Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 16 of 284
Found at i:5367706 original size:22 final size:25
Alignment explanation
Indices: 5367681--5367741 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
5367671 AAGGAAGAAG
*
5367681 ATAAGAAAA-AAGAATA-AAAAA-A
1 ATAAGAAAAGAAAAATATAAAAATA
5367703 ATAAGAAAAGAAAAATATAAAAATA
1 ATAAGAAAAGAAAAATATAAAAATA
*
5367728 ATTAAGAAATGAAA
1 A-TAAGAAAAGAAA
5367742 TATAAATAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 9 0.27
23 6 0.18
24 5 0.15
25 2 0.06
26 11 0.33
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (25 bp):
ATAAGAAAAGAAAAATATAAAAATA
Found at i:5368478 original size:19 final size:19
Alignment explanation
Indices: 5368456--5368493 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
5368446 ATTTAATTAT
5368456 TATATT-TAAATATAATTTA
1 TATATTCTAAATA-AATTTA
*
5368475 TATATTCTAATTAAATTTA
1 TATATTCTAAATAAATTTA
5368494 ATAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATTCTAAATAAATTTA
Found at i:5368768 original size:13 final size:13
Alignment explanation
Indices: 5368729--5368773 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
5368719 AAATTTTTCT
5368729 AAAGCACTTCTCA
1 AAAGCACTTCTCA
* *
5368742 AAAGTAATTCTCA
1 AAAGCACTTCTCA
*
5368755 AAAGCACTTTTCA
1 AAAGCACTTCTCA
5368768 AAAGCA
1 AAAGCA
5368774 ACGAAGAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.24
Consensus pattern (13 bp):
AAAGCACTTCTCA
Found at i:5380029 original size:16 final size:15
Alignment explanation
Indices: 5379997--5380064 Score: 82
Period size: 16 Copynumber: 4.3 Consensus size: 15
5379987 ACAACTGAAT
*
5379997 TATTCATTACAGATC
1 TATTCATTACAGCTC
*
5380012 TATTCTATTAGAGCTC
1 TATTC-ATTACAGCTC
*
5380028 TATTCCATTACAACTC
1 TATT-CATTACAGCTC
5380044 TATTACATTACAGCTC
1 TATT-CATTACAGCTC
5380060 TATTC
1 TATTC
5380065 TATTCCTCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
15 6 0.13
16 38 0.84
17 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (15 bp):
TATTCATTACAGCTC
Found at i:5388451 original size:30 final size:30
Alignment explanation
Indices: 5388393--5388452 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
5388383 TATTTTATTA
* *
5388393 TTAATTTTGTTATTATTTTAGATGCATTTG
1 TTAATTTTATTATTATTTTAGAAGCATTTG
5388423 TTAATTTTATTATTATTTTA-AAGACATTTG
1 TTAATTTTATTATTATTTTAGAAG-CATTTG
5388453 CTCGTTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAGAAGCATTTG
Found at i:5389377 original size:23 final size:23
Alignment explanation
Indices: 5389347--5389394 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
5389337 GTGACGCCAC
5389347 GTCATCTGTATCCATTTCCAATA
1 GTCATCTGTATCCATTTCCAATA
5389370 GTCATCTGTATCCATTTCCAATA
1 GTCATCTGTATCCATTTCCAATA
5389393 GT
1 GT
5389395 TTTATGTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (23 bp):
GTCATCTGTATCCATTTCCAATA
Found at i:5389618 original size:55 final size:55
Alignment explanation
Indices: 5389534--5389709 Score: 334
Period size: 55 Copynumber: 3.2 Consensus size: 55
5389524 TGACGTAAAA
5389534 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
1 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
5389589 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
1 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
*
5389644 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATACAATCTTTTTCT
1 CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
*
5389699 CTATTAAAAAT
1 CTATTAGAAAT
5389710 ACCAAAATTT
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 119 1.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (55 bp):
CTATTAGAAATGAATACAGATGACATAACATTACTGTTTCATATAATCTTTTTCT
Found at i:5390863 original size:16 final size:16
Alignment explanation
Indices: 5390842--5390875 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5390832 TGGCTTGATA
* *
5390842 AAACTCATACCGACTC
1 AAACTCAAACCAACTC
5390858 AAACTCAAACCAACTC
1 AAACTCAAACCAACTC
5390874 AA
1 AA
5390876 CTTGATTTGG
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:0.47, C:0.35, G:0.03, T:0.15
Consensus pattern (16 bp):
AAACTCAAACCAACTC
Found at i:5405712 original size:13 final size:13
Alignment explanation
Indices: 5405694--5405725 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5405684 AAAACTAAGG
*
5405694 TATCTACTAGCTT
1 TATCTACTAACTT
5405707 TATCTACTAACTT
1 TATCTACTAACTT
5405720 TATCTA
1 TATCTA
5405726 ATGTCTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.03, T:0.47
Consensus pattern (13 bp):
TATCTACTAACTT
Found at i:5406859 original size:22 final size:22
Alignment explanation
Indices: 5406815--5406859 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
5406805 TGGTGATAGG
**
5406815 CACCAATCACCCAATTTTTCGC
1 CACCAATCACCCAATTTCCCGC
5406837 CACCAATCACCCAATTTCCCGC
1 CACCAATCACCCAATTTCCCGC
5406859 C
1 C
5406860 CCCTCTCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (22 bp):
CACCAATCACCCAATTTCCCGC
Found at i:5420491 original size:22 final size:22
Alignment explanation
Indices: 5420456--5420497 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5420446 TATACAAGTA
5420456 ATATTACTTAAATAATTATGAG
1 ATATTACTTAAATAATTATGAG
* *
5420478 ATATTAGTTGAATAATTATG
1 ATATTACTTAAATAATTATG
5420498 TCTCTTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (22 bp):
ATATTACTTAAATAATTATGAG
Found at i:5421766 original size:38 final size:38
Alignment explanation
Indices: 5421724--5421849 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 38
5421714 CTTATTGAAG
* * * *
5421724 GGTTGTGAAAGGCCTAGTCAATGCCGACCTTCAAAAAA
1 GGTTGGGAAAGACCTAGTCAAGGCCAACCTTCAAAAAA
* * **
5421762 GGTTGGGATAGACTTAGTCAAGGCCAACCTTTGAAAAA
1 GGTTGGGAAAGACCTAGTCAAGGCCAACCTTCAAAAAA
* * * * *
5421800 GGTAGGGATAGACCAATTTAAGG-CAACCCTT-AAAAAA
1 GGTTGGGAAAGACCTAGTCAAGGCCAA-CCTTCAAAAAA
*
5421837 GGTTGGGATAGAC
1 GGTTGGGAAAGAC
5421850 TCATTTAAGA
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
37 20 0.28
38 52 0.72
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (38 bp):
GGTTGGGAAAGACCTAGTCAAGGCCAACCTTCAAAAAA
Found at i:5421836 original size:37 final size:37
Alignment explanation
Indices: 5421751--5422140 Score: 225
Period size: 37 Copynumber: 10.6 Consensus size: 37
5421741 TCAATGCCGA
* * *
5421751 CCTTCAAAAAAGGTTGGGATAGACTTAGTCAAGGCCAAC
1 CCTT-AAAAAAGGTTGGGATAGACCTATTTAAGG-CAAC
* * * *
5421790 CTTTGAAAAAGGTAGGGATAGACCAATTTAAGGCAAC
1 CCTTAAAAAAGGTTGGGATAGACCTATTTAAGGCAAC
**
5421827 CCTTAAAAAAGGTTGGGATAGA-CTCATTTAAGATAA-
1 CCTTAAAAAAGGTTGGGATAGACCT-ATTTAAGGCAAC
* **
5421863 CCTT-AAAAAGGTTGAGATAGACCT-TGTCTAAGATAAC
1 CCTTAAAAAAGGTTGGGATAGACCTAT-T-TAAGGCAAC
* * *
5421900 CCTTAAAAAAGGTTGGGATAGACTTGTTTAAGGTAA-
1 CCTTAAAAAAGGTTGGGATAGACCTATTTAAGGCAAC
* * *
5421936 CCTT-AAAAAGGTTTGAGATAGACTTTATCTAAGGCAAC
1 CCTTAAAAAAGG-TTGGGATAGAC-CTATTTAAGGCAAC
* * * * * **
5421974 CCTTAAAAAAAGTTAGGATA-AACTCCTCTAAAACAAC
1 CCTTAAAAAAGGTTGGGATAGACCT-ATTTAAGGCAAC
*
5422011 CC-TAAAAAA-GTTGGTATAGACCT-TGTCTAAGGCAAC
1 CCTTAAAAAAGGTTGGGATAGACCTAT-T-TAAGGCAAC
* * * **
5422047 CTTTAAAAAA-GTTGAGATAAAGCC-ATTTAATACAA-
1 CCTTAAAAAAGGTTGGGATAGA-CCTATTTAAGGCAAC
* * * *
5422082 CCTT-AAAAAGGTTGGGATATACTTTATCTAAGACAA-
1 CCTTAAAAAAGGTTGGGATAGAC-CTATTTAAGGCAAC
* * *
5422118 CTTTTAAAAAGGTTGGAATAGAC
1 CCTTAAAAAAGGTTGGGATAGAC
5422141 TCGTCTAAAG
Statistics
Matches: 279, Mismatches: 50, Indels: 46
0.74 0.13 0.12
Matches are distributed among these distances:
34 8 0.03
35 43 0.15
36 66 0.24
37 97 0.35
38 55 0.20
39 10 0.04
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (37 bp):
CCTTAAAAAAGGTTGGGATAGACCTATTTAAGGCAAC
Found at i:5421873 original size:110 final size:109
Alignment explanation
Indices: 5421757--5422140 Score: 268
Period size: 110 Copynumber: 3.5 Consensus size: 109
5421747 CCGACCTTCA
* * * *
5421757 AAAAAGGTTGGGATAGA-CTTAGTC-AAGGCCAACCTTTGAAAAAGGTAGGGATAGACCAATTTA
1 AAAAAGGTTGAGATAGACCTT-GTCTAA-GACAACCCTTAAAAAAGGTAGGGATAGACCAATTTA
*
5421820 AGGCAACCCTTAAAAAAGG-TTGGGATAGACTCATTTAAGATAACCTT
64 AGGCAA-CCTT-AAAAAGGTTTGAGATAGACTCATTTAAGATAACCTT
* * ***
5421867 AAAAAGGTTGAGATAGACCTTGTCTAAGATAACCCTTAAAAAAGGTTGGGATAGACTTGTTTAAG
1 AAAAAGGTTGAGATAGACCTTGTCTAAGACAACCCTTAAAAAAGGTAGGGATAGACCAATTTAAG
* * * **
5421932 GTAACCTTAAAAAGGTTTGAGATAGACTTTATCTAAGGCAACCCTT
66 GCAACCTTAAAAAGGTTTGAGATAGAC-TCATTTAAGATAA-CCTT
* * ** * * * *
5421978 AAAAAAAGTT-AGGATA-AACTCCTCTAAAACAACCC-TAAAAAA-GTTGGTATAGACC-TTGTC
1 -AAAAAGGTTGA-GATAGACCTTGTCTAAGACAACCCTTAAAAAAGGTAGGGATAGACCAAT-T-
* * * *
5422038 TAAGGCAACCTTTAAAAAAG-TTGAGATAAAGC-CATTTAATACAACCTT
62 TAAGGCAACC-TTAAAAAGGTTTGAGATAGA-CTCATTTAAGATAACCTT
* * * * * * * *
5422086 AAAAAGGTTGGGATATACTTTATCTAAGACAA-CTTTTAAAAAGGTTGGAATAGAC
1 AAAAAGGTTGAGATAGACCTTGTCTAAGACAACCCTTAAAAAAGGTAGGGATAGAC
5422141 TCGTCTAAAG
Statistics
Matches: 218, Mismatches: 41, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
107 13 0.06
108 29 0.13
109 45 0.21
110 86 0.39
111 33 0.15
112 12 0.06
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (109 bp):
AAAAAGGTTGAGATAGACCTTGTCTAAGACAACCCTTAAAAAAGGTAGGGATAGACCAATTTAAG
GCAACCTTAAAAAGGTTTGAGATAGACTCATTTAAGATAACCTT
Found at i:5421917 original size:73 final size:72
Alignment explanation
Indices: 5421751--5422251 Score: 343
Period size: 73 Copynumber: 6.8 Consensus size: 72
5421741 TCAATGCCGA
* * * * *
5421751 CCTTCAAAAAAGGTTGGGATAGACTTAG-TCAAGGCCAACCTTTGAAAAAGGTAGGGATAGACC-
1 CCTT-AAAAAAGGTTGGGATAGAC-TCGTTTAA--ACAACC-TT-AAAAAGGTTGAGATAGACCT
* * *
5421814 AATTTAAGGCAAC
60 TATCTAAGACAAC
* * *
5421827 CCTTAAAAAAGGTTGGGATAGACTCATTTAAGATAACCTTAAAAAGGTTGAGATAGACCTTGTCT
1 CCTTAAAAAAGGTTGGGATAGACTCGTTTAA-ACAACCTTAAAAAGGTTGAGATAGACCTTATCT
*
5421892 AAGATAAC
65 AAGACAAC
* ** *
5421900 CCTTAAAAAAGGTTGGGATAGACTTGTTTAAGGTAACCTTAAAAAGGTTTGAGATAGACTTTATC
1 CCTTAAAAAAGGTTGGGATAGACTCGTTTAA-ACAACCTTAAAAAGG-TTGAGATAGACCTTATC
*
5421965 TAAGGCAAC
64 TAAGACAAC
* * * * * * * *
5421974 CCTTAAAAAAAGTTAGGATAAACTCCTCTAAAACAACCCTAAAAAAGTTG-GTATAGACCTTGTC
1 CCTTAAAAAAGGTTGGGATAGACTCGT-TTAAACAACCTTAAAAAGGTTGAG-ATAGACCTTATC
*
5422038 TAAGGCAAC
64 TAAGACAAC
* * * * * * *
5422047 CTTTAAAAAA-GTTGAGATAAAGC-CATTTAATACAACCTTAAAAAGGTTGGGATATACTTTATC
1 CCTTAAAAAAGGTTGGGATAGA-CTCGTTTAA-ACAACCTTAAAAAGGTTGAGATAGACCTTATC
5422110 TAAGACAA-
64 TAAGACAAC
* * * * * * * * *
5422118 CTTTTAAAAAGGTTGGAATAGACTCGTCTAAAGTAACTTTAAAAAAGTT-AGGATAAACATTATC
1 CCTTAAAAAAGGTTGGGATAGACTCGTTTAAA-CAACCTTAAAAAGGTTGA-GATAGACCTTATC
* *
5422182 TAAAATAAC
64 TAAGACAAC
** * * * *
5422191 TTTTAAAAAATGTTGAGATAGAC-CTGTTTAAAGCAACCTTAAAAAGGTTGGGATAAACCTT
1 CCTTAAAAAAGGTTGGGATAGACTC-GTTTAAA-CAACCTTAAAAAGGTTGAGATAGACCTT
5422252 TTGATTTATC
Statistics
Matches: 343, Mismatches: 67, Indels: 33
0.77 0.15 0.07
Matches are distributed among these distances:
71 14 0.04
72 105 0.31
73 134 0.39
74 61 0.18
75 25 0.07
76 4 0.01
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (72 bp):
CCTTAAAAAAGGTTGGGATAGACTCGTTTAAACAACCTTAAAAAGGTTGAGATAGACCTTATCTA
AGACAAC
Found at i:5422427 original size:6 final size:7
Alignment explanation
Indices: 5422403--5422434 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
5422393 TACAACTAAA
5422403 AAAATAT
1 AAAATAT
5422410 AAAATAT
1 AAAATAT
5422417 AAAAT-T
1 AAAATAT
5422423 AAAAT-T
1 AAAATAT
5422429 AAAATA
1 AAAATA
5422435 ATGATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATAT
Found at i:5438659 original size:29 final size:29
Alignment explanation
Indices: 5438617--5438693 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
5438607 CTTAACAAGT
*
5438617 TTAGGCACTAAATTAAACCTAGAAAAAGC
1 TTAGGCACCAAATTAAACCTAGAAAAAGC
* * * *
5438646 TTAGGTACCAAATTGAACTTAGAAAAAAAAC
1 TTAGGCACCAAATTAAACCTAG--AAAAAGC
*
5438677 TTACGCACCAAATTAAA
1 TTAGGCACCAAATTAAA
5438694 AAAAATGCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 18 0.47
31 20 0.53
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (29 bp):
TTAGGCACCAAATTAAACCTAGAAAAAGC
Found at i:5439290 original size:7 final size:8
Alignment explanation
Indices: 5439265--5439299 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
5439255 TATATGCATA
5439265 TAATAATT
1 TAATAATT
5439273 TAATAATT
1 TAATAATT
5439281 TAAT-ATT
1 TAATAATT
5439288 TAATAAATT
1 TAAT-AATT
5439297 TAA
1 TAA
5439300 AATAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.28
8 12 0.48
9 6 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (8 bp):
TAATAATT
Found at i:5439613 original size:21 final size:21
Alignment explanation
Indices: 5439565--5439606 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
5439555 TTTATTATTA
*
5439565 ATATATTTATAATTATAATAT
1 ATATATTTATAATTAAAATAT
*
5439586 ATATATTTATTATTAAAATAT
1 ATATATTTATAATTAAAATAT
5439607 TAATATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATTTATAATTAAAATAT
Found at i:5439671 original size:16 final size:16
Alignment explanation
Indices: 5439640--5439676 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
5439630 GTGTGAATAA
5439640 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
5439656 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
5439672 TATTA
1 TATTA
5439677 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:5439728 original size:22 final size:22
Alignment explanation
Indices: 5439688--5439743 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
5439678 AATAAAATTG
*
5439688 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
5439708 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
5439730 TATTAATAATTTAT
1 AAATAATAAATTAT
5439744 TATATAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:5440246 original size:24 final size:24
Alignment explanation
Indices: 5440219--5440266 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
5440209 ACACTTATCC
5440219 CTTAAATTTGGTATAAAATATACT
1 CTTAAATTTGGTATAAAATATACT
5440243 CTTAAATTTGGTATAAAATATACT
1 CTTAAATTTGGTATAAAATATACT
5440267 TACTTCTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
CTTAAATTTGGTATAAAATATACT
Found at i:5440585 original size:13 final size:13
Alignment explanation
Indices: 5440567--5440598 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
5440557 TATGATAAAT
5440567 TAATTAATTACGA
1 TAATTAATTACGA
5440580 TAATTAATTACGA
1 TAATTAATTACGA
*
5440593 TTATTA
1 TAATTA
5440599 TAAGGGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (13 bp):
TAATTAATTACGA
Found at i:5442041 original size:9 final size:9
Alignment explanation
Indices: 5442016--5442077 Score: 88
Period size: 9 Copynumber: 6.8 Consensus size: 9
5442006 TTAAGTTTCT
5442016 TGTGTTTAA
1 TGTGTTTAA
* *
5442025 AGTATTTAA
1 TGTGTTTAA
5442034 TGTGTTTAA
1 TGTGTTTAA
5442043 TGTGTTTAA
1 TGTGTTTAA
5442052 TGTGTTTAA
1 TGTGTTTAA
*
5442061 TGTGTTTTAT
1 TGTG-TTTAA
5442071 TGTGTTT
1 TGTGTTT
5442078 GTTAATGCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
9 39 0.83
10 8 0.17
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (9 bp):
TGTGTTTAA
Found at i:5460313 original size:28 final size:28
Alignment explanation
Indices: 5460258--5460313 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
5460248 CTTGACACGA
* *
5460258 ATTCTCAATGAACAAGTTCTTCATCGCT
1 ATTCTCAACGAACAAGTTCTTCACCGCT
5460286 ATTCTCAACGAACAAGTT-TTCCACCGCT
1 ATTCTCAACGAACAAGTTCTT-CACCGCT
5460314 TCCATAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.08
28 23 0.92
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (28 bp):
ATTCTCAACGAACAAGTTCTTCACCGCT
Found at i:5464347 original size:5 final size:5
Alignment explanation
Indices: 5464337--5464373 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
5464327 CACTTTGTGA
5464337 AAAAT AAAAT AAAAT AAAA- ATAAA- AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAA
5464374 GAACACACAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:5469070 original size:27 final size:27
Alignment explanation
Indices: 5469029--5469082 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5469019 TGTCATGTGA
* *
5469029 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
5469056 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
5469083 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:5469461 original size:50 final size:49
Alignment explanation
Indices: 5469336--5469524 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
5469326 TGAGGTCGCA
* * * *
5469336 TGTGCAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-A-TTTGGTCACG
* *
5469387 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTTGGTCACG
* * * * * *
5469437 TGTGTAGTACTAAGTGCAGCCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTGGTCACG
* *
5469486 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
5469525 GCCTTGTCTA
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 41 0.35
50 42 0.36
51 35 0.30
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTGGTCACG
Found at i:5469519 original size:49 final size:49
Alignment explanation
Indices: 5469329--5469524 Score: 230
Period size: 49 Copynumber: 3.9 Consensus size: 49
5469319 TCTATTGTGA
* * *
5469329 GGTCGCATGTGCAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
5469379 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AATT
* * * *
5469430 GGTCACGTGTGTAGTACTAAGTGCAGCCTACTACATGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
5469479 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
5469525 GCCTTGTCTA
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 41 0.34
50 40 0.33
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:5472370 original size:42 final size:41
Alignment explanation
Indices: 5472292--5472375 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 41
5472282 GTATATCCTA
* *
5472292 TCACTAAGCTCACAAGGGGAGCTTCGCTGATACACAATTTG
1 TCACTAAGCTCACAAGGGGAGCTTCACTGATACACAACTTG
* * *
5472333 TCACTTAAGCTCACATA-TGGAGCTTCACTTATTCACAACTTG
1 TCAC-TAAGCTCACA-AGGGGAGCTTCACTGATACACAACTTG
5472375 T
1 T
5472376 AAAACTGTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.11
42 31 0.86
43 1 0.03
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (41 bp):
TCACTAAGCTCACAAGGGGAGCTTCACTGATACACAACTTG
Found at i:5474907 original size:9 final size:9
Alignment explanation
Indices: 5474893--5474919 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
5474883 TTGAACTGAA
5474893 TTGAATAAT
1 TTGAATAAT
5474902 TTGAATAAT
1 TTGAATAAT
5474911 TTGAATAAT
1 TTGAATAAT
5474920 AAATGAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
TTGAATAAT
Found at i:5476568 original size:53 final size:53
Alignment explanation
Indices: 5476487--5476642 Score: 210
Period size: 53 Copynumber: 3.0 Consensus size: 53
5476477 GACGAAAAAT
* *
5476487 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* *
5476539 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCAGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
5476592 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTA
5476643 TGATATGTGA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
51 4 0.04
52 11 0.12
53 78 0.84
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:5483896 original size:46 final size:46
Alignment explanation
Indices: 5483846--5484204 Score: 391
Period size: 46 Copynumber: 7.7 Consensus size: 46
5483836 TGGTTGAGCA
5483846 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5483892 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
5483937 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5483985 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
5484030 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
5484078 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
5484123 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
5484171 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5484205 GGGGCGGGTT
Statistics
Matches: 265, Mismatches: 21, Indels: 54
0.78 0.06 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 119 0.45
47 87 0.33
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:5484002 original size:93 final size:93
Alignment explanation
Indices: 5483843--5484199 Score: 687
Period size: 93 Copynumber: 3.8 Consensus size: 93
5483833 GGATGGTTGA
5483843 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
5483908 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
5483936 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
5484001 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
5484029 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
5484094 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
5484122 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
5484187 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5484200 ACTTAGGGGC
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 261 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5486282 original size:43 final size:43
Alignment explanation
Indices: 5486235--5486368 Score: 141
Period size: 42 Copynumber: 3.1 Consensus size: 43
5486225 AGACGTTGTT
* *
5486235 TTACATGTGA-TCAAATATTGATGCCACTGTCCCAGACAGGGTC
1 TTACATGTAATTCAAATA-TGATGCCAATGTCCCAGACAGGGTC
* *
5486278 TTACATG-AATTCATATATGATGCCAATGTCCCAGACATGGTC
1 TTACATGTAATTCAAATATGATGCCAATGTCCCAGACAGGGTC
* * *
5486320 TTACATGTACATCTCAAAT-CGACGCCAACGTCCCAGAC-GTGGTC
1 TTACATGTA-AT-TCAAATATGATGCCAATGTCCCAGACAG-GGTC
5486364 TTACA
1 TTACA
5486369 CGATAACTCA
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
42 31 0.40
43 14 0.18
44 27 0.35
45 5 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
TTACATGTAATTCAAATATGATGCCAATGTCCCAGACAGGGTC
Found at i:5486356 original size:44 final size:42
Alignment explanation
Indices: 5486263--5486368 Score: 126
Period size: 44 Copynumber: 2.5 Consensus size: 42
5486253 TGATGCCACT
* * *
5486263 GTCCCAGACAGGGTCTTACATGAATTCATATATGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAATTCATATATGACGCCAAC
5486305 GTCCCAGACATGGTCTTACATGTACATCTCA-A-ATCGACGCCAAC
1 GTCCCAGACATGGTCTTACATG-A-AT-TCATATAT-GACGCCAAC
*
5486349 GTCCCAGACGTGGTCTTACA
1 GTCCCAGACATGGTCTTACA
5486369 CGATAACTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
42 21 0.38
43 3 0.05
44 29 0.52
45 3 0.05
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAATTCATATATGACGCCAAC
Found at i:5488938 original size:18 final size:18
Alignment explanation
Indices: 5488915--5488953 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
5488905 AGATTTTTCG
5488915 GAACACAAATCTAATCTC
1 GAACACAAATCTAATCTC
5488933 GAACACAAATCTAATCTC
1 GAACACAAATCTAATCTC
5488951 GAA
1 GAA
5488954 AACTCAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.21
Consensus pattern (18 bp):
GAACACAAATCTAATCTC
Found at i:5490755 original size:37 final size:37
Alignment explanation
Indices: 5490705--5490783 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
5490695 TTATTACGAA
* * *
5490705 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
5490742 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
5490779 GTCTT
1 GTCTT
5490784 TAGAGCTCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:5490979 original size:47 final size:47
Alignment explanation
Indices: 5490916--5491850 Score: 1726
Period size: 47 Copynumber: 19.9 Consensus size: 47
5490906 CACATTTATG
* * * ** * * **
5490916 CACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5490963 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491010 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491057 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491104 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491151 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491198 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491245 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491292 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491339 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491386 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491433 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491480 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491527 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491574 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491621 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491668 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
5491715 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
**
5491762 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATA
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--GCATATA
* * *
5491811 CACTTTCACATTCATCACATCAGCTATTAGGCCTTATCAC
1 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC
5491851 AATTTAGAAT
Statistics
Matches: 872, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
47 830 0.95
49 42 0.05
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (47 bp):
CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATA
Found at i:5495412 original size:27 final size:26
Alignment explanation
Indices: 5495365--5495415 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
5495355 TGAGGCTGCC
*
5495365 AGATATTGTGACGAAGTCACCAGAAA
1 AGATATTGTGACGAAGCCACCAGAAA
* *
5495391 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
5495416 TTTCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAA
Found at i:5498127 original size:25 final size:26
Alignment explanation
Indices: 5498054--5498122 Score: 113
Period size: 26 Copynumber: 2.7 Consensus size: 26
5498044 GAGGAAGTGC
* *
5498054 AAAAGGGC-TTTGCCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCA
5498079 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCA
5498105 AAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTTTGCCCCA
5498123 ATTATTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 8 0.20
26 33 0.80
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTTTGCCCCAGTTTATCA
Found at i:5498138 original size:25 final size:26
Alignment explanation
Indices: 5498053--5498138 Score: 83
Period size: 26 Copynumber: 3.4 Consensus size: 26
5498043 GGAGGAAGTG
* *
5498053 CAAAAG-GGC-TTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTTGCCCCAGATTAT
*
5498077 CGAAAAG-GGCTTTTGCCCCAGTTTAT
1 C-AAAAGAGGCTTTTGCCCCAGATTAT
5498103 CAAAA-AGGGCTTTTGCCCCA-ATTAT
1 CAAAAGA-GGCTTTTGCCCCAGATTAT
*
5498128 TAAAAGAGGCT
1 CAAAAGAGGCT
5498139 AGGCCTCTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
24 1 0.02
25 24 0.44
26 29 0.54
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (26 bp):
CAAAAGAGGCTTTTGCCCCAGATTAT
Found at i:5498382 original size:31 final size:31
Alignment explanation
Indices: 5498344--5498427 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
5498334 TTGTTACAGT
5498344 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* * *
5498375 AAAGGCTTTGGCCCAGTGATATGAGTAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
*
5498406 AAAGGCCTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
5498428 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:5505864 original size:38 final size:38
Alignment explanation
Indices: 5505790--5505908 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
5505780 CCAGTCACTG
* * *
5505790 GCACGAAACCTGCGGGACTTTAAGCTCAGATATAATACCA
1 GCACGAAGCCTGCGGGA-TTTAA-CCCGGATATAATACCA
* *
5505830 GCACTAGGCCTGCGGGATTTAACCCGGATATAATACCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATAATACCA
* * *
5505868 GCACGAAGCCTGTGGGATTTAACCCGGATATATTTCCA
1 GCACGAAGCCTGCGGGATTTAACCCGGATATAATACCA
5505906 GCA
1 GCA
5505909 TATAGCCTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
38 50 0.72
39 5 0.07
40 14 0.20
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
GCACGAAGCCTGCGGGATTTAACCCGGATATAATACCA
Found at i:5505916 original size:38 final size:38
Alignment explanation
Indices: 5505790--5505937 Score: 145
Period size: 38 Copynumber: 3.8 Consensus size: 38
5505780 CCAGTCACTG
* * * *
5505790 GCACGAAACCTGCGGGACTTTAAGCTCAGATATAATACCA
1 GCACGAAGCCTGTGGGA-TTTAA-CCCGGATATAATACCA
* * *
5505830 GCACTAGGCCTGCGGGATTTAACCCGGATATAATACCA
1 GCACGAAGCCTGTGGGATTTAACCCGGATATAATACCA
* *
5505868 GCACGAAGCCTGTGGGATTTAACCCGGATATATTTCCA
1 GCACGAAGCCTGTGGGATTTAACCCGGATATAATACCA
* *
5505906 GCA-TATAGCCTGTGGGTCTTTAAGCCCGGATA
1 GCACGA-AGCCTGTGGG-ATTTAA-CCCGGATA
5505938 CACATCAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.01
38 60 0.65
39 10 0.11
40 22 0.24
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (38 bp):
GCACGAAGCCTGTGGGATTTAACCCGGATATAATACCA
Found at i:5508329 original size:40 final size:40
Alignment explanation
Indices: 5508299--5508683 Score: 582
Period size: 40 Copynumber: 9.7 Consensus size: 40
5508289 GCTCCTCGTT
* *
5508299 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
5508339 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
5508379 CAAATGCCTTCGGG-CTTAGCCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTA-ACCCGGATTTAGTAACTCGCA
5508419 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
5508459 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
5508499 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
5508539 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
5508579 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
5508618 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
5508659 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
5508684 CATCATTCAA
Statistics
Matches: 323, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
38 2 0.01
39 37 0.11
40 267 0.83
41 17 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:5509428 original size:49 final size:49
Alignment explanation
Indices: 5509351--5509447 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
5509341 CGATTCTTCT
*
5509351 CCATTTAGCAACCAATGCACATATGTGCTCACTCAAAAATGCTAAAAAC
1 CCATCTAGCAACCAATGCACATATGTGCTCACTCAAAAATGCTAAAAAC
*
5509400 CCATCTAGCAACCAATGCACATGTGTGCTCACTCAAAAATGCTAAAAA
1 CCATCTAGCAACCAATGCACATATGTGCTCACTCAAAAATGCTAAAAA
5509448 GGAGATTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (49 bp):
CCATCTAGCAACCAATGCACATATGTGCTCACTCAAAAATGCTAAAAAC
Found at i:5516553 original size:79 final size:82
Alignment explanation
Indices: 5516442--5516626 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
5516432 GCTACTCGTT
* *
5516442 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
5516505 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
5516522 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
5516585 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
5516602 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5516627 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:5516626 original size:40 final size:40
Alignment explanation
Indices: 5516423--5516626 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
5516413 CGGAATTTAA
** *
5516423 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5516463 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
5516503 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5516542 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
5516582 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
5516622 CCGGA
1 CCGGA
5516627 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5524514 original size:79 final size:81
Alignment explanation
Indices: 5524412--5524596 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
5524402 GCTCCTCGTT
* *
5524412 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
5524475 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
5524492 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
5524556 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
5524572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5524597 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:5524596 original size:40 final size:40
Alignment explanation
Indices: 5524412--5524596 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
5524402 GCTCCTCGTT
* *
5524412 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
5524452 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
5524492 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
5524531 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
5524572 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
5524597 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:5531565 original size:140 final size:139
Alignment explanation
Indices: 5531258--5531580 Score: 355
Period size: 140 Copynumber: 2.3 Consensus size: 139
5531248 TCACGAATCA
* * *
5531258 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTATAAATCACAAACTTATATCCT
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAATCACAAACTTATATCCC
* * * * ** * *
5531323 TGAAGTTGTAGTGGAACAAGTTGTAGTTACAAGTTTTATCTCCCTGAAATTGCAGTGGAACAGAC
66 TGAAGTTGCAATGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAAATTACAGTAGAACAGAC
5531388 TGAAGATAG
131 TGAAGATAG
* * *
5531397 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTGATTAAAGCTACAAATCACAAACCTTATCTCC
1 CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAATCACAAA-CTTATATCC
** * * * * *
5531462 CTGAAGTTGCAATGGAGTAGGTTGAAGATACAAGTCGTATCTCCCT-AAGGTTATAGTAGAGCAT
65 CTGAAGTTGCAATGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAA-ATTACAGTAGAACAG
5531526 A-TCGAAGATAG
129 ACT-GAAGATAG
* * * * *
5531537 CAAATCTTAT-TTCCTCGAAATTGAAGTGGAACAAATTGAAGCTA
1 CAAATCTTATCTCCCT-GAAGTTGAAGTGGAGCAGATTAAAGCTA
5531581 TAGATTACAA
Statistics
Matches: 153, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
139 59 0.39
140 94 0.61
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (139 bp):
CAAATCTTATCTCCCTGAAGTTGAAGTGGAGCAGATTAAAGCTACAAATCACAAACTTATATCCC
TGAAGTTGCAATGGAACAAGTTGAAGATACAAGTCGTATCTCCCTGAAATTACAGTAGAACAGAC
TGAAGATAG
Found at i:5533236 original size:3 final size:3
Alignment explanation
Indices: 5533224--5533256 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
5533214 TTTTTTATGC
5533224 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5533257 ATTTCCAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5533305 original size:15 final size:15
Alignment explanation
Indices: 5533285--5533313 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5533275 ACTCAAATAC
5533285 TTTTATTTATCTATG
1 TTTTATTTATCTATG
5533300 TTTTATTTATCTAT
1 TTTTATTTATCTAT
5533314 TTATATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (15 bp):
TTTTATTTATCTATG
Found at i:5533392 original size:3 final size:3
Alignment explanation
Indices: 5533364--5533509 Score: 64
Period size: 3 Copynumber: 46.3 Consensus size: 3
5533354 CTATTTCTAT
* * * *
5533364 TTA TGTA TTA ATA TCA TTA TTTA TTA TTA TTT TTA TAAA TTA GTT- TTA
1 TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
* * * * *
5533412 TTA TCT- TTA TTA TTA CTA TTA GTA CTA TTA TTA TTT TCTA TCA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * **
5533458 TTA TTA TTA CCTTT TTA CTA TTA TTA TT- TCGTA CCA TTA TTA TTA TTA
1 TTA TTA TTA --TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA TTA TTA
5533506 TTA T
1 TTA T
5533510 CTATAGTATA
Statistics
Matches: 105, Mismatches: 25, Indels: 26
0.67 0.16 0.17
Matches are distributed among these distances:
2 4 0.04
3 85 0.81
4 14 0.13
5 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:5533624 original size:15 final size:14
Alignment explanation
Indices: 5533580--5533626 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
5533570 TTATTTTCAA
5533580 TATT-TTATTATAT
1 TATTATTATTATAT
* *
5533593 TATTATTCCTTACAT
1 TATTATT-ATTATAT
5533608 TATTATTATTATTAT
1 TATTATTATTA-TAT
5533623 TATT
1 TATT
5533627 GTTTTCGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 5 0.19
15 18 0.67
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTATTATTATAT
Found at i:5537807 original size:27 final size:27
Alignment explanation
Indices: 5537756--5537914 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
5537746 GCGAGGCTGC
* * *
5537756 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
5537783 TAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
5537809 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
5537836 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
5537863 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
5537890 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
5537915 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
26 9 0.08
27 98 0.88
28 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:5537915 original size:54 final size:54
Alignment explanation
Indices: 5537756--5537917 Score: 229
Period size: 54 Copynumber: 3.0 Consensus size: 54
5537746 GCGAGGCTGC
* * * * * * *
5537756 CAGATAT-TGTGACAAAGTCACCAGATATAGAT-ATTGTGGCAGAGCCATCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGGA
*
5537809 CAGATATATGTGGCAGAGCCACTAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
5537863 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
5537917 C
1 C
5537918 GCTTCCTCCA
Statistics
Matches: 98, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 11 0.11
54 87 0.89
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGGA
Found at i:5545902 original size:27 final size:27
Alignment explanation
Indices: 5545851--5546009 Score: 139
Period size: 27 Copynumber: 5.9 Consensus size: 27
5545841 GCGAGGCTGC
* *
5545851 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
5545878 CAGATATTGTGGCAGAGCCATCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
5545904 AAGATATATGTAGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
5545931 CAGATAATTATGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
5545958 CAGATACATGTGGCAGAGCCACCAAAT-
1 CAGATA-TTGTGGCAGAGCCACCAGATA
*
5545985 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
5546010 GACGCTTCCT
Statistics
Matches: 105, Mismatches: 19, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
26 8 0.08
27 93 0.89
28 4 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:5546010 original size:54 final size:54
Alignment explanation
Indices: 5545869--5546012 Score: 200
Period size: 54 Copynumber: 2.7 Consensus size: 54
5545859 GTGACGAAGT
* * * * *
5545869 CACCAGATACAGAT-ATTGTGGCAGAGCCATCAGAAAAGATATATGTAGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATACATGTAGCAGAGC
* *
5545923 CACCAGATCAGATAATTATGGCATAGCCACCAGGACAGATACATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATACATGTAGCAGAGC
*
5545977 CACCAAATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
5546013 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATACATGTAGCAGAGC
Found at i:5549338 original size:46 final size:47
Alignment explanation
Indices: 5549270--5549390 Score: 149
Period size: 46 Copynumber: 2.6 Consensus size: 47
5549260 TATGTGTGCT
* * **
5549270 AGTGTAAGACATGTTTGAGACATGCATCGACCACAT-A-TTGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-ATAAGACGAGAGCC
* * *
5549316 AGTGTAAGACATGTCTGGGACATGCATC-AGCATTAAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAATAAGACGAGAGCC
5549362 AGTGTAAGACATGTCTGGGACATGCATCG
1 AGTGTAAGACATGTCTGGGACATGCATCG
5549391 GCCTCGAGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
44 1 0.02
45 4 0.06
46 60 0.92
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCAATAAGACGAGAGCC
Found at i:5549508 original size:49 final size:48
Alignment explanation
Indices: 5549442--5549611 Score: 191
Period size: 49 Copynumber: 3.5 Consensus size: 48
5549432 TATTGTGTGT
*
5549442 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAG
* * * * *
5549490 CAAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCGATATATGAAAG
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAG
* * * **
5549539 TCAGTGTAAGACCTGTCTGGGACATGGCATCTACTTTGAT-G-TGCTAG
1 -CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAG
5549586 CCAGTGTAAGACCATGTCTGGGACAT
1 -CAGTGTAAGACC-TGTCTGGGACAT
5549612 AGAGTCGGCA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
47 16 0.16
48 13 0.13
49 73 0.71
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAG
Found at i:5558728 original size:40 final size:40
Alignment explanation
Indices: 5558677--5558770 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 40
5558667 CTTAGTATCA
* * * *
5558677 CACACTTAGTGCCACATATAGTCGACGCTAT-TCCAACTCG
1 CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAA-ACG
* * * *
5558717 CACACTAAGTGCTATATATAGCCGAAGTTATCTCGAAACG
1 CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACG
5558757 CACACTAAGTGCCA
1 CACACTAAGTGCCA
5558771 AACTTAGTCT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCACATATAGCCGAAGCTATCTCCAAACG
Found at i:5563592 original size:24 final size:24
Alignment explanation
Indices: 5563565--5563621 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
5563555 TCTATATTTG
*
5563565 CATCTGTGTTTGTATCTGCATCTA
1 CATCTGTGTTAGTATCTGCATCTA
*
5563589 CATCTGTGTTAGTATCTGTATCTA
1 CATCTGTGTTAGTATCTGCATCTA
5563613 CATCTGTGT
1 CATCTGTGT
5563622 CTATATCAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (24 bp):
CATCTGTGTTAGTATCTGCATCTA
Found at i:5563628 original size:24 final size:23
Alignment explanation
Indices: 5563565--5563628 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
5563555 TCTATATTTG
*
5563565 CATCTGTGTTTGTATCTGCATCTA
1 CATCTGTG-TTATATCTGCATCTA
*
5563589 CATCTGTGTTAGTATCTGTATCTA
1 CATCTGTGTTA-TATCTGCATCTA
5563613 CATCTGTGTCTATATC
1 CATCTGTGT-TATATC
5563629 AGAATTTGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 2 0.06
24 32 0.89
25 2 0.06
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.45
Consensus pattern (23 bp):
CATCTGTGTTATATCTGCATCTA
Found at i:5570801 original size:23 final size:23
Alignment explanation
Indices: 5570775--5571042 Score: 271
Period size: 23 Copynumber: 11.7 Consensus size: 23
5570765 AAAAGTGCCA
* * *
5570775 CACTGTAATATAGCTGAAGCTAT
1 CACTGTAATGTAGCCGAAGCTAC
5570798 CACTGTAATGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
5570821 CACTGTATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
5570844 CACTG-AGATGTAGCCGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
5570867 CACTGTATTGTAGCTTTG-A-CTAC
1 CACTGTAATGTAGC--CGAAGCTAC
*
5570890 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
5570913 CACTGTATTGTAGCTGAAGCTGC
1 CACTGTAATGTAGCCGAAGCTAC
*
5570936 CACTG-AGATGTAGCAGAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* * *
5570959 CACTATATTGTAGCCAAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
*
5570982 CACTG-AGATGTAGCCAAAGCTAC
1 CACTGTA-ATGTAGCCGAAGCTAC
* *
5571005 CACTATATTGTAGCCGAAGCTAC
1 CACTGTAATGTAGCCGAAGCTAC
5571028 CACTG-AGATGTAGCC
1 CACTGTA-ATGTAGCC
5571043 TATAGATTCC
Statistics
Matches: 204, Mismatches: 28, Indels: 26
0.79 0.11 0.10
Matches are distributed among these distances:
22 6 0.03
23 192 0.94
24 5 0.02
25 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (23 bp):
CACTGTAATGTAGCCGAAGCTAC
Found at i:5570842 original size:46 final size:46
Alignment explanation
Indices: 5570775--5571042 Score: 371
Period size: 46 Copynumber: 5.8 Consensus size: 46
5570765 AAAAGTGCCA
* * * *
5570775 CACTGTAATATAGCTGAAGCTATCACTGTA-ATGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTG-AGATGTAGCCGAAGCTAC
5570821 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* *
5570867 CACTGTATTGTAGCTTTG-A-CTACCACTGAGATGTAGCCAAAGCTAC
1 CACTGTATTGTAGC--CGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* * *
5570913 CACTGTATTGTAGCTGAAGCTGCCACTGAGATGTAGCAGAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
* * *
5570959 CACTATATTGTAGCCAAAGCTACCACTGAGATGTAGCCAAAGCTAC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
*
5571005 CACTATATTGTAGCCGAAGCTACCACTGAGATGTAGCC
1 CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCC
5571043 TATAGATTCC
Statistics
Matches: 201, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 195 0.97
47 1 0.00
48 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (46 bp):
CACTGTATTGTAGCCGAAGCTACCACTGAGATGTAGCCGAAGCTAC
Found at i:5575134 original size:40 final size:40
Alignment explanation
Indices: 5574926--5575130 Score: 277
Period size: 40 Copynumber: 5.1 Consensus size: 40
5574916 CGGGCTTTAA
** *
5574926 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* ** *
5574966 CCAGATATAGTAGTTCGCACAAATGCCTTCGGGACTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
5575006 CCAGATATAGTAACTCGCACAAATGCCTTCGGAACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
5575046 CCGGATATAGTAACTCGCACAAATGCCTCCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
5575086 CCGGA-ATTAGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
5575126 CCGGA
1 CCGGA
5575131 ATTATCATCC
Statistics
Matches: 146, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 1 0.01
40 145 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:5580145 original size:46 final size:45
Alignment explanation
Indices: 5580088--5580306 Score: 165
Period size: 46 Copynumber: 4.7 Consensus size: 45
5580078 CCACTTGTGT
* * *
5580088 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GACGA
* * * * * *
5580134 GAGCCAGTGTAAGACCATGTTTAGGACAGGGCATCAGCATAGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGC-CACAGACGA
* ** *
5580182 GTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-AGACG-A
* * *
5580229 -AGCCAATGTAAGACATGTCTGGGACATGCATTGGCTA-AG-CGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGACGA
* **
5580271 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 -GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
5580307 AATACAGATA
Statistics
Matches: 133, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 11 0.08
45 14 0.11
46 59 0.44
47 23 0.17
48 21 0.16
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGACGA
Found at i:5582900 original size:39 final size:40
Alignment explanation
Indices: 5582822--5583008 Score: 272
Period size: 39 Copynumber: 4.7 Consensus size: 40
5582812 GCTACTAGCT
5582822 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
5582862 CAAATGCCTTCGGGACTTAGCCC-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
5582901 CAAATGCCTTCGGGACCTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
5582941 CAAATGCCTTTGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* *
5582980 CAAATGCTTTCGGGACTTAGCCTGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
5583009 CAATCCGAAT
Statistics
Matches: 132, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 69 0.52
40 61 0.46
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:5582922 original size:79 final size:79
Alignment explanation
Indices: 5582815--5583008 Score: 282
Period size: 79 Copynumber: 2.5 Consensus size: 79
5582805 GGATATAGCT
*
5582815 ACTAGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTT
**
5582880 AGCCCGTTA-TAGTA
65 AGCCCGGAATTAGTA
* * * *
5582894 ACTCGCACAAATGCCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATGCCTTTGGGCTTA
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTA
*
5582959 GCCCGGAATTAGTC
66 GCCCGGAATTAGTA
* *
5582973 ACTAGCACAAATGCTTTCGGGACTTAGCCTGGTTAT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
5583009 CAATCCGAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 10 0.10
79 91 0.90
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGCTTA
GCCCGGAATTAGTA
Found at i:5589224 original size:40 final size:40
Alignment explanation
Indices: 5589025--5589217 Score: 282
Period size: 40 Copynumber: 4.8 Consensus size: 40
5589015 GGATTTTGCT
* * *
5589025 GGATATAGCT-ACTAGCTCAAATGCCTTTGGGACTTAGCCC
1 GGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
5589065 GGATATAGTAACTCGCAAAAATGCCTTCGGGACCTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
5589105 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
5589145 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
1 GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* * *
5589185 GGA-ATTAGTCACTAGCACAAAGGCCTTCGGGAC
1 GGATA-TAGTAACTCGCACAAATGCCTTCGGGAC
5589218 CAAGCCCAGT
Statistics
Matches: 141, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 139 0.99
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.22
Consensus pattern (40 bp):
GGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:5591960 original size:31 final size:31
Alignment explanation
Indices: 5591925--5591984 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
5591915 TCATGCTCAA
5591925 CTTTTACTTCTTAGAC-TTTGAACAAACTTTT
1 CTTTT-CTTCTTAGACTTTTGAACAAACTTTT
* **
5591956 CTTTTCTTTTTATTCTTTTGAACAAACTT
1 CTTTTCTTCTTAGACTTTTGAACAAACTT
5591985 ACCTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.23, C:0.18, G:0.05, T:0.53
Consensus pattern (31 bp):
CTTTTCTTCTTAGACTTTTGAACAAACTTTT
Found at i:5592004 original size:31 final size:31
Alignment explanation
Indices: 5591941--5592005 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
5591931 CTTCTTAGAC
** *
5591941 TTTGAACAAACTTTTCTTTTCTTTTTATTCT
1 TTTGAACAAACTTACCTTTTCTTTTTAGTCT
*
5591972 TTTGAACAAACTTACCTTTT-TTCTTTCGTCT
1 TTTGAACAAACTTACCTTTTCTT-TTTAGTCT
5592003 TTT
1 TTT
5592006 TTTTTGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 27 0.93
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.58
Consensus pattern (31 bp):
TTTGAACAAACTTACCTTTTCTTTTTAGTCT
Found at i:5592872 original size:18 final size:20
Alignment explanation
Indices: 5592849--5592890 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
5592839 TAGGAAATAA
5592849 AAATAAATACTAAA-A-AAG
1 AAATAAATACTAAAGACAAG
5592867 AAATAAATACTAAAGACAAG
1 AAATAAATACTAAAGACAAG
5592887 AAAT
1 AAAT
5592891 TCCTCCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 14 0.64
19 1 0.05
20 7 0.32
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (20 bp):
AAATAAATACTAAAGACAAG
Found at i:5596913 original size:32 final size:32
Alignment explanation
Indices: 5596875--5596939 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
5596865 AAAATCTGTG
5596875 ATAAATCTATGATAACAACCAGCATGCCCTAA
1 ATAAATCTATGATAACAACCAGCATGCCCTAA
5596907 ATAAATCTATGATAACAACCAGCATGCCCTAA
1 ATAAATCTATGATAACAACCAGCATGCCCTAA
5596939 A
1 A
5596940 AAACTTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.22
Consensus pattern (32 bp):
ATAAATCTATGATAACAACCAGCATGCCCTAA
Found at i:5612528 original size:58 final size:61
Alignment explanation
Indices: 5612466--5612598 Score: 166
Period size: 61 Copynumber: 2.2 Consensus size: 61
5612456 ATCACTTTAA
* *
5612466 TATTAAATTAATATAATACTTATC-A-AA-ATAAATATTAGATTAAATTTAATATT-AAAT
1 TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
* * * *
5612523 CTATTAAATTAATAGAATATTTATCTATAAGAAAAATATTAAATTAATTTTTATATTAAAAT
1 -TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
*
5612585 TATTAAAATAATAT
1 TATTAAATTAATAT
5612599 TATTTTTGGA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
58 22 0.35
59 1 0.02
60 2 0.03
61 34 0.54
62 4 0.06
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (61 bp):
TATTAAATTAATATAATACTTATCTATAAGAAAAATATTAAATTAAATTTAATATTAAAAT
Found at i:5614928 original size:35 final size:35
Alignment explanation
Indices: 5614880--5614984 Score: 113
Period size: 35 Copynumber: 3.0 Consensus size: 35
5614870 GAGCGGTATT
*
5614880 GTGTAAACGATATACAAGTCCTAC-GAGGTGACACC
1 GTGTAAACAATATACAAGTCCTACAG-GGTGACACC
* * *
5614915 GTGTAAACAATATACGAGTCCTACAGGGTGATACT
1 GTGTAAACAATATACAAGTCCTACAGGGTGACACC
*** * *
5614950 GTGTAAATGGTATACATGTCCTTCAGGGTGACACC
1 GTGTAAACAATATACAAGTCCTACAGGGTGACACC
5614985 TTAAAAGGAG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
35 56 0.98
36 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (35 bp):
GTGTAAACAATATACAAGTCCTACAGGGTGACACC
Found at i:5630827 original size:28 final size:27
Alignment explanation
Indices: 5630760--5630820 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
5630750 TGCGTAAGCA
5630760 TGATGTTTTCAG---AAAAACATTTGT
1 TGATGTTTTCAGAAAAAAAACATTTGT
5630784 TGATGTTTTCAGAAAAAAAACATTTGTT
1 TGATGTTTTCAGAAAAAAAACATTTG-T
5630812 TG-TGTTTTC
1 TGATGTTTTC
5630821 TTGAAAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.36
27 18 0.55
28 3 0.09
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.44
Consensus pattern (27 bp):
TGATGTTTTCAGAAAAAAAACATTTGT
Found at i:5634118 original size:20 final size:20
Alignment explanation
Indices: 5634093--5634131 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5634083 TGTATCCATA
5634093 AAATTTCAAAATTTTTCATC
1 AAATTTCAAAATTTTTCATC
* *
5634113 AAATTTTACAATTTTTCAT
1 AAATTTCAAAATTTTTCAT
5634132 TTTAGTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTTCAAAATTTTTCATC
Found at i:5638359 original size:17 final size:17
Alignment explanation
Indices: 5638329--5638361 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5638319 ACCCAGTGAT
5638329 TTCGGTTTGAGGGAGAA
1 TTCGGTTTGAGGGAGAA
5638346 TTCGGCTTTG-GGGAGA
1 TTCGG-TTTGAGGGAGA
5638362 GCTTTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.09, G:0.42, T:0.30
Consensus pattern (17 bp):
TTCGGTTTGAGGGAGAA
Found at i:5639493 original size:27 final size:27
Alignment explanation
Indices: 5639457--5639750 Score: 279
Period size: 27 Copynumber: 10.9 Consensus size: 27
5639447 CGTTTTGGGA
* *
5639457 AAATA-CCCCATTGGGTGAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
5639483 AAATACCCCCATAAGGTAAAATAACCA
1 AAATACCCCCATAGGGTAAAATGACCG
* *
5639510 AAATACTCCCATCGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
5639537 AAATACCCCCATAGGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGACCG
** *
5639564 AAATACCTTCATAGGGTAAAATGACAG
1 AAATACCCCCATAGGGTAAAATGACCG
* * *
5639591 AAATAACCCAATAGAGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGACCG
* *
5639618 AAATACCTCCATAGGGTAAAATGACTG
1 AAATACCCCCATAGGGTAAAATGACCG
** *
5639645 AAATACCCCTGTAGGGTAAAATGA-CT
1 AAATACCCCCATAGGGTAAAATGACCG
* *
5639671 ATAATACCCCTATAGGGTAAAATGA-CT
1 A-AATACCCCCATAGGGTAAAATGACCG
** * *
5639698 ATAATACCCCTGTAAGGTAAAATGACTG
1 A-AATACCCCCATAGGGTAAAATGACCG
* ** *
5639726 TAATACCCCTGTAAGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
5639751 TGATTTGCCC
Statistics
Matches: 224, Mismatches: 41, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.03
27 218 0.97
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGACCG
Found at i:5640120 original size:18 final size:18
Alignment explanation
Indices: 5640093--5640129 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5640083 GGACTTGCAT
* *
5640093 ACTGTTTACTGTTACTGC
1 ACTGTATACTATTACTGC
5640111 ACTGTATACTATTACTGC
1 ACTGTATACTATTACTGC
5640129 A
1 A
5640130 AAGGGCCAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (18 bp):
ACTGTATACTATTACTGC
Found at i:5657515 original size:49 final size:49
Alignment explanation
Indices: 5657462--5657570 Score: 121
Period size: 49 Copynumber: 2.2 Consensus size: 49
5657452 ACCTATTTGG
* *
5657462 GACATGGTATCGACAC-CGATAGATGAGAGCCAGTATAAGACTTGTCTGA
1 GACATGGCATCGAC-CTCGATAGATGAAAGCCAGTATAAGACTTGTCTGA
* * * * * *
5657511 GACATGGCATCGGCCTCGATATATTAAAGTCAGTGTAAGACTTGTCTGG
1 GACATGGCATCGACCTCGATAGATGAAAGCCAGTATAAGACTTGTCTGA
*
5657560 GACACGGCATC
1 GACATGGCATC
5657571 AGCTTTAATG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 49 0.98
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GACATGGCATCGACCTCGATAGATGAAAGCCAGTATAAGACTTGTCTGA
Found at i:5662961 original size:67 final size:67
Alignment explanation
Indices: 5662881--5663015 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
5662871 CTTATCATGG
*
5662881 ACCTACGAGGCCCAAAACATAAATTAAAAGTAATCTGGGACTAATCCGAGAACTTAGAAAAATTC
1 ACCTACGAGGCCCAAAACATAAATTAAAAGTAATCTGGGACTAAACCGAGAACTTAGAAAAATTC
5662946 TA
66 TA
5662948 ACCTACGAGGCCCAAAACATAAATTAAAAGTAATCTGGGACTAAACCGAGAACTTAGAAAAATTC
1 ACCTACGAGGCCCAAAACATAAATTAAAAGTAATCTGGGACTAAACCGAGAACTTAGAAAAATTC
5663013 TA
66 TA
5663015 A
1 A
5663016 GAAAATTTCT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (67 bp):
ACCTACGAGGCCCAAAACATAAATTAAAAGTAATCTGGGACTAAACCGAGAACTTAGAAAAATTC
TA
Found at i:5664578 original size:45 final size:45
Alignment explanation
Indices: 5664470--5664596 Score: 130
Period size: 45 Copynumber: 2.8 Consensus size: 45
5664460 CACATCCATA
* * * * *
5664470 ATGAACTCAGACCAACTCAACGAGCTCGGATGCTT-TATATATATATC
1 ATGAACTCAGAACAACTCAACAAGCTCAGAT--TTCT-CACATATATC
** * *
5664517 ATGAACTTGGACCAACTCAACAAGTTCAGATTTCTCACATATATC
1 ATGAACTCAGAACAACTCAACAAGCTCAGATTTCTCACATATATC
*
5664562 ATGAACTCAGAACAACTCAACGAGCTCAGATTTCT
1 ATGAACTCAGAACAACTCAACAAGCTCAGATTTCT
5664597 AAATTCCTAG
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 40 0.60
46 1 0.01
47 26 0.39
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.27
Consensus pattern (45 bp):
ATGAACTCAGAACAACTCAACAAGCTCAGATTTCTCACATATATC
Found at i:5671547 original size:46 final size:46
Alignment explanation
Indices: 5671475--5671603 Score: 163
Period size: 46 Copynumber: 2.8 Consensus size: 46
5671465 GGTGGTATGT
5671475 GAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCA-CACCACGA
1 GAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCATCA-CACGA
* * * * *
5671521 GTGCCAGTGTAAGACATGTCTAGGATATGCATCAG-CATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCA-TCACACGA
* *
5671567 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCC
5671604 TCGGGATATA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 66 0.94
47 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGATATGCATCGGCCATCACACGA
Found at i:5671733 original size:49 final size:49
Alignment explanation
Indices: 5671661--5671832 Score: 170
Period size: 49 Copynumber: 3.5 Consensus size: 49
5671651 CTTGTTGTGT
* *
5671661 CAGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CAATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGATGAAAGC
* * * * *
5671710 CAGTGTAAGACCTGTCTGGGACATGGTATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
** * * * **
5671759 CAGTGTAAGACCTGTCTGGGACACAGCATCAACTTTAAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
*
5671806 CAGTGTAAGACCATGTCTAGGACATGG
1 CAGTGTAAGACC-TGTCTGGGACATGG
5671833 GGTCGACATT
Statistics
Matches: 99, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
47 16 0.16
48 12 0.12
49 71 0.72
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGC
Found at i:5673034 original size:20 final size:21
Alignment explanation
Indices: 5672995--5673034 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5672985 GTCATAATGG
5672995 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
*
5673016 CCACACGGGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
5673035 ACTTCAAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:5675048 original size:39 final size:39
Alignment explanation
Indices: 5674989--5675085 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
5674979 GACTTCGGGG
*
5674989 CCGCA-GCTATGTGCTGGAATTATATCCA-GACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATA-ACAGGACTTAAGGT
5675027 CCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGT
1 CCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGT
* **
5675066 CCGAAGGCTACATGCTGGAA
1 CCGCAGGCTATGTGCTGGAA
5675086 ATATGTCCGG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
38 7 0.13
39 46 0.87
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACAGGACTTAAGGT
Found at i:5686921 original size:56 final size:56
Alignment explanation
Indices: 5686853--5686964 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
5686843 CTTCTTTCAA
5686853 GTAATTCCCGGCGTGTGGTTTTGTACTCCAGAAAA-GTTCTGGAGGGAGGCCCCCTT
1 GTAATTCCCGGCGTGTGGTTTTGTACTCCA-AAAAGGTTCTGGAGGGAGGCCCCCTT
*
5686909 GTAATTCTCGGCGTGTGGTTTTGTACTCCAAAAAGGTTCTGGAGGGAGGCCCCCTT
1 GTAATTCCCGGCGTGTGGTTTTGTACTCCAAAAAGGTTCTGGAGGGAGGCCCCCTT
5686965 CTAAGTCGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
55 4 0.07
56 50 0.93
ACGTcount: A:0.18, C:0.22, G:0.30, T:0.29
Consensus pattern (56 bp):
GTAATTCCCGGCGTGTGGTTTTGTACTCCAAAAAGGTTCTGGAGGGAGGCCCCCTT
Found at i:5689175 original size:6 final size:6
Alignment explanation
Indices: 5689166--5689198 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
5689156 AATAAAATTG
*
5689166 AAATGA AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAA
5689199 GATAGGATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:5698106 original size:67 final size:68
Alignment explanation
Indices: 5697974--5698108 Score: 236
Period size: 67 Copynumber: 2.0 Consensus size: 68
5697964 AGTCGAACAC
5697974 GAGGTGCTAACAGACTTCAAACCACTTAAAAAAAATTTCCCAGACAAGCTGCCAATCTGCATACT
1 GAGGTGCTAACAGACTTCAAACCACTTAAAAAAAATTTCCCAGACAAGCTGCCAATCTGCATACT
5698039 AGT
66 AGT
* * *
5698042 GAGGTGTTAACAGACTTCAAACCACTT-AAAAAAATTTCCCAGACAAGCTGCCAGTCTGCGTACT
1 GAGGTGCTAACAGACTTCAAACCACTTAAAAAAAATTTCCCAGACAAGCTGCCAATCTGCATACT
5698106 AGT
66 AGT
5698109 CGATTTAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 38 0.59
68 26 0.41
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.23
Consensus pattern (68 bp):
GAGGTGCTAACAGACTTCAAACCACTTAAAAAAAATTTCCCAGACAAGCTGCCAATCTGCATACT
AGT
Found at i:5699400 original size:37 final size:37
Alignment explanation
Indices: 5699350--5699428 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
5699340 TTATTACGAA
* * *
5699350 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
5699387 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
5699424 GTCTT
1 GTCTT
5699429 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:5699625 original size:47 final size:47
Alignment explanation
Indices: 5699547--5699738 Score: 312
Period size: 47 Copynumber: 4.1 Consensus size: 47
5699537 CCCTTCGGGA
* * * * * *
5699547 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
5699594 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5699641 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5699688 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
5699735 CTTA
1 CTTA
5699739 CTATCATTTC
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:5704772 original size:18 final size:18
Alignment explanation
Indices: 5704730--5704772 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5704720 GCCCATTCCG
* *
5704730 AAGTATATATATATACAT
1 AAGTATGTATATATACAC
5704748 ATA-TATGTATATATACAC
1 A-AGTATGTATATATACAC
5704766 AAGTATG
1 AAGTATG
5704773 CCCATTCGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.05
18 19 0.90
19 1 0.05
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (18 bp):
AAGTATGTATATATACAC
Found at i:5705281 original size:28 final size:28
Alignment explanation
Indices: 5705213--5705310 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
5705203 CATGAGATTG
* * * *
5705213 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
5705242 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
5705270 GCACTAAGTGTGCAAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
5705297 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
5705311 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.37
28 21 0.34
29 18 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:5705321 original size:27 final size:27
Alignment explanation
Indices: 5705241--5705323 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
5705231 TAAATTGTAC
** *
5705241 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
5705269 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
5705296 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
5705323 A
1 A
5705324 CTTTTGAATC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.65
28 17 0.35
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:5713373 original size:28 final size:28
Alignment explanation
Indices: 5713335--5713601 Score: 428
Period size: 28 Copynumber: 9.5 Consensus size: 28
5713325 TAAATTGTAC
*
5713335 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713363 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713391 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713419 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713447 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713475 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713503 AGCACTAAGTGTGCAAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
5713531 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
5713559 AGCACTAAGTGTGCGAGTTCGACTAT-T
1 AGCACTAAGTGTGCGAGTTTGATTATGT
5713586 AAGCACTAAGTGTGCG
1 -AGCACTAAGTGTGCG
5713602 GGCTTATTAT
Statistics
Matches: 222, Mismatches: 16, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
27 1 0.00
28 221 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:5714956 original size:48 final size:48
Alignment explanation
Indices: 5714880--5715123 Score: 389
Period size: 48 Copynumber: 5.0 Consensus size: 48
5714870 CAAGATAAAT
* *
5714880 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
5714928 ATATTTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* * *
5714976 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
*
5715026 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTAAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
5715074 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
5715122 AT
1 AT
5715124 GTGTGTATAT
Statistics
Matches: 182, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
48 136 0.75
49 4 0.02
50 42 0.23
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:5715045 original size:98 final size:98
Alignment explanation
Indices: 5714880--5715114 Score: 384
Period size: 98 Copynumber: 2.4 Consensus size: 98
5714870 CAAGATAAAT
* * * *
5714880 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATTTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGT
*
5714943 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
66 AAAGCCGAATGGCTAATGTAAAATATGTATGAG
* *
5714976 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATATGAGATATGTATATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGT
*
5715041 AAAGCCGAATGGCTAGTGTAAAATATGTATGAG
66 AAAGCCGAATGGCTAATGTAAAATATGTATGAG
5715074 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
5715115 GTAGGAGATG
Statistics
Matches: 127, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
96 31 0.24
97 2 0.02
98 94 0.74
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (98 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTAAAATATGTATGAG
Found at i:5715318 original size:37 final size:37
Alignment explanation
Indices: 5715268--5715368 Score: 166
Period size: 37 Copynumber: 2.7 Consensus size: 37
5715258 ATATATTCCG
5715268 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
5715305 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
* *
5715342 GGTAAGACCCGATAACTTCGTGTGGAG
1 GGTAAGACCCGATGACTACGTGTGGAG
5715369 GTTTCATCTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCA
Found at i:5718285 original size:13 final size:13
Alignment explanation
Indices: 5718262--5718298 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
5718252 AGTAATTGAA
*
5718262 CACACGCGTGTGC
1 CACAGGCGTGTGC
*
5718275 CACGGGCGTGTGC
1 CACAGGCGTGTGC
5718288 CACAGGCGTGT
1 CACAGGCGTGT
5718299 CCTTGCTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.38, T:0.16
Consensus pattern (13 bp):
CACAGGCGTGTGC
Found at i:5721992 original size:43 final size:42
Alignment explanation
Indices: 5721945--5722043 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 42
5721935 CCTAGACGTA
* *
5721945 GTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAGG
1 GTCTTACACGTAAACAAATA-CGATGCCGA-TGTCCCAGACAGG
* * *
5721988 GTCTTACACGAAAACATATACGATGCCGATGTCCCAGACATG
1 GTCTTACACGTAAACAAATACGATGCCGATGTCCCAGACAGG
*
5722030 GTTTTACACGTAAA
1 GTCTTACACGTAAA
5722044 TCTCAAGTCG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 31 0.65
43 17 0.35
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCTTACACGTAAACAAATACGATGCCGATGTCCCAGACAGG
Found at i:5729331 original size:16 final size:16
Alignment explanation
Indices: 5729307--5729349 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5729297 GTAGATCGGC
**
5729307 AAAAGCCAAAATGTCG
1 AAAAGCCAAAATACCG
*
5729323 AAAACCCAAAATACCG
1 AAAAGCCAAAATACCG
5729339 AAAAGCCAAAA
1 AAAAGCCAAAA
5729350 GTTTGACTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.58, C:0.23, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATACCG
Found at i:5729617 original size:29 final size:27
Alignment explanation
Indices: 5729573--5729662 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 27
5729563 TAAGCATGAC
5729573 TATAAATGTGAATTGGGCCTGATGGGCCA
1 TATAAATGTG-ATTGGGCCT-ATGGGCCA
* *
5729602 TATAAATGTGATTTGGGCTTAATAGGCCA
1 TATAAATGTGA-TTGGGCCT-ATGGGCCA
*
5729631 TATAAATGTGATTGTGCCTAGTGGGCCA
1 TATAAATGTGATTGGGCCTA-TGGGCCA
5729659 TATA
1 TATA
5729663 CAAGTATATG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 1 0.02
28 17 0.32
29 35 0.66
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TATAAATGTGATTGGGCCTATGGGCCA
Found at i:5730331 original size:11 final size:11
Alignment explanation
Indices: 5730315--5730340 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
5730305 ATTGCATGTA
5730315 TGATATTATTG
1 TGATATTATTG
5730326 TGATATTATTG
1 TGATATTATTG
5730337 TGAT
1 TGAT
5730341 GTGGGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:5741156 original size:14 final size:15
Alignment explanation
Indices: 5741138--5741181 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
5741128 AGTAATTTAA
5741138 AAAATTCAATTAATT
1 AAAATTCAATTAATT
* *
5741153 -AAATTGATTTAATT
1 AAAATTCAATTAATT
*
5741167 AAAAATCAATTAATT
1 AAAATTCAATTAATT
5741182 TACTTGGTTG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (15 bp):
AAAATTCAATTAATT
Found at i:5746099 original size:27 final size:28
Alignment explanation
Indices: 5746069--5746162 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
5746059 ATATTATGAC
* *
5746069 AGAGTCACCAGATACAGCTA-TTGTGGT
1 AGAGCCACCAGATACAGATATTTGTGGT
* * *
5746096 AGAGCCACCAGAAATAGATATTTGTGGC
1 AGAGCCACCAGATACAGATATTTGTGGT
5746124 AGAGCCACCAGAT-CAGATATTTGTGGT
1 AGAGCCACCAGATACAGATATTTGTGGT
5746151 AGAGCCACCAGA
1 AGAGCCACCAGA
5746163 ACGCTTCCTC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 40 0.69
28 18 0.31
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (28 bp):
AGAGCCACCAGATACAGATATTTGTGGT
Found at i:5746325 original size:26 final size:26
Alignment explanation
Indices: 5746271--5746329 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
5746261 TTAACCATAG
*
5746271 GGGTATAATGGTAATTTTGTACCTAA
1 GGGTATAATGGTAATTTTATACCTAA
* *
5746297 GGGTATAATGGTAATTTTCATACTTAG
1 GGGTATAATGGTAATTTT-ATACCTAA
5746324 GGGTAT
1 GGGTAT
5746330 TTTAGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.62
27 11 0.38
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (26 bp):
GGGTATAATGGTAATTTTATACCTAA
Found at i:5748212 original size:30 final size:30
Alignment explanation
Indices: 5748178--5748238 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
5748168 TTCCCGAGCC
5748178 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
5748208 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
5748238 T
1 T
5748239 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:5751148 original size:23 final size:23
Alignment explanation
Indices: 5751118--5751165 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
5751108 TCAACAAAAC
*
5751118 AAAAAGAAAATAAATCTTTCCCT
1 AAAAAGAAAATAAAGCTTTCCCT
5751141 AAAAAGAAAATAAAGCTTTCCCT
1 AAAAAGAAAATAAAGCTTTCCCT
5751164 AA
1 AA
5751166 TGGCCATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (23 bp):
AAAAAGAAAATAAAGCTTTCCCT
Found at i:5753186 original size:46 final size:45
Alignment explanation
Indices: 5753136--5753307 Score: 168
Period size: 46 Copynumber: 3.7 Consensus size: 45
5753126 TGAGCATCCA
*
5753136 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
* *** * *
5753182 AACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-TTCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTTCG
* * **
5753229 AGCTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTTCG
*
5753275 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5753308 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 62 0.61
47 29 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.31
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTTCG
Found at i:5755290 original size:13 final size:13
Alignment explanation
Indices: 5755272--5755304 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
5755262 TTTTGTGTTG
5755272 AAGAATGAAAGGT
1 AAGAATGAAAGGT
5755285 AAGAATGAAAGGT
1 AAGAATGAAAGGT
5755298 AA-AATGA
1 AAGAATGA
5755305 TAGTTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.58, C:0.00, G:0.27, T:0.15
Consensus pattern (13 bp):
AAGAATGAAAGGT
Found at i:5762181 original size:19 final size:19
Alignment explanation
Indices: 5762157--5762197 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
5762147 GATGCTTTCT
5762157 AAATTCATTTCTGTGTCAG
1 AAATTCATTTCTGTGTCAG
5762176 AAATTCATTTCTGTGTCAG
1 AAATTCATTTCTGTGTCAG
5762195 AAA
1 AAA
5762198 CCCATTTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (19 bp):
AAATTCATTTCTGTGTCAG
Found at i:5762203 original size:19 final size:19
Alignment explanation
Indices: 5762162--5762205 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
5762152 TTTCTAAATT
**
5762162 CATTTCTGTGTCAGAAATT
1 CATTTCTGTGTCAGAAACC
5762181 CATTTCTGTGTCAGAAACC
1 CATTTCTGTGTCAGAAACC
5762200 CATTTC
1 CATTTC
5762206 CAAAATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.39
Consensus pattern (19 bp):
CATTTCTGTGTCAGAAACC
Found at i:5764241 original size:46 final size:47
Alignment explanation
Indices: 5764174--5764275 Score: 188
Period size: 46 Copynumber: 2.2 Consensus size: 47
5764164 TATTCCGGCC
5764174 ACCATTCCCAAGATTCTCACTTCTCTAACCTTCAAACCACCCT-AAA
1 ACCATTCCCAAGATTCTCACTTCTCTAACCTTCAAACCACCCTGAAA
5764220 ACCATTCCCAAGATTCTCACTTCTCTAACCTTCAAACCACCCTGAAA
1 ACCATTCCCAAGATTCTCACTTCTCTAACCTTCAAACCACCCTGAAA
*
5764267 TCCATTCCC
1 ACCATTCCC
5764276 CTTGCATTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 43 0.80
47 11 0.20
ACGTcount: A:0.30, C:0.40, G:0.03, T:0.26
Consensus pattern (47 bp):
ACCATTCCCAAGATTCTCACTTCTCTAACCTTCAAACCACCCTGAAA
Found at i:5767193 original size:47 final size:46
Alignment explanation
Indices: 5767135--5767226 Score: 157
Period size: 47 Copynumber: 2.0 Consensus size: 46
5767125 TAGCCAAGAC
*
5767135 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATG-ATGTGAA
*
5767182 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGATGTGA
1 AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGATGTGA
5767227 TAAGGCCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
46 6 0.14
47 37 0.86
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (46 bp):
AGTGTATATATGTAATAAGGCCTAATAGCCGATGTGATGATGTGAA
Found at i:5767385 original size:47 final size:47
Alignment explanation
Indices: 5767331--5767638 Score: 481
Period size: 47 Copynumber: 6.6 Consensus size: 47
5767321 TTAAACCCAT
*
5767331 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
5767378 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
5767425 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
5767472 ATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
5767519 ATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* * * * * * * *
5767566 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
* *
5767613 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
5767639 TCCCGAAGGG
Statistics
Matches: 244, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 244 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
Found at i:5767813 original size:37 final size:37
Alignment explanation
Indices: 5767757--5767835 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
5767747 CTGAGCTCTA
* *
5767757 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
5767794 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
5767831 AAGAC
1 AAGAC
5767836 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Done.