGGT
91352764 TTAGGGT
1 TTAGGGT
91352771 TT
1 TT
91352773 CTGTAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTAGGGT
Found at i:91353009 original size:125 final size:126
Alignment explanation
Indices: 91352780--91353159 Score: 564
Period size: 125 Copynumber: 3.0 Consensus size: 126
91352770 TTTCTGTAAG
* * * *
91352780 AATAATTTTGAGTAGACGTTTCTAAACAAATAGAGTCGAAAACGCTTTAAGCAGGATGTACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTGTC
*
91352845 AGCAAAATTTCTGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCAAGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
91352906 TATAATTCTGAGTAGACGTTTCTGAACAAAT-GTGTCAAAAACGCTTCAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTGTC
* * **
91352970 AGTAAAATTTCTGAAAAAAGCTCCCAAGTGGACGTTCTTTTGCTACAGTAGTTAATAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCAAGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * * *
91353031 AATAATTCTGAGTAGATGTTTTTGAACAAATAGTGTTGAAAATGCTTTAAGTAGGATGCGCTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTGTC
* *
91353096 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTACGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCAAGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
91353157 AAT
1 AAT
91353160 GAGGCTATAA
Statistics
Matches: 224, Mismatches: 29, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
125 112 0.50
126 112 0.50
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCAAGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:91356623 original size:18 final size:18
Alignment explanation
Indices: 91356600--91356637 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
91356590 GGAAAAGAAA
*
91356600 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
91356618 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
91356636 AC
1 AC
91356638 GCACCTAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:91357231 original size:7 final size:7
Alignment explanation
Indices: 91357219--91357243 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
91357209 TATTACTTAT
91357219 ATACATA
1 ATACATA
91357226 ATACATA
1 ATACATA
91357233 ATACATA
1 ATACATA
91357240 ATAC
1 ATAC
91357244 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:91357249 original size:7 final size:7
Alignment explanation
Indices: 91357239--91357278 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
91357229 CATAATACAT
91357239 AATACTA
1 AATACTA
91357246 AATACTA
1 AATACTA
91357253 AATACTA
1 AATACTA
91357260 AATACTA
1 AATACTA
91357267 AATACTA
1 AATACTA
91357274 AATAC
1 AATAC
91357279 GAAACGACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:91358305 original size:48 final size:46
Alignment explanation
Indices: 91358251--91358385 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 46
91358241 ATGCAAACAT
* * *
91358251 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAA-TTG
1 CATAAATGAAAAAAATATCAA-TAGTATTGAAA-TTTAATTA-AATTTA
*
91358299 CATAAATGAATAAAATATCAAATAGTATTGCAAATTTAATTAAATTTA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAATTAAATTTA
*
91358347 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AATAGTATTG-AAATTTAA
91358386 AATTATCACT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 69 0.91
49 5 0.07
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (46 bp):
CATAAATGAAAAAAATATCAATAGTATTGAAATTTAATTAAATTTA
Found at i:91360260 original size:40 final size:39
Alignment explanation
Indices: 91360095--91360278 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
91360085 AAATTGAATG
* * *
91360095 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
91360135 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
91360175 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
91360215 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
91360254 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
91360279 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:91360303 original size:80 final size:81
Alignment explanation
Indices: 91360135--91360323 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
91360125 GCTGGAAATT
* * * *
91360135 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
91360200 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
91360216 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
91360279 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
91360295 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
91360324 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:91364457 original size:33 final size:33
Alignment explanation
Indices: 91364397--91364513 Score: 96
Period size: 33 Copynumber: 3.5 Consensus size: 33
91364387 CACTACCACA
* * * * *
91364397 TCAGTACTCCAGTCATCTTGGCTCGTATCCATC
1 TCAGTACTCCACTCCTCCTGGCCCGTATCAATC
* *
91364430 TCAGTACTCCACTCTTTCC-GGCCCGTATCTA-C
1 TCAGTACTCCACTC-CTCCTGGCCCGTATCAATC
91364462 TACCA-TACTCCACTCCTCCTGGCCCGTATCAATC
1 T--CAGTACTCCACTCCTCCTGGCCCGTATCAATC
* * *
91364496 GCCGTACTCTACTCCTCC
1 TCAGTACTCCACTCCTCC
91364514 CTGCTCAAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
32 6 0.09
33 57 0.84
34 5 0.07
ACGTcount: A:0.17, C:0.41, G:0.12, T:0.30
Consensus pattern (33 bp):
TCAGTACTCCACTCCTCCTGGCCCGTATCAATC
Found at i:91367890 original size:24 final size:23
Alignment explanation
Indices: 91367858--91367902 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
91367848 TTCCGTTCAA
91367858 CTAAATTTTGTGTATGCTGCTCTG
1 CTAAATTTTGTGTATG-TGCTCTG
91367882 CTAAATTTTGTGTATGTGCTC
1 CTAAATTTTGTGTATGTGCTC
91367903 ATTTGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.47
Consensus pattern (23 bp):
CTAAATTTTGTGTATGTGCTCTG
Found at i:91370773 original size:21 final size:21
Alignment explanation
Indices: 91370732--91370774 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
91370722 TTAATCTCTA
* *
91370732 AATTTTTATTTTTAGATATTT
1 AATTTTTATTTTTAAAAATTT
91370753 AATTTTT-TTATTTAAAAATTT
1 AATTTTTATT-TTTAAAAATTT
91370774 A
1 A
91370775 GATCCATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AATTTTTATTTTTAAAAATTT
Found at i:91371053 original size:78 final size:77
Alignment explanation
Indices: 91370956--91371115 Score: 284
Period size: 78 Copynumber: 2.1 Consensus size: 77
91370946 AGAATAAAAT
*
91370956 ATTTAGACAACTAATGATATTATAAAAATTGAGGCATCAAATTATGTTAAAATTAAATTATATAA
1 ATTTAGACAACTAATGATATTATAAAAATTGAGGCATCAAATTATGTCAAAATTAAATTATATAA
91371021 ATTAAATCTTAA
66 ATTAAATCTTAA
* *
91371033 ATTTAGACTAACTAATGATATTATAAAGATTGAGGTATCAAATTATGTCAAAATTAAATTATATA
1 ATTTAGAC-AACTAATGATATTATAAAAATTGAGGCATCAAATTATGTCAAAATTAAATTATATA
91371098 AATTAAATCTTAA
65 AATTAAATCTTAA
91371111 ATTTA
1 ATTTA
91371116 AGCAAATATA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 8 0.10
78 71 0.90
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (77 bp):
ATTTAGACAACTAATGATATTATAAAAATTGAGGCATCAAATTATGTCAAAATTAAATTATATAA
ATTAAATCTTAA
Found at i:91371094 original size:38 final size:37
Alignment explanation
Indices: 91370974--91371101 Score: 89
Period size: 38 Copynumber: 3.3 Consensus size: 37
91370964 AACTAATGAT
* *
91370974 ATTATAAAAATTGAGGCATCAAATTATGTTAAAATTAA
1 ATTAT-AAAATTGAGGTATCAAATTATGTCAAAATTAA
** * * * * *
91371012 ATTATATAAATT-AAATCTTAAATT-TAGACTAACTAATGAT
1 ATTATA-AAATTGAGGTATCAAATTAT-GTC-AA--AATTAA
91371052 ATTATAAAGATTGAGGTATCAAATTATGTCAAAATTAA
1 ATTATAAA-ATTGAGGTATCAAATTATGTCAAAATTAA
91371090 ATTATATAAATT
1 ATTATA-AAATT
91371102 AAATCTTAAA
Statistics
Matches: 65, Mismatches: 16, Indels: 18
0.66 0.16 0.18
Matches are distributed among these distances:
36 1 0.02
37 9 0.14
38 25 0.38
39 4 0.06
40 15 0.23
41 10 0.15
42 1 0.02
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (37 bp):
ATTATAAAATTGAGGTATCAAATTATGTCAAAATTAA
Found at i:91375164 original size:2 final size:2
Alignment explanation
Indices: 91375157--91375181 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
91375147 ACATACATGA
91375157 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
91375182 AAACTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91375912 original size:39 final size:40
Alignment explanation
Indices: 91375828--91375912 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
91375818 ACTTAATTCA
* * * *
91375828 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATATAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
91375868 CCAGCATGAAGCCAGCGGGTCTCT-AACCTGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
91375907 TCAGCA
1 CCAGCA
91375913 CAATTCATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 18 0.47
40 20 0.53
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.20
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:91376082 original size:47 final size:46
Alignment explanation
Indices: 91375983--91376138 Score: 174
Period size: 47 Copynumber: 3.3 Consensus size: 46
91375973 TGCACACTTT
* * *
91375983 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** *
91376029 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
* *
91376076 TCACATTGGCCATTCGGTCTTATCACA-TATACACCCTTTCAAATTCA
1 TCACATTGGCCATTCGGCCTTATCACATTATACA--CTTTCACATTCA
91376123 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
91376139 ATCTTAAGCT
Statistics
Matches: 95, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
45 25 0.26
46 5 0.05
47 65 0.68
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:91380187 original size:40 final size:40
Alignment explanation
Indices: 91379835--91380189 Score: 541
Period size: 40 Copynumber: 8.9 Consensus size: 40
91379825 GAATACACAT
* * *
91379835 CACCAGCATGAATGCTCTTCGGGACCTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
91379875 CACCAGCACGAATGCTCTTCGAGACTTAACCC-TATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
91379914 CTCCAGCACGAATGCTCTTCGAGACTTAGCTCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
91379954 AACCAGCACGAATGCTCTTTGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
91379994 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
91380034 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
91380074 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
91380114 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
91380154 CTCCAGCACGAATGCTCTTTGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
91380190 CATCGGCGAG
Statistics
Matches: 290, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 35 0.12
40 255 0.88
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:91382073 original size:2 final size:2
Alignment explanation
Indices: 91382066--91382094 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
91382056 ACATACATGA
91382066 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
91382095 AAACTTAATT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91382825 original size:39 final size:40
Alignment explanation
Indices: 91382741--91382825 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
91382731 ACTTAATTCA
* * *
91382741 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
91382781 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
91382820 TCAGCA
1 CCAGCA
91382826 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:91383002 original size:47 final size:45
Alignment explanation
Indices: 91382896--91383004 Score: 121
Period size: 47 Copynumber: 2.4 Consensus size: 45
91382886 TGCACACTTT
* * *
91382896 TCACAATTGGTCATTCGGCCTTATCACATATTCACTTACATATATA
1 TCAC-ATTGGCCATTCGGCCTTATCACATATGCACTTACACATATA
** *
91382942 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACAT-TCA
1 TCACATTGGCCATTCGGCCTTATCACA--TATGCACTTACACATAT-A
91382989 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
91383005 ATCTTAAGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
45 20 0.38
46 5 0.10
47 27 0.52
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (45 bp):
TCACATTGGCCATTCGGCCTTATCACATATGCACTTACACATATA
Found at i:91386158 original size:27 final size:27
Alignment explanation
Indices: 91386127--91386213 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
91386117 TTTTACCCTA
* *
91386127 TGTTTAATCTCCCTGCGGACTACCTCG
1 TGTTTAATGTCCCTGTGGACTACCTCG
* * *
91386154 TGTTTATTGTCCCAGTAGACTACCTCG
1 TGTTTAATGTCCCTGTGGACTACCTCG
* *
91386181 TATTTACTGT-CCTGATGGACTACCTCG
1 TGTTTAATGTCCCTG-TGGACTACCTCG
91386208 TGTTTA
1 TGTTTA
91386214 CTATCCTGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
26 3 0.06
27 46 0.94
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.38
Consensus pattern (27 bp):
TGTTTAATGTCCCTGTGGACTACCTCG
Found at i:91386214 original size:27 final size:27
Alignment explanation
Indices: 91386143--91386223 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
91386133 ATCTCCCTGC
* *
91386143 GGACTACCTCGTGTTTATTGTCC-CAGT
1 GGACTACCTCGTGTTTACTGTCCTGA-T
* *
91386170 AGACTACCTCGTATTTACTGTCCTGAT
1 GGACTACCTCGTGTTTACTGTCCTGAT
*
91386197 GGACTACCTCGTGTTTACTATCCTGAT
1 GGACTACCTCGTGTTTACTGTCCTGAT
91386224 AGGCTATATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (27 bp):
GGACTACCTCGTGTTTACTGTCCTGAT
Found at i:91408059 original size:2 final size:2
Alignment explanation
Indices: 91408054--91408080 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
91408044 ACACACATAC
91408054 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
91408081 GGGAGAGGTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:91412514 original size:27 final size:27
Alignment explanation
Indices: 91412484--91412541 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
91412474 AAAATTAGGG
* *
91412484 TTTAGGATTTGTTGCAAACTCTCGTGT
1 TTTAGGATTTGTTACAAACTCTCATGT
*
91412511 TTTAGGATTTGTTACGAACTCTCATGT
1 TTTAGGATTTGTTACAAACTCTCATGT
91412538 TTTA
1 TTTA
91412542 CTTTCAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.19, T:0.47
Consensus pattern (27 bp):
TTTAGGATTTGTTACAAACTCTCATGT
Found at i:91412579 original size:19 final size:19
Alignment explanation
Indices: 91412555--91412625 Score: 106
Period size: 19 Copynumber: 3.6 Consensus size: 19
91412545 TCAGCTCTCA
*
91412555 CGAGCTTCTGTTTAGCTTT
1 CGAGCTTCTGTTCAGCTTT
*
91412574 CGAGCTTCTGTTCAGCTCTCA
1 CGAGCTTCTGTTCAGCT-T-T
91412595 CGAGCTTCTGTTCAGCTTT
1 CGAGCTTCTGTTCAGCTTT
91412614 CGAGCTTCTGTT
1 CGAGCTTCTGTT
91412626 GGCTTAATCA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
19 28 0.60
20 2 0.04
21 17 0.36
ACGTcount: A:0.11, C:0.27, G:0.21, T:0.41
Consensus pattern (19 bp):
CGAGCTTCTGTTCAGCTTT
Found at i:91412599 original size:40 final size:40
Alignment explanation
Indices: 91412544--91412625 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
91412534 ATGTTTTACT
*
91412544 TTCAGCTCTCACGAGCTTCTGTTTAGCTTTCGAGCTTCTG
1 TTCAGCTCTCACGAGCTTCTGTTCAGCTTTCGAGCTTCTG
91412584 TTCAGCTCTCACGAGCTTCTGTTCAGCTTTCGAGCTTCTG
1 TTCAGCTCTCACGAGCTTCTGTTCAGCTTTCGAGCTTCTG
91412624 TT
1 TT
91412626 GGCTTAATCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (40 bp):
TTCAGCTCTCACGAGCTTCTGTTCAGCTTTCGAGCTTCTG
Found at i:91412600 original size:21 final size:19
Alignment explanation
Indices: 91412544--91412625 Score: 101
Period size: 19 Copynumber: 4.1 Consensus size: 19
91412534 ATGTTTTACT
91412544 TTCAGCTCTCACGAGCTTCTG
1 TTCAGCT-T-ACGAGCTTCTG
* *
91412565 TTTAGCTTTCGAGCTTCTG
1 TTCAGCTTACGAGCTTCTG
91412584 TTCAGCTCTCACGAGCTTCTG
1 TTCAGCT-T-ACGAGCTTCTG
*
91412605 TTCAGCTTTCGAGCTTCTG
1 TTCAGCTTACGAGCTTCTG
91412624 TT
1 TT
91412626 GGCTTAATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
19 28 0.52
20 3 0.06
21 23 0.43
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (19 bp):
TTCAGCTTACGAGCTTCTG
Found at i:91412825 original size:21 final size:21
Alignment explanation
Indices: 91412799--91412847 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
91412789 AATAGAAGTT
*
91412799 GTGAATGACAGTAAATTGACA
1 GTGAATGACAGGAAATTGACA
*
91412820 GTGAATGACAGGGAATTGACA
1 GTGAATGACAGGAAATTGACA
91412841 -TGAATGA
1 GTGAATGA
91412848 TTTTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (21 bp):
GTGAATGACAGGAAATTGACA
Found at i:91412830 original size:10 final size:10
Alignment explanation
Indices: 91412799--91412847 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
91412789 AATAGAAGTT
91412799 GTGAATGACA
1 GTGAATGACA
*
91412809 GTAAATTGACA
1 GTGAA-TGACA
91412820 GTGAATGACA
1 GTGAATGACA
*
91412830 GGGAATTGACA
1 GTGAA-TGACA
91412841 -TGAATGA
1 GTGAATGA
91412848 TTTTATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
9 3 0.09
10 16 0.48
11 14 0.42
ACGTcount: A:0.41, C:0.08, G:0.29, T:0.22
Consensus pattern (10 bp):
GTGAATGACA
Found at i:91418608 original size:78 final size:78
Alignment explanation
Indices: 91418456--91418601 Score: 292
Period size: 78 Copynumber: 1.9 Consensus size: 78
91418446 AGTCTTCCGA
91418456 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
1 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
91418521 TGGCCTGCACCGC
66 TGGCCTGCACCGC
91418534 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
1 TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
91418599 TGG
66 TGG
91418602 GTTGCACAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (78 bp):
TTGTTGAGGTTGCTCCTCCAGGTCTGACTCTTTGGACTGTACCAGGGTTGAGTCCTTATTTTCTT
TGGCCTGCACCGC
Found at i:91419533 original size:23 final size:23
Alignment explanation
Indices: 91419505--91419553 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
91419495 CCAAATGTAT
91419505 AAATTATTAAGATATACATATAA
1 AAATTATTAAGATATACATATAA
91419528 AAATTATTAAGATATACATATAA
1 AAATTATTAAGATATACATATAA
91419551 AAA
1 AAA
91419554 GACTTCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAATTATTAAGATATACATATAA
Found at i:91419806 original size:7 final size:7
Alignment explanation
Indices: 91419794--91419824 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
91419784 ATTATTTATT
91419794 TTTCTAA
1 TTTCTAA
91419801 TTTCTAA
1 TTTCTAA
91419808 TTTCTAA
1 TTTCTAA
91419815 TTTCTAA
1 TTTCTAA
91419822 TTT
1 TTT
91419825 AAATTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (7 bp):
TTTCTAA
Found at i:91425369 original size:55 final size:55
Alignment explanation
Indices: 91425284--91425416 Score: 187
Period size: 55 Copynumber: 2.4 Consensus size: 55
91425274 GCACTTAAAA
* * * *
91425284 TTTT-AAGTCAATGTTGTACACGGGCAGGCCACACGGGCGTGTACGATAGCCGTG
1 TTTTAAAGTCAGTGTTGTACACGGGCAGGCCACACAGGCGTGTACCATAGCCATG
* * *
91425338 TTTTAAAGTCAGTGTTGTACACGGGCCGGCCACACAGGCGTGTGCCATGGCCATG
1 TTTTAAAGTCAGTGTTGTACACGGGCAGGCCACACAGGCGTGTACCATAGCCATG
*
91425393 TTTTAAAGTCAGTGTTATACACGG
1 TTTTAAAGTCAGTGTTGTACACGG
91425417 ACTAAGGGCA
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 4 0.06
55 66 0.94
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACACGGGCAGGCCACACAGGCGTGTACCATAGCCATG
Found at i:91436754 original size:15 final size:16
Alignment explanation
Indices: 91436726--91436767 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
91436716 ATTATGGAAG
* *
91436726 GAAAATAAAGAAATGA
1 GAAAAAAAAAAAATGA
91436742 -AAAAAAAAAAAATGA
1 GAAAAAAAAAAAATGA
91436757 TGAAAAAAAAA
1 -GAAAAAAAAA
91436768 GAGTGTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
GAAAAAAAAAAAATGA
Done.