Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 48 of 74
Found at i:9798618 original size:31 final size:31
Alignment explanation
Indices: 9798550--9798619 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
9798540 TCAGTGAAGG
** *
9798550 TTATTTTACGGAATAGCTATTCATAGAACAA
1 TTATTTTACAAAATAGCTATTCACAGAACAA
** * *
9798581 CCATTTTACAAAATAGTTATTTACAGAACAA
1 TTATTTTACAAAATAGCTATTCACAGAACAA
9798612 TTATTTTA
1 TTATTTTA
9798620 AGGAACAACT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.39
Consensus pattern (31 bp):
TTATTTTACAAAATAGCTATTCACAGAACAA
Found at i:9801047 original size:5 final size:5
Alignment explanation
Indices: 9801033--9801071 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
9801023 TTTTAAAAAA
* *
9801033 CTTTC TTTTC CTTTC CTTTC CTTTC CTTTC TTTTC CTTT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CTTT
9801072 ATTAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (5 bp):
CTTTC
Found at i:9803488 original size:123 final size:123
Alignment explanation
Indices: 9803269--9803515 Score: 494
Period size: 123 Copynumber: 2.0 Consensus size: 123
9803259 AATCCTTAGG
9803269 TCAAATGCACAAATAAGTGTGAAATGCACAAGCTGCTACTTTGGGTAATATGTGGCATTTGTAGT
1 TCAAATGCACAAATAAGTGTGAAATGCACAAGCTGCTACTTTGGGTAATATGTGGCATTTGTAGT
9803334 TGAATAGAGCTAACAGATAAACAAATTATTTAGATGATATGGCATAAGATTTGAGACT
66 TGAATAGAGCTAACAGATAAACAAATTATTTAGATGATATGGCATAAGATTTGAGACT
9803392 TCAAATGCACAAATAAGTGTGAAATGCACAAGCTGCTACTTTGGGTAATATGTGGCATTTGTAGT
1 TCAAATGCACAAATAAGTGTGAAATGCACAAGCTGCTACTTTGGGTAATATGTGGCATTTGTAGT
9803457 TGAATAGAGCTAACAGATAAACAAATTATTTAGATGATATGGCATAAGATTTGAGACT
66 TGAATAGAGCTAACAGATAAACAAATTATTTAGATGATATGGCATAAGATTTGAGACT
9803515 T
1 T
9803516 ACTTACAACT
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.30
Consensus pattern (123 bp):
TCAAATGCACAAATAAGTGTGAAATGCACAAGCTGCTACTTTGGGTAATATGTGGCATTTGTAGT
TGAATAGAGCTAACAGATAAACAAATTATTTAGATGATATGGCATAAGATTTGAGACT
Found at i:9807889 original size:2 final size:2
Alignment explanation
Indices: 9807884--9807908 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9807874 AACAAAAAAA
9807884 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
9807909 AAATAAAAAT
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:9808080 original size:22 final size:23
Alignment explanation
Indices: 9808029--9808082 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
9808019 ATTAAAAGCT
9808029 CTATTTATAATAAATAAATATAA
1 CTATTTATAATAAATAAATATAA
* * * *
9808052 ATTTTTAT-TTAAATAATTATAA
1 CTATTTATAATAAATAAATATAA
9808074 CTATTTATA
1 CTATTTATA
9808083 TAAGTATGAT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
CTATTTATAATAAATAAATATAA
Found at i:9808388 original size:6 final size:6
Alignment explanation
Indices: 9808377--9808433 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
9808367 ATATTATATT
* * * *
9808377 ATGGAG ATGGAG ATGGGG ATAGAG ATAGG-G ATGGAG ATGTAG ATGTAG
1 ATGGAG ATGGAG ATGGAG ATGGAG AT-GGAG ATGGAG ATGGAG ATGGAG
*
9808425 ATGTAG ATG
1 ATGGAG ATG
9808434 TTTAAGATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
5 2 0.05
6 41 0.93
7 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (6 bp):
ATGGAG
Found at i:9808618 original size:26 final size:27
Alignment explanation
Indices: 9808562--9808626 Score: 62
Period size: 26 Copynumber: 2.4 Consensus size: 27
9808552 ATTAATTAGA
*
9808562 ATTAATATATTTTTATTGAAAAAAATAT
1 ATTAA-ATATATTTATTGAAAAAAATAT
* *
9808590 ATTAACATATATTTA-T-AAAAAATTTT
1 ATTAA-ATATATTTATTGAAAAAAATAT
9808616 ATTTAAATATA
1 A-TTAAATATA
9808627 CAAGATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 14 0.44
27 5 0.16
28 13 0.41
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTAAATATATTTATTGAAAAAAATAT
Found at i:9811436 original size:21 final size:22
Alignment explanation
Indices: 9811410--9811450 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9811400 TATTTTTGTT
* *
9811410 CAAATATAA-TTATTCAAAATA
1 CAAATAAAATTTATACAAAATA
9811431 CAAATAAAATTTATACAAAA
1 CAAATAAAATTTATACAAAA
9811451 ATTAAGTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (22 bp):
CAAATAAAATTTATACAAAATA
Found at i:9812537 original size:4 final size:4
Alignment explanation
Indices: 9812528--9812561 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
9812518 AGAAAATTAT
*
9812528 AATA AATA AATA AATA AATA AATA AAAA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
9812562 AAAACAACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:9812565 original size:9 final size:8
Alignment explanation
Indices: 9812531--9812565 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
9812521 AAATTATAAT
*
9812531 AAATAAAT
1 AAATAAAA
*
9812539 AAATAAAT
1 AAATAAAA
9812547 AAATAAAA
1 AAATAAAA
9812555 AAATAAAA
1 AAATAAAA
9812563 AAA
1 AAA
9812566 CAACAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:9814403 original size:198 final size:197
Alignment explanation
Indices: 9814033--9814430 Score: 494
Period size: 198 Copynumber: 2.0 Consensus size: 197
9814023 GTCATTAAAG
* * * * *
9814033 ATGACAAATTTTCTTTGTTTAGAAAATCTCCTCAAAGGCATTCATCTTCATTTTTTTTCAATTTA
1 ATGACAAATTTTCTTTGCTGAGAAAATCTCCTCAAAGGCATTCAACTTCATTTTTCTTCAACTTA
* * **** **
9814098 AGGTACATTAATAAGAGCAAGATCAATAGGTGAAAGTTTTGTATCCTTGTGCCTTGGATCTTTCT
66 AAGTACATCAATAAGAGCAAGATCAATAGGTGAAAGTTTTGTATCAAAATGCCCCGGATCTTTCT
* *
9814163 CATTAGCCACTAGCAAAATACTGTACTGCGTTGTAAGCAAATGAATAAAAATGTGTCTAATAGGT
131 CACTAGCCACTAGCAAAATACTGCACTGCGTTGTAAGCAAATGAATAAAAATGTGTCTAATAGGT
9814228 CTA
196 -TA
* *
9814231 ATGACAAATTTTTTTTGACTGA-AAAATCTCCTCAAAGGCATTTCAACTTCA-TTTTCTTGAACT
1 ATGACAAATTTTCTTTG-CTGAGAAAATCTCCTCAAAGGCA-TTCAACTTCATTTTTCTTCAACT
* *
9814294 TAAAGTACATCAATAAGAGCAGGATCAATAGGTGAAAGTTTTGTGTCAAAATGCCCCGGATCTTT
64 TAAAGTACATCAATAAGAGCAAGATCAATAGGTGAAAGTTTTGTATCAAAATGCCCCGGATCTTT
* * * * ** * ** *
9814359 CTCGCTAGCCATTAGTAAAATATTGCACTTTGTTGTAGGCAAATGAATGGAGATGTGTCTAATAG
129 CTCACTAGCCACTAGCAAAATACTGCACTGCGTTGTAAGCAAATGAATAAAAATGTGTCTAATAG
9814424 GTTA
194 GTTA
9814428 ATG
1 ATG
9814431 TCGTTAACAA
Statistics
Matches: 169, Mismatches: 29, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
197 5 0.03
198 153 0.91
199 11 0.07
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (197 bp):
ATGACAAATTTTCTTTGCTGAGAAAATCTCCTCAAAGGCATTCAACTTCATTTTTCTTCAACTTA
AAGTACATCAATAAGAGCAAGATCAATAGGTGAAAGTTTTGTATCAAAATGCCCCGGATCTTTCT
CACTAGCCACTAGCAAAATACTGCACTGCGTTGTAAGCAAATGAATAAAAATGTGTCTAATAGGT
TA
Found at i:9819408 original size:16 final size:16
Alignment explanation
Indices: 9819376--9819430 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
9819366 GTTTTTGTTA
*
9819376 TTTTTTACTTTGA--T
1 TTTTTTATTTTGATTT
*
9819390 TTTTTT-GTTTGATTT
1 TTTTTTATTTTGATTT
*
9819405 TTTTTTATTTTGCTTT
1 TTTTTTATTTTGATTT
9819421 TTTATTTATT
1 TTT-TTTATT
9819431 ATTTTAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 7 0.21
16 10 0.29
17 6 0.18
ACGTcount: A:0.11, C:0.04, G:0.07, T:0.78
Consensus pattern (16 bp):
TTTTTTATTTTGATTT
Found at i:9819409 original size:14 final size:13
Alignment explanation
Indices: 9819367--9819408 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
9819357 ATTTCCTTTG
9819367 TTTTTG-TT-ATT
1 TTTTTGTTTGATT
**
9819378 TTTTACTTTGATT
1 TTTTTGTTTGATT
9819391 TTTTTGTTTGATT
1 TTTTTGTTTGATT
9819404 TTTTT
1 TTTTT
9819409 TTATTTTGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 4 0.16
12 2 0.08
13 19 0.76
ACGTcount: A:0.10, C:0.02, G:0.10, T:0.79
Consensus pattern (13 bp):
TTTTTGTTTGATT
Found at i:9819435 original size:28 final size:29
Alignment explanation
Indices: 9819376--9819435 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
9819366 GTTTTTGTTA
* *
9819376 TTTTTTACTTTGATTTTTTTGTTTGATTT
1 TTTTTTACTTTGACTTTTTTATTTGATTT
* *
9819405 TTTTTTATTTTG-CTTTTTTATTT-ATTA
1 TTTTTTACTTTGACTTTTTTATTTGATTT
9819432 TTTT
1 TTTT
9819436 AAATGGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 7 0.26
28 9 0.33
29 11 0.41
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (29 bp):
TTTTTTACTTTGACTTTTTTATTTGATTT
Found at i:9822429 original size:18 final size:17
Alignment explanation
Indices: 9822406--9822451 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
9822396 GTGGCCATGA
9822406 TCAAAGTTTTAAGAAATG
1 TCAAAGTTTTAA-AAATG
**
9822424 TCAAAG-TTTAAACTTG
1 TCAAAGTTTTAAAAATG
9822440 TCAAAGTTTTAA
1 TCAAAGTTTTAA
9822452 TCAAATCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 9 0.36
17 10 0.40
18 6 0.24
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (17 bp):
TCAAAGTTTTAAAAATG
Found at i:9824731 original size:22 final size:22
Alignment explanation
Indices: 9824697--9824758 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
9824687 TGAATATAGT
**
9824697 ACTTATATAATATGTACATAAC
1 ACTTATAGGATATGTACATAAC
* * * **
9824719 ACTTTTGGGATATATACATAGT
1 ACTTATAGGATATGTACATAAC
9824741 ACTTATAGGATATGTACA
1 ACTTATAGGATATGTACA
9824759 ACTAGCTATA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (22 bp):
ACTTATAGGATATGTACATAAC
Found at i:9824987 original size:22 final size:23
Alignment explanation
Indices: 9824962--9825028 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
9824952 TACATAGTGC
*
9824962 TTATAGGATATGTATGTCGTA-T
1 TTATAGGATATGTATGTAGTACT
* *
9824984 TTATATGATATGTGTGTAGTACT
1 TTATAGGATATGTATGTAGTACT
*
9825007 TT-TAGGATATGTATATAGTACT
1 TTATAGGATATGTATGTAGTACT
9825029 ATAAGATACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 35 0.92
23 3 0.08
ACGTcount: A:0.28, C:0.04, G:0.21, T:0.46
Consensus pattern (23 bp):
TTATAGGATATGTATGTAGTACT
Found at i:9825248 original size:22 final size:22
Alignment explanation
Indices: 9825220--9825310 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
9825210 ATATATATTA
9825220 CTTATAAGATATGTACATAATG
1 CTTATAAGATATGTACATAATG
* * *
9825242 CTTATAAGTTAAGTACATAGTG
1 CTTATAAGATATGTACATAATG
* * *
9825264 C-TATTAGGATATGTATATAATA
1 CTTA-TAAGATATGTACATAATG
* * *
9825286 TTTATATGATATGTACACAATG
1 CTTATAAGATATGTACATAATG
9825308 CTT
1 CTT
9825311 TGGGGATATG
Statistics
Matches: 52, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
21 2 0.04
22 48 0.92
23 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (22 bp):
CTTATAAGATATGTACATAATG
Found at i:9825299 original size:281 final size:281
Alignment explanation
Indices: 9824706--9825300 Score: 629
Period size: 281 Copynumber: 2.1 Consensus size: 281
9824696 TACTTATATA
* * * * * * ** *
9824706 ATATGTACATAACACTTTTGGGATATATACATAGTACTTATAGGATATGTACAACTAGCTATAAA
1 ATATGTATATAATACTTTTAGGATATGTATATAGTAC-TATAAGATACATACATCT---TATAAA
* * * * * * * * *
9824771 TATATTTACATCTCATCATATTGTCAAATTCTTAGTTGATGAAATTTTATATTTAGGGTTATTTG
62 TATATGTACATCTAATCATAATGTCAAAATCTTAATTAATGAAATTCTATATTTAGAGTTAATTG
* * *
9824836 GTTGTTATTAATATAAATTTTAATTTAGGGTTTTAGAGCTAATAAAAGGTTGGTACTGATTGTTT
127 GTTATTATTAATATAAATTTTAATTTAGGGTTTTAGAGCTAATAAAAGGTAGGTACTGATTCTTT
* * ** * * * *
9824901 ATAGGGTAGAGGAATTCATTTAGGGTATGTACATATTATTTATATGATGCATACATAGTGCTTAT
192 ATAAGGTAGAAGAATTCATTTAGGGTAAATACATATTACTTATAAGATACATACATAATGCTTAT
* * ** * * *
9824966 AGGATATGTATGTCGTATTTATATG
257 AAGATAAGTACATAGTATATATAGG
* * * *
9824991 ATATGTGTGTAGTACTTTTAGGATATGTATATAGTACTATAAGATACATACATCTTATAAGTATA
1 ATATGTATATAATACTTTTAGGATATGTATATAGTACTATAAGATACATACATCTTATAAATATA
*
9825056 TGTACATCTAATCATAATGTCAAAATCTTAATTAATGAAGTTCTATATTTAGAGTTAATTGGTTA
66 TGTACATCTAATCATAATGTCAAAATCTTAATTAATGAAATTCTATATTTAGAGTTAATTGGTTA
* * * * *
9825121 TTATTATTATAAATTTTAATTTAGGGTTTTGGAGCTAATAAAATGTAGGTATTTATTCTTTATAA
131 TTATTAATATAAATTTTAATTTAGGGTTTTAGAGCTAATAAAAGGTAGGTACTGATTCTTTATAA
* * **
9825186 GG-AGAAAGAATTCATTTGGGGTAAATATATATTACTTATAAGATATGTACATAATGCTTATAAG
196 GGTAG-AAGAATTCATTTAGGGTAAATACATATTACTTATAAGATACATACATAATGCTTATAAG
* *
9825250 TTAAGTACATAGTGCTAT-TAGG
260 ATAAGTACATAGT-ATATATAGG
*
9825272 ATATGTATATAATA-TTTATATGATATGTA
1 ATATGTATATAATACTTT-TAGGATATGTA
9825301 CACAATGCTT
Statistics
Matches: 251, Mismatches: 56, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
280 5 0.02
281 201 0.80
282 2 0.01
284 14 0.06
285 29 0.12
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (281 bp):
ATATGTATATAATACTTTTAGGATATGTATATAGTACTATAAGATACATACATCTTATAAATATA
TGTACATCTAATCATAATGTCAAAATCTTAATTAATGAAATTCTATATTTAGAGTTAATTGGTTA
TTATTAATATAAATTTTAATTTAGGGTTTTAGAGCTAATAAAAGGTAGGTACTGATTCTTTATAA
GGTAGAAGAATTCATTTAGGGTAAATACATATTACTTATAAGATACATACATAATGCTTATAAGA
TAAGTACATAGTATATATAGG
Found at i:9826359 original size:20 final size:21
Alignment explanation
Indices: 9826322--9826360 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9826312 ACATAAAAAA
**
9826322 ATTTAAAAATTATTTTAATTT
1 ATTTAAAAATTAAATTAATTT
9826343 ATTTAAAAA-TAAATTAAT
1 ATTTAAAAATTAAATTAAT
9826361 AATTATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTAAAAATTAAATTAATTT
Found at i:9826440 original size:28 final size:29
Alignment explanation
Indices: 9826407--9826463 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
9826397 TATAAATATT
*
9826407 TAATTTAAA-ATAATTTTTGTTTAAATAC
1 TAATTTAAAGATAATTTTTGTTCAAATAC
*
9826435 TAATTTAAATGATATTTTTTGTTCAAATA
1 TAATTTAAA-GATAATTTTTGTTCAAATA
9826464 AATAGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.36
30 16 0.64
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (29 bp):
TAATTTAAAGATAATTTTTGTTCAAATAC
Found at i:9829103 original size:2 final size:2
Alignment explanation
Indices: 9829096--9829123 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9829086 TTTATACAAG
9829096 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9829124 TCAGCCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9833752 original size:2 final size:2
Alignment explanation
Indices: 9833703--9833733 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9833693 AACATGGTAA
9833703 AT 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 AT A
9833734 AGATCTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9835388 original size:29 final size:29
Alignment explanation
Indices: 9835340--9835432 Score: 87
Period size: 32 Copynumber: 3.1 Consensus size: 29
9835330 TGACCACTAC
* *
9835340 TTTATTATTGTTTCATTATTTGAATATAAT
1 TTTATTTTTATTT-ATTATTTGAATATAAT
* *
9835370 TTTATTTTTATTTATTATTTTAATATATT
1 TTTATTTTTATTTATTATTTGAATATAAT
* * *
9835399 TAATTATTTATTTTTTATTGTTTGGATATAAT
1 T--TTATTT-TTATTTATTATTTGAATATAAT
9835431 TT
1 TT
9835433 GATCACTTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
29 15 0.29
30 12 0.24
31 6 0.12
32 18 0.35
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (29 bp):
TTTATTTTTATTTATTATTTGAATATAAT
Found at i:9840446 original size:34 final size:34
Alignment explanation
Indices: 9840333--9840446 Score: 99
Period size: 34 Copynumber: 3.3 Consensus size: 34
9840323 TCTAAAAGAG
9840333 TTTTCAATTACTTTAGTTCAGATCAATAATTCGA
1 TTTTCAATTACTTTAGTTCAGATCAATAATTCGA
* * **
9840367 TTTTCAATTCACCATTGAATGAAAGA--AATAATGATC-A
1 TTTTCAATT-A-C-TTTAGT-TCAGATCAATAAT--TCGA
**
9840404 TCGTCAATTACTTTAGTTCAGATCAATAATTCGA
1 TTTTCAATTACTTTAGTTCAGATCAATAATTCGA
9840438 TTTTCAATT
1 TTTTCAATT
9840447 CACCATTGAA
Statistics
Matches: 59, Mismatches: 12, Indels: 18
0.66 0.13 0.20
Matches are distributed among these distances:
33 5 0.08
34 21 0.36
35 8 0.14
36 8 0.14
37 12 0.20
38 5 0.08
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (34 bp):
TTTTCAATTACTTTAGTTCAGATCAATAATTCGA
Found at i:9850538 original size:12 final size:12
Alignment explanation
Indices: 9850521--9850545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9850511 TAATAATGGA
9850521 TATCCAAATTTG
1 TATCCAAATTTG
9850533 TATCCAAATTTG
1 TATCCAAATTTG
9850545 T
1 T
9850546 TACCCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TATCCAAATTTG
Found at i:9851508 original size:28 final size:30
Alignment explanation
Indices: 9851468--9851523 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
9851458 AACTTTATAA
*
9851468 TTTTGATCGCATTAATACTTAAA-ATTTTT
1 TTTTGATCACATTAATACTTAAACATTTTT
**
9851497 TTTTG-TCACATTGGTACTTAAACATTT
1 TTTTGATCACATTAATACTTAAACATTT
9851524 AAATCTGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (30 bp):
TTTTGATCACATTAATACTTAAACATTTTT
Found at i:9851707 original size:21 final size:21
Alignment explanation
Indices: 9851662--9851707 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9851652 TTTTTAAAAG
* *
9851662 AAAAATTCAAAAAACATTTTT
1 AAAAATTCAAAAAACACTTTA
* *
9851683 AAAAATTCTAAAAAGACTTTA
1 AAAAATTCAAAAAACACTTTA
9851704 AAAA
1 AAAA
9851708 TAAAAAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATTCAAAAAACACTTTA
Found at i:9851748 original size:18 final size:17
Alignment explanation
Indices: 9851703--9851761 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
9851693 AAAAGACTTT
*
9851703 AAAAATA-AAAAAATTT
1 AAAAATATAAAAAATTC
*
9851719 AAATACTATAAAGAAATTC
1 AAA-AATATAAA-AAATTC
*
9851738 AAAAATATAAAAAGTTTC
1 AAAAATATAAAAA-ATTC
9851756 AAAAAT
1 AAAAAT
9851762 TTTTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 3 0.09
17 5 0.14
18 19 0.54
19 8 0.23
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAATATAAAAAATTC
Found at i:9851818 original size:19 final size:19
Alignment explanation
Indices: 9851774--9851820 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
9851764 TTAATTTTTC
**
9851774 TAAAAAATTTTTAAAACTT
1 TAAAAAATTTTTAAAAAGT
9851793 TAAAAAATTTTTAAAAAGT
1 TAAAAAATTTTTAAAAAGT
9851812 TATAAAAAT
1 TA-AAAAAT
9851821 CAAAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAAAATTTTTAAAAAGT
Found at i:9851847 original size:21 final size:21
Alignment explanation
Indices: 9851822--9851873 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
9851812 TATAAAAATC
9851822 AAAATAATTT-AAGAAAATTTT
1 AAAATAATTTGAA-AAAATTTT
9851843 AAAAT-ATTCTGAAAAAATTTT
1 AAAATAATT-TGAAAAAATTTT
*
9851864 AAAAAAATTT
1 AAAATAATTT
9851874 TAATTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 19 0.70
22 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATAATTTGAAAAAATTTT
Found at i:9851882 original size:12 final size:11
Alignment explanation
Indices: 9851829--9851876 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
9851819 ATCAAAATAA
*
9851829 TTTAAGAAAAT
1 TTTAAAAAAAT
*
9851840 TTT-AAAATAT
1 TTTAAAAAAAT
* *
9851850 TCTGAAAAAAT
1 TTTAAAAAAAT
9851861 TTTAAAAAAAT
1 TTTAAAAAAAT
9851872 TTTAA
1 TTTAA
9851877 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 7 0.23
11 23 0.77
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (11 bp):
TTTAAAAAAAT
Found at i:9851942 original size:20 final size:18
Alignment explanation
Indices: 9851919--9852015 Score: 59
Period size: 21 Copynumber: 4.9 Consensus size: 18
9851909 AAGAAATACT
*
9851919 AAAAATTTTAAAATTTCTA
1 AAAAATTCTAAAATTT-TA
* *
9851938 AAAAATTCAAAACAATTATAA
1 AAAAATTC-TAA-AATT-TTA
*
9851959 AAAAATTCTAAAAGCTTTTG
1 AAAAATTCTAAAA--TTTTA
*
9851979 AAAAATTATAAAAGTTTTTAA
1 AAAAATTCTAAAA--TTTT-A
*
9852000 AAAAATTTTAAAATTT
1 AAAAATTCTAAAATTT
9852016 ACAAAAGGTT
Statistics
Matches: 62, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
19 12 0.19
20 22 0.35
21 27 0.44
22 1 0.02
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (18 bp):
AAAAATTCTAAAATTTTA
Found at i:9851982 original size:21 final size:21
Alignment explanation
Indices: 9851956--9852012 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
9851946 AAAACAATTA
*
9851956 TAAAAAAATTCTAAAAGCTTT
1 TAAAAAAATTATAAAAGCTTT
* *
9851977 T-GAAAAATTATAAAAGTTTT
1 TAAAAAAATTATAAAAGCTTT
*
9851997 TAAAAAAATTTTAAAA
1 TAAAAAAATTATAAAA
9852013 TTTACAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (21 bp):
TAAAAAAATTATAAAAGCTTT
Found at i:9852104 original size:27 final size:26
Alignment explanation
Indices: 9852039--9852130 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
9852029 AATATGAAAT
*
9852039 ATTTTTTATAAATTATAAAAATTATA
1 ATTTTTTAAAAATTATAAAAATTATA
* ** * *
9852065 ATAATTTGGAAAATTTTAAAAATTCTA
1 AT-TTTTTAAAAATTATAAAAATTATA
* *
9852092 ATTTTTTAAAAAATA-AAAAATAATTA
1 ATTTTTTAAAAATTATAAAAATTA-TA
* *
9852118 AATTTATAAAAAT
1 ATTTTTTAAAAAT
9852131 CAAATTTTTT
Statistics
Matches: 48, Mismatches: 16, Indels: 4
0.71 0.24 0.06
Matches are distributed among these distances:
25 6 0.12
26 22 0.46
27 20 0.42
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (26 bp):
ATTTTTTAAAAATTATAAAAATTATA
Found at i:9852167 original size:8 final size:8
Alignment explanation
Indices: 9852156--9852212 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
9852146 TTAAAAAAGA
*
9852156 TAAAATTT
1 TAAAAATT
*
9852164 TAAAAA-C
1 TAAAAATT
9852171 TAAAAATT
1 TAAAAATT
9852179 TAAAAATTTT
1 TAAAAA--TT
9852189 TAAAAATT
1 TAAAAATT
*
9852197 AAAAAATT
1 TAAAAATT
*
9852205 TCAAAATT
1 TAAAAATT
9852213 CTGTAACATT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
7 6 0.15
8 26 0.65
10 8 0.20
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (8 bp):
TAAAAATT
Found at i:9852176 original size:25 final size:25
Alignment explanation
Indices: 9852148--9852202 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
9852138 TTTATAGTTT
9852148 AAAAAAGATAAAA-TTTTAAAAACTA
1 AAAAAAGA-AAAATTTTTAAAAACTA
*** *
9852173 AAAATTTAAAAATTTTTAAAAATTA
1 AAAAAAGAAAAATTTTTAAAAACTA
9852198 AAAAA
1 AAAAA
9852203 TTTCAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 4 0.17
25 20 0.83
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAAGAAAAATTTTTAAAAACTA
Found at i:9852194 original size:18 final size:18
Alignment explanation
Indices: 9852171--9852205 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9852161 TTTTAAAAAC
*
9852171 TAAAAATTTAAAAATTTT
1 TAAAAATTAAAAAATTTT
9852189 TAAAAATTAAAAAATTT
1 TAAAAATTAAAAAATTT
9852206 CAAAATTCTG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAAATTAAAAAATTTT
Found at i:9852579 original size:9 final size:9
Alignment explanation
Indices: 9852567--9852933 Score: 137
Period size: 10 Copynumber: 37.8 Consensus size: 9
9852557 TTTTTTAATT
9852567 TTTTTAAAA
1 TTTTTAAAA
9852576 TTTTATAAAA
1 TTTT-TAAAA
* *
9852586 TTTTATACAT
1 TTTT-TAAAA
*
9852596 TTTTTTAAA
1 TTTTTAAAA
*
9852605 TTTTCTAGAA
1 TTTT-TAAAA
*
9852615 TTTTTATACATT
1 TTTTTA-A-A-A
*
9852627 TTTTTTAAA
1 TTTTTAAAA
*
9852636 TTTTTGAAAG
1 TTTTT-AAAA
* *
9852646 TTTGTAGAA
1 TTTTTAAAA
9852655 TTTTTAAAA
1 TTTTTAAAA
*
9852664 TTTTTGTAAAC
1 -TTTT-TAAAA
9852675 TTTTT-AAA
1 TTTTTAAAA
* *
9852683 TTTTTAGAT
1 TTTTTAAAA
9852692 TTTTTAAAAA
1 TTTTT-AAAA
*
9852702 TTTTAAAAA
1 TTTTTAAAA
*
9852711 GTTTTTAGACA
1 -TTTTTA-AAA
*
9852722 TTTTT-AAT
1 TTTTTAAAA
*
9852730 TTTTTCATAA
1 TTTTT-AAAA
9852740 TTTTTAAAA
1 TTTTTAAAA
9852749 -TTTTAAAA
1 TTTTTAAAA
*
9852757 TTTTTATAA
1 TTTTTAAAA
9852766 TTTTTAAGAAA
1 TTTTT-A-AAA
*
9852777 TTTTTTGAAAT
1 -TTTTT-AAAA
*
9852788 TATTTTAGAA
1 T-TTTTAAAA
9852798 TTTTTAAAA
1 TTTTTAAAA
*
9852807 TATTTGAAAAA
1 T-TTT-TAAAA
*
9852818 TTGTTAGAAA
1 TTTTTA-AAA
**
9852828 TTTGAAAAAA
1 TTT-TTAAAA
9852838 TTTTTAAGAAA
1 TTTTT-A-AAA
***
9852849 TTATTTTCGA
1 TT-TTTAAAA
*
9852859 TTGTTTAGAA
1 TT-TTTAAAA
9852869 TTTTTAGAAAA
1 TTTTT--AAAA
9852880 TTTTTAGAAA
1 TTTTTA-AAA
** *
9852890 TTTTGGAAT
1 TTTTTAAAA
*
9852899 TTTTTAGAA
1 TTTTTAAAA
*
9852908 TTTTTTAAA
1 TTTTTAAAA
* *
9852917 TTTGTTAGAT
1 TTT-TTAAAA
9852927 TTTTTAA
1 TTTTTAA
9852934 GGAATATCTT
Statistics
Matches: 260, Mismatches: 68, Indels: 60
0.67 0.18 0.15
Matches are distributed among these distances:
8 21 0.08
9 85 0.33
10 105 0.40
11 35 0.13
12 14 0.05
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:9852781 original size:47 final size:43
Alignment explanation
Indices: 9852597--9852772 Score: 138
Period size: 47 Copynumber: 3.8 Consensus size: 43
9852587 TTTATACATT
* *
9852597 TTTTTAAATTTTCTAGAATTTTTATACATTTTTTTTAAATTTTTGAAA
1 TTTTTAAAATTT-TAAAATTTTTATACA---TTTTTAAATTTTT-AAA
* * * * *
9852645 GTTTGTAGAATTTTTAAAATTTTTGTAAACTTTTTAAATTTTTAGAT
1 -TTTTTA-AAATTTTAAAATTTTTATACA-TTTTTAAATTTTTA-AA
* *
9852692 TTTTTAAAAATTTTAAAAAGTTTTTAGACATTTTTAATTTTTTCATAA
1 TTTTT-AAAATTTT-AAAA-TTTTTATACATTTTTAAATTTTT-A-AA
9852740 TTTTTAAAATTTTAAAATTTTTATA-ATTTTTAA
1 TTTTTAAAATTTTAAAATTTTTATACATTTTTAA
9852773 GAAATTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
44 8 0.08
45 7 0.07
46 15 0.14
47 39 0.37
48 14 0.13
49 17 0.16
50 6 0.06
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (43 bp):
TTTTTAAAATTTTAAAATTTTTATACATTTTTAAATTTTTAAA
Found at i:9852819 original size:41 final size:41
Alignment explanation
Indices: 9852748--9852829 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
9852738 AATTTTTAAA
* * * *
9852748 ATTTTAAAATTTTTATAATTTTTAAGAAATTTTTTGAAATT
1 ATTTTAAAATTTTTAAAATTTTGAAGAAATTGTTAGAAATT
*
9852789 ATTTTAGAATTTTTAAAATATTTGAA-AAATTGTTAGAAATT
1 ATTTTAAAATTTTTAAAAT-TTTGAAGAAATTGTTAGAAATT
9852830 TGAAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 30 0.86
42 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.51
Consensus pattern (41 bp):
ATTTTAAAATTTTTAAAATTTTGAAGAAATTGTTAGAAATT
Found at i:9852912 original size:19 final size:19
Alignment explanation
Indices: 9852566--9852930 Score: 101
Period size: 19 Copynumber: 18.8 Consensus size: 19
9852556 CTTTTTTAAT
* *
9852566 TTTTTTAAAATTTTATAAAA
1 TTTTTTAGAATTTT-TGAAA
* * * *
9852586 TTTTATACATTTTTTTAAA
1 TTTTTTAGAATTTTTGAAA
*
9852605 TTTTCTAGAATTTTT-ATACA
1 TTTTTTAGAATTTTTGA-A-A
9852625 TTTTTTTTA-AATTTTTGAAA
1 --TTTTTTAGAATTTTTGAAA
* * *
9852645 GTTTGTAGAATTTTTAAAA
1 TTTTTTAGAATTTTTGAAA
9852664 TTTTTGTA-AACTTTTT-AAA
1 TTTTT-TAGAA-TTTTTGAAA
* *
9852683 -TTTTTAGATTTTTTAAAA
1 TTTTTTAGAATTTTTGAAA
* * * *
9852701 ATTTTAAAAAGTTTTTAGACA
1 TTTTTTAGAA-TTTTT-GAAA
* *
9852722 -TTTTTA-ATTTTTTCATAA
1 TTTTTTAGAATTTTTGA-AA
*
9852740 -TTTTTA-AAATTTT-AAA
1 TTTTTTAGAATTTTTGAAA
* *
9852756 ATTTTTATAATTTTTAAGAAA
1 TTTTTTAGAATTTTT--GAAA
*
9852777 TTTTTT-GAAATTATTTTAGAA
1 TTTTTTAG-AATT-TTTGA-AA
* *
9852798 -TTTTTAAAATATTTGAAAA
1 TTTTTTAGAATTTTTG-AAA
* * *
9852817 ATTGTTAGAA-ATTTGAAAAAA
1 TTTTTTAGAATTTTTG---AAA
* ***
9852838 TTTTTAAGAAATTATTTTCGA
1 TTTTTTAG-AATT-TTTGAAA
*
9852859 TTGTTTAGAATTTTTAGAAA
1 TTTTTTAGAATTTTT-GAAA
* * *
9852879 ATTTTTAGAAATTTTGGAA
1 TTTTTTAGAATTTTTGAAA
*
9852898 TTTTTTAGAATTTTTTAAA
1 TTTTTTAGAATTTTTGAAA
*
9852917 TTTGTTAG-ATTTTT
1 TTTTTTAGAATTTTT
9852931 TAAGGAATAT
Statistics
Matches: 259, Mismatches: 55, Indels: 64
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.01
17 15 0.06
18 43 0.17
19 80 0.31
20 64 0.25
21 40 0.15
22 12 0.05
24 3 0.01
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (19 bp):
TTTTTTAGAATTTTTGAAA
Found at i:9856876 original size:12 final size:13
Alignment explanation
Indices: 9856859--9856891 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
9856849 GTTTTGGGTC
9856859 AAAAAAAAAAG-G
1 AAAAAAAAAAGCG
*
9856871 AAAAAAAAAAGCT
1 AAAAAAAAAAGCG
9856884 AAAAAAAA
1 AAAAAAAA
9856892 GGCAAGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.85, C:0.03, G:0.09, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAGCG
Found at i:9862217 original size:10 final size:10
Alignment explanation
Indices: 9862202--9862247 Score: 92
Period size: 10 Copynumber: 4.6 Consensus size: 10
9862192 AATCATGTAG
9862202 TAGTTATAGT
1 TAGTTATAGT
9862212 TAGTTATAGT
1 TAGTTATAGT
9862222 TAGTTATAGT
1 TAGTTATAGT
9862232 TAGTTATAGT
1 TAGTTATAGT
9862242 TAGTTA
1 TAGTTA
9862248 ATTTGTTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (10 bp):
TAGTTATAGT
Found at i:9866008 original size:10 final size:10
Alignment explanation
Indices: 9865993--9866021 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
9865983 CACCACTTTA
9865993 TTTCTTTTTT
1 TTTCTTTTTT
9866003 TTTCTTTTTT
1 TTTCTTTTTT
9866013 TTT-TTTTTT
1 TTTCTTTTTT
9866022 CATTCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:9875615 original size:25 final size:24
Alignment explanation
Indices: 9875533--9875615 Score: 64
Period size: 25 Copynumber: 3.3 Consensus size: 24
9875523 ACTAGCTTCC
9875533 AAAAGAAAAAATGTTAAAAGAAA-AAA
1 AAAAGAAAAAA-G--AAAAGAAATAAA
9875559 AAAAG-AAAAAGAAAA-ACAATAAA
1 AAAAGAAAAAAGAAAAGA-AATAAA
***
9875582 ATGGTGAAAAAAGAAAAGAAATAAGA
1 A-AAAGAAAAAAGAAAAGAAATAA-A
9875608 AAAAGAAA
1 AAAAGAAA
9875616 GAAAAATGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
21 1 0.02
22 6 0.13
23 4 0.09
24 2 0.04
25 24 0.53
26 8 0.18
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.08
Consensus pattern (24 bp):
AAAAGAAAAAAGAAAAGAAATAAA
Found at i:9875631 original size:39 final size:35
Alignment explanation
Indices: 9875552--9875624 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
9875542 AATGTTAAAA
* *
9875552 GAAAAAAAAAAGAAAAAGAAAAACAATAAAATGGT
1 GAAAAAAAAAAGAAAAAGAAAAAAAAAAAAATGGT
9875587 GAAAAAAGAAAAGAAATAAGAAAAAGAAAGAAAAATGG
1 GAAAAAA-AAAAGAAA-AAGAAAAA-AAA-AAAAATGG
9875625 GCAAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 7 0.22
36 8 0.25
37 8 0.25
38 2 0.06
39 7 0.22
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (35 bp):
GAAAAAAAAAAGAAAAAGAAAAAAAAAAAAATGGT
Found at i:9881955 original size:48 final size:48
Alignment explanation
Indices: 9881901--9881996 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
9881891 AAGTGAACAT
9881901 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
1 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
*
9881949 AACCAAAATTATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
1 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
9881997 GTAAAGAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (48 bp):
AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
Found at i:9889616 original size:24 final size:24
Alignment explanation
Indices: 9889589--9889648 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
9889579 TGTTAAAAGA
9889589 AAAAAAAAGAAAAAGAAAA-ACAAT
1 AAAAAAAAGAAAAAGAAAAGA-AAT
****
9889613 AAAATGGTGAAAAAGAAAAGAAAT
1 AAAAAAAAGAAAAAGAAAAGAAAT
*
9889637 AAGAAAAAGAAA
1 AAAAAAAAGAAA
9889649 GAAAAATGGG
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.15, T:0.07
Consensus pattern (24 bp):
AAAAAAAAGAAAAAGAAAAGAAAT
Found at i:9889616 original size:30 final size:33
Alignment explanation
Indices: 9889582--9889644 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
9889572 GAAAAAATGT
9889582 TAAAA-GAAAAA-AAAAGAAA-AAGAAAAACAA
1 TAAAAGGAAAAAGAAAAGAAATAAGAAAAACAA
9889612 TAAAATGGTGAAAAAGAAAAGAAATAAGAAAAA
1 TAAAA--G-GAAAAAGAAAAGAAATAAGAAAAA
9889645 GAAAGAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
30 5 0.19
34 6 0.22
35 8 0.30
36 8 0.30
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (33 bp):
TAAAAGGAAAAAGAAAAGAAATAAGAAAAACAA
Found at i:9895968 original size:48 final size:48
Alignment explanation
Indices: 9895914--9896009 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
9895904 AAGTGAACAT
9895914 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
1 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
*
9895962 AACCAAAATTATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
1 AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
9896010 GTAAAGAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (48 bp):
AACCAAAATAATTAACCTTAACTAATTCTAACCAACTTTAACTTCTAA
Found at i:9912542 original size:23 final size:23
Alignment explanation
Indices: 9912516--9912560 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9912506 TTTCTATTTA
*
9912516 AAAAGTAAACAATAGAAAACATG
1 AAAAGTAAACAAAAGAAAACATG
*
9912539 AAAAGTAAATAAAAGAAAACAT
1 AAAAGTAAACAAAAGAAAACAT
9912561 AATTAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (23 bp):
AAAAGTAAACAAAAGAAAACATG
Found at i:9913426 original size:95 final size:94
Alignment explanation
Indices: 9913215--9913438 Score: 229
Period size: 95 Copynumber: 2.4 Consensus size: 94
9913205 TTAATTTAAT
* * *
9913215 ATTTAAATCTTCCAATAGTTT-AGTAAGATTGAAAATTTTATTTTTAATAAAAATTTACTAAATC
1 ATTTAAATCTTTCAATAATTTGA-TAAGATTGAAAATTTTATTTTTAATAAAAATTCACTAAATC
* * *
9913279 CTCTAATAATTTGATAAGACTTAATTTGAG
65 CTCTAATAATTTGACAAGACTTAACTTGAA
* * * * *
9913309 ATTTAAATCTTTCAATAGTTTGATAAGATTGAAATTTTTATTTTATTATAAAAATTCATTAAGT-
1 ATTTAAATCTTTCAATAATTTGATAAGATTGAAAATTTTATTTT-TAATAAAAATTCACTAAATC
* * *
9913373 TTTTCAATAATTTTG-CAAGATTTAACTTGAA
65 CTCT-AATAA-TTTGACAAGACTTAACTTGAA
* * * *
9913404 ATTTAAATTTTTTAATAATTTGATAAAATTAAAAA
1 ATTTAAATCTTTCAATAATTTGATAAGATTGAAAA
9913439 CAAAACTCTC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
94 42 0.39
95 62 0.57
96 4 0.04
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (94 bp):
ATTTAAATCTTTCAATAATTTGATAAGATTGAAAATTTTATTTTTAATAAAAATTCACTAAATCC
TCTAATAATTTGACAAGACTTAACTTGAA
Found at i:9913849 original size:7 final size:7
Alignment explanation
Indices: 9913837--9913871 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
9913827 CCCCTCTCTC
9913837 TTTTTAT
1 TTTTTAT
9913844 TTTTTAT
1 TTTTTAT
9913851 TTTTTAT
1 TTTTTAT
*
9913858 TTTATAT
1 TTTTTAT
*
9913865 CTTTTAT
1 TTTTTAT
9913872 GTGAGCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTAT
Found at i:9914637 original size:17 final size:18
Alignment explanation
Indices: 9914612--9914652 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9914602 AAGGATAAAA
9914612 ATAAA-ATATAAATA-AG
1 ATAAATATATAAATAGAG
*
9914628 ATAAATATATATATAGAG
1 ATAAATATATAAATAGAG
*
9914646 AAAAATA
1 ATAAATA
9914653 CAATAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (18 bp):
ATAAATATATAAATAGAG
Found at i:9915410 original size:141 final size:140
Alignment explanation
Indices: 9915046--9915412 Score: 345
Period size: 141 Copynumber: 2.6 Consensus size: 140
9915036 AGAAAAAAAG
* * *
9915046 CCTGAAGGTTTTAAAAGATCATGCCTAAATGTCTTATACATCATAC-CCGAAGGACTTTGAGATT
1 CCTGAAGGTTTTAAAAGATCATGCCCAAA-GTCTTATAGATCATACTCAG-AGGACTTTGAGATT
* * *
9915110 ATGCTTAAAGGTCTTACAAATCAAACTTTGAAAAAAAAACTCTTTTAAAACAAAAGCTTAACAAC
64 ATGCTTAGAGGTCTTAAAAATCAAACTTTG-AAAAAAAACTCTTTTAAAACAAAAGATTAACAAC
*
9915175 TTTAGAAAAAGTT
128 TTTAGAAAAAGTA
* * * * * *
9915188 CCT-AGAGATTTTAAAA-ATCCATGCTCAAAGGTTTTATAGATTATA-T-ATGGAGGACATAGAG
1 CCTGA-AGGTTTTAAAAGAT-CATGCCCAAA-GTCTTATAGATCATACTCA--GAGGACTTTGAG
* * * * *
9915249 ATTATGCTTGGAAGAT-TTAAAAGATCAAATTTTG-GAAAAAGCTCTTTTAAAAC-AAAGATTAA
61 ATTATGCTTAG-AGGTCTTAAAA-ATCAAACTTTGAAAAAAAACTCTTTTAAAACAAAAGATT-A
*
9915311 ACAACTTTAGAAAAGGTA
123 ACAACTTTAGAAAAAGTA
* * * *
9915329 CTTGAAGGTTTTAAAAGATTATACCCAAAGATCTTATAGATCATACTCAGAGAACTTTGAGATTA
1 CCTGAAGGTTTTAAAAGATCATGCCCAAAG-TCTTATAGATCATACTCAGAGGACTTTGAGATTA
**
9915394 TATTTAGAGGTCTTAAAAA
65 TGCTTAGAGGTCTTAAAAA
9915413 ATTAAGTCTG
Statistics
Matches: 177, Mismatches: 34, Indels: 30
0.73 0.14 0.12
Matches are distributed among these distances:
140 11 0.06
141 91 0.51
142 60 0.34
143 15 0.08
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (140 bp):
CCTGAAGGTTTTAAAAGATCATGCCCAAAGTCTTATAGATCATACTCAGAGGACTTTGAGATTAT
GCTTAGAGGTCTTAAAAATCAAACTTTGAAAAAAAACTCTTTTAAAACAAAAGATTAACAACTTT
AGAAAAAGTA
Found at i:9915629 original size:22 final size:22
Alignment explanation
Indices: 9915604--9915645 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9915594 AAGACTTAAA
* * *
9915604 AGATTATGCCTTGAGGTCTTAT
1 AGATCATGCCTGGAGATCTTAT
9915626 AGATCATGCCTGGAGATCTT
1 AGATCATGCCTGGAGATCTT
9915646 TAAGACTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (22 bp):
AGATCATGCCTGGAGATCTTAT
Found at i:9916153 original size:143 final size:145
Alignment explanation
Indices: 9915895--9916317 Score: 371
Period size: 143 Copynumber: 2.9 Consensus size: 145
9915885 AAAAAGTGTA
* * * * *
9915895 AAATCA-CAAAAATACCCTTTAAGAG-TA-TTCTAGTAATTTTACCTTCTCAAGGTTA-ATTTTT
1 AAATCACCAAAAA-ACCTTTTAAGAGTTATTTCCA-TAATTTGACCATCACAAGG-TAGATTTTT
* * * * * *
9915956 CAT-AAAAGGCTTCAAATCATGTTTTAATCTTATTTCGTAAATTTTAATGTATTAAAAACCATGA
63 CATGAAAA-GCTCCGAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGA
9916020 TTGCACCTTGAAAGGCTTG
127 TTGCACCTTGAAAGGCTTG
* * ** ** *
9916039 AAATTATCAAAAAACCTTTT-AGAAGTT-TTTTTATAATTTGACTTTCACGAGGTTAGA-TTTT-
1 AAATCACCAAAAAACCTTTTAAG-AGTTATTTCCATAATTTGACCATCACAAGG-TAGATTTTTC
* * * **
9916100 GTGAAAAGCTCCGAATCATGTTTTCATATTATTTCATGATTTTTGGTGCATTAAAAA-CATTGAT
64 ATGAAAAGCTCCGAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCA-TGAT
* ** *
9916164 CGCATGTTGAAAGGGTTG
128 TGCACCTTGAAAGGCTTG
** * * * *
9916182 AAATCACCAAAATGCCTTTTAAGGGTTATTTCCATAATTTTACCATCCCAAGGTCGATTTTTCAT
1 AAATCACCAAAAAACCTTTTAAGAGTTATTTCCATAATTTGACCATCACAAGGTAGATTTTTCAT
* * * * *
9916247 GAAAAGCTCCTAATCATATTTTGATATTATTTCATGAATTTTAATGCATTAAAAACCAAGAATGC
66 GAAAAGCTCCGAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGC
9916312 ACCTTG
131 ACCTTG
9916318 TCATAACTTC
Statistics
Matches: 220, Mismatches: 47, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
142 2 0.01
143 83 0.38
144 63 0.29
145 70 0.32
146 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (145 bp):
AAATCACCAAAAAACCTTTTAAGAGTTATTTCCATAATTTGACCATCACAAGGTAGATTTTTCAT
GAAAAGCTCCGAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGC
ACCTTGAAAGGCTTG
Found at i:9916928 original size:58 final size:57
Alignment explanation
Indices: 9916786--9916947 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
9916776 TGCCTTTGTA
* *
9916786 CAAGAAAAAATTGATACTTTCAACTTTTTCCAAAAATATATTTTTTTGAAATTTTAATTT
1 CAAG-AAAAATTGATACTTTCAACTTTTTCCCAAAA-ATA-TTTTTTGAAACTTTAATTT
* * *
9916846 CAATAAAAATTGATACTTTTAACTTTTTCCCAAAAATATGTTTTGAAAACTTTAATTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTG-AAACTTTAATTT
* * *
9916904 CGAGGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
9916948 TTTTGGATTT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 6 0.07
58 52 0.58
59 29 0.32
60 3 0.03
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (57 bp):
CAAGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAACTTTAATTT
Found at i:9917018 original size:16 final size:16
Alignment explanation
Indices: 9916997--9917054 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 16
9916987 AATGAAAGTG
9916997 AAAATAAAAATAAAGA
1 AAAATAAAAATAAAGA
9917013 AAAAT-AAAATAAA-A
1 AAAATAAAAATAAAGA
9917027 AAAA-AATAAAGTAAAGTAA
1 AAAATAA-AAA-TAAAG--A
9917046 AAAATAAAA
1 AAAATAAAA
9917055 GAATATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
14 6 0.17
15 11 0.31
16 9 0.26
19 7 0.20
20 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAGA
Found at i:9917021 original size:21 final size:22
Alignment explanation
Indices: 9916998--9917054 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 22
9916988 ATGAAAGTGA
9916998 AAATAAAAATAAAGAA-AAA-TA
1 AAATAAAAATAAA-AATAAAGTA
9917019 AAATAAAAA-AAAAATAAAGTA
1 AAATAAAAATAAAAATAAAGTA
*
9917040 AAGTAAAAAATAAAA
1 AAAT-AAAAATAAAA
9917055 GAATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 14 0.45
22 5 0.16
23 4 0.13
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (22 bp):
AAATAAAAATAAAAATAAAGTA
Found at i:9917038 original size:43 final size:46
Alignment explanation
Indices: 9916968--9917053 Score: 126
Period size: 43 Copynumber: 1.9 Consensus size: 46
9916958 TATTTAAAGG
9916968 AAATAAAATAATAAAACAAAATGAAAGTGAAAAT-AAAAATAAAGAA
1 AAATAAAATAATAAAACAAAATGAAAGT-AAAATAAAAAATAAAGAA
*
9917014 AAATAAAATAA-AAAA-AAAAT-AAAGTAAAGTAAAAAATAAA
1 AAATAAAATAATAAAACAAAATGAAAGTAAAATAAAAAATAAA
9917054 AGAATATTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
42 4 0.11
43 14 0.37
44 5 0.13
45 4 0.11
46 11 0.29
ACGTcount: A:0.77, C:0.01, G:0.07, T:0.15
Consensus pattern (46 bp):
AAATAAAATAATAAAACAAAATGAAAGTAAAATAAAAAATAAAGAA
Found at i:9917054 original size:26 final size:26
Alignment explanation
Indices: 9916997--9917047 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
9916987 AATGAAAGTG
*
9916997 AAAATAAAAATAAAGAAAAATAAAAT
1 AAAAAAAAAATAAAGAAAAATAAAAT
* *
9917023 AAAAAAAAAATAAAGTAAAGTAAAA
1 AAAAAAAAAATAAAGAAAAATAAAA
9917048 AATAAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (26 bp):
AAAAAAAAAATAAAGAAAAATAAAAT
Found at i:9917079 original size:3 final size:3
Alignment explanation
Indices: 9917071--9917123 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
9917061 TAAACAAATC
9917071 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9917118 TAA TAA
1 TAA TAA
9917124 ATAAATAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9917128 original size:4 final size:4
Alignment explanation
Indices: 9917119--9917146 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9917109 TAATAATAAT
9917119 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
9917147 TAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:9923571 original size:11 final size:12
Alignment explanation
Indices: 9923547--9923572 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9923537 AATAAGAAGG
9923547 AACAAGGAAAAA
1 AACAAGGAAAAA
9923559 AACAAGGAAAAA
1 AACAAGGAAAAA
9923571 AA
1 AA
9923573 GCATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (12 bp):
AACAAGGAAAAA
Found at i:9926310 original size:22 final size:22
Alignment explanation
Indices: 9926285--9926327 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9926275 TTCTGTTTAA
*
9926285 AAAGTAAACAATAGAAAACATG
1 AAAGTAAACAAAAGAAAACATG
*
9926307 AAAGTAAATAAAAGAAAACAT
1 AAAGTAAACAAAAGAAAACAT
9926328 AACTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.07, G:0.12, T:0.14
Consensus pattern (22 bp):
AAAGTAAACAAAAGAAAACATG
Found at i:9927174 original size:95 final size:93
Alignment explanation
Indices: 9926966--9927195 Score: 225
Period size: 95 Copynumber: 2.4 Consensus size: 93
9926956 ATAGCTTGGT
* *
9926966 AAGATTTAA-TTTAATATTTAAATTCTCCAATAGTTT-AGTAAGATTGAAAATTTTATTTTTAAT
1 AAGATTTAACTTGAA-ATTTAAATT-TTCAATAGTTTGA-TAAGATTGAAAATTTTATTTTTAAT
* *
9927029 AAAAATTTACTAAATCCTCTAATAATTTGAT
63 AAAAATTCACTAAATCCTCTAATAATTTGAC
* * **
9927060 AAGACTTAACTTGAGATTTAAATCTTTCAATAGTTTGATAAGATTGAAGTTTTTATCTTGTT-AT
1 AAGATTTAACTTGAAATTTAAAT-TTTCAATAGTTTGATAAGATTGAAAATTTTAT-TT-TTAAT
* * * *
9927124 AAAAATTCATTAAAT-TTTTCAATAATTTTAC
63 AAAAATTCACTAAATCCTCT-AATAATTTGAC
* * *
9927155 GAGATTTAACTTGAAATTTAAATTTTTTAATAATTTGATAA
1 AAGATTTAACTTGAAATTTAAA-TTTTCAATAGTTTGATAA
9927196 CAAAACCCTC
Statistics
Matches: 112, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
94 44 0.39
95 65 0.58
96 3 0.03
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (93 bp):
AAGATTTAACTTGAAATTTAAATTTTCAATAGTTTGATAAGATTGAAAATTTTATTTTTAATAAA
AATTCACTAAATCCTCTAATAATTTGAC
Found at i:9928983 original size:143 final size:139
Alignment explanation
Indices: 9928795--9929132 Score: 290
Period size: 141 Copynumber: 2.4 Consensus size: 139
9928785 ACAAATTCAG
* * *
9928795 AAAAAAAGCCTAAAGGTTTTAAAAGATCATGCCTAAATGTCTTATACATCATACCCGAAGGACTT
1 AAAAAAAGCCTAAAGATTTTAAAAGATCATGCCTAAAGGTCTTATACATCATACCCGAAGGACAT
* * *
9928860 TGAGATTATGCTT-AAAGGTCTTATAA-ATCAAACTTTGAAAAAAAAAACTCTTTTAAAACAAAA
66 AGAGATTATGCTTGAAA-GACTTAAAAGATCAAACTTTG---AAAAAAACTCTTTTAAAAC-AAA
*
9928923 GCTT-AACAACTTT
126 GATTAAACAACTTT
* * * * * * *
9928936 AAAAAAAGTTCCTAGAGATTTTAAAA-ATCCATG-CTCAAAGGTTTTATAGATTATATCTGGAGG
1 AAAAAAAG--CCTAAAGATTTTAAAAGAT-CATGCCT-AAAGGTCTTATACATCATACCCGAAGG
* * * *
9928999 ACATAGAGATTATGCTTGGAAGACTTAAAAGATCAAATTTTGGAAAAAGCTCTTTTAAAACAAAG
62 ACATAGAGATTATGCTTGAAAGACTTAAAAGATCAAACTTTGAAAAAAACTCTTTTAAAACAAAG
9929064 ATTAAACAACTTT
127 ATTAAACAACTTT
* * * * * * * * * *
9929077 AGAAAAGGTACTTGAAGGTTTTAAAAGATTATACCCAAAGATCTTATAGATCATAC
1 AAAAAAAG--CCTAAAGATTTTAAAAGATCATGCCTAAAGGTCTTATACATCATAC
9929133 TCAGAGAACT
Statistics
Matches: 156, Mismatches: 32, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
140 6 0.04
141 71 0.46
142 7 0.04
143 60 0.38
144 12 0.08
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (139 bp):
AAAAAAAGCCTAAAGATTTTAAAAGATCATGCCTAAAGGTCTTATACATCATACCCGAAGGACAT
AGAGATTATGCTTGAAAGACTTAAAAGATCAAACTTTGAAAAAAACTCTTTTAAAACAAAGATTA
AACAACTTT
Found at i:9929387 original size:22 final size:22
Alignment explanation
Indices: 9929317--9929403 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
9929307 AAAGTTTTAA
*
9929317 AGATTATGCCTTGAGGTCTTAT
1 AGATCATGCCTTGAGGTCTTAT
* * * * * *
9929339 AGCTCAT-TCTCGAAAGACTTAAA
1 AGATCATGCCTTG-AGGTCTT-AT
*
9929362 AGATTATGCCTTGAGGTCTTAT
1 AGATCATGCCTTGAGGTCTTAT
* *
9929384 AGATCATGCCTGGAGATCTT
1 AGATCATGCCTTGAGGTCTT
9929404 TAAGACTATG
Statistics
Matches: 45, Mismatches: 17, Indels: 6
0.66 0.25 0.09
Matches are distributed among these distances:
21 3 0.07
22 28 0.62
23 11 0.24
24 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (22 bp):
AGATCATGCCTTGAGGTCTTAT
Found at i:9929879 original size:141 final size:145
Alignment explanation
Indices: 9929653--9930073 Score: 380
Period size: 141 Copynumber: 2.9 Consensus size: 145
9929643 AAAAAGTGTA
* * * * *
9929653 AAATCA-CAAAAATACCCTTTAAGAG-TATTCT-AGTAATTTTACCTTCTCAAGGTTA-ATTTTT
1 AAATCACCAAAAA-ACCTTTTAAGAGTTATTTTCA-TAATTTGACCATCACAAGG-TAGATTTTT
* * * * *
9929714 CAT-AAAAGGCTTCAAATCATGTTTTAATCTTATTTCGTAAATTTTAATGTATTAAAAACCATGA
63 CATGAAAA-GCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGA
9929778 TTGCACCTTGAAAGGCTTG
127 TTGCACCTTGAAAGGCTTG
* * ** *
9929797 AAATTATCAAAAAACCTTTT-AGAAGTT-TTTT-ATAATTTGACTTTCACGAGGTTAGA-TTTT-
1 AAATCACCAAAAAACCTTTTAAG-AGTTATTTTCATAATTTGACCATCACAAGG-TAGATTTTTC
* * * **
9929857 GTG-AAAGCTCCAAATCATGTTTTCATATTATTTCATGATTTTTGGTGCATTAAAAA-CATTGAT
64 ATGAAAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCA-TGAT
* ** *
9929920 CGCATGTTGAAAGGGTTG
128 TGCACCTTGAAAGGCTTG
** * * * *
9929938 AAATCACCAAAATGCCTTTTAAGGGTTATTTTCATAATTTTACCATCCCAAGGTCGATTTTTCAT
1 AAATCACCAAAAAACCTTTTAAGAGTTATTTTCATAATTTGACCATCACAAGGTAGATTTTTCAT
* * * * *
9930003 GAAAAGCTCCTAATCATATTTTGATATTATTTCATGAATTTTAATGCATTAAAAACCAAGAATGC
66 GAAAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGC
9930068 ACCTTG
131 ACCTTG
9930074 TCATAACTTC
Statistics
Matches: 220, Mismatches: 44, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
140 2 0.01
141 78 0.35
142 13 0.06
143 43 0.20
144 20 0.09
145 62 0.28
146 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (145 bp):
AAATCACCAAAAAACCTTTTAAGAGTTATTTTCATAATTTGACCATCACAAGGTAGATTTTTCAT
GAAAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGC
ACCTTGAAAGGCTTG
Found at i:9930669 original size:58 final size:57
Alignment explanation
Indices: 9930547--9930703 Score: 251
Period size: 58 Copynumber: 2.7 Consensus size: 57
9930537 TTGTACAAGA
* *
9930547 AAAAATTGATACTTTCAACTTTTTCCAAAAATATATTTTTTTGAAATTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTTCCCAAAA-ATA-TTTTTTGAAACTTTAATTTCGAG
9930606 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTG-AAACTTTAATTTCGAG
* *
9930664 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
9930704 TTGGATTTTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
57 7 0.08
58 56 0.60
59 30 0.32
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAACTTTAATTTCGAG
Found at i:9930772 original size:16 final size:15
Alignment explanation
Indices: 9930751--9930807 Score: 69
Period size: 16 Copynumber: 3.6 Consensus size: 15
9930741 AATGAAAGTG
9930751 AAAATAAAAATAAAGA
1 AAAAT-AAAATAAAGA
*
9930767 AAAATAAAATAAAAA
1 AAAATAAAATAAAGA
9930782 TAAAATAAAATAAAGTA
1 -AAAATAAAATAAAG-A
*
9930799 AAGATAAAA
1 AAAATAAAA
9930808 AATAAAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
15 9 0.25
16 26 0.72
17 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAATAAAATAAAGA
Found at i:9930775 original size:21 final size:21
Alignment explanation
Indices: 9930722--9930807 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 21
9930712 TATTTAAAGG
*
9930722 AAATAAAATAATAAAACAAAATGA
1 AAATAAAAT-A-AAAATAAAAT-A
*
9930746 AAGTGAAAATAAAAATAAAGA-A
1 AAAT-AAAATAAAAATAAA-ATA
9930768 AAATAAAATAAAAATAAAATA
1 AAATAAAATAAAAATAAAATA
* *
9930789 AAATAAAGTAAAGATAAAA
1 AAATAAAATAAAAATAAAA
9930808 AATAAAAGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
20 1 0.02
21 32 0.59
22 4 0.07
23 7 0.13
24 5 0.09
25 5 0.09
ACGTcount: A:0.76, C:0.01, G:0.07, T:0.16
Consensus pattern (21 bp):
AAATAAAATAAAAATAAAATA
Found at i:9930839 original size:3 final size:3
Alignment explanation
Indices: 9930831--9930857 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9930821 TAAACAAATC
9930831 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9930858 ATAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9939015 original size:22 final size:22
Alignment explanation
Indices: 9938990--9939031 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
9938980 AAGACTTAAA
* * *
9938990 AGATTATGCCTTGAGGTCTTAT
1 AGATCATGCCTGGAGATCTTAT
9939012 AGATCATGCCTGGAGATCTT
1 AGATCATGCCTGGAGATCTT
9939032 TAAGACTATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (22 bp):
AGATCATGCCTGGAGATCTTAT
Found at i:9939538 original size:143 final size:143
Alignment explanation
Indices: 9939280--9939697 Score: 354
Period size: 143 Copynumber: 2.9 Consensus size: 143
9939270 AAAAAGTGTA
* * * *
9939280 AAATCA-CAAAAATACCCTTTAAGAG-TA-TTCTAGTAATTTTACCTTCTCAAGGTTA-ATTTTT
1 AAATCACCAAAAA-ACCTTTTAAGAGTTATTTC-A-TAATTTGACCATCACAAGG-TAGA-TTTT
* * * * *
9939341 CAT-AAAAGGCTTCAAATCATGTTTTAATCTTATTTCGTAAATTTTAATGTATTAAAAACCATGA
61 CATGAAAA-GCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGA
9939405 TTGCACCTTGAAAGGCTTG
125 TTGCACCTTGAAAGGCTTG
* * * * ** * *
9939424 AAATTATCAAAAAACCTTTT-AGAAGTTTTTTTATAATTTGACTTTCACGAGGTTAGATTTT-GT
1 AAATCACCAAAAAACCTTTTAAG-AGTTATTTCATAATTTGACCATCACAAGG-TAGATTTTCAT
* * ** *
9939487 GAAAAGCTCCAAATCATGTTTTCATATTATTTCATGATTTTTGGTGCATTAAAAA-CATTGATCG
64 GAAAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCA-TGATTG
** *
9939551 CATGTTGAAAGGGTTG
128 CACCTTGAAAGGCTTG
** * * * *
9939567 AAATCACCAAAATGCCTTTTAAGGGTTATTTCATAATTTTACCATCCCAAGGTCGATTTTCATG-
1 AAATCACCAAAAAACCTTTTAAGAGTTATTTCATAATTTGACCATCACAAGGTAGATTTTCATGA
* * * * *
9939631 AAA-CTCCTAATCATATTTTGATATTATTTCATGAATTTTAATGCATT-AAAACCAAGAATGCAC
66 AAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGCAC
9939694 CTTG
131 CTTG
9939698 TCATAACTTC
Statistics
Matches: 217, Mismatches: 47, Indels: 24
0.75 0.16 0.08
Matches are distributed among these distances:
140 12 0.06
141 40 0.18
142 12 0.06
143 101 0.47
144 41 0.19
145 9 0.04
146 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (143 bp):
AAATCACCAAAAAACCTTTTAAGAGTTATTTCATAATTTGACCATCACAAGGTAGATTTTCATGA
AAAGCTCCAAATCATGTTTTAATATTATTTCATGAATTTTAATGCATTAAAAACCATGATTGCAC
CTTGAAAGGCTTG
Found at i:9940293 original size:58 final size:57
Alignment explanation
Indices: 9940180--9940334 Score: 242
Period size: 59 Copynumber: 2.7 Consensus size: 57
9940170 TGTACAAGAA
*
9940180 AAAATTGATACTTTCAACTTTTT-ACAAAAATATATTTTTTGAAATTTAATTTCGA-G
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATAT-TTTTTTGAAATTTAATTTCGAGG
*
9940236 AAAATTGATACTTTTAACTTTTTCCCAAAAATATTTTTTTGAAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTG-AAA-TTTAATTTCGAGG
*
9940295 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
9940335 TGGATTTTAT
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
56 29 0.32
57 12 0.13
58 11 0.12
59 39 0.43
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAATTTAATTTCGAGG
Found at i:9940411 original size:19 final size:18
Alignment explanation
Indices: 9940381--9940520 Score: 75
Period size: 18 Copynumber: 6.9 Consensus size: 18
9940371 AATGAAAGTG
9940381 AAAATAAAAATAAGAAAAAT
1 AAAAT-AAAATAA-AAAAAT
9940401 AAAATAAAATAAAAAAAT
1 AAAATAAAATAAAAAAAT
*
9940419 AAAGTAAAGAT-AAAAAAT
1 AAAATAAA-ATAAAAAAAT
* * * *
9940437 AATAGAATATTAAACAAATCT
1 AAAATAA-AATAAA-AAA-AT
9940458 AATAATAATAATAATATAATAAT
1 AA-AATAA-AATAA-A-AA-AAT
*
9940481 AATAATAATAATAAAAAATAA
1 AA-AATAA-AATAAAAAA-AT
9940502 ATAAATAAATATAAAAAAA
1 A-AAATAAA-ATAAAAAAA
9940521 AAACCTGGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
18 25 0.26
19 12 0.12
20 11 0.11
21 20 0.21
22 10 0.10
23 18 0.19
24 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (18 bp):
AAAATAAAATAAAAAAAT
Found at i:9940426 original size:13 final size:13
Alignment explanation
Indices: 9940352--9940421 Score: 52
Period size: 13 Copynumber: 4.9 Consensus size: 13
9940342 TATTTAAAGG
*
9940352 AAATAAAATAATA
1 AAATAAAATAAAA
*
9940365 AAACAAAATGAAAGTGA
1 AAATAAAAT-AAA---A
9940382 AAATAAAAATAAGAA
1 AAAT-AAAATAA-AA
9940397 AAATAAAATAAAA
1 AAATAAAATAAAA
9940410 TAAA-AAAATAAA
1 -AAATAAAATAAA
9940422 GTAAAGATAA
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
13 18 0.38
14 12 0.26
15 5 0.11
17 6 0.13
18 6 0.13
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:9940465 original size:3 final size:3
Alignment explanation
Indices: 9940457--9940494 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
9940447 TAAACAAATC
9940457 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9940495 AAAATAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9940479 original size:17 final size:17
Alignment explanation
Indices: 9940457--9940490 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9940447 TAAACAAATC
9940457 TAATAATAATAATAATA
1 TAATAATAATAATAATA
9940474 TAATAATAATAATAATA
1 TAATAATAATAATAATA
9940491 ATAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAATAATAATAATA
Found at i:9941686 original size:10 final size:10
Alignment explanation
Indices: 9941673--9941705 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
9941663 TTTGAGGCTT
9941673 ATTGATGCTC
1 ATTGATGCTC
9941683 ATTGATGCTC
1 ATTGATGCTC
9941693 ATTGATGCTC
1 ATTGATGCTC
9941703 ATT
1 ATT
9941706 CTATTGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.42
Consensus pattern (10 bp):
ATTGATGCTC
Found at i:9946963 original size:11 final size:12
Alignment explanation
Indices: 9946939--9946964 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9946929 AATAAGAAGG
9946939 AACAAGGAAAAA
1 AACAAGGAAAAA
9946951 AACAAGGAAAAA
1 AACAAGGAAAAA
9946963 AA
1 AA
9946965 GCATTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (12 bp):
AACAAGGAAAAA
Found at i:9949701 original size:23 final size:23
Alignment explanation
Indices: 9949675--9949719 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9949665 TTTTTGTTTA
*
9949675 AAAAGTAAACAATAGAAAACATG
1 AAAAGTAAACAAAAGAAAACATG
9949698 AAAAGTAAACAAAAGAAAACAT
1 AAAAGTAAACAAAAGAAAACAT
9949720 AATTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAAGTAAACAAAAGAAAACATG
Found at i:9950475 original size:94 final size:94
Alignment explanation
Indices: 9950375--9950570 Score: 257
Period size: 94 Copynumber: 2.1 Consensus size: 94
9950365 TTAATTCAAT
* * *
9950375 ATTTAAATCTTCCAATAGTTTGGCAGGATTGAAAATTTTATTTTTCATAAAAATTTACTAAATCT
1 ATTTAAATCTTCCAATAGTTTGACAAGATTGAAAATTTTATTTTTCATAAAAATTCACTAAATCT
* *
9950440 TCCAATAGTTTGATAAGATTTAACTTGAG
66 TCCAATAATTTGATAAGATTTAACTTGAA
* * * ** * * *
9950469 ATTTAAATCTTCCAGTAGTTTGATAATATTGAAGTTTTTATTTTTCATAAAAATTCATTAAGTTT
1 ATTTAAATCTTCCAATAGTTTGACAAGATTGAAAATTTTATTTTTCATAAAAATTCACTAAATCT
* *
9950534 TTCAATAATTTTATAAGATTTAACTTGAA
66 TCCAATAATTTGATAAGATTTAACTTGAA
9950563 ATTTAAAT
1 ATTTAAAT
9950571 TTTTTTAATA
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.45
Consensus pattern (94 bp):
ATTTAAATCTTCCAATAGTTTGACAAGATTGAAAATTTTATTTTTCATAAAAATTCACTAAATCT
TCCAATAATTTGATAAGATTTAACTTGAA
Found at i:9951783 original size:17 final size:18
Alignment explanation
Indices: 9951758--9951797 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
9951748 AATGATAAAA
9951758 ATAAA-ATATAAATA-AG
1 ATAAATATATAAATACAG
*
9951774 ATAAATATATATATACAG
1 ATAAATATATAAATACAG
9951792 A-AAATA
1 ATAAATA
9951798 CGATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 5 0.24
17 13 0.62
18 3 0.14
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAAATATATAAATACAG
Found at i:9954185 original size:20 final size:20
Alignment explanation
Indices: 9954157--9954194 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9954147 CTCCAAACCA
*
9954157 AAACTAAACCCTTAAACCCC
1 AAACAAAACCCTTAAACCCC
9954177 AAACAAAACCCTTAAACC
1 AAACAAAACCCTTAAACC
9954195 ATAAGCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (20 bp):
AAACAAAACCCTTAAACCCC
Found at i:9954203 original size:13 final size:13
Alignment explanation
Indices: 9954187--9954211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9954177 AAACAAAACC
9954187 CTTAAACCATAAG
1 CTTAAACCATAAG
9954200 CTTAAACCATAA
1 CTTAAACCATAA
9954212 CCTAACTCTC
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:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (13 bp):
CTTAAACCATAAG
Found at i:9954342 original size:18 final size:18
Alignment explanation
Indices: 9954321--9954384 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
9954311 ACAAACTTTA
*
9954321 AATCCCAAACCAAACCCT
1 AATCCTAAACCAAACCCT
*
9954339 AATCCTTAAACCAAACTCT
1 AATCC-TAAACCAAACCCT
** *
9954358 AAAACTAAACCAAACCCA
1 AATCCTAAACCAAACCCT
*
9954376 AAACCTAAA
1 AATCCTAAA
9954385 ATTGAACTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
18 24 0.63
19 14 0.37
ACGTcount: A:0.52, C:0.34, G:0.00, T:0.14
Consensus pattern (18 bp):
AATCCTAAACCAAACCCT
Found at i:9954622 original size:12 final size:12
Alignment explanation
Indices: 9954597--9954785 Score: 73
Period size: 12 Copynumber: 16.3 Consensus size: 12
9954587 ATCCTTAAAT
9954597 TAAAGCCAAA-CC
1 TAAA-CCAAACCC
9954609 TAAACCAAACCC
1 TAAACCAAACCC
*
9954621 TAAATCCATAAACC
1 TAAA-CCA-AACCC
* *
9954635 -AACCTCAAACCT
1 TAAAC-CAAACCC
*
9954647 TAAACTAAACTCC
1 TAAACCAAAC-CC
9954660 -AAACCAAACCC
1 TAAACCAAACCC
*
9954671 TAAATCAAA-CC
1 TAAACCAAACCC
*
9954682 TAACCCTAAATCCC
1 TAAACC-AAA-CCC
* *
9954696 TAAAACTAACCC
1 TAAACCAAACCC
*
9954708 T-----AAACCT
1 TAAACCAAACCC
*
9954715 TAAACTAAACCC
1 TAAACCAAACCC
* *
9954727 TTAACTAAACCC
1 TAAACCAAACCC
* *
9954739 TAAAGC-AAGCC
1 TAAACCAAACCC
9954750 ----CCAAACCC
1 TAAACCAAACCC
*
9954758 AAAACCAAACCC
1 TAAACCAAACCC
*
9954770 TAAACAAAACCC
1 TAAACCAAACCC
9954782 TAAA
1 TAAA
9954786 TATAACCAAA
Statistics
Matches: 131, Mismatches: 26, Indels: 40
0.66 0.13 0.20
Matches are distributed among these distances:
7 6 0.05
8 4 0.03
11 17 0.13
12 81 0.62
13 13 0.10
14 10 0.08
ACGTcount: A:0.49, C:0.35, G:0.02, T:0.14
Consensus pattern (12 bp):
TAAACCAAACCC
Found at i:9954664 original size:19 final size:19
Alignment explanation
Indices: 9954602--9954664 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 19
9954592 TAAATTAAAG
9954602 CCAAACC-TAAACCAAAC-
1 CCAAACCTTAAACCAAACT
* *
9954619 CCTAAATCCATAAACCAACCT
1 CC-AAA-CCTTAAACCAAACT
*
9954640 -CAAACCTTAAACTAAACT
1 CCAAACCTTAAACCAAACT
9954658 CCAAACC
1 CCAAACC
9954665 AAACCCTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.05
18 14 0.38
19 11 0.30
20 10 0.27
ACGTcount: A:0.48, C:0.38, G:0.00, T:0.14
Consensus pattern (19 bp):
CCAAACCTTAAACCAAACT
Found at i:9954679 original size:17 final size:17
Alignment explanation
Indices: 9954659--9954693 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9954649 AACTAAACTC
9954659 CAAACCAAACCCTAAAT
1 CAAACCAAACCCTAAAT
*
9954676 CAAACCTAACCCTAAAT
1 CAAACCAAACCCTAAAT
9954693 C
1 C
9954694 CCTAAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAACCAAACCCTAAAT
Found at i:9954737 original size:68 final size:67
Alignment explanation
Indices: 9954610--9954742 Score: 180
Period size: 68 Copynumber: 2.0 Consensus size: 67
9954600 AGCCAAACCT
9954610 AAACCAAACCCTAAATCCATAAACCAACCTCAAACCTTAAACTAAACTCCAAACCAAACCCTAAA
1 AAACCAAACCCTAAATCCATAAACCAACCTCAAACCTTAAACTAAACTCCAAACCAAACCCTAAA
9954675 TC
66 TC
* * * * *
9954677 AAACCTAACCCTAAATCCCTAAAACTAACC-CTAAACCTTAAACTAAAC-CCTTAACTAAACCCT
1 AAACCAAACCCTAAATCCAT-AAACCAACCTC-AAACCTTAAACTAAACTCC-AAACCAAACCCT
9954740 AAA
63 AAA
9954743 GCAAGCCCCA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
67 21 0.36
68 37 0.64
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.17
Consensus pattern (67 bp):
AAACCAAACCCTAAATCCATAAACCAACCTCAAACCTTAAACTAAACTCCAAACCAAACCCTAAA
TC
Found at i:9954756 original size:43 final size:43
Alignment explanation
Indices: 9954663--9954785 Score: 115
Period size: 43 Copynumber: 2.8 Consensus size: 43
9954653 AAACTCCAAA
* * *
9954663 CCAAACCCTAAATCAAA-CCTAACCCTAAATCCCTAAAACTAACC
1 CCAAACCCAAAACCAAACCCTAA-ACTAAA-CCCTAAAACTAACC
* ** * * *
9954707 CTAAACCTTAAACTAAACCCTTAACTAAACCCTAAAGC-AAGCC
1 CCAAACCCAAAACCAAACCCTAAACTAAACCCTAAAACTAA-CC
*
9954750 CCAAACCCAAAACCAAACCCTAAACAAAACCCTAAA
1 CCAAACCCAAAACCAAACCCTAAACTAAACCCTAAA
9954786 TATAACCAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.03
43 40 0.62
44 18 0.28
45 4 0.06
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.14
Consensus pattern (43 bp):
CCAAACCCAAAACCAAACCCTAAACTAAACCCTAAAACTAACC
Found at i:9954774 original size:19 final size:18
Alignment explanation
Indices: 9954651--9954774 Score: 61
Period size: 19 Copynumber: 6.3 Consensus size: 18
9954641 AAACCTTAAA
9954651 CTAAACTCCAAACCAAACC
1 CTAAAC-CCAAACCAAACC
* *
9954670 CTAAA-TCAAACCTAACC
1 CTAAACCCAAACCAAACC
* *
9954687 CTAAATCCCTAAAACTAACC
1 CTAAA-CCC-AAACCAAACC
* *
9954707 CTAAACCTTAAACTAAACCC
1 CTAAACC-CAAACCAAA-CC
* *
9954727 TTAACTAAACCCTAAAGCAAGCC
1 ----CTAAACCC-AAACCAAACC
*
9954750 CCAAACCCAAAACCAAACC
1 CTAAACCC-AAACCAAACC
9954769 CTAAAC
1 CTAAAC
9954775 AAAACCCTAA
Statistics
Matches: 78, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
17 15 0.19
19 33 0.42
20 16 0.21
23 2 0.03
24 12 0.15
ACGTcount: A:0.47, C:0.37, G:0.02, T:0.15
Consensus pattern (18 bp):
CTAAACCCAAACCAAACC
Found at i:9960323 original size:7 final size:7
Alignment explanation
Indices: 9960306--9960347 Score: 75
Period size: 7 Copynumber: 5.9 Consensus size: 7
9960296 AAACCAAAAC
9960306 TAAACCCT
1 TAAA-CCT
9960314 TAAACCT
1 TAAACCT
9960321 TAAACCT
1 TAAACCT
9960328 TAAACCT
1 TAAACCT
9960335 TAAACCT
1 TAAACCT
9960342 TAAACC
1 TAAACC
9960348 AAATCCTCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACCT
Found at i:9960337 original size:21 final size:20
Alignment explanation
Indices: 9960291--9960347 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
9960281 CGAAATTTTG
*
9960291 ACCTTAAACC--AAAACTAA
1 ACCTTAAACCTTAAACCTAA
9960309 ACCCTTAAACCTTAAACCTTAA
1 A-CCTTAAACCTTAAACC-TAA
9960331 ACCTTAAACCTTAAACC
1 ACCTTAAACCTTAAACC
9960348 AAATCCTCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
18 1 0.03
19 9 0.26
21 20 0.59
22 4 0.12
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.23
Consensus pattern (20 bp):
ACCTTAAACCTTAAACCTAA
Found at i:9960466 original size:38 final size:39
Alignment explanation
Indices: 9960422--9960499 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
9960412 TAAACCCTTG
*
9960422 AACCCCAA-ACTAAAACC-AATCGCTTAAACCCCAAACCA
1 AACCCCAATA-TAAAACCTAATCCCTTAAACCCCAAACCA
* *
9960460 AACCCCAATATGAAACCTAATCCCTTAAACCCTAAACCA
1 AACCCCAATATAAAACCTAATCCCTTAAACCCCAAACCA
9960499 A
1 A
9960500 TCCTAATTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 14 0.40
39 21 0.60
ACGTcount: A:0.46, C:0.37, G:0.03, T:0.14
Consensus pattern (39 bp):
AACCCCAATATAAAACCTAATCCCTTAAACCCCAAACCA
Found at i:9960715 original size:17 final size:18
Alignment explanation
Indices: 9960689--9960730 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9960679 TAACCCCTAT
*
9960689 ACCAATCCCC-AAACCAA
1 ACCAAACCCCAAAACCAA
9960706 ACCAAACCCCAAAACCAA
1 ACCAAACCCCAAAACCAA
*
9960724 ATCAAAC
1 ACCAAAC
9960731 ACCTCAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.52, C:0.43, G:0.00, T:0.05
Consensus pattern (18 bp):
ACCAAACCCCAAAACCAA
Found at i:9960807 original size:20 final size:20
Alignment explanation
Indices: 9960762--9960812 Score: 86
Period size: 19 Copynumber: 2.6 Consensus size: 20
9960752 TGAAGCCGAG
*
9960762 CCCTAAACCCAACCTTAAAT
1 CCCTAAACCAAACCTTAAAT
9960782 -CCTAAACCAAACCTTAAAT
1 CCCTAAACCAAACCTTAAAT
9960801 CCCTAAACCAAA
1 CCCTAAACCAAA
9960813 TAGTAAACCA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (20 bp):
CCCTAAACCAAACCTTAAAT
Found at i:9960819 original size:20 final size:19
Alignment explanation
Indices: 9960763--9960819 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
9960753 GAAGCCGAGC
* **
9960763 CCTAAACCCAACCTTAAAT
1 CCTAAACCAAACAGTAAAT
**
9960782 CCTAAACCAAACCTTAAAT
1 CCTAAACCAAACAGTAAAT
*
9960801 CCCTAAACCAAATAGTAAA
1 -CCTAAACCAAACAGTAAA
9960820 CCAACCCCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.19
Consensus pattern (19 bp):
CCTAAACCAAACAGTAAAT
Found at i:9960895 original size:12 final size:12
Alignment explanation
Indices: 9960880--9960920 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
9960870 ACCAACCTCC
9960880 AAACCCTAAACT-
1 AAACCCTAAA-TG
9960892 AAACCCTAAATG
1 AAACCCTAAATG
*
9960904 AAACCCTAAATC
1 AAACCCTAAATG
9960916 AAACC
1 AAACC
9960921 AAACCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 1 0.04
12 26 0.96
ACGTcount: A:0.51, C:0.32, G:0.02, T:0.15
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:9960934 original size:18 final size:19
Alignment explanation
Indices: 9960904--9960949 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
9960894 ACCCTAAATG
9960904 AAACCCT-AAATCAAAC-C
1 AAACCCTAAAATCAAACAC
*
9960921 AAACCTTAAAATCAAACAC
1 AAACCCTAAAATCAAACAC
9960940 AAACCCTAAA
1 AAACCCTAAA
9960950 CCCAAATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 10 0.40
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (19 bp):
AAACCCTAAAATCAAACAC
Found at i:9960955 original size:19 final size:17
Alignment explanation
Indices: 9960904--9960949 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
9960894 ACCCTAAATG
9960904 AAACCCTAAATCAAACC
1 AAACCCTAAATCAAACC
*
9960921 AAACCTTAAAATCAAACAC
1 AAACCCT-AAATCAAAC-C
9960940 AAACCCTAAA
1 AAACCCTAAA
9960950 CCCAAATCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (17 bp):
AAACCCTAAATCAAACC
Found at i:9961278 original size:44 final size:44
Alignment explanation
Indices: 9961229--9961319 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
9961219 GAGATCTAGT
*
9961229 TTAAATATA-GAAGAATTCTCAATAATTATTATTTATAAGAAATA
1 TTAAATATACG-AGAATTCTCAACAATTATTATTTATAAGAAATA
* * * * *
9961273 TTAAATATACGGGGATTCTCAACAGTTATTATTTATGAGAACTA
1 TTAAATATACGAGAATTCTCAACAATTATTATTTATAAGAAATA
9961317 TTA
1 TTA
9961320 TTTTAGTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 39 0.98
45 1 0.03
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (44 bp):
TTAAATATACGAGAATTCTCAACAATTATTATTTATAAGAAATA
Found at i:9974047 original size:50 final size:49
Alignment explanation
Indices: 9973959--9974123 Score: 143
Period size: 51 Copynumber: 3.3 Consensus size: 49
9973949 TTTTTTTTTT
* * * * *
9973959 TTTTAAAGTTTCAAAGCTTTTATTTAA-AATGAGCTTTTCAAAGTTAAGA
1 TTTTAAAGTTTCAAAACCTCTATTCAAGAA-AAGCTTTTCAAAGTTAAGA
* * * * *
9974008 TTTTAAAAGTTTCAAAATCTCTATTCAGGAAAAGGTTTTCAAAGATGAGA
1 TTTT-AAAGTTTCAAAACCTCTATTCAAGAAAAGCTTTTCAAAGTTAAGA
* * * * *
9974058 TTTTTTAAAGTTTTAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTTATGA
1 --TTTTAAAGTTTCAAAACCTCTATTCAAGAAAAGCTTTTCAAAGTTAAGA
*
9974109 TTTTTAAGTTTCAAA
1 TTTTAAAGTTTCAAA
9974124 GTTTTTGTGT
Statistics
Matches: 90, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
49 17 0.19
50 32 0.36
51 37 0.41
52 4 0.04
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (49 bp):
TTTTAAAGTTTCAAAACCTCTATTCAAGAAAAGCTTTTCAAAGTTAAGA
Found at i:9974163 original size:101 final size:103
Alignment explanation
Indices: 9973955--9974320 Score: 288
Period size: 100 Copynumber: 3.6 Consensus size: 103
9973945 AAGATTTTTT
* *
9973955 TTTTTTTTAAAGTTTCAAAGCTTTTATTTAA-AATGAGCTTTTCAAAGTTAAGATTTTAAAAGTT
1 TTTTTTTTAAAGTTTCAAAGCCTCTATTTAAGAA-GAGCTTTTCAAAGTTAAGATTTTAAAAGTT
* *
9974019 TCAAAATCTCTATTCAGGAAAAGGTTTTCAAAGATGAGA
65 TCAAAATCTCTATTCAGGAAAAGCTTTTCAAAGATAAGA
* * *
9974058 --TTTTTTAAAGTTTTAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTTATGATTTT-TAAGTTT
1 TTTTTTTTAAAGTTTCAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTTAAGATTTTAAAAGTTT
* * * * ** *
9974120 CAAAGTTTTTGTGT-A-GAAAGAGCTTTTTGAAGTTAAGA
66 CAAAATCTCTAT-TCAGGAAA-AGCTTTTCAAAGATAAGA
** * * * ** *
9974158 TTTTTTTTTAAAGGCTCAGAGTCTCTATTTAGGAAGAGCTTTTCAAAAATGAGAATTTTAAAA-T
1 -TTTTTTTTAAAGTTTCAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTTAAG-ATTTTAAAAGT
** * * * *
9974222 TTCAAAGCCTCTATTTAGGAGAAA-CTTTTCAATGTTGAGA
64 TTCAAAATCTCTATTCAGGA-AAAGCTTTTCAAAGATAAGA
* * * *
9974262 ---TTTTTAAACTTTCAAAGCCTCTAATTAAGATA-AGCTCTTCAAATTTAAGATTTTTAAAA
1 TTTTTTTTAAAGTTTCAAAGCCTCTATTTAAGA-AGAGCTTTTCAAAGTTAAGA-TTTTAAAA
9974321 AACTTTAATG
Statistics
Matches: 206, Mismatches: 44, Indels: 29
0.74 0.16 0.10
Matches are distributed among these distances:
99 5 0.02
100 72 0.35
101 50 0.24
102 2 0.01
103 41 0.20
104 29 0.14
105 5 0.02
106 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (103 bp):
TTTTTTTTAAAGTTTCAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTTAAGATTTTAAAAGTTT
CAAAATCTCTATTCAGGAAAAGCTTTTCAAAGATAAGA
Found at i:9974234 original size:50 final size:50
Alignment explanation
Indices: 9973959--9974319 Score: 221
Period size: 50 Copynumber: 7.1 Consensus size: 50
9973949 TTTTTTTTTT
* * * *
9973959 TTTTAAAGTTTCAAAGCTTTTATTTA-AAATGAGCTTTTCAAAGTTAAG-A
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGAA-GAGCTTTTCAAAGTTGAGAA
** * * * * *
9974008 TTTTAAAAGTTTCAAAATCTCTATTCAGGAAAAGGTTTTCAAAGATGAGATT
1 TTTT-AAAGTTTCAAAGCCTCTATTTAGGAAGAGCTTTTCAAAGTTGAGA-A
* *
9974060 TTTTAAAGTTTTAAAGCCTCTATTTAAGAAGAGCTTTTCAAAGTT-ATG-A
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCTTTTCAAAGTTGA-GAA
* ** * * * * ** * *
9974109 TTTTTAAGTTTCAAAGTTTTTGTGTAGAAAGAGCTTTTTGAAGTTAAGATTTTT
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCTTTTCAAAGTTGAGA----A
** * * **
9974163 TTTTAAAGGCTCAGAGTCTCTATTTAGGAAGAGCTTTTCAAAAATGAGAA
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCTTTTCAAAGTTGAGAA
* * * *
9974213 TTTTAAAATTTCAAAGCCTCTATTTAGG-AGAAACTTTTCAATGTTGAGAT
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGAAG-AGCTTTTCAAAGTTGAGAA
* * * * * * *
9974263 TTTTAAACTTTCAAAGCCTCTAATTAAGATA-AGCTCTTCAAATTTAAGAT
1 TTTTAAAGTTTCAAAGCCTCTATTTAGGA-AGAGCTTTTCAAAGTTGAGAA
9974313 TTTTAAA
1 TTTTAAA
9974320 AAACTTTAAT
Statistics
Matches: 233, Mismatches: 65, Indels: 27
0.72 0.20 0.08
Matches are distributed among these distances:
49 41 0.18
50 116 0.50
51 36 0.15
52 5 0.02
54 35 0.15
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (50 bp):
TTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGCTTTTCAAAGTTGAGAA
Found at i:9975120 original size:144 final size:142
Alignment explanation
Indices: 9974773--9975120 Score: 332
Period size: 144 Copynumber: 2.4 Consensus size: 142
9974763 GAATAGTGTA
* * * * * * * *
9974773 AAATTACCAAAATACCATTCAAGGGTA-TTTCGTAATTTTACCTTCTCAAGATTGATTATTCGTG
1 AAATTACCAAAATATCATTTAA-GGTATTTTCATAATTTAACCTTCT-AAGGTTAATTTTTCCTG
* *
9974837 AAAACATCAAAATCATATTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTGATCGCA
64 AAAACATCAAAATCATATTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTAATCACA
9974902 CCACGAAAAGGTTG
129 CCACGAAAAGGTTG
* * * * *
9974916 AAATTACCAAAATATCCTTT-AGGCATATTTTCATAATTTGACCTTTCT-TGAGTCAGTTTTTCC
1 AAATTACCAAAATATCATTTAAGG--TATTTTCATAATTTAACC-TTCTAAG-GTTAATTTTTCC
* * * * *
9974979 TGAAAAGC-TCCAAATCATGTTTTGATATTATTTCAT-GATTTTTATGCATTAAAAGCAC-TAAT
62 TGAAAA-CATCAAAATCATATTTTGATATTATTTCATAAATTTTGATGCATTAAAAAC-CTTAAT
* *
9975041 CATACCTC-AAAAGGGTTG
125 CACACCACGAAAA-GGTTG
*
9975059 AAATCACCAAAATATCATTTAAATGGTATTTTCATAATTTAACCTTCCTAAGGTTAATTTTT
1 AAATTACCAAAATATCATTT-AA-GGTATTTTCATAATTTAACCTT-CTAAGGTTAATTTTT
9975121 TGCGAAAAGT
Statistics
Matches: 165, Mismatches: 27, Indels: 25
0.76 0.12 0.12
Matches are distributed among these distances:
141 2 0.01
142 5 0.03
143 70 0.42
144 79 0.48
145 7 0.04
146 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (142 bp):
AAATTACCAAAATATCATTTAAGGTATTTTCATAATTTAACCTTCTAAGGTTAATTTTTCCTGAA
AACATCAAAATCATATTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTAATCACACC
ACGAAAAGGTTG
Found at i:9975141 original size:144 final size:143
Alignment explanation
Indices: 9974846--9975108 Score: 318
Period size: 143 Copynumber: 1.8 Consensus size: 143
9974836 GAAAACATCA
* * *
9974846 AAATCATATTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTGATCGCACCACGAAAA
1 AAATCATGTTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTAATCACACCACGAAAA
* * * * * *
9974911 GGTTGAAATTACCAAAATATCCTTTAGGCATATTTTCATAATTTGACCTTTCTTGAGTCAGTTTT
66 GGTTGAAATCACCAAAATATCATTTAGG-ATATTTTCATAATTTAACCTTCCTAGAGTAAGTTTT
9974976 TCCTGAAAAGCTCC
130 TCCTGAAAAGCTCC
* * * * *
9974990 AAATCATGTTTTGATATTATTTCAT-GATTTTTATGCATTAAAAGCAC-TAATCATACCTC-AAA
1 AAATCATGTTTTGATATTATTTCATAAATTTTGATGCATTAAAAAC-CTTAATCACACCACGAAA
9975052 AGGGTTGAAATCACCAAAATATCATTTAAATGG-TATTTTCATAATTTAACCTTCCTA
65 A-GGTTGAAATCACCAAAATATCATTT--A-GGATATTTTCATAATTTAACCTTCCTA
9975109 AGGTTAATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
142 4 0.04
143 48 0.48
144 46 0.46
145 1 0.01
146 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (143 bp):
AAATCATGTTTTGATATTATTTCATAAATTTTGATGCATTAAAAACCTTAATCACACCACGAAAA
GGTTGAAATCACCAAAATATCATTTAGGATATTTTCATAATTTAACCTTCCTAGAGTAAGTTTTT
CCTGAAAAGCTCC
Found at i:9976693 original size:26 final size:26
Alignment explanation
Indices: 9976663--9976716 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
9976653 CTTTAATGGT
9976663 AAACCAAACCCTTAAACCCCAAACCA
1 AAACCAAACCCTTAAACCCCAAACCA
* * *
9976689 AAACCAAACCCTTGAACTCTAAACCA
1 AAACCAAACCCTTAAACCCCAAACCA
9976715 AA
1 AA
9976717 TCCTTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.50, C:0.37, G:0.02, T:0.11
Consensus pattern (26 bp):
AAACCAAACCCTTAAACCCCAAACCA
Found at i:9976733 original size:19 final size:19
Alignment explanation
Indices: 9976683--9976763 Score: 74
Period size: 19 Copynumber: 4.2 Consensus size: 19
9976673 CTTAAACCCC
*
9976683 AAACCAAAACCAAACCCTT
1 AAACTAAAACCAAACCCTT
* * *
9976702 GAACTCTAAACCAAATCCTT
1 AAACT-AAAACCAAACCCTT
*
9976722 AAACTAAAACCAATCCC-T
1 AAACTAAAACCAAACCCTT
* *
9976740 AATGCTAAAACTAAACCCTT
1 AA-ACTAAAACCAAACCCTT
9976760 AAAC
1 AAAC
9976764 CTTTAATCCC
Statistics
Matches: 47, Mismatches: 12, Indels: 6
0.72 0.18 0.09
Matches are distributed among these distances:
18 3 0.06
19 25 0.53
20 19 0.40
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (19 bp):
AAACTAAAACCAAACCCTT
Found at i:9976801 original size:20 final size:19
Alignment explanation
Indices: 9976759--9976822 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
9976749 ACTAAACCCT
* *
9976759 TAAACCTTTAATCCCAAAT
1 TAAACCCTTAATCCCAAAC
9976778 TAAACCCTTAATCCCTAAAC
1 TAAACCCTTAATCCC-AAAC
* *
9976798 TAAACCCTAAATTCCAAAC
1 TAAACCCTTAATCCCAAAC
*
9976817 CAAACC
1 TAAACC
9976823 TCAAATGCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.44, C:0.33, G:0.00, T:0.23
Consensus pattern (19 bp):
TAAACCCTTAATCCCAAAC
Found at i:9976821 original size:19 final size:19
Alignment explanation
Indices: 9976779--9976900 Score: 83
Period size: 19 Copynumber: 6.5 Consensus size: 19
9976769 ATCCCAAATT
* * *
9976779 AAACCCTTAATCCCTAAACT
1 AAACCCTAAATTCC-AAACC
9976799 AAACCCTAAATTCCAAACC
1 AAACCCTAAATTCCAAACC
* * *
9976818 AAA-CCTCAAATGCTAAAAC
1 AAACCCT-AAATTCCAAACC
* *
9976837 AAACCTTAAAAT-CAAACC
1 AAACCCTAAATTCCAAACC
* *
9976855 AAACTCTAAA-TCTAAAACC
1 AAACCCTAAATTC-CAAACC
*
9976874 AAACCTTAAATT--AAACC
1 AAACCCTAAATTCCAAACC
9976891 AAACCCTAAA
1 AAACCCTAAA
9976901 CCCTAAAATC
Statistics
Matches: 80, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
17 15 0.19
18 15 0.19
19 35 0.44
20 15 0.19
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.19
Consensus pattern (19 bp):
AAACCCTAAATTCCAAACC
Found at i:9976900 original size:12 final size:12
Alignment explanation
Indices: 9976885--9976987 Score: 51
Period size: 12 Copynumber: 8.9 Consensus size: 12
9976875 AACCTTAAAT
9976885 TAAACCAAACCC
1 TAAACCAAACCC
**
9976897 TAAACCCTAAAATC
1 TAAA-CC-AAACCC
9976911 -AAACC-AACCAC
1 TAAACCAAACC-C
9976922 TAAACCAAA-CC
1 TAAACCAAACCC
*
9976933 ----CCAAACTC
1 TAAACCAAACCC
*
9976941 TAAA-CAAACCT
1 TAAACCAAACCC
9976952 TAAACCAAACCTC
1 TAAACCAAACC-C
* *
9976965 TAAATCAAATCC
1 TAAACCAAACCC
*
9976977 TAAACTAAACC
1 TAAACCAAACC
9976988 ACATCCCAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 24
0.64 0.13 0.23
Matches are distributed among these distances:
7 5 0.08
8 1 0.02
10 2 0.03
11 11 0.17
12 27 0.41
13 16 0.24
14 4 0.06
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (12 bp):
TAAACCAAACCC
Found at i:9976901 original size:24 final size:24
Alignment explanation
Indices: 9976874--9976927 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
9976864 ATCTAAAACC
* *
9976874 AAACCTTAAATTAAACCAAACC-CT
1 AAACCTAAAATCAAACC-AACCACT
9976898 AAACCCTAAAATCAAACCAACCACT
1 AAA-CCTAAAATCAAACCAACCACT
9976923 AAACC
1 AAACC
9976928 AAACCCCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (24 bp):
AAACCTAAAATCAAACCAACCACT
Found at i:9976932 original size:30 final size:29
Alignment explanation
Indices: 9976898--9976973 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
9976888 ACCAAACCCT
*
9976898 AAACCCTAAAATCAAACCAACCACTAAACC
1 AAACCCTAAAATCAAACAAACC-CTAAACC
* * *
9976928 AAACCCCAAACTCTAAACAAACCTTAAACC
1 AAACCCTAAAATC-AAACAAACCCTAAACC
9976958 AAACCTCT-AAATCAAA
1 AAACC-CTAAAATCAAA
9976974 TCCTAAACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
29 3 0.08
30 26 0.68
31 9 0.24
ACGTcount: A:0.53, C:0.34, G:0.00, T:0.13
Consensus pattern (29 bp):
AAACCCTAAAATCAAACAAACCCTAAACC
Found at i:9976986 original size:25 final size:24
Alignment explanation
Indices: 9976933--9976987 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
9976923 AAACCAAACC
9976933 CCAAA-CTCTAAACAAACCTTAAA
1 CCAAACCTCTAAACAAACCTTAAA
9976956 CCAAACCTCTAAATCAAATCC-TAAA
1 CCAAACCTCTAAA-CAAA-CCTTAAA
*
9976981 CTAAACC
1 CCAAACC
9976988 ACATCCCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 5 0.18
24 7 0.25
25 14 0.50
26 2 0.07
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (24 bp):
CCAAACCTCTAAACAAACCTTAAA
Found at i:9977120 original size:18 final size:18
Alignment explanation
Indices: 9977093--9977127 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9977083 CAAACCCAAC
*
9977093 CAAACACCAAAATCAAAT
1 CAAACACCAAAACCAAAT
*
9977111 CAAACCCCAAAACCAAA
1 CAAACACCAAAACCAAA
9977128 CCTTAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.34, G:0.00, T:0.06
Consensus pattern (18 bp):
CAAACACCAAAACCAAAT
Done.