Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 3 of 167
Found at i:634064 original size:2 final size:2
Alignment explanation
Indices: 634057--634090 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
634047 CAACTTCCCA
634057 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
634091 CTAACAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:647892 original size:17 final size:17
Alignment explanation
Indices: 647872--647905 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
647862 AAATAGATTT
647872 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
*
647889 TTAATTAAAAATTTTAA
1 TTAATTAAAAAATTTAA
647906 ACTTAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:649641 original size:66 final size:66
Alignment explanation
Indices: 649564--649693 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 66
649554 TTTATGCATC
**
649564 ATTTTCATTGTTATTGTTCCGGTTGTTAAAATTAGATCTGCTTGTTTAGGACTCGATTTTGGTAT
1 ATTTTCATTGTTATTGTTCCAATTGTTAAAATTAGATCTGCTTGTTTAGGACTCGATTTTGGTAT
649629 A
66 A
*
649630 ATTTTCATTGTTATTGTTCTAATTGTTAAAATTAGATCTGCTTGTTTAGGACTCGATTTTGGTA
1 ATTTTCATTGTTATTGTTCCAATTGTTAAAATTAGATCTGCTTGTTTAGGACTCGATTTTGGTA
649694 CCAGCTCATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (66 bp):
ATTTTCATTGTTATTGTTCCAATTGTTAAAATTAGATCTGCTTGTTTAGGACTCGATTTTGGTAT
A
Found at i:650821 original size:16 final size:18
Alignment explanation
Indices: 650786--650826 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
650776 ACATGTACTT
650786 TATTTTAATTTCTATGAA
1 TATTTTAATTTCTATGAA
*
650804 TATTTTTATTT-T-TGAA
1 TATTTTAATTTCTATGAA
650820 TATTTTA
1 TATTTTA
650827 TAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 10 0.48
17 1 0.05
18 10 0.48
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (18 bp):
TATTTTAATTTCTATGAA
Found at i:651907 original size:16 final size:15
Alignment explanation
Indices: 651888--651926 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
651878 TTATAAGATT
*
651888 TATATTTTATATAATA
1 TATATTTTA-AGAATA
651904 TATAATTTTAAGAATA
1 TAT-ATTTTAAGAATA
651920 TATATTT
1 TATATTT
651927 GGATTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 4 0.19
16 11 0.52
17 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
TATATTTTAAGAATA
Found at i:668973 original size:20 final size:22
Alignment explanation
Indices: 668944--669002 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 22
668934 AATTATTTTT
668944 TTATAA-TTTTTTAAATAATT-
1 TTATAATTTTTTTAAATAATTC
* *
668964 TT-TCATTTTTTAAAATAATTC
1 TTATAATTTTTTTAAATAATTC
668985 TTATAATTTTTTTGAAAT
1 TTATAATTTTTTT-AAAT
669003 TTTAAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 15 0.48
21 2 0.06
22 8 0.26
23 4 0.13
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTTAAATAATTC
Found at i:670615 original size:103 final size:103
Alignment explanation
Indices: 670434--670640 Score: 333
Period size: 103 Copynumber: 2.0 Consensus size: 103
670424 TGGTCGTTTA
* * * * *
670434 ACCCTTAAAAACGTGTGTAATCGAAAACCTCTTGCGTTGTTGTTTTTCAATATTAGTAAATTTCT
1 ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCATTGTTGTTTTTCAACATTAATAAATTTCT
*
670499 CTTCCTTTGACCATGATTTTTCTCGATAAAAATTTTCT
66 CTTCCTTTAACCATGATTTTTCTCGATAAAAATTTTCT
* * *
670537 ACCCTTAAAAATATATGTAATTGAAAACCTCTTGCATTGTTGTTTTTCAACATTAATGAATTTCT
1 ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCATTGTTGTTTTTCAACATTAATAAATTTCT
670602 CTTCCTTTAACCATGATTTTTCTCGATAAAAATTTTCT
66 CTTCCTTTAACCATGATTTTTCTCGATAAAAATTTTCT
670640 A
1 A
670641 TGTAAAATTT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (103 bp):
ACCCTTAAAAACATATGTAATCGAAAACCTCTTGCATTGTTGTTTTTCAACATTAATAAATTTCT
CTTCCTTTAACCATGATTTTTCTCGATAAAAATTTTCT
Found at i:672501 original size:22 final size:20
Alignment explanation
Indices: 672476--672522 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
672466 TTTTAATATA
672476 TTAAATGAAAAATATTATTTTT
1 TTAAAT-AAAAA-ATTATTTTT
**
672498 TTAAATTTAAAATTATTTTT
1 TTAAATAAAAAATTATTTTT
672518 TTAAA
1 TTAAA
672523 ACCCTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 14 0.61
21 3 0.13
22 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTAAATAAAAAATTATTTTT
Found at i:678360 original size:19 final size:20
Alignment explanation
Indices: 678328--678367 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
678318 TTTATATATT
678328 TTTAGAATTTTTTAAAAAAA
1 TTTAGAATTTTTTAAAAAAA
678348 TTTAGAA-TTTTTAAAAAAA
1 TTTAGAATTTTTTAAAAAAA
678367 T
1 T
678368 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TTTAGAATTTTTTAAAAAAA
Found at i:678379 original size:18 final size:19
Alignment explanation
Indices: 678339--678380 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
678329 TTAGAATTTT
* * *
678339 TTAAAAAAATTTAGAATTT
1 TTAAAAAAATATAGAAATA
678358 TTAAAAAAATATA-AAATA
1 TTAAAAAAATATAGAAATA
678376 TTAAA
1 TTAAA
678381 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
TTAAAAAAATATAGAAATA
Found at i:678403 original size:18 final size:20
Alignment explanation
Indices: 678382--678423 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
678372 AATATTAAAT
*
678382 TTTTATAAA-TATTTTG-AA
1 TTTTAAAAATTATTTTGAAA
678400 TTTTAAAAATTATTTTGAAA
1 TTTTAAAAATTATTTTGAAA
678420 TTTT
1 TTTT
678424 TGTTAAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 7 0.33
20 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAAAAATTATTTTGAAA
Found at i:678403 original size:19 final size:21
Alignment explanation
Indices: 678378--678424 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 21
678368 ATAAAATATT
*
678378 AAATTTTTATAAA-TATTTTG
1 AAATTTTTAAAAATTATTTTG
678398 -AA-TTTTAAAAATTATTTTG
1 AAATTTTTAAAAATTATTTTG
678417 AAATTTTT
1 AAATTTTT
678425 GTTAAGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
19 9 0.39
20 2 0.09
21 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
AAATTTTTAAAAATTATTTTG
Found at i:678857 original size:21 final size:21
Alignment explanation
Indices: 678831--678872 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
678821 AAAACCACAA
678831 CATAATACATTTTACAATCAC
1 CATAATACATTTTACAATCAC
678852 CATAATACATTTTACAATCAC
1 CATAATACATTTTACAATCAC
678873 ACTTATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (21 bp):
CATAATACATTTTACAATCAC
Found at i:679222 original size:30 final size:31
Alignment explanation
Indices: 679188--679252 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
679178 TCTCTCAACA
679188 AAAATTACAAAATAATTCAA-A-ATA-ATTTTT
1 AAAATT-CAAAAT-ATTCAATATATATATTTTT
*
679218 AAAATTCAAAATATTTAATATATATATTTTT
1 AAAATTCAAAATATTCAATATATATATTTTT
679249 AAAA
1 AAAA
679253 ATGATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 5 0.16
29 7 0.23
30 9 0.29
31 10 0.32
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (31 bp):
AAAATTCAAAATATTCAATATATATATTTTT
Found at i:681149 original size:21 final size:20
Alignment explanation
Indices: 681108--681161 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
681098 AAATATATTA
*
681108 ATAATATTTTATTAAGTAAAT
1 ATAATA-TTTATAAAGTAAAT
681129 ATAATATTTAATAAA-TGAAAT
1 ATAATATTT-ATAAAGT-AAAT
681150 -T-ATATTTATAAA
1 ATAATATTTATAAA
681162 ATTTATTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.17
19 6 0.20
20 5 0.17
21 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (20 bp):
ATAATATTTATAAAGTAAAT
Found at i:684526 original size:25 final size:26
Alignment explanation
Indices: 684486--684538 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
684476 TATTCTAGAA
*
684486 AATAAATAAATCAAATTCCTAATAAT
1 AATAAATAAATCAAATTCCAAATAAT
* *
684512 AATAAA-AAATTAAATTTCAAATAAT
1 AATAAATAAATCAAATTCCAAATAAT
684537 AA
1 AA
684539 AAACGAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (26 bp):
AATAAATAAATCAAATTCCAAATAAT
Found at i:685482 original size:31 final size:31
Alignment explanation
Indices: 685447--685507 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
685437 TAAACATCCA
*
685447 AGTAATTTAAATA-AAATTTTTTGAATAGTTC
1 AGTAACTTAAATAGAAA-TTTTTGAATAGTTC
685478 AGTAACTTAAATAGAAATTTTTGAATAGTT
1 AGTAACTTAAATAGAAATTTTTGAATAGTT
685508 TAATAACTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 25 0.89
32 3 0.11
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (31 bp):
AGTAACTTAAATAGAAATTTTTGAATAGTTC
Found at i:685530 original size:31 final size:31
Alignment explanation
Indices: 685453--685519 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
685443 TCCAAGTAAT
*
685453 TTAAATA-AAATTTTTTGAATAGTTCAGTAAC
1 TTAAATAGAAA-TTTTTGAATAGTTCAATAAC
*
685484 TTAAATAGAAATTTTTGAATAGTTTAATAAC
1 TTAAATAGAAATTTTTGAATAGTTCAATAAC
685515 -TAAAT
1 TTAAAT
685520 TATTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 5 0.15
31 25 0.76
32 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (31 bp):
TTAAATAGAAATTTTTGAATAGTTCAATAAC
Found at i:689853 original size:48 final size:48
Alignment explanation
Indices: 689782--689924 Score: 286
Period size: 48 Copynumber: 3.0 Consensus size: 48
689772 TGGAAAGTAT
689782 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
689830 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
689878 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAA
1 AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAA
689925 CTAAGCCTTT
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 95 1.00
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.19
Consensus pattern (48 bp):
AAACTCAAACTCGACTTACCAACAGAAGCGCCTTGACATTGGTCAAAA
Found at i:692968 original size:93 final size:92
Alignment explanation
Indices: 692836--693030 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
692826 TTGATTTTAG
* *
692836 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
692900 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
692928 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
692993 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
693021 CAAATTCATA
1 TAAATTCATA
693031 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:693088 original size:17 final size:17
Alignment explanation
Indices: 693063--693096 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
693053 ATAATTTTAA
*
693063 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
693080 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
693097 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:693098 original size:15 final size:16
Alignment explanation
Indices: 693063--693101 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
693053 ATAATTTTAA
*
693063 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
693080 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
693095 ATTTAAT
1 ATTTAAT
693102 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:693105 original size:17 final size:18
Alignment explanation
Indices: 693067--693106 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
693057 TTTTAAATTT
*
693067 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
693085 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
693101 TATTAA
1 TATTAA
693107 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:693221 original size:15 final size:15
Alignment explanation
Indices: 693186--693237 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
693176 TTAAGAATTT
*
693186 TATTAAATTAT-ATA
1 TATTTAATTATAATA
693200 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
693214 TATTTAATAATAAT-
1 TATTTAATTATAATA
693228 TATGTTAATT
1 TAT-TTAATT
693238 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:693228 original size:120 final size:120
Alignment explanation
Indices: 693062--693353 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
693052 AATAATTTTA
* * *
693062 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
693123 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
693181 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
693246 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
693301 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
693354 TAAATATGAT
Statistics
Matches: 162, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 23 0.14
120 128 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:693318 original size:59 final size:59
Alignment explanation
Indices: 693135--693318 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
693125 TATAGTATCA
* *
693135 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
* * * * * * * *
693194 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-CAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTAT-TT-ATTAAGAATTTTATTA-AAT
693253 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTT-TTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATT-ATTTATTAAGAATTTTATTAAAT
693314 TATAT
1 TATAT
693319 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 7 0.08
61 12 0.13
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATTAAAT
Found at i:693336 original size:16 final size:16
Alignment explanation
Indices: 693315--693356 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
693305 TTATTAAATT
*
693315 ATATATTTTAATTATA
1 ATATATTTTAATAATA
693331 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
693346 AT-TATGTTTAA
1 ATATAT-TTTAA
693357 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:693341 original size:15 final size:15
Alignment explanation
Indices: 693306--693347 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
693296 TTAAGAATTT
*
693306 TATTAAATTAT-ATA
1 TATTTAATTATAATA
693320 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
693334 TATTTAATAATAAT
1 TATTTAATTATAAT
693348 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:693462 original size:154 final size:156
Alignment explanation
Indices: 693290--693603 Score: 560
Period size: 154 Copynumber: 2.0 Consensus size: 156
693280 ATAAGAATAT
* *
693290 TAATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
693355 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAACAATAACAAT
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
*
693418 AGTAATTTACCAAAACAAATTTATGC
131 AATAATTTACCAAAACAAATTTATGC
693444 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
693509 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
693574 TAATCATTTACCAAAACAAATTTCTGC
130 TAATAATTTACCAAAACAAATTTATGC
693601 TAA
1 TAA
693604 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 91 0.60
155 2 0.01
157 59 0.39
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (156 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAAT
AATAATTTACCAAAACAAATTTATGC
Found at i:693484 original size:18 final size:17
Alignment explanation
Indices: 693456--693490 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
693446 ATTATTAAGA
*
693456 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
693473 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
693491 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:693524 original size:75 final size:75
Alignment explanation
Indices: 693291--693526 Score: 194
Period size: 75 Copynumber: 3.1 Consensus size: 75
693281 TAAGAATATT
* *
693291 AATTTTTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
693356 AATATGATTA
66 AATATGATTA
* ** * * * * * * * *
693366 AATTATTTATTATTGATATTAATCTTATTAAAATTTAAATAACAATA-A--CAATAGTAATT-TA
1 AATTATTAAGAATT-TTATTAA-ATTA-TATATTTTAATTAA-AATATATTTAATAATAATTATG
*** * *
693427 CCAAAACA-AATTTA
62 TTTAAATATGA-TTA
693441 TGCTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 ----AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
693506 TTTAAATATGATTA
62 TTTAAATATGATTA
693520 AATTATT
1 AATTATT
693527 TATTATTGAT
Statistics
Matches: 113, Mismatches: 34, Indels: 28
0.65 0.19 0.16
Matches are distributed among these distances:
74 1 0.01
75 29 0.26
76 27 0.24
77 6 0.05
78 26 0.23
79 23 0.20
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:693744 original size:16 final size:16
Alignment explanation
Indices: 693723--693761 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
693713 TTGATTTGCT
*
693723 ATTACACAACTTTTCC
1 ATTACACAACTATTCC
**
693739 ATTACACCTCTATTCC
1 ATTACACAACTATTCC
693755 ATTACAC
1 ATTACAC
693762 CTCTAATCCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTACACAACTATTCC
Found at i:693762 original size:16 final size:16
Alignment explanation
Indices: 693735--693771 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
693725 TACACAACTT
693735 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
693751 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
*
693767 ATCCA
1 TTCCA
693772 ATTCAGCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.27, C:0.38, G:0.00, T:0.35
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:695138 original size:30 final size:31
Alignment explanation
Indices: 695104--695169 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
695094 CTTAACAACC
695104 CAATGACTTAAA-AAAAACTCTTGAACAGTT
1 CAATGACTTAAATAAAAACTCTTGAACAGTT
* * *
695134 CAATGACTTAAATGAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTCTTGAACAGTT
*
695165 TAATG
1 CAATG
695170 GCCAAATTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 12 0.39
31 19 0.61
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTCTTGAACAGTT
Found at i:705280 original size:17 final size:17
Alignment explanation
Indices: 705258--705290 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
705248 GCCCTCTAGG
705258 AAATCATAAGATAGATC
1 AAATCATAAGATAGATC
*
705275 AAATCATAGGATAGAT
1 AAATCATAAGATAGAT
705291 TGACCTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (17 bp):
AAATCATAAGATAGATC
Found at i:706375 original size:31 final size:30
Alignment explanation
Indices: 706322--706437 Score: 94
Period size: 31 Copynumber: 3.9 Consensus size: 30
706312 AAATTTTCTC
* * *
706322 AATTTT-TAAAGTT-AGGACTAAATTGATA
1 AATTTTATAAAATTGAGAACTAAATTAATA
** *
706350 AATTTTATAAATATTGAGGGCTAAATTTATTA
1 AATTTTATAAA-ATTGAGAACTAAA-TTAATA
* * *
706382 AATTTTTTAGAATT-AGAACTAAAATAATA
1 AATTTTATAAAATTGAGAACTAAATTAATA
*
706411 AATTTTATAAACATTGAGCACTAAATT
1 AATTTTATAAA-ATTGAGAACTAAATT
706438 TGTTAAACAT
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
28 6 0.09
29 17 0.25
30 12 0.18
31 20 0.29
32 13 0.19
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (30 bp):
AATTTTATAAAATTGAGAACTAAATTAATA
Found at i:706471 original size:61 final size:61
Alignment explanation
Indices: 706325--706471 Score: 163
Period size: 61 Copynumber: 2.4 Consensus size: 61
706315 TTTTCTCAAT
* * ** **
706325 TTTTA-AAGTTAGGACTAAATTGATAAATTTTATAAATATTGAGGGCTAAATTTATTAAATT
1 TTTTAGAA-TTAGGACTAAATTAATAAATTTTATAAACATTGAGCACTAAATTTATTAAACA
* * *
706386 TTTTAGAATTAGAACTAAAATAATAAATTTTATAAACATTGAGCACTAAATTTGTTAAACA
1 TTTTAGAATTAGGACTAAATTAATAAATTTTATAAACATTGAGCACTAAATTTATTAAACA
* *
706447 TTTTATATTTAGGA-TCAAATTAATA
1 TTTTAGAATTAGGACT-AAATTAATA
706472 GAATGTGTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
60 1 0.01
61 68 0.96
62 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGGACTAAATTAATAAATTTTATAAACATTGAGCACTAAATTTATTAAACA
Found at i:708526 original size:17 final size:19
Alignment explanation
Indices: 708486--708520 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
708476 AAAGTTTTAC
708486 AAGATTGTTTGAATGGTAA
1 AAGATTGTTTGAATGGTAA
708505 AAGATT-TTT-AATGGTA
1 AAGATTGTTTGAATGGTA
708521 CTAGATGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (19 bp):
AAGATTGTTTGAATGGTAA
Found at i:710869 original size:989 final size:989
Alignment explanation
Indices: 708953--710954 Score: 3977
Period size: 989 Copynumber: 2.0 Consensus size: 989
708943 GTATTTAAAG
708953 TGTTGGTGCAAGAGGCAGCAACAAAAGAGAGAACAAGAGCACAGAACATGAAGCAAGGTGCAAGA
1 TGTTGGTGCAAGAGGCAGCAACAAAAGAGAGAACAAGAGCACAGAACATGAAGCAAGGTGCAAGA
709018 AGCATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTAATGGCTGATAGCTCATTCAGCTCAT
66 AGCATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTAATGGCTGATAGCTCATTCAGCTCAT
709083 TCATTCAACTAGAAAAAACATACATTTATAGTCAAATACATCACCAAATAGTCAACTAACCCCAC
131 TCATTCAACTAGAAAAAACATACATTTATAGTCAAATACATCACCAAATAGTCAACTAACCCCAC
709148 TAATCAGCATTGGGACTATTAAAACATTGCTTGTACACATAAACAAGCCACCTAAACTAGTCATT
196 TAATCAGCATTGGGACTATTAAAACATTGCTTGTACACATAAACAAGCCACCTAAACTAGTCATT
709213 CAACACCTAATGCATCAAGTTGTCATCAACTTGTCCATTTTAAACTAGATTAATTAGAATGAAAC
261 CAACACCTAATGCATCAAGTTGTCATCAACTTGTCCATTTTAAACTAGATTAATTAGAATGAAAC
709278 TAAAGAGAAACCTTGCTGTTACAGCAAGCATATGTGCTGCAGCATGTCATCAAGCTGCATGCACT
326 TAAAGAGAAACCTTGCTGTTACAGCAAGCATATGTGCTGCAGCATGTCATCAAGCTGCATGCACT
709343 TCAACCACAAAATGTAACAGCAGCATGGTTGGCCAATTTCCAATACTCCTCCTTGGACTCCATGC
391 TCAACCACAAAATGTAACAGCAGCATGGTTGGCCAATTTCCAATACTCCTCCTTGGACTCCATGC
709408 TGCAAATACCAGTCATTCATCAAGTTTTTTGAACTTGGCAGCTCTTAGATGCTTTGATTCAAGCT
456 TGCAAATACCAGTCATTCATCAAGTTTTTTGAACTTGGCAGCTCTTAGATGCTTTGATTCAAGCT
709473 GACCAATTCATTTTCTTCTTGCACAAACAGTTCGTGAGTATAGTTGCTTGCCTTCATTCTGCCAT
521 GACCAATTCATTTTCTTCTTGCACAAACAGTTCGTGAGTATAGTTGCTTGCCTTCATTCTGCCAT
709538 TTTGGCTTGCAATTCGACAGGCTCACACTTTGCTTACTGTCTTCAAGAGGCTTGCAACTATACAA
586 TTTGGCTTGCAATTCGACAGGCTCACACTTTGCTTACTGTCTTCAAGAGGCTTGCAACTATACAA
709603 CACGCATTGAGCTTCCACATGTTGCTGAGCTCACACCTTTGACAGACTCACATCTTTGCATATTG
651 CACGCATTGAGCTTCCACATGTTGCTGAGCTCACACCTTTGACAGACTCACATCTTTGCATATTG
709668 TCTTCAACAGGTGTCTTCATCAGGCTCGCACTTTGCTAAGCTTGCAGCTTTGACATCTTGCTAAG
716 TCTTCAACAGGTGTCTTCATCAGGCTCGCACTTTGCTAAGCTTGCAGCTTTGACATCTTGCTAAG
709733 CTTGCACATTTGGAAAGCTCACACCTTTCCTTTAAACTCCTCCTTCAGCTTATTCAAGCTAGTTT
781 CTTGCACATTTGGAAAGCTCACACCTTTCCTTTAAACTCCTCCTTCAGCTTATTCAAGCTAGTTT
709798 GGGGATCTTATAAGTTTGAGCCGATATTATCTTCTCTACAAGCAGTCCTTAATGACTTGCTTGTG
846 GGGGATCTTATAAGTTTGAGCCGATATTATCTTCTCTACAAGCAGTCCTTAATGACTTGCTTGTG
709863 CTTTGACAGCTTCTTTCTTTCCAACAAGCAGGGAAAGCAAAATCAATGGTCCCGTAAGACATAGG
911 CTTTGACAGCTTCTTTCTTTCCAACAAGCAGGGAAAGCAAAATCAATGGTCCCGTAAGACATAGG
709928 CTCATGATACCAAT
976 CTCATGATACCAAT
709942 TGTTGGTGCAAGAGGCAGCAACAAAAGAGAGAACAAGAGCACAGAACATGAAGCAAGGTGCAAGA
1 TGTTGGTGCAAGAGGCAGCAACAAAAGAGAGAACAAGAGCACAGAACATGAAGCAAGGTGCAAGA
710007 AGCATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTAATGGCTGATAGCTCATTCAGCTCAT
66 AGCATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTAATGGCTGATAGCTCATTCAGCTCAT
710072 TCATTCAACTAGAAAAAACATACATTTATAGTCAAATACATCACCAAATAGTCAACTAACCCCAC
131 TCATTCAACTAGAAAAAACATACATTTATAGTCAAATACATCACCAAATAGTCAACTAACCCCAC
710137 TAATCAGCATTGGGACTATTAAAACATTGCTTGTACACATAAACAAGCCACCTAAACTAGTCATT
196 TAATCAGCATTGGGACTATTAAAACATTGCTTGTACACATAAACAAGCCACCTAAACTAGTCATT
710202 CAACACCTAATGCATCAAGTTGTCATCAACTTGTCCATTTTAAACTAGATTAATTAGAATGAAAC
261 CAACACCTAATGCATCAAGTTGTCATCAACTTGTCCATTTTAAACTAGATTAATTAGAATGAAAC
710267 TAAAGAGAAACCTTGCTGTTACAGCAAGCATATGTGCTGCAGCATGTCATCAAGCTGCATGCACT
326 TAAAGAGAAACCTTGCTGTTACAGCAAGCATATGTGCTGCAGCATGTCATCAAGCTGCATGCACT
710332 TCAACCACAAAATGTAACAGCAGCATGGTTGGCCAATTTCCAATACTCCTCCTTGGACTCCATGC
391 TCAACCACAAAATGTAACAGCAGCATGGTTGGCCAATTTCCAATACTCCTCCTTGGACTCCATGC
710397 TGCAAATACCAGTCATTCATCAAGTTTTTTGAACTTGGCAGCTCTTAGATGCTTTGATTCAAGCT
456 TGCAAATACCAGTCATTCATCAAGTTTTTTGAACTTGGCAGCTCTTAGATGCTTTGATTCAAGCT
710462 GACCAATTCATTTTCTTCTTGCACAAACAGTTCGTGAGTATAGTTGCTTGCCTTCATTCTGCCAT
521 GACCAATTCATTTTCTTCTTGCACAAACAGTTCGTGAGTATAGTTGCTTGCCTTCATTCTGCCAT
710527 TTTGGCTTGCAATTCGACAGGCTCACACTTTGCTTACTGTCTTCAAGAGGCTTGCAACTATACAA
586 TTTGGCTTGCAATTCGACAGGCTCACACTTTGCTTACTGTCTTCAAGAGGCTTGCAACTATACAA
710592 CACGCATTGAGCTTCCACATGTTGCTGAGCTCACACCTTTGACAGACTCACATCTTTGCATATTG
651 CACGCATTGAGCTTCCACATGTTGCTGAGCTCACACCTTTGACAGACTCACATCTTTGCATATTG
710657 TCTTCAACAGGTGTCTTCATCAGGCTCGCACTTTGCTAAGCTTGCAGCTTTGACATCTTGCTAAG
716 TCTTCAACAGGTGTCTTCATCAGGCTCGCACTTTGCTAAGCTTGCAGCTTTGACATCTTGCTAAG
710722 CTTGCACATTTGGAAAGCTCACACCTTTCCTTTAAACTCCTCCTTCAGCTTATTCAAGCTAGTTT
781 CTTGCACATTTGGAAAGCTCACACCTTTCCTTTAAACTCCTCCTTCAGCTTATTCAAGCTAGTTT
710787 GGGGATCTTATAAGTTTGAGCCGATATTATCTTCTCTACAAGCAGTCCTTAATGACTTGCTTGTG
846 GGGGATCTTATAAGTTTGAGCCGATATTATCTTCTCTACAAGCAGTCCTTAATGACTTGCTTGTG
* *
710852 CTTTGACAGCTTCTTTCTTTTCAACAAGCAGGGGAAGCAAAATCAATGGTCCCGTAAGACATAGG
911 CTTTGACAGCTTCTTTCTTTCCAACAAGCAGGGAAAGCAAAATCAATGGTCCCGTAAGACATAGG
710917 CTCATGATACCAAT
976 CTCATGATACCAAT
*
710931 TATTGGTGCAAGAGGCAGCAACAA
1 TGTTGGTGCAAGAGGCAGCAACAA
710955 GCTGTTTNNN
Statistics
Matches: 1010, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
989 1010 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (989 bp):
TGTTGGTGCAAGAGGCAGCAACAAAAGAGAGAACAAGAGCACAGAACATGAAGCAAGGTGCAAGA
AGCATTTTTACTTGCTCACAAATGTGCAGCAAGGGAGCTAATGGCTGATAGCTCATTCAGCTCAT
TCATTCAACTAGAAAAAACATACATTTATAGTCAAATACATCACCAAATAGTCAACTAACCCCAC
TAATCAGCATTGGGACTATTAAAACATTGCTTGTACACATAAACAAGCCACCTAAACTAGTCATT
CAACACCTAATGCATCAAGTTGTCATCAACTTGTCCATTTTAAACTAGATTAATTAGAATGAAAC
TAAAGAGAAACCTTGCTGTTACAGCAAGCATATGTGCTGCAGCATGTCATCAAGCTGCATGCACT
TCAACCACAAAATGTAACAGCAGCATGGTTGGCCAATTTCCAATACTCCTCCTTGGACTCCATGC
TGCAAATACCAGTCATTCATCAAGTTTTTTGAACTTGGCAGCTCTTAGATGCTTTGATTCAAGCT
GACCAATTCATTTTCTTCTTGCACAAACAGTTCGTGAGTATAGTTGCTTGCCTTCATTCTGCCAT
TTTGGCTTGCAATTCGACAGGCTCACACTTTGCTTACTGTCTTCAAGAGGCTTGCAACTATACAA
CACGCATTGAGCTTCCACATGTTGCTGAGCTCACACCTTTGACAGACTCACATCTTTGCATATTG
TCTTCAACAGGTGTCTTCATCAGGCTCGCACTTTGCTAAGCTTGCAGCTTTGACATCTTGCTAAG
CTTGCACATTTGGAAAGCTCACACCTTTCCTTTAAACTCCTCCTTCAGCTTATTCAAGCTAGTTT
GGGGATCTTATAAGTTTGAGCCGATATTATCTTCTCTACAAGCAGTCCTTAATGACTTGCTTGTG
CTTTGACAGCTTCTTTCTTTCCAACAAGCAGGGAAAGCAAAATCAATGGTCCCGTAAGACATAGG
CTCATGATACCAAT
Found at i:717815 original size:18 final size:18
Alignment explanation
Indices: 717792--717834 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
717782 GGATAGGTTT
717792 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
717810 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
717828 TTAATTA
1 TTAATTA
717835 CACCTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:720477 original size:18 final size:18
Alignment explanation
Indices: 720443--720477 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
720433 GTTACGTACG
*
720443 TATATATTATATGTATTT
1 TATATATTATATATATTT
*
720461 TATATATTATGTATATT
1 TATATATTATATATATT
720478 ATTTTTTTAT
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:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (18 bp):
TATATATTATATATATTT
Found at i:723555 original size:27 final size:29
Alignment explanation
Indices: 723511--723577 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
723501 AAAAATTAAA
*
723511 AATATTTTTTTACTTTTTAAAATAATT-TT
1 AATAATTTTTTACTTTTT-AAATAATTGTT
*
723540 AATAATTTTTTA-TTTTT-AATATTTGTT
1 AATAATTTTTTACTTTTTAAATAATTGTT
*
723567 TATAATTTTTT
1 AATAATTTTTT
723578 TTGAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.18
27 12 0.35
28 5 0.15
29 11 0.32
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (29 bp):
AATAATTTTTTACTTTTTAAATAATTGTT
Found at i:723558 original size:17 final size:17
Alignment explanation
Indices: 723536--723569 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
723526 TTTAAAATAA
723536 TTTTAATAATTT-TTTAT
1 TTTTAAT-ATTTGTTTAT
723553 TTTTAATATTTGTTTAT
1 TTTTAATATTTGTTTAT
723570 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAATATTTGTTTAT
Found at i:723576 original size:28 final size:29
Alignment explanation
Indices: 723514--723578 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
723504 AATTAAAAAT
723514 ATTTTTTTACTTTTTAAAATAATTTTAATA
1 ATTTTTTTACTTTTT-AAATAATTTTAATA
* *
723544 A-TTTTTTA-TTTTT-AATATTTGTTTATA
1 ATTTTTTTACTTTTTAAATAATT-TTAATA
723571 ATTTTTTT
1 ATTTTTTT
723579 TGAAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 6 0.19
27 6 0.19
28 11 0.35
29 7 0.23
30 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (29 bp):
ATTTTTTTACTTTTTAAATAATTTTAATA
Found at i:723742 original size:11 final size:10
Alignment explanation
Indices: 723691--723760 Score: 55
Period size: 9 Copynumber: 7.6 Consensus size: 10
723681 TTTAAAAAAA
*
723691 TTAATAATTT
1 TTAATACTTT
723701 TT-ATACTTT
1 TTAATACTTT
723710 TT-ATACTTT
1 TTAATACTTT
* *
723719 TTAAAACGATT
1 TTAATAC-TTT
723730 TTAATACTTT
1 TTAATACTTT
723740 TT--TA-TTT
1 TTAATACTTT
723747 TTAATA--TT
1 TTAATACTTT
723755 TTAATA
1 TTAATA
723761 TATTTTTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
7 5 0.10
8 10 0.20
9 19 0.37
10 9 0.18
11 8 0.16
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (10 bp):
TTAATACTTT
Found at i:727823 original size:14 final size:15
Alignment explanation
Indices: 727804--727833 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
727794 AAACAATAAT
727804 AATTAATA-TAATTA
1 AATTAATATTAATTA
727818 AATTAATATTAATTA
1 AATTAATATTAATTA
727833 A
1 A
727834 GTGATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATTAATATTAATTA
Found at i:731753 original size:19 final size:18
Alignment explanation
Indices: 731720--731767 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
731710 ATTTTCCCTT
* *
731720 TTTCTTTTTCTTTTCTTC-
1 TTTCTTTCTCTTTTC-ACG
731738 TTTCTTTCTCTCTTTCACG
1 TTTCTTTCTCT-TTTCACG
731757 TTTCTTTCTCT
1 TTTCTTTCTCT
731768 ATAACTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTCTTTCTCTTTTCACG
Found at i:731966 original size:7 final size:7
Alignment explanation
Indices: 731945--731988 Score: 63
Period size: 7 Copynumber: 6.1 Consensus size: 7
731935 TATTTGATAA
731945 AATATAAT
1 AATA-AAT
731953 AAT-AAT
1 AATAAAT
731959 AATAAAT
1 AATAAAT
731966 AATAAAT
1 AATAAAT
731973 AATAAAT
1 AATAAAT
731980 AATTAAAT
1 AA-TAAAT
731988 A
1 A
731989 TCTTTTACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.18
7 19 0.56
8 9 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATAAAT
Found at i:733936 original size:32 final size:31
Alignment explanation
Indices: 733886--733951 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
733876 TAAAAAACTT
** *
733886 AATAGTTTGGTGATTTAAATAAAAAACTTTTG
1 AATAGTTCAGTGACTTAAAT-AAAAACTTTTG
*
733918 AATAGTTCAGTGACTTAAATGAAAACTTTTG
1 AATAGTTCAGTGACTTAAATAAAAACTTTTG
733949 AAT
1 AAT
733952 TGTAATACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (31 bp):
AATAGTTCAGTGACTTAAATAAAAACTTTTG
Found at i:734230 original size:29 final size:28
Alignment explanation
Indices: 734185--734240 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
734175 CTTTTAAAAT
734185 TTGAAAAAGGAGTTTTTTTTAGTTTGAC
1 TTGAAAAAGGAGTTTTTTTTAGTTTGAC
734213 TTGAAAAAGGAGTTTTTTTTAGTTTGAC
1 TTGAAAAAGGAGTTTTTTTTAGTTTGAC
734241 GTTCTTTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (28 bp):
TTGAAAAAGGAGTTTTTTTTAGTTTGAC
Found at i:734751 original size:10 final size:10
Alignment explanation
Indices: 734738--734766 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
734728 AAATTTAAGC
734738 AAAAGTCCCA
1 AAAAGTCCCA
734748 AAAAGTCCCA
1 AAAAGTCCCA
734758 AAAAGTCCC
1 AAAAGTCCC
734767 TAAATTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.31, G:0.10, T:0.10
Consensus pattern (10 bp):
AAAAGTCCCA
Found at i:740802 original size:29 final size:27
Alignment explanation
Indices: 740758--740853 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
740748 TTTATATTTC
*
740758 TTTA-AATTTTGTATAATTTTCT-TACAAA
1 TTTATAATTTTTTATAA--TTCTATA-AAA
*
740786 TTTATATTTTTTTATAATTCTATAAAA
1 TTTATAATTTTTTATAATTCTATAAAA
* *
740813 TTTATAATTTTTTACTATTTTTATAAAA
1 TTTATAATTTTTTA-TAATTCTATAAAA
*
740841 TTTTTCAATTTTT
1 TTTAT-AATTTTT
740854 AAATATATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.34
28 21 0.36
29 17 0.29
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTATAATTTTTTATAATTCTATAAAA
Found at i:740814 original size:27 final size:28
Alignment explanation
Indices: 740783--740853 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
740773 ATTTTCTTAC
*
740783 AAATTTATATTTTTTTA-TAATTCTATA
1 AAATTTATAATTTTTTACTAATTCTATA
* *
740810 AAATTTATAATTTTTTACTATTTTTATA
1 AAATTTATAATTTTTTACTAATTCTATA
*
740838 AAATTTTTCAATTTTT
1 AAATTTAT-AATTTTT
740854 AAATATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 16 0.42
28 15 0.39
29 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
AAATTTATAATTTTTTACTAATTCTATA
Found at i:740907 original size:41 final size:40
Alignment explanation
Indices: 740816--740916 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
740806 TATAAAATTT
740816 ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
1 ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
***
740856 ATATATTTTTTTAC-ATTTTTATATGTTGTGTTTCTAATTTTT-A
1 ATA-A-TTTTTTACTATTTTTATAAAAT-T-TTTC-AATTTTTAA
*
740899 ATAATTTTTTAGTATTTT
1 ATAATTTTTTACTATTTT
740917 ATTTTTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
40 3 0.06
41 18 0.35
42 15 0.29
43 8 0.16
44 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (40 bp):
ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
Found at i:744900 original size:21 final size:22
Alignment explanation
Indices: 744863--744905 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
744853 AAAATACATT
*
744863 AATAATATTTTATTAAATAAAA
1 AATAATATTTTAATAAATAAAA
744885 AATAATA-TTTAATAAATAAAA
1 AATAATATTTTAATAAATAAAA
744906 TTACAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAATATTTTAATAAATAAAA
Found at i:745478 original size:19 final size:19
Alignment explanation
Indices: 745454--745490 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
745444 CAATATTTTC
745454 TAATAAAATTACTAATAAT
1 TAATAAAATTACTAATAAT
*
745473 TAATAAATTTACTAATAA
1 TAATAAAATTACTAATAA
745491 AAAAATATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAAATTACTAATAAT
Found at i:747003 original size:149 final size:149
Alignment explanation
Indices: 746733--747029 Score: 585
Period size: 149 Copynumber: 2.0 Consensus size: 149
746723 ACTTTAGGCA
*
746733 GCCTACTCTGTTCAACTAGGGTACAACATGATTGGGAACTTGTGAGAGATAGTGAACTATGGAAG
1 GCCTACTCTGTTCAACAAGGGTACAACATGATTGGGAACTTGTGAGAGATAGTGAACTATGGAAG
746798 TTGAAACAGGAGGAAAATGACATCTTGCCTGCTCTAAAACTAAGTTATGATCATTTGCCCTGGTA
66 TTGAAACAGGAGGAAAATGACATCTTGCCTGCTCTAAAACTAAGTTATGATCATTTGCCCTGGTA
746863 TTTAAAGCAATGTTTTGCG
131 TTTAAAGCAATGTTTTGCG
746882 GCCTACTCTGTTCAACAAGGGTACAACATGATTGGGAACTTGTGAGAGATAGTGAACTATGGAAG
1 GCCTACTCTGTTCAACAAGGGTACAACATGATTGGGAACTTGTGAGAGATAGTGAACTATGGAAG
746947 TTGAAACAGGAGGAAAATGACATCTTGCCTGCTCTAAAACTAAGTTATGATCATTTGCCCTGGTA
66 TTGAAACAGGAGGAAAATGACATCTTGCCTGCTCTAAAACTAAGTTATGATCATTTGCCCTGGTA
747012 TTTAAAGCAATGTTTTGC
131 TTTAAAGCAATGTTTTGC
747030 CTTTTGTTCA
Statistics
Matches: 147, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 147 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29
Consensus pattern (149 bp):
GCCTACTCTGTTCAACAAGGGTACAACATGATTGGGAACTTGTGAGAGATAGTGAACTATGGAAG
TTGAAACAGGAGGAAAATGACATCTTGCCTGCTCTAAAACTAAGTTATGATCATTTGCCCTGGTA
TTTAAAGCAATGTTTTGCG
Found at i:749575 original size:29 final size:27
Alignment explanation
Indices: 749531--749626 Score: 88
Period size: 28 Copynumber: 3.4 Consensus size: 27
749521 TTTATATTTC
*
749531 TTTA-AATTTTGTATAATTTTCT-TACAAA
1 TTTATAATTTTTTATAA--TTCTATA-AAA
*
749559 TTTATATTTTTTTATAATTCTATAAAA
1 TTTATAATTTTTTATAATTCTATAAAA
* *
749586 TTTATAATTTTTTACTATTTTTATAAAA
1 TTTATAATTTTTTA-TAATTCTATAAAA
*
749614 TTTTTCAATTTTT
1 TTTAT-AATTTTT
749627 AAATATATTT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
27 20 0.34
28 21 0.36
29 17 0.29
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.60
Consensus pattern (27 bp):
TTTATAATTTTTTATAATTCTATAAAA
Found at i:749587 original size:27 final size:28
Alignment explanation
Indices: 749556--749626 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
749546 ATTTTCTTAC
*
749556 AAATTTATATTTTTTTA-TAATTCTATA
1 AAATTTATAATTTTTTACTAATTCTATA
* *
749583 AAATTTATAATTTTTTACTATTTTTATA
1 AAATTTATAATTTTTTACTAATTCTATA
*
749611 AAATTTTTCAATTTTT
1 AAATTTAT-AATTTTT
749627 AAATATATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 16 0.42
28 15 0.39
29 7 0.18
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (28 bp):
AAATTTATAATTTTTTACTAATTCTATA
Found at i:749680 original size:41 final size:40
Alignment explanation
Indices: 749589--749689 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
749579 TATAAAATTT
749589 ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
1 ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
***
749629 ATATATTTTTTTAC-ATTTTTATATGTTGTGTTTCTAATTTTT-A
1 ATA-A-TTTTTTACTATTTTTATAAAAT-T-TTTC-AATTTTTAA
*
749672 ATAATTTTTTAGTATTTT
1 ATAATTTTTTACTATTTT
749690 ATTTTTATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
40 3 0.06
41 18 0.35
42 15 0.29
43 8 0.16
44 7 0.14
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (40 bp):
ATAATTTTTTACTATTTTTATAAAATTTTTCAATTTTTAA
Found at i:759226 original size:22 final size:24
Alignment explanation
Indices: 759190--759243 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
759180 TGATTTAATT
759190 TAATT-AAAGTAAATATA-A-AAA
1 TAATTAAAAGTAAATATACATAAA
*
759211 TAATTAAAAGTGAATATACATTAAA
1 TAATTAAAAGTAAATATACA-TAAA
759236 TAATTAAA
1 TAATTAAA
759244 TTCATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 5 0.18
22 11 0.39
23 1 0.04
25 11 0.39
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (24 bp):
TAATTAAAAGTAAATATACATAAA
Found at i:759760 original size:16 final size:16
Alignment explanation
Indices: 759739--759772 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
759729 TTCTTTATAA
*
759739 ATTGATGTCATTTTCT
1 ATTGATGTCATGTTCT
*
759755 ATTGATGTGATGTTCT
1 ATTGATGTCATGTTCT
759771 AT
1 AT
759773 GTGGTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.18, T:0.53
Consensus pattern (16 bp):
ATTGATGTCATGTTCT
Found at i:760776 original size:133 final size:133
Alignment explanation
Indices: 760611--760863 Score: 398
Period size: 133 Copynumber: 1.9 Consensus size: 133
760601 AAAACATTAG
* * *
760611 TGAAATTCTAAAGGGATATTCGATTATCTTGAACAAACGGGAAATTGCAACCCAGCACGATAGGG
1 TGAAATTCCAAAGGAATATTCGATTATCTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGG
*
760676 CACAATTCCCCGAATTGCCAAACATCGAACATTTCCATCGTTTTAAAGAATTTTTTTAAAGACAT
66 CACAATTCCCCGAATTGCCAAACATCGAACATTGCCATCGTTTTAAAGAATTTTTTTAAAGACAT
760741 GAC
131 GAC
* * * *
760744 TGAAATTCCAAAGGAATATTCGATTATTTTGAACGAATGAGAAATTGCAACCCAGCACGGTAGGG
1 TGAAATTCCAAAGGAATATTCGATTATCTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGG
* * * *
760809 CACGATTCCTCGAATTGTCAAACATCGAACATTGCCTTCGTTTTAAAGAATTTTT
66 CACAATTCCCCGAATTGCCAAACATCGAACATTGCCATCGTTTTAAAGAATTTTT
760864 GAATAATTAT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 108 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (133 bp):
TGAAATTCCAAAGGAATATTCGATTATCTTGAACAAACGAGAAATTGCAACCCAGCACGATAGGG
CACAATTCCCCGAATTGCCAAACATCGAACATTGCCATCGTTTTAAAGAATTTTTTTAAAGACAT
GAC
Found at i:761954 original size:29 final size:30
Alignment explanation
Indices: 761905--761961 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
761895 ATAAGTTTTT
*
761905 TTTAAAAATAATATATATATATA-AATAGA
1 TTTAAAAAGAATATATATATATAGAATAGA
*
761934 TTTAAAAAGAATTTACT-TATATAGAATA
1 TTTAAAAAGAATATA-TATATATAGAATA
761962 ATATGAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (30 bp):
TTTAAAAAGAATATATATATATAGAATAGA
Found at i:779215 original size:24 final size:22
Alignment explanation
Indices: 779170--779215 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 22
779160 ATACACACAC
* *
779170 ATACTTACATTTTTATTTTATA
1 ATACTTACATTTTTAGTATATA
779192 ATACTTACAAATTTTTAGTATATA
1 ATACTTAC--ATTTTTAGTATATA
779216 CATATATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
ATACTTACATTTTTAGTATATA
Found at i:798920 original size:23 final size:23
Alignment explanation
Indices: 798892--798937 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
798882 ATTTCTATAT
*
798892 ATTTTTTTCTAATTTTTTAAAAAG
1 ATTTTTTT-AAATTTTTTAAAAAG
*
798916 ATTTTTTTAAATTTTTTGAAAA
1 ATTTTTTTAAATTTTTTAAAAA
798938 CTTTTTGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTTTTTTAAATTTTTTAAAAAG
Found at i:798943 original size:23 final size:23
Alignment explanation
Indices: 798893--798943 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
798883 TTTCTATATA
*
798893 TTTTTTTCTAATTTTTTAAAAAGA
1 TTTTTTTCTAATTTTTTAAAAA-C
* *
798917 TTTTTTT-AAATTTTTTGAAAAC
1 TTTTTTTCTAATTTTTTAAAAAC
798939 TTTTT
1 TTTTT
798944 GTATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 5 0.21
23 12 0.50
24 7 0.29
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTTTTCTAATTTTTTAAAAAC
Found at i:805297 original size:25 final size:25
Alignment explanation
Indices: 805269--805319 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
805259 TCCTGAGAGA
805269 GAAAGAGAGATAAACTAAAGTCATG
1 GAAAGAGAGATAAACTAAAGTCATG
805294 GAAAGAGAGATAAACTAAAGTCATG
1 GAAAGAGAGATAAACTAAAGTCATG
805319 G
1 G
805320 TCTTTAGGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.16
Consensus pattern (25 bp):
GAAAGAGAGATAAACTAAAGTCATG
Found at i:805422 original size:27 final size:28
Alignment explanation
Indices: 805391--805452 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
805381 ACTTACCCTA
805391 AGCTGTAGCTT-T-GAAACAATTATAGCT
1 AGCTG-AGCTTATAGAAACAATTATAGCT
**
805418 AGCTGATTTTATGAGAAACAATTATAGCT
1 AGCTGAGCTTAT-AGAAACAATTATAGCT
805447 AGCTGA
1 AGCTGA
805453 TTTTATGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 3 0.10
27 6 0.20
29 21 0.70
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (28 bp):
AGCTGAGCTTATAGAAACAATTATAGCT
Found at i:805435 original size:29 final size:29
Alignment explanation
Indices: 805403--805463 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
805393 CTGTAGCTTT
805403 GAAACAATTATAGCTAGCTGATTTTATGA
1 GAAACAATTATAGCTAGCTGATTTTATGA
805432 GAAACAATTATAGCTAGCTGATTTTATGA
1 GAAACAATTATAGCTAGCTGATTTTATGA
805461 GAA
1 GAA
805464 GCTTTCTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (29 bp):
GAAACAATTATAGCTAGCTGATTTTATGA
Found at i:806912 original size:8 final size:8
Alignment explanation
Indices: 806899--806923 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
806889 ATATTTGAAA
806899 AAAAAAAG
1 AAAAAAAG
806907 AAAAAAAG
1 AAAAAAAG
806915 AAAAAAAG
1 AAAAAAAG
806923 A
1 A
806924 TTCTAGCTGG
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:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:809326 original size:3 final size:3
Alignment explanation
Indices: 809318--809342 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
809308 AGTATGAATC
809318 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
809343 CATAGTATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:810350 original size:31 final size:31
Alignment explanation
Indices: 810291--810383 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
810281 GAGTATGTTC
* * **
810291 AAGCTCCAATGTGGAAACAATTGCCAAGTTT
1 AAGCTCCAATATGGGAACAATTATCAAGTTT
* *
810322 AAG-TCCCAATATGGGAATAATTATCAAGTTC
1 AAGCT-CCAATATGGGAACAATTATCAAGTTT
* *
810353 AAGCTCTAATATGGGAACAATTGTCAAGTTT
1 AAGCTCCAATATGGGAACAATTATCAAGTTT
810384 GAGGACTAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.96
32 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (31 bp):
AAGCTCCAATATGGGAACAATTATCAAGTTT
Found at i:811802 original size:20 final size:19
Alignment explanation
Indices: 811769--811812 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
811759 TATTTTTTCC
811769 ATAAAAAATCATAAAAATT
1 ATAAAAAATCATAAAAATT
* *
811788 ATAAAAAATTTATAAATATT
1 ATAAAAAA-TCATAAAAATT
811808 ATAAA
1 ATAAA
811813 TATTAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATAAAAAATCATAAAAATT
Found at i:811863 original size:10 final size:9
Alignment explanation
Indices: 811772--811864 Score: 57
Period size: 9 Copynumber: 10.1 Consensus size: 9
811762 TTTTTCCATA
*
811772 AAAAATCAT
1 AAAAATTAT
811781 AAAAATTAT
1 AAAAATTAT
811790 AAAAAATTTAT
1 -AAAAA-TTAT
*
811801 AAATATTAT
1 AAAAATTAT
811810 --AAA-TAT
1 AAAAATTAT
*
811816 TAAAATTGAT
1 AAAAATT-AT
*
811826 ATAAACTTAT
1 A-AAAATTAT
* *
811836 TAAAATGAT
1 AAAAATTAT
*
811845 AAGAATTAT
1 AAAAATTAT
811854 AATAAATTAT
1 AA-AAATTAT
811864 A
1 A
811865 TTTTTTTATA
Statistics
Matches: 64, Mismatches: 12, Indels: 15
0.70 0.13 0.16
Matches are distributed among these distances:
6 3 0.05
7 2 0.03
8 3 0.05
9 27 0.42
10 20 0.31
11 9 0.14
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:811939 original size:22 final size:21
Alignment explanation
Indices: 811914--811977 Score: 76
Period size: 20 Copynumber: 3.0 Consensus size: 21
811904 AAAACGTATT
811914 AGAATTTTTAAAAAATAATAAA
1 AGAA-TTTTAAAAAATAATAAA
* *
811936 AGAATTGTAAAAAATTATAAA
1 AGAATTTTAAAAAATAATAAA
* *
811957 A-AATATTAAAAAATATTAAA
1 AGAATTTTAAAAAATAATAAA
811977 A
1 A
811978 TTGATATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 16 0.44
21 16 0.44
22 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AGAATTTTAAAAAATAATAAA
Found at i:811951 original size:10 final size:10
Alignment explanation
Indices: 811922--812016 Score: 63
Period size: 10 Copynumber: 9.6 Consensus size: 10
811912 TTAGAATTTT
*
811922 TAAAAAATAA
1 TAAAAAATTA
*
811932 TAAAAGAATTG
1 TAAAA-AATTA
811943 TAAAAAATTA
1 TAAAAAATTA
811953 TAAAAAA-TA
1 TAAAAAATTA
811962 TTAAAAAA-TA
1 -TAAAAAATTA
*
811972 T-TAAAATTGA
1 TAAAAAATT-A
* *
811982 TATAAACTTA
1 TAAAAAATTA
*
811992 T-AAAATTTA
1 TAAAAAATTA
* *
812001 TAATAAATCA
1 TAAAAAATTA
812011 TAAAAA
1 TAAAAA
812017 CTTGAATCAG
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
8 4 0.06
9 11 0.16
10 39 0.57
11 14 0.21
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:812013 original size:19 final size:19
Alignment explanation
Indices: 811973--812015 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
811963 TAAAAAATAT
*
811973 TAAAATTGATATAAACTTA
1 TAAAATTGATATAAACTCA
*
811992 TAAAATTTATAATAAA-TCA
1 TAAAATTGAT-ATAAACTCA
812011 TAAAA
1 TAAAA
812016 ACTTGAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAATTGATATAAACTCA
Found at i:812393 original size:9 final size:9
Alignment explanation
Indices: 812379--812625 Score: 76
Period size: 9 Copynumber: 25.8 Consensus size: 9
812369 TCAATTCAAG
812379 TTTTTATAA
1 TTTTTATAA
812388 TTTTTATAA
1 TTTTTATAA
*
812397 CTTTATATCAA
1 -TTTTTAT-AA
* *
812408 TTTTAATAC
1 TTTTTATAA
*
812417 TTTTTATAC
1 TTTTTATAA
*
812426 TTATGTT-T-C
1 TT-T-TTATAA
*
812435 TTGTTTATGA
1 TT-TTTATAA
812445 TTTTTATAGAA
1 TTTTTAT--AA
* * *
812456 ATTTAATATG
1 TTTTTATA-A
812466 TTTTTATTAA
1 TTTTTA-TAA
812476 -TTTTATAA
1 TTTTTATAA
812484 TTTTCTTAATAA
1 -TTT-TT-ATAA
*
812496 TTTATTAGAA
1 TTT-TTATAA
*
812506 TTTATTA-GA
1 TTT-TTATAA
812515 TGTTTTATAA
1 T-TTTTATAA
*
812525 TATTTATAA
1 TTTTTATAA
812534 TTCTTTATAAA
1 TT-TTTAT-AA
812545 TTCTTTATAA
1 TT-TTTATAA
812555 TTTTTATAA
1 TTTTTATAA
* *
812564 -GTTGAT-A
1 TTTTTATAA
*
812571 TTAGTTT-TCA
1 TT--TTTATAA
*
812581 TTTTTTTAA
1 TTTTTATAA
*
812590 TATTTTCTAA
1 T-TTTTATAA
*
812600 TATTTAGTAA
1 TTTTTA-TAA
*
812610 TTTTTATAT
1 TTTTTATAA
812619 TTTTTAT
1 TTTTTAT
812626 CTTTTTTTTT
Statistics
Matches: 183, Mismatches: 30, Indels: 50
0.70 0.11 0.19
Matches are distributed among these distances:
7 1 0.01
8 12 0.07
9 72 0.39
10 65 0.36
11 29 0.16
12 4 0.02
ACGTcount: A:0.31, C:0.04, G:0.05, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:812623 original size:10 final size:10
Alignment explanation
Indices: 812610--812669 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
812600 TATTTAGTAA
812610 TTTTTATATT
1 TTTTTATATT
* *
812620 TTTTATCTTTTT
1 TTTT-T-ATATT
812632 TTTTTATATT
1 TTTTTATATT
*
812642 TTTAATATATT
1 TTT-TTATATT
*
812653 TTTCTATATT
1 TTTTTATATT
812663 TTTTTAT
1 TTTTTAT
812670 TTATAATCGT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
10 22 0.55
11 11 0.28
12 7 0.17
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTATATT
Found at i:812654 original size:21 final size:22
Alignment explanation
Indices: 812610--812665 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
812600 TATTTAGTAA
* * *
812610 TTTTTATATTTTTTATCTTTTT
1 TTTTTATATTTTTAATCATATT
812632 TTTTTATATTTTTAAT-ATATT
1 TTTTTATATTTTTAATCATATT
*
812653 TTTCTATATTTTT
1 TTTTTATATTTTT
812666 TTATTTATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTATATTTTTAATCATATT
Found at i:813566 original size:22 final size:20
Alignment explanation
Indices: 813541--813594 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 20
813531 TTTAAATTTC
813541 AAAAAAATATTAAATAAA-AT
1 AAAAAAATATTAAA-AAATAT
*
813561 ATAAAAAATAATTAAAAAGTAT
1 A-AAAAAAT-ATTAAAAAATAT
813583 AAAAATAATATT
1 AAAAA-AATATT
813595 TTTAAGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 16 0.55
22 12 0.41
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAAATATTAAAAAATAT
Found at i:819016 original size:4 final size:4
Alignment explanation
Indices: 819007--819040 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
818997 AAGTTTTATT
819007 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
819041 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:819048 original size:22 final size:22
Alignment explanation
Indices: 818990--819049 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
818980 AAGTGGCCCA
*
818990 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
819014 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
819035 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
819050 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:820398 original size:3 final size:3
Alignment explanation
Indices: 820392--820423 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
820382 TACTCTTTAT
820392 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
820424 GAATTTGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:824979 original size:24 final size:25
Alignment explanation
Indices: 824943--824989 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
824933 TTAGTAAATA
824943 GGGAAAATAATCTTAGAAGATTAAG
1 GGGAAAATAATCTTAGAAGATTAAG
* *
824968 GGGATAAT-ATCTTATAAGATTA
1 GGGAAAATAATCTTAGAAGATTA
824990 TATTTGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (25 bp):
GGGAAAATAATCTTAGAAGATTAAG
Found at i:840393 original size:6 final size:6
Alignment explanation
Indices: 840382--840407 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
840372 CTACAAACAA
840382 GCAAAG GCAAAG GCAAAG GCAAAG GC
1 GCAAAG GCAAAG GCAAAG GCAAAG GC
840408 GAAATCTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.19, G:0.35, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:841910 original size:19 final size:20
Alignment explanation
Indices: 841888--841937 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
841878 TTTTTCAATC
841888 TTTTTAAGTCA-ATTTAATT
1 TTTTTAAGTCATATTTAATT
* *
841907 TTTTCT-ATTCATCTTTAATT
1 TTTT-TAAGTCATATTTAATT
841927 TTTTTAA-TCAT
1 TTTTTAAGTCAT
841938 GTGAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.26, C:0.10, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTTTAAGTCATATTTAATT
Found at i:843552 original size:52 final size:54
Alignment explanation
Indices: 843462--843584 Score: 205
Period size: 53 Copynumber: 2.3 Consensus size: 54
843452 AAAAATTCAA
843462 GTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAA-TGTCTAACTCAG
1 GTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATTGTCTAACTCAG
*
843515 GTATAAAATTTAAAAAATTTACATACT-AAAAAAACATTAATTGTCTAACTCAG
1 GTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATTGTCTAACTCAG
* *
843568 GTATCAAATTGAAAAAA
1 GTATAAAATTTAAAAAA
843585 AATATTAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 13 0.20
53 53 0.80
ACGTcount: A:0.53, C:0.11, G:0.07, T:0.29
Consensus pattern (54 bp):
GTATAAAATTTAAAAAACTTACATACTAAAAAAAACATTAATTGTCTAACTCAG
Found at i:844021 original size:13 final size:13
Alignment explanation
Indices: 843985--844026 Score: 52
Period size: 12 Copynumber: 3.2 Consensus size: 13
843975 TATATACAAA
843985 TTTT-TATTTATAT
1 TTTTCTATTTA-AT
843998 TTTTCTA-TTAAT
1 TTTTCTATTTAAT
844010 TTTTCTATTTAAAT
1 TTTTCTATTT-AAT
844024 TTT
1 TTT
844027 ATTTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 9 0.35
13 9 0.35
14 8 0.31
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCTATTTAAT
Found at i:846347 original size:18 final size:19
Alignment explanation
Indices: 846314--846353 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
846304 TTTCATATGT
846314 TTTTAATAATTTTTATAAA
1 TTTTAATAATTTTTATAAA
*
846333 TTTTAATGA-TTTTATAAA
1 TTTTAATAATTTTTATAAA
846351 TTT
1 TTT
846354 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTTAATAATTTTTATAAA
Found at i:852293 original size:13 final size:13
Alignment explanation
Indices: 852275--852300 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
852265 TATTTTAAGC
852275 AATTTAATTTTTT
1 AATTTAATTTTTT
852288 AATTTAATTTTTT
1 AATTTAATTTTTT
852301 TTCTTTTACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTTAATTTTTT
Found at i:860876 original size:33 final size:33
Alignment explanation
Indices: 860833--860898 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
860823 ACCAATTTAA
*
860833 AAAATGGAAGAATTTGACATTTTAATCCACCAT
1 AAAATAGAAGAATTTGACATTTTAATCCACCAT
860866 AAAATAGAAGAATTTGACATTTTAATCCACCAT
1 AAAATAGAAGAATTTGACATTTTAATCCACCAT
860899 TCGTGTAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (33 bp):
AAAATAGAAGAATTTGACATTTTAATCCACCAT
Found at i:867303 original size:19 final size:20
Alignment explanation
Indices: 867281--867332 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
867271 ATTTTAAAAA
867281 AATTATAAAAAAATTA-TTG
1 AATTATAAAAAAATTATTTG
*
867300 AATTATCTAAAAAATTATTTG
1 AATTAT-AAAAAAATTATTTG
*
867321 TATT-TAAAAAAA
1 AATTATAAAAAAA
867333 ATCTTGCTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTATAAAAAAATTATTTG
Found at i:868191 original size:27 final size:27
Alignment explanation
Indices: 868155--868219 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
868145 AAATTACTAT
868155 AAAATT-ATAAATT-TAAAAAATAAAA
1 AAAATTAATAAATTATAAAAAATAAAA
* **
868180 AAAATCTAATAAATTATAAAAATTGTAA
1 AAAAT-TAATAAATTATAAAAAATAAAA
868208 AAAATTAATAAA
1 AAAATTAATAAA
868220 GCTTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.15
26 1 0.03
27 14 0.41
28 14 0.41
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAATTAATAAATTATAAAAAATAAAA
Found at i:868192 original size:35 final size:34
Alignment explanation
Indices: 868127--868199 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 34
868117 TGATATATAT
* ** *
868127 TAAATTTTAAAAATATTAAAATTACTATAAAATTA
1 TAAATTTAAAAAATAAAAAAAATACTAT-AAATTA
868162 TAAATTTAAAAAATAAAAAAAAT-CTAATAAATTA
1 TAAATTTAAAAAATAAAAAAAATACT-ATAAATTA
868196 TAAA
1 TAAA
868200 AATTGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 12 0.36
35 21 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (34 bp):
TAAATTTAAAAAATAAAAAAAATACTATAAATTA
Found at i:868770 original size:9 final size:9
Alignment explanation
Indices: 868758--868927 Score: 67
Period size: 9 Copynumber: 17.8 Consensus size: 9
868748 TTTTATGATT
868758 TTTTTATAA
1 TTTTTATAA
*
868767 TTTTTATTAG
1 TTTTTA-TAA
* *
868777 TTTATATTGA
1 TTTTTA-TAA
* *
868787 TTTTAATAC
1 TTTTTATAA
*
868796 TTTTAAT-A
1 TTTTTATAA
* * *
868804 GTTTTACAT
1 TTTTTATAA
*
868813 TTTTTATGA
1 TTTTTATAA
868822 TTTTTATAGAA
1 TTTTTAT--AA
* *
868833 TTTTAATATG
1 TTTTTATA-A
868843 TTTTTATAA
1 TTTTTATAA
868852 TATTTTA-AA
1 T-TTTTATAA
*
868861 TTTTTTAAATA
1 -TTTTTATA-A
868872 TATTTTATTAA
1 T-TTTTA-TAA
868883 -TTTTATAAA
1 TTTTTAT-AA
868892 TTTTTATAA
1 TTTTTATAA
*
868901 TTTAGTATAA
1 TTT-TTATAA
*
868911 ATTTTATAA
1 TTTTTATAA
868920 TATTTTAT
1 T-TTTTAT
868928 TTTTAACAAT
Statistics
Matches: 119, Mismatches: 27, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
8 5 0.04
9 52 0.44
10 47 0.39
11 14 0.12
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:868846 original size:21 final size:21
Alignment explanation
Indices: 868817--868878 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
868807 TTACATTTTT
868817 TATGATTTTTATAGA-ATTTTAA
1 TATG-TTTTTATA-ATATTTTAA
868839 TATGTTTTTATAATATTTTAA
1 TATGTTTTTATAATATTTTAA
*
868860 -AT-TTTTTAAATATATTTTA
1 TATGTTTTTATA-ATATTTTA
868879 TTAATTTTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 7 0.19
20 11 0.30
21 15 0.41
22 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TATGTTTTTATAATATTTTAA
Found at i:868871 original size:18 final size:19
Alignment explanation
Indices: 868843--868926 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
868833 TTTTAATATG
868843 TTTTTATAATATTTTA-AAT
1 TTTTTA-AATATTTTATAAT
868862 TTTTTAAATATATTTTATTAAT
1 TTTTT-AA-ATATTTTA-TAAT
*
868884 TTTATAAAT-TTTTATAAT
1 TTTTTAAATATTTTATAAT
**
868902 TTAGTATAA-ATTTTATAAT
1 TTTTTA-AATATTTTATAAT
*
868921 ATTTTA
1 TTTTTA
868927 TTTTTAACAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
18 8 0.15
19 25 0.47
20 11 0.21
21 2 0.04
22 7 0.13
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (19 bp):
TTTTTAAATATTTTATAAT
Found at i:868872 original size:31 final size:30
Alignment explanation
Indices: 868833--868925 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
868823 TTTTATAGAA
*
868833 TTTTAATATGTTTT-TATAATATTT-TAAATT
1 TTTTAATATATTTTAT-TAAT-TTTATAAATT
868863 TTTTAAATATATTTTATTAATTTTATAAA-T
1 TTTT-AATATATTTTATTAATTTTATAAATT
*
868893 TTTT-ATA-ATTTAGTATAAATTTTATAATATT
1 TTTTAATATATTT--TATTAATTTTATAA-ATT
868924 TT
1 TT
868926 ATTTTTAACA
Statistics
Matches: 54, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
27 4 0.07
28 3 0.06
29 13 0.24
30 13 0.24
31 20 0.37
32 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (30 bp):
TTTTAATATATTTTATTAATTTTATAAATT
Found at i:868874 original size:20 final size:20
Alignment explanation
Indices: 868832--868892 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 20
868822 TTTTTATAGA
*
868832 ATTTTAATATGTTTTTATA-AT
1 ATTTTAA-AT-TTTTTAAATAT
868853 ATTTTAAATTTTTTAAATAT
1 ATTTTAAATTTTTTAAATAT
*
868873 ATTTTATTAATTTTATAAAT
1 ATTTTA--AATTTTTTAAAT
868893 TTTTATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.20
20 10 0.29
21 7 0.20
22 11 0.31
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTAAATTTTTTAAATAT
Found at i:868926 original size:10 final size:10
Alignment explanation
Indices: 868844--868927 Score: 70
Period size: 10 Copynumber: 8.6 Consensus size: 10
868834 TTTAATATGT
868844 TTTTATAATA
1 TTTTATAATA
*
868854 TTTTA-AATT
1 TTTTATAATA
*
868863 TTTTAAATATA
1 TTTTATA-ATA
*
868874 TTTTATTA-A
1 TTTTATAATA
868883 TTTTATAA-A
1 TTTTATAATA
868892 TTTTTATAAT-
1 -TTTTATAATA
*
868902 TTAGTATAA-A
1 TT-TTATAATA
868912 TTTTATAATA
1 TTTTATAATA
868922 TTTTAT
1 TTTTAT
868928 TTTTAACAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
9 24 0.40
10 29 0.48
11 7 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTTATAATA
Found at i:870114 original size:39 final size:39
Alignment explanation
Indices: 870060--870138 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
870050 TTACATACTT
870060 AACCATATAATCTGCAACACTATTATGCATCCTTGGAAC
1 AACCATATAATCTGCAACACTATTATGCATCCTTGGAAC
870099 AACCATATAATCTGCAACACTATTATGCATCCTTGGAAC
1 AACCATATAATCTGCAACACTATTATGCATCCTTGGAAC
870138 A
1 A
870139 TGACGAAGAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.28
Consensus pattern (39 bp):
AACCATATAATCTGCAACACTATTATGCATCCTTGGAAC
Found at i:883698 original size:69 final size:70
Alignment explanation
Indices: 883613--883753 Score: 239
Period size: 69 Copynumber: 2.0 Consensus size: 70
883603 TCTTATTGTT
*
883613 TTTTTTATTTTGCTACTATTTTACTATTATGTTATTACTTTGGGTTTTAACATTTTTATTCGGGT
1 TTTTTTATTTTGCTACTATTTTACTATTATGTTACTACTTTGGGTTTTAACATTTTTATTCGGGT
*
883678 TGGGC
66 CGGGC
* *
883683 TTTTTT-TTTTGCTACTATTTTACTATTATGTTGCTACTTTGGGTTTTAATATTTTTATTCGGGT
1 TTTTTTATTTTGCTACTATTTTACTATTATGTTACTACTTTGGGTTTTAACATTTTTATTCGGGT
883747 CGGGC
66 CGGGC
883752 TT
1 TT
883754 GGGTAAAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
69 61 0.91
70 6 0.09
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.57
Consensus pattern (70 bp):
TTTTTTATTTTGCTACTATTTTACTATTATGTTACTACTTTGGGTTTTAACATTTTTATTCGGGT
CGGGC
Found at i:888995 original size:62 final size:62
Alignment explanation
Indices: 888917--889044 Score: 177
Period size: 62 Copynumber: 2.1 Consensus size: 62
888907 GTTCACACAT
* * * *
888917 AAAGTAGGGGCATACCTATACTATATATGTACAG-GCTACATTCAAAGGAAATTACTCAAATA
1 AAAGTAGAGGCATACCTATACTATAAATGTAC-GCACTACATTCAAAGGAAACTACTCAAATA
* * *
888979 AAAGTAGAGGCATACCTATACTATAAATGTACGCACTCCATTCAAAGGAAACTATTTAAATA
1 AAAGTAGAGGCATACCTATACTATAAATGTACGCACTACATTCAAAGGAAACTACTCAAATA
889041 AAAG
1 AAAG
889045 CCTACTACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
61 1 0.02
62 57 0.98
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (62 bp):
AAAGTAGAGGCATACCTATACTATAAATGTACGCACTACATTCAAAGGAAACTACTCAAATA
Found at i:891935 original size:23 final size:23
Alignment explanation
Indices: 891891--891935 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
891881 GTGGTCCAAG
*
891891 CTTATCTTTCCATATACTATAAT
1 CTTATCTTTCCATAAACTATAAT
891914 CTTATCTTTCCATACAAC-ATAA
1 CTTATCTTTCCATA-AACTATAA
891936 AAAATTCAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (23 bp):
CTTATCTTTCCATAAACTATAAT
Found at i:893189 original size:16 final size:16
Alignment explanation
Indices: 893156--893189 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
893146 CGAGTTTGTT
* *
893156 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
893172 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
893188 AA
1 AA
893190 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:896017 original size:21 final size:21
Alignment explanation
Indices: 895991--896031 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
895981 AGACGAGCAA
* *
895991 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
896012 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
896032 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:897970 original size:16 final size:16
Alignment explanation
Indices: 897937--897970 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
897927 GGAGATTGTT
* *
897937 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
897953 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
897969 AA
1 AA
897971 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:899043 original size:24 final size:25
Alignment explanation
Indices: 899011--899075 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
899001 GTGAATTTGG
* *
899011 TTTTCATTTTTTTAATTTATT-AGT
1 TTTTAATTTTTTTAATTTATTGAAT
* *
899035 TTTTAATTTGTTTAATTTTTTGAAT
1 TTTTAATTTTTTTAATTTATTGAAT
*
899060 TTTAAATTTTTTTAAT
1 TTTTAATTTTTTTAAT
899076 ATTACACTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (25 bp):
TTTTAATTTTTTTAATTTATTGAAT
Found at i:901310 original size:31 final size:34
Alignment explanation
Indices: 901262--901323 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
901252 TTTTAAATAG
901262 AAATTATAATTATAATTATC-T-AAATCAAATAAA
1 AAATTATAATTATAATTA-CATAAAATCAAATAAA
901295 AAATTA-AA-TATAATTACATAAAATCAAAT
1 AAATTATAATTATAATTACATAAAATCAAAT
901324 TAAATTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 1 0.04
31 9 0.33
32 11 0.41
33 6 0.22
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (34 bp):
AAATTATAATTATAATTACATAAAATCAAATAAA
Found at i:901552 original size:23 final size:23
Alignment explanation
Indices: 901508--901584 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
901498 GAAAAATAAT
901508 AATAAAATAAAAGTT-T-TATTTTA
1 AATAAAATAAAA-TTATGT-TTTTA
901531 AATAAAATAAAATTATGTTTTTAGAA
1 AATAAAATAAAATTATGTTTTT---A
* *
901557 AATAAAAAAAAATCA-G-TTTTA
1 AATAAAATAAAATTATGTTTTTA
901578 AATAAAA
1 AATAAAA
901585 AATCATGTCG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
21 8 0.17
22 2 0.04
23 17 0.36
24 5 0.11
25 1 0.02
26 14 0.30
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.35
Consensus pattern (23 bp):
AATAAAATAAAATTATGTTTTTA
Found at i:924316 original size:347 final size:347
Alignment explanation
Indices: 923681--924376 Score: 1392
Period size: 347 Copynumber: 2.0 Consensus size: 347
923671 AATTTATTTT
923681 AATTTATTTAATTTTGAATTTCAATTTAGTTCAAGTTGAAAATAAAATAAATAATAACAAGATTA
1 AATTTATTTAATTTTGAATTTCAATTTAGTTCAAGTTGAAAATAAAATAAATAATAACAAGATTA
923746 TTATTTAATCCGTTTTAATGTGTTATTTTCCAGGAACATTAGTGGAGACTGTCATTTTTTTGAAG
66 TTATTTAATCCGTTTTAATGTGTTATTTTCCAGGAACATTAGTGGAGACTGTCATTTTTTTGAAG
923811 AACAGATTCCGATTGTGCATGAGCATGCCACGCTCAATGTTACCATTTTTCTTCATATAACCACA
131 AACAGATTCCGATTGTGCATGAGCATGCCACGCTCAATGTTACCATTTTTCTTCATATAACCACA
923876 CCTAACCTAAGTCCACATAACCCAAAACCAACACAAACCCAAATGAAAAAAGAATCCATACACAA
196 CCTAACCTAAGTCCACATAACCCAAAACCAACACAAACCCAAATGAAAAAAGAATCCATACACAA
923941 AACCTAAAACCAACCCAAATAAAAGAAAGGCGAAACGGCCGAATGTGACCCAAGAAAAAAATAAG
261 AACCTAAAACCAACCCAAATAAAAGAAAGGCGAAACGGCCGAATGTGACCCAAGAAAAAAATAAG
924006 AAAAAGAAACCCAAACTAATAA
326 AAAAAGAAACCCAAACTAATAA
924028 AATTTATTTAATTTTGAATTTCAATTTAGTTCAAGTTGAAAATAAAATAAATAATAACAAGATTA
1 AATTTATTTAATTTTGAATTTCAATTTAGTTCAAGTTGAAAATAAAATAAATAATAACAAGATTA
924093 TTATTTAATCCGTTTTAATGTGTTATTTTCCAGGAACATTAGTGGAGACTGTCATTTTTTTGAAG
66 TTATTTAATCCGTTTTAATGTGTTATTTTCCAGGAACATTAGTGGAGACTGTCATTTTTTTGAAG
924158 AACAGATTCCGATTGTGCATGAGCATGCCACGCTCAATGTTACCATTTTTCTTCATATAACCACA
131 AACAGATTCCGATTGTGCATGAGCATGCCACGCTCAATGTTACCATTTTTCTTCATATAACCACA
924223 CCTAACCTAAGTCCACATAACCCAAAACCAACACAAACCCAAATGAAAAAAGAATCCATACACAA
196 CCTAACCTAAGTCCACATAACCCAAAACCAACACAAACCCAAATGAAAAAAGAATCCATACACAA
924288 AACCTAAAACCAACCCAAATAAAAGAAAGGCGAAACGGCCGAATGTGACCCAAGAAAAAAATAAG
261 AACCTAAAACCAACCCAAATAAAAGAAAGGCGAAACGGCCGAATGTGACCCAAGAAAAAAATAAG
924353 AAAAAGAAACCCAAACTAATAA
326 AAAAAGAAACCCAAACTAATAA
924375 AA
1 AA
924377 AAAAAGAACC
Statistics
Matches: 349, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 349 1.00
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (347 bp):
AATTTATTTAATTTTGAATTTCAATTTAGTTCAAGTTGAAAATAAAATAAATAATAACAAGATTA
TTATTTAATCCGTTTTAATGTGTTATTTTCCAGGAACATTAGTGGAGACTGTCATTTTTTTGAAG
AACAGATTCCGATTGTGCATGAGCATGCCACGCTCAATGTTACCATTTTTCTTCATATAACCACA
CCTAACCTAAGTCCACATAACCCAAAACCAACACAAACCCAAATGAAAAAAGAATCCATACACAA
AACCTAAAACCAACCCAAATAAAAGAAAGGCGAAACGGCCGAATGTGACCCAAGAAAAAAATAAG
AAAAAGAAACCCAAACTAATAA
Found at i:932983 original size:14 final size:14
Alignment explanation
Indices: 932964--932991 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
932954 ATGATTGGCT
932964 ATCAGAGACGCATA
1 ATCAGAGACGCATA
932978 ATCAGAGACGCATA
1 ATCAGAGACGCATA
932992 CTTCTCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (14 bp):
ATCAGAGACGCATA
Found at i:939708 original size:29 final size:29
Alignment explanation
Indices: 939675--939791 Score: 103
Period size: 30 Copynumber: 3.9 Consensus size: 29
939665 TGTAATTTTT
*
939675 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
939704 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
*
939734 AGAAAGTTTAAGGGTTAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
939763 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
939792 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 15 0.21
30 55 0.76
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:939730 original size:30 final size:31
Alignment explanation
Indices: 939689--939791 Score: 124
Period size: 30 Copynumber: 3.4 Consensus size: 31
939679 AATTTAGGAT
*
939689 TAAAATGAAATTTAATGAAAGTTTAGGGGTC
1 TAAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
939720 T-AAGTGAAATTTAAAGAAAGTTTAAGGGT-
1 TAAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
939749 TAAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 TAAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
939780 -AAAATGCAATTT
1 TAAAATGAAATTT
939792 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
29 3 0.05
30 58 0.94
31 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (31 bp):
TAAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:939791 original size:60 final size:59
Alignment explanation
Indices: 939675--939791 Score: 155
Period size: 60 Copynumber: 2.0 Consensus size: 59
939665 TGTAATTTTT
* * *
939675 AGAAAATTTAGGATTAAAATGAAATTTAATGAAAGTTTAGGGGTCTAAGTGAAATTTAA
1 AGAAAATTTAGGATTAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
* * *
939734 AGAAAGTTTAAGGGTTAAAATGAAATTT-AGGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAATTT-AGGATTAAAATGAAATTTAAGG-AAAGTTTAGGGGTCAAAATGAAATTT
939792 TTATTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
59 10 0.20
60 40 0.80
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (59 bp):
AGAAAATTTAGGATTAAAATGAAATTTAAGGAAAGTTTAGGGGTCAAAATGAAATTTAA
Found at i:939806 original size:14 final size:15
Alignment explanation
Indices: 939787--939821 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
939777 GTCAAAATGC
939787 AATTTTTATTTTT-A
1 AATTTTTATTTTTGA
*
939801 AATTTTTTTTTTTGA
1 AATTTTTATTTTTGA
939816 AATTTT
1 AATTTT
939822 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (15 bp):
AATTTTTATTTTTGA
Found at i:940627 original size:24 final size:24
Alignment explanation
Indices: 940600--940821 Score: 64
Period size: 23 Copynumber: 9.3 Consensus size: 24
940590 TATTTAACGA
*
940600 GAAGCTCATAAAGAGCAATATCGG
1 GAAGCTCACAAAGAGCAATATCGG
** * * *
940624 GAAGCT-A-ATCCGGGCTATAACGG
1 GAAGCTCACA-AAGAGCAATATCGG
* *
940647 GAAGCTCA-ATAGAGCCGAA-ATCAG
1 GAAGCTCACAAAGAG-C-AATATCGG
* * * *
940671 GTAGTTCACAAAGAACCATATCGG
1 GAAGCTCACAAAGAGCAATATCGG
* *
940695 GAAGCTCACGAAGAGC-CTATCGG
1 GAAGCTCACAAAGAGCAATATCGG
** *
940718 GAAGCTC-CGGATAGCCATATATCGG
1 GAAGCTCACAAAGAG-CA-ATATCGG
* * ** * *
940743 AAAGTTCA-AGCGAGCACTATTGG
1 GAAGCTCACAAAGAGCAATATCGG
* * *
940766 GAAGCTCATAAAGAGC-CTATCAG
1 GAAGCTCACAAAGAGCAATATCGG
* *
940789 GAAGCTCACGAAGAACCATATATCGG
1 GAAGCTCACAAAG-AGCA-ATATCGG
*
940815 GACGCTC
1 GAAGCTC
940822 TTAAGAGCTA
Statistics
Matches: 140, Mismatches: 44, Indels: 26
0.67 0.21 0.12
Matches are distributed among these distances:
22 6 0.04
23 60 0.43
24 44 0.31
25 19 0.14
26 11 0.08
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GAAGCTCACAAAGAGCAATATCGG
Found at i:940719 original size:23 final size:23
Alignment explanation
Indices: 940689--940802 Score: 88
Period size: 23 Copynumber: 4.9 Consensus size: 23
940679 CAAAGAACCA
940689 TATCGGGAAGCTCACGAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* *
940712 TATCGGGAAGCTC-CGGATAGCC
1 TATCGGGAAGCTCACGAAGAGCC
* * * *
940734 ATATATCGGAAAGTTCAAG-CGAGCAC
1 ---TATCGGGAAGCTCACGAAGAGC-C
* **
940760 TATTGGGAAGCTCATAAAGAGCC
1 TATCGGGAAGCTCACGAAGAGCC
*
940783 TATCAGGAAGCTCACGAAGA
1 TATCGGGAAGCTCACGAAGA
940803 ACCATATATC
Statistics
Matches: 68, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
22 7 0.10
23 41 0.60
24 4 0.06
25 14 0.21
26 2 0.03
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (23 bp):
TATCGGGAAGCTCACGAAGAGCC
Done.