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 69 of 284
Found at i:24003841 original size:49 final size:48
Alignment explanation
Indices: 24003788--24003965 Score: 221
Period size: 50 Copynumber: 3.6 Consensus size: 48
24003778 CTGGTACGCA
24003788 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATG-AACCAATTATCCGGTACACG
* * * *
24003837 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATG-AACC-AATTATCCGGTACACG
* * * * *
24003887 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGAACCAA-TTATCCGGTACACG
24003938 TAGTAGCCTGCACTTAGTACTACACATG
1 TAGTAGCCTGCACTTAGTACTACACATG
24003966 TGACCTAGCT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
49 33 0.29
50 41 0.37
51 36 0.32
52 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGAACCAATTATCCGGTACACG
Found at i:24003990 original size:101 final size:99
Alignment explanation
Indices: 24003772--24003972 Score: 296
Period size: 101 Copynumber: 2.0 Consensus size: 99
24003762 TATGTAGCCA
* * * *
24003772 AACTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACA
24003837 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
66 TAGTAGCCTGCACTTAGTACTACACATGTGACCT
* * *
24003871 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTAC
1 AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCCGGTAC
*
24003935 GCATAGTAGCCTGCACTTAGTACTACACATGTGACCT
63 ACATAGTAGCCTGCACTTAGTACTACACATGTGACCT
24003972 A
1 A
24003973 GCTACATATA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 39 0.43
100 4 0.04
101 48 0.53
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
AACTATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACA
TAGTAGCCTGCACTTAGTACTACACATGTGACCT
Found at i:24004814 original size:30 final size:30
Alignment explanation
Indices: 24004778--24004838 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24004768 TCCTTAACTC
24004778 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * ** *
24004808 AAACTTTTGCATTTTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
24004838 A
1 A
24004839 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:24007422 original size:24 final size:24
Alignment explanation
Indices: 24007392--24007445 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
24007382 AACTAAACCC
24007392 CCCTAAATACCTAAGGGCAATGAA
1 CCCTAAATACCTAAGGGCAATGAA
*
24007416 CCCTAAATACCTAAGGGGAATGAA
1 CCCTAAATACCTAAGGGCAATGAA
*
24007440 ACCTAA
1 CCCTAA
24007446 GACGGATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.17
Consensus pattern (24 bp):
CCCTAAATACCTAAGGGCAATGAA
Found at i:24008281 original size:62 final size:59
Alignment explanation
Indices: 24008161--24008285 Score: 144
Period size: 62 Copynumber: 2.1 Consensus size: 59
24008151 TCATGTATCA
* * ****
24008161 AAATTATTTTTTTATTGTTGCATTTAATAAAATAAAAGTTGTTTTGAATATTTTAATAG
1 AAATTATTTTTATATTGTTGCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
*
24008220 TAAATTATTTTTATATT-TTGTCCTATTTAATAAAATAGAAGTTCTTTTGAATAAGGCAATAG
1 -AAATTATTTTTATATTGTTG--C-ATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
24008282 AAAT
1 AAAT
24008286 AATACAACAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 3 0.05
60 15 0.27
61 5 0.09
62 32 0.58
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.47
Consensus pattern (59 bp):
AAATTATTTTTATATTGTTGCATTTAATAAAATAAAAGTTCTTTTGAATAAGGCAATAG
Found at i:24010163 original size:52 final size:53
Alignment explanation
Indices: 24010073--24010218 Score: 151
Period size: 52 Copynumber: 2.8 Consensus size: 53
24010063 AAAAGATGTG
* * *
24010073 ATGTGCTTT-CGTATAAGACCATAGGTGGCCTATAGCATCGGAGCAAT-C-TGAT-
1 ATGTG-TTTCCGTATAAGACCATAGTTGGGCTATGGCATCGGA--AATACATGATA
*
24010125 ATGTGTTTCCGTATAAGACCATAGTTGGGCTATGGCATC-GATATGACATGATA
1 ATGTGTTTCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAAT-ACATGATA
* *
24010178 ATGTGATTCCGTATAAGACCATA-TCTGGGATATGGCATCGG
1 ATGTGTTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGG
24010219 TGTGTAATGT
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
49 2 0.02
51 6 0.07
52 37 0.46
53 35 0.43
54 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.30
Consensus pattern (53 bp):
ATGTGTTTCCGTATAAGACCATAGTTGGGCTATGGCATCGGAAATACATGATA
Found at i:24010239 original size:46 final size:47
Alignment explanation
Indices: 24010125--24010269 Score: 159
Period size: 53 Copynumber: 3.0 Consensus size: 47
24010115 GCAATCTGAT
* *
24010125 ATGTGTTTCCGTATAAGACCATAGT-TGGGCTATGGCATCGATATGACATGATA
1 ATGTGATTCCGTATAAGACCATA-TCTGGGCTATGGCATCG--GTG---TG-TA
*
24010178 ATGTGATTCCGTATAAGACCATATCTGGGATATGGCATCGGTGTGTA
1 ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGTA
* * *
24010225 ATGTGA-TCCGTATAAGACCATAGCAGGGCTATGGCTTCGGTGTGT
1 ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGT
24010270 GATATATGAC
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
46 35 0.42
47 8 0.10
48 2 0.02
51 2 0.02
52 1 0.01
53 36 0.43
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGTGATTCCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGTA
Found at i:24015891 original size:21 final size:21
Alignment explanation
Indices: 24015865--24015907 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
24015855 CAAGAACTTG
24015865 AGAAAATCCATAATGTATTTC
1 AGAAAATCCATAATGTATTTC
24015886 AGAAAATCCATAATGTATTTC
1 AGAAAATCCATAATGTATTTC
24015907 A
1 A
24015908 TGTATCTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
AGAAAATCCATAATGTATTTC
Found at i:24017641 original size:52 final size:52
Alignment explanation
Indices: 24017548--24017682 Score: 134
Period size: 53 Copynumber: 2.6 Consensus size: 52
24017538 TGTGCTTCTG
* *
24017548 TATAAGACCATAGCTGGGCTATGGCATCAGAGCAATGTGAT-ATTTG-TTCCCA
1 TATAAGACCATAGCTGGGATATGGCATCAGAGCAA-GTGATAATGTGATT-CCA
* * *
24017600 TATAAGACCATAGCTGGGTTATGGCATCGGTATG-ACA-TGATAATGTGATTCCG
1 TATAAGACCATAGCTGGGATATGGCATCAG-A-GCA-AGTGATAATGTGATTCCA
**
24017653 TATAAGACCATATTTGGGATATGGCATCAG
1 TATAAGACCATAGCTGGGATATGGCATCAG
24017683 TGTGTGATGT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
52 32 0.46
53 34 0.49
54 4 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (52 bp):
TATAAGACCATAGCTGGGATATGGCATCAGAGCAAGTGATAATGTGATTCCA
Found at i:24021662 original size:127 final size:124
Alignment explanation
Indices: 24021370--24021765 Score: 483
Period size: 127 Copynumber: 3.2 Consensus size: 124
24021360 TAAGGCCAAG
* * * * * * * * *
24021370 CAAGACCTACCGTAGAAAAAAAGCGTCCACATGAGAGCTTTTTTCATTAATTTT-TTGATAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
*
24021434 ATCCTGCTTGAAGCG-TTTTTACACTATTTTTTCAAAATCGTCTTCTCAAAATTATTTTT
66 ATCCTGCTTGAAGTGTTTTTTACACTATTTTTTCAAAA-CGTCTTCTCAAAATTATTTTT
* * * *
24021493 CAGGAACCACTGTAGAAAAAGAGCGTCCACGTGGGAGATTTTTTCAGTAATTTTACTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
* * *
24021558 ATCCTGCTTGAAGTGTTTTTTACACTATTTTTTTTAGAACAGTCTTCTCAAATTTATTTTTT
66 ATCCTGCTTGAAGTGTTTTTTACACTA-TTTTTTCAAAAC-GTCTTCTCAAAATTA-TTTTT
* * * *
24021620 CAAGAACTACTGTAGAAAAATAGCATTCATGTGGGAGCTTTTTTCAGTAATTTTACTAACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
* * *
24021685 ATCCTGCTTGAAGTGTTTTTGACATTATCTTTTCAAAACCGTCTTCTCAAAATTAATTTTT
66 ATCCTGCTTGAAGTGTTTTTTACACTATTTTTTCAAAA-CGTCTTCTCAAAATT-ATTTTT
*
24021746 C-TGAAACTACTGTAGAAAAA
1 CAAG-AACTACTGTAGAAAAA
24021766 AAAAACAAAA
Statistics
Matches: 235, Mismatches: 30, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
123 45 0.19
124 22 0.09
125 13 0.06
126 66 0.28
127 89 0.38
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (124 bp):
CAAGAACTACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTACTGACAGTGC
ATCCTGCTTGAAGTGTTTTTTACACTATTTTTTCAAAACGTCTTCTCAAAATTATTTTT
Found at i:24028749 original size:15 final size:15
Alignment explanation
Indices: 24028729--24028758 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24028719 GTTTAGTGCC
*
24028729 TAGGGTTTTTGGGTT
1 TAGGGTTTTAGGGTT
24028744 TAGGGTTTTAGGGTT
1 TAGGGTTTTAGGGTT
24028759 GTAGTGTTAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (15 bp):
TAGGGTTTTAGGGTT
Found at i:24028948 original size:34 final size:33
Alignment explanation
Indices: 24028824--24028957 Score: 124
Period size: 34 Copynumber: 3.9 Consensus size: 33
24028814 TTTTAAAAAA
* * *
24028824 TAAATTAAGGTTTAGAATTTTTTTAAAAAAATAAT
1 TAAATTAGGGTTTAG--TGTTTTTAAAAAATTAAT
* * * *
24028859 TAAATTAGGTTTTAGGGGTTTTAAATAAATAAAT
1 TAAATTAGGGTTTAGTGTTTTTAAA-AAATTAAT
* *
24028893 TAAATTAGGATTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGTGTTTTTAA-AAAATTAAT
* *
24028927 TAAATTAGGGTTTAGTTTTTTTTAAATAATT
1 TAAATTAGGGTTTAG-TGTTTTTAAAAAATT
24028958 TTTGTGTTTA
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
33 7 0.09
34 53 0.65
35 21 0.26
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGTGTTTTTAAAAAATTAAT
Found at i:24029277 original size:125 final size:125
Alignment explanation
Indices: 24029042--24029570 Score: 722
Period size: 125 Copynumber: 4.2 Consensus size: 125
24029032 ATTTTGTTTT
* * * * *
24029042 TTTTTGTTACAATAGTTTCAGAAAAATTAATTTTGAGAAGACAGTTCTGAAAAAATAGTATCAAA
1 TTTTT-TTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTG-AAAAATAGTGTCAAA
* *
24029107 AACGCTTCAAGCAGGATGCAGTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTC
64 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
24029169 TTTTTTTAGAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAATAGTGT-AAAAG
1 TTTTTTTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAA-
* * * *
24029233 ATGCTTCGAGCAGGATGCACTGTCAACAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
24029294 TTTTTTTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAATGTCAAAAA
1 TTTTTTTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAAA
* * *
24029359 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTTA-TGAAAAAAGCTCCAATGTGGACGCT-
66 CGCTTCAAGCAGGATGCACTGTCAGCAAAA-TTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
24029418 TTTTTTCTACATTAGTTCCTGAAAAAATAATTTTGAGAAGAAGGTTCTGAAAAATAGTGTAAAAA
1 TTTTTT-TACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAA
* * *
24029483 ATGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTCGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
** *
24029544 TTTTGCTACAGTAGTTACNCTGAAAAA
1 TTTTTTTACAATAGTT-C-CTGAAAAA
24029571 TGCTCCCACG
Statistics
Matches: 354, Mismatches: 40, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
124 13 0.04
125 281 0.79
126 47 0.13
127 13 0.04
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (125 bp):
TTTTTTTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAATAGTGTCAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:24029587 original size:46 final size:45
Alignment explanation
Indices: 24029517--24029610 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 45
24029507 AGCAAAATTA
24029517 CTGAAAAAAGCTCCCACGTCGACGCTCTTTTGCTACAGTAGTTAC
1 CTGAAAAAAGCTCCCACGTCGACGCTCTTTTGCTACAGTAGTTAC
* * *
24029562 NCTGAAAAATGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT-C
1 -CTGAAAAAAGCTCCCACGTCGACGCTCTTTTGCTACAGTAGTTAC
24029607 CTGA
1 CTGA
24029611 TTGGCTTTAG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 4 0.09
45 1 0.02
46 40 0.89
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
CTGAAAAAAGCTCCCACGTCGACGCTCTTTTGCTACAGTAGTTAC
Found at i:24032450 original size:57 final size:60
Alignment explanation
Indices: 24032329--24032458 Score: 158
Period size: 62 Copynumber: 2.1 Consensus size: 60
24032319 TCTATTACCT
* *
24032329 TATTCAAAAGAATTTTTATTTTATTAAATAAGACAAAATATAAAAATAATTTACTATTAAAA
1 TATTCAAAACAACTTTTATTTTATTAAAT-AGACAAAATATAAAAATAATTTACTA-TAAAA
* *
24032391 TATTCAAAACAACTTTTATTTTATTAAAT-GA-AATAATATAAAAATAGTTTA-TACAAATA
1 TATTCAAAACAACTTTTATTTTATTAAATAGACAA-AATATAAAAATAATTTACTATAAA-A
*
24032450 TATTTAAAA
1 TATTCAAAA
24032459 AATCAATGTA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
58 3 0.05
59 13 0.21
60 18 0.30
62 27 0.44
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.39
Consensus pattern (60 bp):
TATTCAAAACAACTTTTATTTTATTAAATAGACAAAATATAAAAATAATTTACTATAAAA
Found at i:24032819 original size:18 final size:18
Alignment explanation
Indices: 24032796--24032832 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
24032786 GGAAAAAGAA
* *
24032796 ACATATAAGGGTTAGGAT
1 ACATATAAAGGCTAGGAT
24032814 ACATATAAAGGCTAGGAT
1 ACATATAAAGGCTAGGAT
24032832 A
1 A
24032833 AGCACCTGCA
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:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATATAAAGGCTAGGAT
Found at i:24033500 original size:24 final size:24
Alignment explanation
Indices: 24033473--24033522 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
24033463 TGTTATGTAT
24033473 ATATATATTTTATTTAATACTTAC
1 ATATATATTTTATTTAATACTTAC
24033497 ATATATATTTTATTTAATACTTAC
1 ATATATATTTTATTTAATACTTAC
24033521 AT
1 AT
24033523 GCGCTTCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATATATTTTATTTAATACTTAC
Found at i:24042322 original size:21 final size:21
Alignment explanation
Indices: 24042296--24042339 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
24042286 TGAAGTAGTA
24042296 TTGATTAAGTAGTATTGCATT
1 TTGATTAAGTAGTATTGCATT
*
24042317 TTGATTAAGTAGTATTGTATT
1 TTGATTAAGTAGTATTGCATT
24042338 TT
1 TT
24042340 TGGATGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.52
Consensus pattern (21 bp):
TTGATTAAGTAGTATTGCATT
Found at i:24044572 original size:26 final size:25
Alignment explanation
Indices: 24044541--24044590 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
24044531 TATTTTTATT
*
24044541 TTTATTAAAATATATGTAACAATAAA
1 TTTATTAAAATATA-ATAACAATAAA
*
24044567 TTTATTAAAATTTAATAACAATAA
1 TTTATTAAAATATAATAACAATAA
24044591 CAATAATCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (25 bp):
TTTATTAAAATATAATAACAATAAA
Found at i:24044766 original size:16 final size:16
Alignment explanation
Indices: 24044745--24044798 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
24044735 TGAATTACTG
24044745 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
24044761 ATTACACCTCTATTCA
1 ATTACAGCTCTATTCC
* *
24044777 ATTATAGCCCTATTCC
1 ATTACAGCTCTATTCC
24044793 ATTACA
1 ATTACA
24044799 ATGAACCAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:24059030 original size:6 final size:6
Alignment explanation
Indices: 24059019--24059085 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
24059009 TTTGAGTCCA
* * *
24059019 TTTATT TTTA-T TTT-CT TTTATT TTTCTT ATTAGTT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TTTATT
*
24059066 TTTATT TTTATT TGTATT TT
1 TTTATT TTTATT TTTATT TT
24059086 CCTAGAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
5 8 0.16
6 38 0.75
7 5 0.10
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:24059056 original size:19 final size:18
Alignment explanation
Indices: 24059019--24059083 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 18
24059009 TTTGAGTCCA
*
24059019 TTTATTTTTATT-TT-CT
1 TTTATTTTTATTATTATT
*
24059035 TTTATTTTTCTTATTAGTT
1 TTTATTTTTATTATTA-TT
*
24059054 TTTATTTTTATTTTTATT
1 TTTATTTTTATTATTATT
*
24059072 TTTATTTGTATT
1 TTTATTTTTATT
24059084 TTCCTAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 11 0.27
17 2 0.05
18 13 0.32
19 15 0.37
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTATTTTTATTATTATT
Found at i:24063050 original size:43 final size:42
Alignment explanation
Indices: 24062985--24063100 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 42
24062975 GGAATTTAGA
* *
24062985 AATCCGAGCTCGTTGAGCGGTCCAAGTTCATGATATATGTGAG
1 AATCCGAACTCGTTGAGAGGTCCAAGTTCATGATATATGTG-G
* * *
24063028 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATGTGG
1 AATCCGAACTCGTTGAGAGGTCCAAGTTCATGATATATGTGG
* * * *
24063070 CATCTGAACTCATTGAGAGGTCCGAGTTCAT
1 AATCCGAACTCGTTGAGAGGTCCAAGTTCAT
24063101 TATGGATGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 25 0.40
43 37 0.60
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
AATCCGAACTCGTTGAGAGGTCCAAGTTCATGATATATGTGG
Found at i:24066971 original size:15 final size:15
Alignment explanation
Indices: 24066951--24066989 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
24066941 TATGATATTG
*
24066951 TATCTTGGATCTCTT
1 TATCTTGGATCTCTC
*
24066966 TATCTTGGATTTCTC
1 TATCTTGGATCTCTC
24066981 TATCTTGGA
1 TATCTTGGA
24066990 CTTCTTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.51
Consensus pattern (15 bp):
TATCTTGGATCTCTC
Found at i:24066994 original size:15 final size:14
Alignment explanation
Indices: 24066951--24066994 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 14
24066941 TATGATATTG
*
24066951 TATCTTGGATCTCTT
1 TATCTTGGAT-TCTC
24066966 TATCTTGGATTTCTC
1 TATCTTGGA-TTCTC
24066981 TATCTTGGACTTCT
1 TATCTTGGA-TTCT
24066995 TAATCCTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 25 0.96
16 1 0.04
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.52
Consensus pattern (14 bp):
TATCTTGGATTCTC
Found at i:24067009 original size:30 final size:30
Alignment explanation
Indices: 24066951--24067009 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
24066941 TATGATATTG
* *
24066951 TATCTTGGATCTCTTTATCTTGGATTTCTC
1 TATCTTGGATCTCTTAATCCTGGATTTCTC
*
24066981 TATCTTGGA-CTTCTTAATCCTGGTTTTCT
1 TATCTTGGATC-TCTTAATCCTGGATTTCT
24067010 TGCTATCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.53
Consensus pattern (30 bp):
TATCTTGGATCTCTTAATCCTGGATTTCTC
Found at i:24074946 original size:43 final size:43
Alignment explanation
Indices: 24074893--24074975 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
24074883 GATATATGTG
*
24074893 GCATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
*
24074936 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATTGATG
1 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATG
24074976 TATACATGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGCGA
Found at i:24076793 original size:18 final size:18
Alignment explanation
Indices: 24076770--24076804 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
24076760 GTGTCCCAAG
*
24076770 CCACATAGGCGTGCGTGA
1 CCACATAGGCGAGCGTGA
24076788 CCACATAGGCGAGCGTG
1 CCACATAGGCGAGCGTG
24076805 TGACTCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.34, T:0.14
Consensus pattern (18 bp):
CCACATAGGCGAGCGTGA
Found at i:24088018 original size:27 final size:27
Alignment explanation
Indices: 24087988--24088129 Score: 97
Period size: 27 Copynumber: 5.2 Consensus size: 27
24087978 AGCCCATCAA
* * *
24087988 GACTATCTGATGTTGAAAGTCTGTCAG
1 GACTATCTAATGTGGAAAGTCCGTCAG
* *
24088015 GACTATCTTATGTGGAAAGTCCGTCAT
1 GACTATCTAATGTGGAAAGTCCGTCAG
* * * * *
24088042 GACTATCTAATGTGGGAGGTTCATAAG
1 GACTATCTAATGTGGAAAGTCCGTCAG
* ** * * * *
24088069 GATTATCTTTTGCGG-ATGTCCATGAG
1 GACTATCTAATGTGGAAAGTCCGTCAG
*
24088095 GACTATCTAATACGGGGAAAGTCCGTCAG
1 GACTATCTAAT--GTGGAAAGTCCGTCAG
24088124 GACTAT
1 GACTAT
24088130 TATTGTGAGG
Statistics
Matches: 87, Mismatches: 25, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
26 16 0.18
27 54 0.62
28 3 0.03
29 14 0.16
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (27 bp):
GACTATCTAATGTGGAAAGTCCGTCAG
Found at i:24097886 original size:36 final size:36
Alignment explanation
Indices: 24097825--24097910 Score: 158
Period size: 36 Copynumber: 2.4 Consensus size: 36
24097815 CTTCGTTATT
24097825 AGATGGAATATTGA--CTCTTTCTTTTTGATACATG
1 AGATGGAATATTGACTCTCTTTCTTTTTGATACATG
24097859 AGATGGAATATTGACTCTCTTTCTTTTTGATACATG
1 AGATGGAATATTGACTCTCTTTCTTTTTGATACATG
24097895 AGATGGAATATTGACT
1 AGATGGAATATTGACT
24097911 TTTGGCATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
34 14 0.28
36 36 0.72
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (36 bp):
AGATGGAATATTGACTCTCTTTCTTTTTGATACATG
Found at i:24100673 original size:17 final size:17
Alignment explanation
Indices: 24100622--24100679 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
24100612 ATTACATAAA
*
24100622 ATTTGAAATCTTGAAATTT
1 ATTTAAAAT-TTGAAA-TT
* *
24100641 TTTTAAAATTT-TAATT
1 ATTTAAAATTTGAAATT
*
24100657 CTTTAAAATTTGAAATT
1 ATTTAAAATTTGAAATT
24100674 ATTTAA
1 ATTTAA
24100680 TATATAGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
16 12 0.38
17 11 0.34
18 2 0.06
19 7 0.22
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (17 bp):
ATTTAAAATTTGAAATT
Found at i:24100845 original size:15 final size:15
Alignment explanation
Indices: 24100817--24100849 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
24100807 CTATATCCTA
24100817 AACCCTAAACCCCAT
1 AACCCTAAACCCCAT
24100832 AACCCGTAAA-CCCAT
1 AACCC-TAAACCCCAT
24100847 AAC
1 AAC
24100850 TTTTAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.42, G:0.03, T:0.12
Consensus pattern (15 bp):
AACCCTAAACCCCAT
Found at i:24101453 original size:41 final size:41
Alignment explanation
Indices: 24101396--24101737 Score: 402
Period size: 41 Copynumber: 8.4 Consensus size: 41
24101386 GTTATATGAC
* **
24101396 TTTTAGCGGCATTTTACAAAAAGTGCCGCTAATGCTCCAAT
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
*
24101437 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
*
24101478 TTTTAGCGGCATTTCACAAAAAGCGCCGCTAATGCTCCGGT
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
* * *
24101519 TTTTAACGGCATTTCA-AAAAAGGTGCCGCTAATGCTCCGGT
1 TTTTAGCGGCATTTTACAAAAA-GCGCCGCTAATGCTCCGGT
* * * **
24101560 TTTTAGTGGCGTTTTACAAAAAACGCCGCTAATGCTCCGAC
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
* * *
24101601 TTTTAGTGGCGTTTTACAAAAAGCGCCGCTGATGCTCCGGT
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
* * * *
24101642 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGTTCC-GT
1 TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
* ** * * *
24101682 CTTTTAGAGGTGTTTTACCAAAAGCGCCGCTATTGCT-CTGT
1 -TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
*
24101723 TTTTAGCGGCGTTTT
1 TTTTAGCGGCATTTT
24101738 TGGTAAAACG
Statistics
Matches: 267, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
40 21 0.08
41 241 0.90
42 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACAAAAAGCGCCGCTAATGCTCCGGT
Found at i:24101856 original size:18 final size:18
Alignment explanation
Indices: 24101830--24101873 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
24101820 TAGTGACTTT
*
24101830 TAAATTAAAAACAAAAAA
1 TAAAGTAAAAACAAAAAA
24101848 TAAAGT-AAAACAAAAAA
1 TAAAGTAAAAACAAAAAA
24101865 -AAATGTAAA
1 TAAA-GTAAA
24101874 TGATAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.13
17 13 0.57
18 7 0.30
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.16
Consensus pattern (18 bp):
TAAAGTAAAAACAAAAAA
Found at i:24101859 original size:17 final size:17
Alignment explanation
Indices: 24101837--24101873 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
24101827 TTTTAAATTA
24101837 AAAACAAAAAATAAA-GT
1 AAAACAAAAAA-AAATGT
24101854 AAAACAAAAAAAAATGT
1 AAAACAAAAAAAAATGT
24101871 AAA
1 AAA
24101874 TGATAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAACAAAAAAAAATGT
Found at i:24106227 original size:24 final size:23
Alignment explanation
Indices: 24106191--24106236 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
24106181 GTTAGCGAAC
*
24106191 AAATTAAATTAAATATA-AATAAA
1 AAATTAAAATAAA-ATAGAATAAA
24106214 AAATATAAAATAAAATAGAATAA
1 AAAT-TAAAATAAAATAGAATAA
24106237 TTTATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
AAATTAAAATAAAATAGAATAAA
Found at i:24108910 original size:63 final size:61
Alignment explanation
Indices: 24108658--24108938 Score: 262
Period size: 62 Copynumber: 4.5 Consensus size: 61
24108648 TGCCACACGA
** * * * * *
24108658 CCTGGGCACACGCCCATGTGCCTTGGCCGTGTGGATTTTA-AGCACAAACAGTGAATCACATC-G
1 CCTGGGCACATACCCGTGT-CCCTGGCCGTGT-GATTTTATA-CATAAACAGTGAGTTACA-CAG
* * * * *
24108721 CCTGGGCACATGCTCGTGTCCCTGGCCGTGTGGTTTTATACTATGAACAGTGAGTTACATAG
1 CCTGGGCACATACCCGTGTCCCTGGCCGTGTGATTTTATAC-ATAAACAGTGAGTTACACAG
* * * * *
24108783 CTTGGGCACACACCCATGTCCCTGGCCGTGTGATTTTATAAGATAAATAGTGAGTTACACAG
1 CCTGGGCACATACCCGTGTCCCTGGCCGTGTGATTTTAT-ACATAAACAGTGAGTTACACAG
* * *
24108845 CCTGGGCACATACCCCTATCCCTGGCCGTGTGCTTTT-TACACCTCAAACAGTGAGTTACACAG
1 CCTGGGCACATACCCGTGTCCCTGGCCGTGTGATTTTATACA--T-AAACAGTGAGTTACACAG
* *
24108908 CCTAGGCACATGCCCGTGTCCCTGGCCGTGT
1 CCTGGGCACATACCCGTGTCCCTGGCCGTGT
24108939 AAAACCTACG
Statistics
Matches: 180, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
60 2 0.01
61 8 0.04
62 109 0.61
63 61 0.34
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (61 bp):
CCTGGGCACATACCCGTGTCCCTGGCCGTGTGATTTTATACATAAACAGTGAGTTACACAG
Found at i:24108917 original size:125 final size:124
Alignment explanation
Indices: 24108662--24108938 Score: 303
Period size: 124 Copynumber: 2.2 Consensus size: 124
24108652 ACACGACCTG
*
24108662 GGCACACGCCCATGTGCCTTGGCCGTGTGGATTTTAAGCACAAACAGTGAATCACATCGCCTGGG
1 GGCACACGCCCATGT-CCCTGGCCGTGTGGATTTTAAGCACAAACAGTGAATCACATCGCCTGGG
* * * * * * * * *
24108727 CACATGCTCGTGTCCCTGGCCGTGTGGTTTTATACTATGAACAGTGAGTTACATAGCTTG
65 CACATACCCCTATCCCTGGCCGTGTGCTTTTATACTATAAACAGTGAGTTACACAGCCTA
* * * * *
24108787 GGCACACACCCATGTCCCTGGCCGTGT-GATTTTATAAG-ATAAATAGTGAGTTACA-CAGCCTG
1 GGCACACGCCCATGTCCCTGGCCGTGTGGA-TTT-TAAGCACAAACAGTGAATCACATC-GCCTG
24108849 GGCACATACCCCTATCCCTGGCCGTGTGCTTTT-TAC-ACCTCAAACAGTGAGTTACACAGCCTA
63 GGCACATACCCCTATCCCTGGCCGTGTGCTTTTATACTA--T-AAACAGTGAGTTACACAGCCTA
* *
24108912 GGCACATGCCCGTGTCCCTGGCCGTGT
1 GGCACACGCCCATGTCCCTGGCCGTGT
24108939 AAAACCTACG
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
122 1 0.01
123 6 0.05
124 61 0.48
125 60 0.47
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (124 bp):
GGCACACGCCCATGTCCCTGGCCGTGTGGATTTTAAGCACAAACAGTGAATCACATCGCCTGGGC
ACATACCCCTATCCCTGGCCGTGTGCTTTTATACTATAAACAGTGAGTTACACAGCCTA
Found at i:24114914 original size:27 final size:26
Alignment explanation
Indices: 24114877--24114987 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
24114867 GCATGGCTGT
* *
24114877 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
24114903 CAGATACAGATAATGGTGGCAGAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
24114931 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* * *
24114958 CAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
24114985 CAG
1 CAG
24114988 GACGTTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 4 0.05
27 56 0.73
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:24114936 original size:54 final size:54
Alignment explanation
Indices: 24114877--24114987 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
24114867 GCATGGCTGT
*
24114877 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATGGTGGCAGAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATGGTGGCAGAGCCAC
* * * *
24114931 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATGGTGGCAGAGCCAC
24114985 CAG
1 CAG
24114988 GACGTTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATGGTGGCAGAGCCAC
Found at i:24117418 original size:63 final size:61
Alignment explanation
Indices: 24117159--24117440 Score: 226
Period size: 62 Copynumber: 4.5 Consensus size: 61
24117149 TGCCACACAG
* * * * * * * *
24117159 CCTGGGCACACACCCATGTGCCTTGGCCGTCTGGATTTTA-AGCACAAATAGTGAGTCACACGG
1 CCTGGGCACACGCCCGTGT-CCCTGGCCGTGTGG-TTTTATA-CATAAACAGTGAGTTACACGA
* * * * * *
24117222 CCTGGTCACACGCCCGTGTCCTTAGCTGTGTGGTTTTATACTATAAACAATGAGTTACATGA
1 CCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTATAC-ATAAACAGTGAGTTACACGA
* * * * * * * * *
24117284 CTTGGGCACACGCCCGTGTCCCTGGCCGTATGATTTTATATGATGAATAGTGAGTTTCATGG
1 CCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTATA-CATAAACAGTGAGTTACACGA
* *
24117346 CCTAGGCACACACCCGTGTCCCTGGCCGTGTGGTTTT-TACACCTCAAACAGTGAGTTACACGA
1 CCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTATACA--T-AAACAGTGAGTTACACGA
* * *
24117409 CCTGGGCACACGTCCGTATCCCTGGCCATGTG
1 CCTGGGCACACGCCCGTGTCCCTGGCCGTGTG
24117441 AACCCTGCAC
Statistics
Matches: 172, Mismatches: 41, Indels: 12
0.76 0.18 0.05
Matches are distributed among these distances:
60 1 0.01
61 8 0.05
62 107 0.62
63 56 0.33
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (61 bp):
CCTGGGCACACGCCCGTGTCCCTGGCCGTGTGGTTTTATACATAAACAGTGAGTTACACGA
Found at i:24122420 original size:24 final size:23
Alignment explanation
Indices: 24122372--24122437 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
24122362 TCGCTTGAAC
* *
24122372 CTTCCCGTTATTGGCTATTATGAG
1 CTTCCCGTTAATGGCT-CTATGAG
*
24122396 CTTTCCGTTAATGGCTCTATGGAG
1 CTTCCCGTTAATGGCTCTAT-GAG
*
24122420 CTTCCCATTACATGGCTC
1 CTTCCCGTTA-ATGGCTC
24122438 ACATGAGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.38
Consensus pattern (23 bp):
CTTCCCGTTAATGGCTCTATGAG
Found at i:24122424 original size:23 final size:24
Alignment explanation
Indices: 24122376--24122449 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
24122366 TTGAACCTTC
* *
24122376 CCGTTATTGGCTATTATGAGCTTT
1 CCGTTAATGGCTACTATGAGCTTT
*
24122400 CCGTTAATGGCT-CTATGGAGCTTC
1 CCGTTAATGGCTACTAT-GAGCTTT
*
24122424 CCATTACATGGCTCAC-ATGAG-TTT
1 CCGTTA-ATGGCT-ACTATGAGCTTT
24122448 CC
1 CC
24122450 CATTTTATGG
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
23 3 0.07
24 26 0.63
25 9 0.22
26 2 0.05
27 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (24 bp):
CCGTTAATGGCTACTATGAGCTTT
Found at i:24127188 original size:16 final size:17
Alignment explanation
Indices: 24127169--24127204 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
24127159 ATTCTCATGT
24127169 TCATG-CTTTCTTGAAC
1 TCATGTCTTTCTTGAAC
*
24127185 TCATGTTTTTCTTGAAC
1 TCATGTCTTTCTTGAAC
24127202 TCA
1 TCA
24127205 ATTTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.47
Consensus pattern (17 bp):
TCATGTCTTTCTTGAAC
Found at i:24130605 original size:34 final size:34
Alignment explanation
Indices: 24130540--24130605 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
24130530 CCGTCAGACG
* * *
24130540 ATACTATCCATCAGACGATGCAGTCCGCCAAATA
1 ATACTATCCATCAGACAATACAGTCCACCAAATA
* *
24130574 ATACTATCCATCAGGCAATACAGTTCACCAAA
1 ATACTATCCATCAGACAATACAGTCCACCAAA
24130606 GATGTATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.38, C:0.29, G:0.12, T:0.21
Consensus pattern (34 bp):
ATACTATCCATCAGACAATACAGTCCACCAAATA
Found at i:24134926 original size:20 final size:21
Alignment explanation
Indices: 24134901--24134950 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
24134891 TTTATTTCTA
*
24134901 TTAATTTAGTTATTTTAA-TT
1 TTAATTTAGTTAATTTAACTT
**
24134921 TTAATTTTTTTAATTTAACTT
1 TTAATTTAGTTAATTTAACTT
24134942 TTATATTTA
1 TTA-ATTTA
24134951 ATTTTTTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 15 0.62
21 5 0.21
22 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTAATTTAGTTAATTTAACTT
Found at i:24134938 original size:14 final size:14
Alignment explanation
Indices: 24134901--24134958 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
24134891 TTTATTTCTA
* *
24134901 TTAATTTAGTTATT
1 TTAATTTAATTTTT
24134915 TTAATTTTAATTTTT
1 TTAA-TTTAATTTTT
*
24134930 TTAATTTAACTTTT
1 TTAATTTAATTTTT
*
24134944 AT-ATTTAATTTTT
1 TTAATTTAATTTTT
24134957 TT
1 TT
24134959 GTTTGATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.30
14 14 0.38
15 12 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (14 bp):
TTAATTTAATTTTT
Found at i:24138713 original size:3 final size:3
Alignment explanation
Indices: 24138679--24138768 Score: 50
Period size: 3 Copynumber: 31.7 Consensus size: 3
24138669 TATTTACTTT
* * *
24138679 TTA TT- TTA TT- TT- TTA TTAA TTT TTA TTA -TA TTA TTA TAA TGA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
24138721 TT- TTA TTA TTA TTA TT- TTGT TTA TTA TTA ATA TTA GT- TTC TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
24138764 TTA TT
1 TTA TT
24138769 CTACTATTAG
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
2 13 0.19
3 50 0.74
4 5 0.07
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24144537 original size:85 final size:85
Alignment explanation
Indices: 24144438--24144626 Score: 371
Period size: 85 Copynumber: 2.2 Consensus size: 85
24144428 ACTTTTAGTT
24144438 TTTTATTTATTTATTGTTATCAGTACTATGAGTAGAAGTAGTTTATATATATATATTATATTATA
1 TTTTATTTATTTATTGTTATCAGTACTATGAGTAGAAGTAGTTTATATATATATATTATATTATA
24144503 GTCTTTTAGTTAGTTTTTTA
66 GTCTTTTAGTTAGTTTTTTA
24144523 TTTTATTTATTTATTGTTATCAGTACTATGAGTAGAAGTAGTTTATATATATATATTATATTATA
1 TTTTATTTATTTATTGTTATCAGTACTATGAGTAGAAGTAGTTTATATATATATATTATATTATA
24144588 GTCTTTTAGTTAGTTTTTTA
66 GTCTTTTAGTTAGTTTTTTA
24144608 TTTTATTTATTTATT-TTAT
1 TTTTATTTATTTATTGTTAT
24144627 TATTTTTTAC
Statistics
Matches: 104, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 4 0.04
85 100 0.96
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (85 bp):
TTTTATTTATTTATTGTTATCAGTACTATGAGTAGAAGTAGTTTATATATATATATTATATTATA
GTCTTTTAGTTAGTTTTTTA
Found at i:24146205 original size:11 final size:11
Alignment explanation
Indices: 24146173--24146229 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
24146163 CCAATTGTAC
*
24146173 TTTTATTTTTA
1 TTTTATTTTTG
24146184 TTTTATTTTTG
1 TTTTATTTTTG
*
24146195 TTTTGTTTTTG
1 TTTTATTTTTG
24146206 TGTTT-TGTTAGTTG
1 T-TTTAT-TT--TTG
24146220 TTTTATTTTT
1 TTTTATTTTT
24146230 ATTAGTATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
11 24 0.62
12 5 0.13
13 5 0.13
14 5 0.13
ACGTcount: A:0.09, C:0.00, G:0.12, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTG
Found at i:24146229 original size:18 final size:19
Alignment explanation
Indices: 24146184--24146235 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
24146174 TTTATTTTTA
24146184 TTTTATTTTTGTT--TTGT
1 TTTTATTTTTGTTAGTTGT
*
24146201 TTTTGTGTTTTGTTAGTTG-
1 TTTTAT-TTTTGTTAGTTGT
*
24146220 TTTTATTTTTATTAGT
1 TTTTATTTTTGTTAGT
24146236 ATGACTGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 5 0.17
18 16 0.55
19 5 0.17
20 3 0.10
ACGTcount: A:0.10, C:0.00, G:0.15, T:0.75
Consensus pattern (19 bp):
TTTTATTTTTGTTAGTTGT
Found at i:24150305 original size:20 final size:22
Alignment explanation
Indices: 24150282--24150322 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
24150272 TACTATGCAT
24150282 TGTTATTTTTT-T-ATTTTTTC
1 TGTTATTTTTTCTAATTTTTTC
*
24150302 TGTTGTTTTTTCTAATTTTTT
1 TGTTATTTTTTCTAATTTTTT
24150323 ATCTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.78
Consensus pattern (22 bp):
TGTTATTTTTTCTAATTTTTTC
Found at i:24151882 original size:25 final size:25
Alignment explanation
Indices: 24151848--24151912 Score: 130
Period size: 25 Copynumber: 2.6 Consensus size: 25
24151838 GTGCATTTTT
24151848 GGGTGATTATTCAATGTTAGTGATA
1 GGGTGATTATTCAATGTTAGTGATA
24151873 GGGTGATTATTCAATGTTAGTGATA
1 GGGTGATTATTCAATGTTAGTGATA
24151898 GGGTGATTATTCAAT
1 GGGTGATTATTCAAT
24151913 CTATAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.28, C:0.05, G:0.28, T:0.40
Consensus pattern (25 bp):
GGGTGATTATTCAATGTTAGTGATA
Found at i:24152227 original size:29 final size:30
Alignment explanation
Indices: 24152171--24152227 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
24152161 AAAATTACAA
* * *
24152171 GAGCCACATGGCCTAGCTACACTACCATAT
1 GAGCCAAATAGCCTAGCTACACGACCATAT
*
24152201 GAGCCAAATAGCCT-GCTACACGGCCAT
1 GAGCCAAATAGCCTAGCTACACGACCAT
24152228 GTGATAAGTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 11 0.48
30 12 0.52
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (30 bp):
GAGCCAAATAGCCTAGCTACACGACCATAT
Found at i:24160403 original size:19 final size:19
Alignment explanation
Indices: 24160378--24160468 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
24160368 ATAATGTTCA
24160378 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
24160397 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24160416 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24160433 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
24160451 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
24160469 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 16 0.24
18 16 0.24
19 35 0.52
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:24160418 original size:14 final size:15
Alignment explanation
Indices: 24160399--24160454 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
24160389 TCTTAGATGT
24160399 GATATG-CAATCTTA
1 GATATGACAATCTTA
24160413 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
24160430 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
24160448 GATATGA
1 GATATGA
24160455 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:24160448 original size:35 final size:37
Alignment explanation
Indices: 24160378--24160475 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
24160368 ATAATGTTCA
*
24160378 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
24160416 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
24160451 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
24160476 ATTTTGTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
35 22 0.39
36 18 0.32
37 10 0.18
38 6 0.11
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:24160494 original size:22 final size:22
Alignment explanation
Indices: 24160378--24160491 Score: 87
Period size: 19 Copynumber: 5.8 Consensus size: 22
24160368 ATAATGTTCA
24160378 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
24160397 GTGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24160416 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24160433 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
24160451 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
24160473 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
24160492 GATTTAATTT
Statistics
Matches: 84, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 32 0.38
22 8 0.10
23 12 0.14
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:24161258 original size:31 final size:31
Alignment explanation
Indices: 24161223--24161284 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
24161213 TACATCTATG
24161223 CTTCATGATGCATTAATATGTGATCCTAAAA
1 CTTCATGATGCATTAATATGTGATCCTAAAA
24161254 CTTCATGATGCATTAATATGTGATCCTAAAA
1 CTTCATGATGCATTAATATGTGATCCTAAAA
24161285 TGTCATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (31 bp):
CTTCATGATGCATTAATATGTGATCCTAAAA
Found at i:24167339 original size:12 final size:12
Alignment explanation
Indices: 24167314--24167358 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
24167304 CTTCTATTTC
*
24167314 AAAAAA-AAAGG
1 AAAAAAGAAAAG
24167325 AAAAAAGAAAAG
1 AAAAAAGAAAAG
24167337 -AAAAAGAGAAA-
1 AAAAAAGA-AAAG
24167348 AAAAAAGAAAA
1 AAAAAAGAAAA
24167359 AATGGAGAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:24167340 original size:18 final size:18
Alignment explanation
Indices: 24167314--24167359 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
24167304 CTTCTATTTC
24167314 AAAA-AAAAAG-GAAAAAA
1 AAAAGAAAAAGAG-AAAAA
24167331 GAAAAGAAAAAGAGAAAAA
1 -AAAAGAAAAAGAGAAAAA
24167350 AAAAGAAAAA
1 AAAAGAAAAA
24167360 ATGGAGAGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 14 0.54
19 11 0.42
20 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAGAAAAA
Found at i:24167366 original size:21 final size:21
Alignment explanation
Indices: 24167317--24167366 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 21
24167307 CTATTTCAAA
24167317 AAAAAAGGA-AAAAAGAAAAG
1 AAAAAAGGAGAAAAAGAAAAG
24167337 -AAAAA-GAGAAAAA-AAAAG
1 AAAAAAGGAGAAAAAGAAAAG
24167355 AAAAAATGGAGA
1 AAAAAA-GGAGA
24167367 GGCCAAGGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
18 7 0.27
19 15 0.58
21 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAAAGGAGAAAAAGAAAAG
Found at i:24168377 original size:44 final size:44
Alignment explanation
Indices: 24168329--24168496 Score: 273
Period size: 44 Copynumber: 3.8 Consensus size: 44
24168319 AATCCAAGAT
* * *
24168329 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
24168373 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
* * *
24168417 GATTTGGCATCTCTGTAGTGGCAGAGAGCAGATCGAAGACAGTA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
*
24168461 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGA
1 GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGA
24168497 GGACTTAGCT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATAATA
Found at i:24168572 original size:87 final size:87
Alignment explanation
Indices: 24168461--24168932 Score: 739
Period size: 87 Copynumber: 5.4 Consensus size: 87
24168451 GAAGACAGTA
* * * * *
24168461 GATTTGGCATCTCTGTATTGGCAGGGAGCAGATCGAGGACTTAGCTGATTTGGCTTTCATGTGTT
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
24168526 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * * *
24168548 GATTTGGCATCTCTATATTGGCAGGGAGCAAATCAAAGACATAGCTAATTTGGCTTTCACGTTTT
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
24168613 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
24168635 GATTTGACGTCTCTATATTGGCAAGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
24168700 TACGTTGAAGAAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
24168722 GATTTGGCGTCTTTGTATTGGCAGGGAGCAGATC-AAGGACATAGCTGATTTGGTTTTCATGTGT
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAA-GACATAGCTGATTTGGCTTTCACGTGT
24168786 TTACGTTGAAGCAAATCTAAGAT
65 TTACGTTGAAGCAAATCTAAGAT
24168809 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
*
24168874 TACGTTGAAGCAAATCTAAAAT
66 TACGTTGAAGCAAATCTAAGAT
* * *
24168896 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAA
24168933 AATAACAGAT
Statistics
Matches: 352, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
86 2 0.01
87 348 0.99
88 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (87 bp):
GATTTGGCGTCTCTATATTGGCAGGGAGCAGATCGAAGACATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:24169188 original size:88 final size:87
Alignment explanation
Indices: 24169004--24169235 Score: 236
Period size: 88 Copynumber: 2.6 Consensus size: 87
24168994 GATGATTTTA
* * * *
24169004 CTGAAGCAGATCCAAGATGATTTGGCATC-CTTGTGTT-CACAAGGAGCAAATCGAAGACACAGT
1 CTGAAGCAGATCCAAGATGATTTGGCATCTC-TGTATTAGAC-GGGAGCAAATCGAAGACACAGC
* * **
24169067 AGATTTGGCTTTCACGTGTTTACG
64 AGATCTGACCGTCACGTGTTTACG
* * *
24169091 CTGAAGCAGATTCAAGATGATTTGGCATCTCTGTATTAGACGGGTAGCAGATCGAAGACATAGCA
1 CTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGG-AGCAAATCGAAGACACAGCA
*
24169156 GATCTGACCGTCATGTGTTTAC-
65 GATCTGACCGTCACGTGTTTACG
* *
24169178 ATCGAAGCAGATCCAAGATGACAGGTTTGGCATCTTTGTATTAGACGGGGAGCAAATC
1 CT-GAAGCAGATCCAAGATG--A--TTTGGCATCTCTGTATTAGAC-GGGAGCAAATC
24169236 AGAGATAACA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
87 36 0.30
88 53 0.44
90 1 0.01
92 27 0.22
93 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (87 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGACGGGAGCAAATCGAAGACACAGCAG
ATCTGACCGTCACGTGTTTACG
Found at i:24169267 original size:45 final size:45
Alignment explanation
Indices: 24169109--24169338 Score: 218
Period size: 45 Copynumber: 5.1 Consensus size: 45
24169099 GATTCAAGAT
* * *
24169109 GATTTGGCATCTCTGTATTAGACGGGTAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC--AGAGATAACA
* * * * * * *
24169156 GATCTGACCGTCATGTGT-TTACATC--GAAGCAGATCCA-AGATGACA
1 GATTTG-GCATC-TCTGTATTAGA-CGGGGAGCAGAT-CAGAGATAACA
* * *
24169201 GGTTTGGCATCTTTGTATTAGACGGGGAGCAAATCAGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAGATAACA
24169246 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-GAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAG-AGATAACA
* * *
24169291 GATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAGATAACA
24169336 GAT
1 GAT
24169339 ATCGCCTTCC
Statistics
Matches: 149, Mismatches: 24, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
43 5 0.03
44 10 0.07
45 107 0.72
46 1 0.01
47 13 0.09
48 8 0.05
49 5 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAGAGATAACA
Found at i:24170426 original size:31 final size:31
Alignment explanation
Indices: 24170391--24170452 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
24170381 TACATCTATG
24170391 CTTCATGATGCATTAATATGTGATCCTAAAA
1 CTTCATGATGCATTAATATGTGATCCTAAAA
24170422 CTTCATGATGCATTAATATGTGATCCTAAAA
1 CTTCATGATGCATTAATATGTGATCCTAAAA
24170453 TGTCATTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (31 bp):
CTTCATGATGCATTAATATGTGATCCTAAAA
Found at i:24171377 original size:144 final size:147
Alignment explanation
Indices: 24171216--24171510 Score: 332
Period size: 144 Copynumber: 2.0 Consensus size: 147
24171206 CAAAAAAAAA
* * *
24171216 TTTACAAACAAAAATATATTCTAAAACATCAAATCTAAATATTAAAAAGAAA-TATAAACATATA
1 TTTACAAACAAAAATATAATCTAAAACATCAAATCTAAAGATTAAAAAGAAATTA-AAACATACA
* * * * * *
24171280 ATATA-ATTATTATTA-TACAAACTAA-AAAAA-ACCTTAAAATTATCATAATCTATCTC-TAAA
65 ACATACA-AATTATTATTACAAAC-AATAAAAATACCTTAAAACTATCACAATATATCCCTTAAA
* *
24171340 ACTCCAATACAAACAATTTT
128 ACTCCAACACAAACAAATTT
* ** * * *
24171360 TTTACAAACAAAAATATAATCTTAAATTTTAAATCTAAAGATTAATAATAAATTAAAACATACAA
1 TTTACAAACAAAAATATAATCTAAAACATCAAATCTAAAGATTAAAAAGAAATTAAAACATACAA
*
24171425 CATACAAATTATTATTACAAACAATAAAAATCTACCTTAAAACTATCACAATATCTCCCTTAAAA
66 CATACAAATTATTATTACAAACAATAAAAA--TACCTTAAAACTATCACAATATATCCCTTAAAA
*
24171490 CTCCAACACGAACAAATTT
129 CTCCAACACAAACAAATTT
24171509 TT
1 TT
24171511 CCTCCTAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
144 65 0.52
145 15 0.12
148 21 0.17
149 23 0.19
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (147 bp):
TTTACAAACAAAAATATAATCTAAAACATCAAATCTAAAGATTAAAAAGAAATTAAAACATACAA
CATACAAATTATTATTACAAACAATAAAAATACCTTAAAACTATCACAATATATCCCTTAAAACT
CCAACACAAACAAATTT
Found at i:24171467 original size:21 final size:23
Alignment explanation
Indices: 24171443--24171490 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
24171433 TTATTATTAC
24171443 AAACAAT-A-AAAATCTACCTTA
1 AAACAATCACAAAATCTACCTTA
* * *
24171464 AAACTATCACAATATCTCCCTTA
1 AAACAATCACAAAATCTACCTTA
24171487 AAAC
1 AAAC
24171491 TCCAACACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 15 0.68
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (23 bp):
AAACAATCACAAAATCTACCTTA
Found at i:24172367 original size:17 final size:16
Alignment explanation
Indices: 24172347--24172379 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24172337 GGTATATGAA
24172347 AATTTTGTGTATTTTGT
1 AATTTTGTG-ATTTTGT
24172364 AATTTTGTGATTTTGT
1 AATTTTGTGATTTTGT
24172380 GAAATAGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (16 bp):
AATTTTGTGATTTTGT
Found at i:24172380 original size:8 final size:8
Alignment explanation
Indices: 24172348--24172381 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
24172338 GTATATGAAA
24172348 ATTTTGTG
1 ATTTTGTG
*
24172356 TATTTTGTA
1 -ATTTTGTG
24172365 ATTTTGTG
1 ATTTTGTG
24172373 ATTTTGTG
1 ATTTTGTG
24172381 A
1 A
24172382 AATAGGGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:24172874 original size:44 final size:43
Alignment explanation
Indices: 24172789--24172888 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 43
24172779 TATGTGTTAT
* **
24172789 CATGTAAGACCACGTCTGGGATGTTGGCATCGACTCATGATTTA
1 CATGTAAGACCACATCTGGGACATTGGCATCGACTCATGA-TTA
* *
24172833 CGTGTAAGACCGCATCTGGGACATTGGCATCGA-T-ATTTGATTA
1 CATGTAAGACCACATCTGGGACATTGGCATCGACTCA--TGATTA
24172876 CATGTAAGACCAC
1 CATGTAAGACCAC
24172889 GTCTAGGATG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 1 0.02
43 15 0.32
44 31 0.66
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
CATGTAAGACCACATCTGGGACATTGGCATCGACTCATGATTA
Found at i:24172903 original size:43 final size:42
Alignment explanation
Indices: 24172776--24172905 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 42
24172766 ACATAGGATC
24172776 CGATATGTG-TTATCATGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATAT-TGATTA-CATGTAAGACCACGTCTGGGATGTTGGCAT
* * * **
24172819 CGACTCA-TGATTTACGTGTAAGACCGCATCTGGGACATTGGCAT
1 CGA-T-ATTGA-TTACATGTAAGACCACGTCTGGGATGTTGGCAT
*
24172863 CGATATTTGATTACATGTAAGACCACGTCTAGGATGTTGGCAT
1 CGATA-TTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
24172906 TGTACGAGCT
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
42 1 0.01
43 33 0.47
44 32 0.46
45 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
CGATATTGATTACATGTAAGACCACGTCTGGGATGTTGGCAT
Found at i:24179007 original size:43 final size:43
Alignment explanation
Indices: 24178920--24179083 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
24178910 AGCTCGTACA
* * * *
24178920 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-CATGTCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAAT-ACG
* * * *
24178962 ATGCCATTATCCCAGATAGGGTCTTACATGAAATCATAATACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAATACG
* * *
24179005 ATGCCAATGTCCCTGACATGGTCTTACATGTAATC-TCAATACA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCAT-AATACG
* *
24179048 ATGCCAATGTCCCAGGCATGGTCTTACATGTAATCA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCA
24179084 CAACTCGATA
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
42 6 0.06
43 95 0.92
44 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCATAATACG
Found at i:24179656 original size:21 final size:20
Alignment explanation
Indices: 24179632--24179672 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24179622 ACTTGTATAT
*
24179632 CTATCATTAAACCTTCATAAA
1 CTATCATTAAA-CATCATAAA
*
24179653 CTATTATTAAACATCATAAA
1 CTATCATTAAACATCATAAA
24179673 GCTCATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (20 bp):
CTATCATTAAACATCATAAA
Found at i:24191761 original size:7 final size:7
Alignment explanation
Indices: 24191749--24191777 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
24191739 ATGACAAATA
24191749 ATATATT
1 ATATATT
24191756 ATATATT
1 ATATATT
24191763 ATATATT
1 ATATATT
24191770 ATATATT
1 ATATATT
24191777 A
1 A
24191778 ATTGTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATATATT
Found at i:24197754 original size:22 final size:22
Alignment explanation
Indices: 24197726--24197768 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
24197716 TGATGTTCCT
24197726 GTATGTTTCTCTTGAAAATAGC
1 GTATGTTTCTCTTGAAAATAGC
24197748 GTATGTTTCTCTTGAAAATAG
1 GTATGTTTCTCTTGAAAATAG
24197769 ACTCATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (22 bp):
GTATGTTTCTCTTGAAAATAGC
Found at i:24200229 original size:41 final size:41
Alignment explanation
Indices: 24200058--24200217 Score: 186
Period size: 41 Copynumber: 3.9 Consensus size: 41
24200048 GGGTCTAAAT
24200058 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* * * * *
24200099 CCGAACTTAGTTTCGAAGGGCTTTAGAGCCAGTG-TCATAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
* *
24200139 CCG-GACTTAGT-TCCGAAGGGCCTTTGAGCCAGTGGTCTAAT--
1 CCGAG-CTTGGTCT-CGAAGGGCTTTTGAGCCAGT-G-CTAATAA
24200180 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
1 CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAA
24200218 GAATCGGGCT
Statistics
Matches: 101, Mismatches: 11, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
39 5 0.05
40 33 0.33
41 58 0.57
42 2 0.02
43 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (41 bp):
CCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGCTAATAA
Found at i:24210190 original size:48 final size:48
Alignment explanation
Indices: 24210134--24210443 Score: 295
Period size: 48 Copynumber: 6.5 Consensus size: 48
24210124 ACAGCCTAGC
* *
24210134 TATGGTCTTACACGA-AGTCTCATAACGGTGCCGATGCCATGTCCCAGA
1 TATGGTCTTACACGAGA-TCTCATAACGATGCCGATGCCATATCCCAGA
* * * * * * * * *
24210182 CATGGTCTTATACGGGACCTCATATCAATGCCAATGCCATATCCTAAA
1 TATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGA
* ** *
24210230 TATGGTCTTACA-TAGGATCTCATATTGATGCCGATGTCATATCCCAGA
1 TATGGTCTTACACGA-GATCTCATAACGATGCCGATGCCATATCCCAGA
* * * *
24210278 TATGGTCTTACACGA-AGTCTCATAAAGATGCTGTTGCCATGTCCCAGA
1 TATGGTCTTACACGAGA-TCTCATAACGATGCCGATGCCATATCCCAGA
* * *
24210326 TATGGTCTTACATGGGATCTCAT-ACTGATACCGATGCCATATCCCAGA
1 TATGGTCTTACACGAGATCTCATAAC-GATGCCGATGCCATATCCCAGA
** * * *
24210374 TATGGTCTTACACGAGATCTCATCTCGATGCCAATGTCATATCTCAGA
1 TATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGA
* *
24210422 TATGGTCTTATACGGGATCTCA
1 TATGGTCTTACACGAGATCTCA
24210444 ATACTCACAT
Statistics
Matches: 210, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
47 2 0.01
48 204 0.97
49 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (48 bp):
TATGGTCTTACACGAGATCTCATAACGATGCCGATGCCATATCCCAGA
Found at i:24210264 original size:96 final size:96
Alignment explanation
Indices: 24210069--24210431 Score: 323
Period size: 96 Copynumber: 3.8 Consensus size: 96
24210059 CACATGAAAA
* * * * * * * *
24210069 GATGCCAATGCCATGTCCAAGATGTGGTCTTACATGGGATCTCACATCGATGCCAA---C--AGC
1 GATGCCGATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCAATGCCAATGCCATATC
* * *
24210129 CTAGCTATGGTCTTACA-CGAAGTCTCATAAC-
66 CTAGATATGGTCTTACATAGGA-TCTCAT-ACT
* * * * *
24210160 GGTGCCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCAATGCCAATGCCATATC
1 GATGCCGATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCAATGCCAATGCCATATC
* *
24210225 CTAAATATGGTCTTACATAGGATCTCATATT
66 CTAGATATGGTCTTACATAGGATCTCATACT
* * * *** *
24210256 GATGCCGATGTCATATCCCAGATATGGTCTTACAC-GAAGTCTCATA-AAGATGCTGTTGCCATG
1 GATGCCGATGCCATATCCCAGATATGGTCTTACACGGGA-TCTCATATCA-ATGCCAATGCCATA
* *
24210319 TCCCAGATATGGTCTTACATGGGATCTCATACT
64 TCCTAGATATGGTCTTACATAGGATCTCATACT
* * * * *
24210352 GATACCGATGCCATATCCCAGATATGGTCTTACACGAGATCTCATCTCGATGCCAATGTCATAT-
1 GATGCCGATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCAATGCCAATGCCATATC
24210416 CTCAGATATGGTCTTA
66 CT-AGATATGGTCTTA
24210432 TACGGGATCT
Statistics
Matches: 215, Mismatches: 45, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
91 46 0.21
94 1 0.00
95 5 0.02
96 160 0.74
97 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (96 bp):
GATGCCGATGCCATATCCCAGATATGGTCTTACACGGGATCTCATATCAATGCCAATGCCATATC
CTAGATATGGTCTTACATAGGATCTCATACT
Found at i:24210439 original size:96 final size:95
Alignment explanation
Indices: 24210164--24210448 Score: 329
Period size: 96 Copynumber: 3.0 Consensus size: 95
24210154 CATAACGGTG
* * * * * * *
24210164 CCGATGCCATGTCCCAGACATGGTCTTATACGGGACCTCATATCAATGCCAATGCCATATCCTAA
1 CCGATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGCCAATGCCATATCC-AG
* * *
24210229 ATATGGTCTTACATAGGATCTCATATTGATG
65 ATATGGTCTTACATGGGATCTCATACTGATA
* ** *** *
24210260 CCGATGTCATATCCCAGATATGGTCTTACACGA-AGTCTCATAAAGATGCTGTTGCCATGTCCCA
1 CCGATGCCATATCCCAGATATGGTCTTACACGAGA-TCTCATATCGATGCCAATGCCATAT-CCA
24210324 GATATGGTCTTACATGGGATCTCATACTGATA
64 GATATGGTCTTACATGGGATCTCATACTGATA
* *
24210356 CCGATGCCATATCCCAGATATGGTCTTACACGAGATCTCATCTCGATGCCAATGTCATATCTCAG
1 CCGATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGCCAATGCCATATC-CAG
* *
24210421 ATATGGTCTTATACGGGATCTCAATACT
65 ATATGGTCTTACATGGGATCTC-ATACT
24210449 CACATGTCGT
Statistics
Matches: 156, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
95 2 0.01
96 146 0.94
97 8 0.05
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (95 bp):
CCGATGCCATATCCCAGATATGGTCTTACACGAGATCTCATATCGATGCCAATGCCATATCCAGA
TATGGTCTTACATGGGATCTCATACTGATA
Found at i:24210443 original size:144 final size:144
Alignment explanation
Indices: 24210073--24210431 Score: 403
Period size: 144 Copynumber: 2.5 Consensus size: 144
24210063 TGAAAAGATG
* * * * *
24210073 CCAATGCCATGT-CCAAGATGTGGTCTTACATG-GGATCTCACATCGATGCCAA---C--AGCCT
1 CCAATGCCATATCCCAA-ATATGGTCTTACA-GAGGATCTCATATCGATGCCAATGTCATATCCC
* * * * * *
24210131 AGCTATGGTCTTACACGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGACATGGTCTTATACG
64 AGATATGGTCTTACACGAAGTCTCATAAAGATGCTGTTGCCATGTCCCAGACATGGTCTTACACG
*
24210196 GGACCTCATATCAATG
129 GGACCTCATATCAATA
* * * *
24210212 CCAATGCCATATCCTAAATATGGTCTTACATAGGATCTCATATTGATGCCGATGTCATATCCCAG
1 CCAATGCCATATCCCAAATATGGTCTTACAGAGGATCTCATATCGATGCCAATGTCATATCCCAG
* *
24210277 ATATGGTCTTACACGAAGTCTCATAAAGATGCTGTTGCCATGTCCCAGATATGGTCTTACATGGG
66 ATATGGTCTTACACGAAGTCTCATAAAGATGCTGTTGCCATGTCCCAGACATGGTCTTACACGGG
* *
24210342 ATCTCATA-CTGATA
131 ACCTCATATC-AATA
* * * *
24210356 CCGATGCCATATCCCAGATATGGTCTTACACGA-GATCTCATCTCGATGCCAATGTCATATCTCA
1 CCAATGCCATATCCCAAATATGGTCTTACA-GAGGATCTCATATCGATGCCAATGTCATATCCCA
24210420 GATATGGTCTTA
65 GATATGGTCTTA
24210432 TACGGGATCT
Statistics
Matches: 183, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
139 40 0.22
140 3 0.02
142 1 0.01
143 1 0.01
144 137 0.75
145 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (144 bp):
CCAATGCCATATCCCAAATATGGTCTTACAGAGGATCTCATATCGATGCCAATGTCATATCCCAG
ATATGGTCTTACACGAAGTCTCATAAAGATGCTGTTGCCATGTCCCAGACATGGTCTTACACGGG
ACCTCATATCAATA
Found at i:24212176 original size:16 final size:16
Alignment explanation
Indices: 24212157--24212206 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
24212147 CACTTCCACA
24212157 TTTTCATCATTCCAAG
1 TTTTCATCATTCCAAG
24212173 TTTTCA-C-TTCCACA-
1 TTTTCATCATTCCA-AG
24212187 TTTTCATCATTCCAAG
1 TTTTCATCATTCCAAG
24212203 TTTT
1 TTTT
24212207 TGGCGTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 11 0.37
15 4 0.13
16 15 0.50
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (16 bp):
TTTTCATCATTCCAAG
Found at i:24212183 original size:30 final size:30
Alignment explanation
Indices: 24212147--24212206 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
24212137 TAATTGTGTA
24212147 CACTTCCACATTTTCATCATTCCAAGTTTT
1 CACTTCCACATTTTCATCATTCCAAGTTTT
24212177 CACTTCCACATTTTCATCATTCCAAGTTTT
1 CACTTCCACATTTTCATCATTCCAAGTTTT
24212207 TGGCGTCATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.30, G:0.03, T:0.43
Consensus pattern (30 bp):
CACTTCCACATTTTCATCATTCCAAGTTTT
Found at i:24212190 original size:14 final size:14
Alignment explanation
Indices: 24212147--24212192 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
24212137 TAATTGTGTA
24212147 CACTTCCACATTTT
1 CACTTCCACATTTT
24212161 CATCATTCCA-AGTTTT
1 CA-C-TTCCACA-TTTT
24212177 CACTTCCACATTTT
1 CACTTCCACATTTT
24212191 CA
1 CA
24212193 TCATTCCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 13 0.46
15 4 0.14
16 11 0.39
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (14 bp):
CACTTCCACATTTT
Found at i:24215493 original size:16 final size:16
Alignment explanation
Indices: 24215472--24215502 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24215462 TGTCCTACTA
24215472 TTTTCTTTCCTCTCAC
1 TTTTCTTTCCTCTCAC
24215488 TTTTCTTTCCTCTCA
1 TTTTCTTTCCTCTCA
24215503 ATCACACTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTCTTTCCTCTCAC
Found at i:24218936 original size:61 final size:61
Alignment explanation
Indices: 24218868--24219009 Score: 284
Period size: 61 Copynumber: 2.3 Consensus size: 61
24218858 AGAAATAAAC
24218868 TTTTGTTTTCAACATTATGAAAAAGTTTTGGTGAAAAACTGAAATTAAAATCAGCTAGAAA
1 TTTTGTTTTCAACATTATGAAAAAGTTTTGGTGAAAAACTGAAATTAAAATCAGCTAGAAA
24218929 TTTTGTTTTCAACATTATGAAAAAGTTTTGGTGAAAAACTGAAATTAAAATCAGCTAGAAA
1 TTTTGTTTTCAACATTATGAAAAAGTTTTGGTGAAAAACTGAAATTAAAATCAGCTAGAAA
24218990 TTTTGTTTTCAACATTATGA
1 TTTTGTTTTCAACATTATGA
24219010 GACGATGCAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 81 1.00
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (61 bp):
TTTTGTTTTCAACATTATGAAAAAGTTTTGGTGAAAAACTGAAATTAAAATCAGCTAGAAA
Found at i:24224645 original size:42 final size:42
Alignment explanation
Indices: 24224586--24224680 Score: 190
Period size: 42 Copynumber: 2.3 Consensus size: 42
24224576 AGAATTAGGT
24224586 ACACGGGCGTGTGCCTCAGCTATGTGGATGACTTGACCTTGA
1 ACACGGGCGTGTGCCTCAGCTATGTGGATGACTTGACCTTGA
24224628 ACACGGGCGTGTGCCTCAGCTATGTGGATGACTTGACCTTGA
1 ACACGGGCGTGTGCCTCAGCTATGTGGATGACTTGACCTTGA
24224670 ACACGGGCGTG
1 ACACGGGCGTG
24224681 CTACACGGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (42 bp):
ACACGGGCGTGTGCCTCAGCTATGTGGATGACTTGACCTTGA
Found at i:24232809 original size:45 final size:45
Alignment explanation
Indices: 24232749--24232867 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 45
24232739 TTATGAGAGC
* * * *
24232749 CAGTGTAAGATCATGTCTAGGACATGCACCGGCTAC-GAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGCAACGGC-ACAGAGAGGTGT
* *
24232794 CAGTGTAAGACCATGTCTGGGATATAGCAACGGCACATATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCAACGGCAC--AGAGAGGTGT
24232842 CAGTGTAAGACCATGTCTGGGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
24232868 GTGTCGGCCT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 24 0.38
46 7 0.11
47 1 0.02
48 31 0.49
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGCAACGGCACAGAGAGGTGT
Found at i:24240514 original size:48 final size:47
Alignment explanation
Indices: 24240318--24240584 Score: 194
Period size: 48 Copynumber: 5.7 Consensus size: 47
24240308 GGTTAATTGT
*
24240318 GTGCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCCAC-ATTATGA-
1 GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGG-CACTA-TA-GAG
* * * *
24240364 GAGCCAATGTAAGATCATGTCTGGGACATGGCATCAGCA-T-TGAGATG
1 GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCACTAT-AGA-G
* * * * *
24240411 ATAGCTAGTGTAAG-ACATGTCTAGGACAT-GCATCAG--CTACTAGAT
1 GT-GCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCACTA-TAGAG
* * *
24240456 GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCGGCACGTATAGAG
1 GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCAC-TATAGAG
* * *
24240504 GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGACACAAATATGTG
1 GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCAC-TATA-GAG
* * *
24240553 AGAGCTAGTGTAAGACCATGTCTGGGACATGG
1 -GTGCCAGTGTAAGAACATGTCTGGGACATGG
24240585 GGTCAGCCTC
Statistics
Matches: 174, Mismatches: 30, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.05
45 17 0.10
46 26 0.15
47 31 0.18
48 59 0.34
49 4 0.02
50 28 0.16
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GTGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCACTATAGAG
Found at i:24251386 original size:6 final size:6
Alignment explanation
Indices: 24251324--24251378 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
24251314 AATCCTCTTA
* *
24251324 TCTTTT TATTCT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
24251372 TCTTTT T
1 TCTTTT T
24251379 TTTATTTTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:24257589 original size:23 final size:24
Alignment explanation
Indices: 24257566--24257621 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
24257556 CGCCTAGAGA
*
24257566 TAGGGTGACAAGATTTTTCCAGAT
1 TAGGGTGACAAGATTTTGCCAGAT
*
24257590 TAAGGTGACAAGATTTTGCCAGAT
1 TAGGGTGACAAGATTTTGCCAGAT
24257614 TAGGGTGA
1 TAGGGTGA
24257622 AACCTAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (24 bp):
TAGGGTGACAAGATTTTGCCAGAT
Found at i:24261905 original size:26 final size:26
Alignment explanation
Indices: 24261874--24261929 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
24261864 TGAAATTCCC
24261874 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
24261900 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
24261926 ATCA
1 ATCA
24261930 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:24264093 original size:20 final size:18
Alignment explanation
Indices: 24264056--24264095 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
24264046 CTTGGTTGAG
*
24264056 AAGAAAAAGAAAATGGGA
1 AAGAAAAAGAAAACGGGA
24264074 AAGAAAAAGGAAAAACGGGA
1 AAGAAAAA-G-AAAACGGGA
24264094 AA
1 AA
24264096 ATGAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.28, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAAACGGGA
Found at i:24266012 original size:24 final size:24
Alignment explanation
Indices: 24265980--24266026 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
24265970 TTTTAGTTTT
* *
24265980 TTTTCAATTTTAAATATATAAAAA
1 TTTTAAATTATAAATATATAAAAA
* *
24266004 TTTTAAATTATATATATTTAAAA
1 TTTTAAATTATAAATATATAAAA
24266027 TAAAAGTACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTAAATTATAAATATATAAAAA
Found at i:24267963 original size:25 final size:27
Alignment explanation
Indices: 24267925--24267993 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
24267915 GTTGTTAGTA
*
24267925 ATTATTATTATTAGTAAAAAA-C-ATT
1 ATTATTATTGTTAGTAAAAAACCTATT
24267950 ATTATTATTGTTAGTAAAAAACCCTTATT
1 ATTATTATTGTTAGTAAAAAA-CC-TATT
24267979 ATTATTATTGTTAGT
1 ATTATTATTGTTAGT
24267994 TATTATTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
25 20 0.51
27 1 0.03
29 18 0.46
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (27 bp):
ATTATTATTGTTAGTAAAAAACCTATT
Found at i:24267997 original size:42 final size:39
Alignment explanation
Indices: 24267951--24268078 Score: 136
Period size: 39 Copynumber: 3.2 Consensus size: 39
24267941 AAAAACATTA
24267951 TTATTATTGTTAGTAAAAAACCCTTATTATTATTATTGTTAG
1 TTATTATTGTTAGTAAAAAA--C-TATTATTATTATTGTTAG
** *
24267993 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGG
1 ---TTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
* *
24268035 TTATCATTATTAGTAAAAAACT-TTA--ATTATTGTTAG
1 TTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
24268071 TTATTATT
1 TTATTATT
24268079 ATTGTTGACT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
36 15 0.20
38 3 0.04
39 20 0.27
42 15 0.20
43 1 0.01
45 20 0.27
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (39 bp):
TTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
Found at i:24267997 original size:45 final size:42
Alignment explanation
Indices: 24267948--24268084 Score: 169
Period size: 42 Copynumber: 3.3 Consensus size: 42
24267938 GTAAAAAACA
24267948 TTATTATTATTGTTAGTAAAAAACCCTTATTATTATTATTGTTAG
1 TTATTATTATTGTTAGTAAAAAA--C-TATTATTATTATTGTTAG
** *
24267993 TTATTATTATTGTTAGTAAAAAACTATTATTAGGATTGTTGG
1 TTATTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
*
24268035 TTATCATTA---TTAGTAAAAAACT-TTA--ATTATTGTTAG
1 TTATTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
24268071 TTATTATTATTGTT
1 TTATTATTATTGTT
24268085 GACTTATATT
Statistics
Matches: 81, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
36 16 0.20
38 3 0.04
39 15 0.19
42 23 0.28
43 1 0.01
45 23 0.28
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (42 bp):
TTATTATTATTGTTAGTAAAAAACTATTATTATTATTGTTAG
Found at i:24267998 original size:16 final size:16
Alignment explanation
Indices: 24267977--24268009 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24267967 AAAACCCTTA
24267977 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
24267993 TTATTATTATTGTTAG
1 TTATTATTATTGTTAG
24268009 T
1 T
24268010 AAAAAACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTATTATTATTGTTAG
Found at i:24269686 original size:86 final size:86
Alignment explanation
Indices: 24269541--24269710 Score: 340
Period size: 86 Copynumber: 2.0 Consensus size: 86
24269531 TAAAGAATGG
24269541 AGTAAGCTTTCAAAGCTTAGTAAGTTTTAAGCAATACAAACAATTAAAACTTGTCATTTAAATCG
1 AGTAAGCTTTCAAAGCTTAGTAAGTTTTAAGCAATACAAACAATTAAAACTTGTCATTTAAATCG
24269606 AGCATTTAGTATCACCAAACT
66 AGCATTTAGTATCACCAAACT
24269627 AGTAAGCTTTCAAAGCTTAGTAAGTTTTAAGCAATACAAACAATTAAAACTTGTCATTTAAATCG
1 AGTAAGCTTTCAAAGCTTAGTAAGTTTTAAGCAATACAAACAATTAAAACTTGTCATTTAAATCG
24269692 AGCATTTAGTATCACCAAA
66 AGCATTTAGTATCACCAAA
24269711 ATAATATTCT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (86 bp):
AGTAAGCTTTCAAAGCTTAGTAAGTTTTAAGCAATACAAACAATTAAAACTTGTCATTTAAATCG
AGCATTTAGTATCACCAAACT
Found at i:24273748 original size:21 final size:20
Alignment explanation
Indices: 24273718--24273757 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
24273708 TCTGAATCCC
24273718 CATTTGCAA-CACATTCATCT
1 CATTTGCAACCA-ATTCATCT
24273738 CATTTAGCAACCAATTCATC
1 CATTT-GCAACCAATTCATC
24273758 ATCGACTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 11 0.61
22 2 0.11
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (20 bp):
CATTTGCAACCAATTCATCT
Found at i:24278041 original size:38 final size:38
Alignment explanation
Indices: 24277959--24278130 Score: 236
Period size: 38 Copynumber: 4.5 Consensus size: 38
24277949 GAATCCAGTC
* * * *
24277959 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACGAAGCCTGCGAGA-TTTAA-CCCGAATATAAT
* *
24277999 ACCAGCACTAAGCCTGCGAGATTTAACCTGAATATAAT
1 ACCAGCACGAAGCCTGCGAGATTTAACCCGAATATAAT
* * *
24278037 ACCAGCACTAAGCCTGCGGGACTTAACCCGAATATAAT
1 ACCAGCACGAAGCCTGCGAGATTTAACCCGAATATAAT
*
24278075 ACCAGCACGAAGCCTGCGAGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGAGATTTAACCCGAATATAAT
24278113 ACCAGCACGAAGCCTGCG
1 ACCAGCACGAAGCCTGCG
24278131 GATCTTTAAG
Statistics
Matches: 120, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
38 97 0.81
39 5 0.04
40 18 0.15
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGAGATTTAACCCGAATATAAT
Found at i:24278088 original size:76 final size:78
Alignment explanation
Indices: 24277959--24278144 Score: 279
Period size: 76 Copynumber: 2.4 Consensus size: 78
24277949 GAATCCAGTC
* * *
24277959 ACCAGCACAAAACCTGCGGGACTTTAAGCTCGAATATAATACCAGCACTAAGCCTGCGAGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGAAGCCTGCGAGATTTA
*
24278024 ACCTGAATATAAT
66 ACCCGAATATAAT
*
24278037 ACCAGCACTAAGCCTGCGGGAC-TTAA-CCCGAATATAATACCAGCACGAAGCCTGCGAGATTTA
1 ACCAGCACAAAGCCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGAAGCCTGCGAGATTTA
*
24278100 ACCCGGATATAAT
66 ACCCGAATATAAT
*
24278113 ACCAGCACGAAGCCTGC-GGATCTTTAAGCCCG
1 ACCAGCACAAAGCCTGCGGGA-CTTTAAGCCCG
24278145 GATACACATC
Statistics
Matches: 98, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
75 3 0.03
76 63 0.64
77 8 0.08
78 24 0.24
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (78 bp):
ACCAGCACAAAGCCTGCGGGACTTTAAGCCCGAATATAATACCAGCACGAAGCCTGCGAGATTTA
ACCCGAATATAAT
Found at i:24283058 original size:26 final size:25
Alignment explanation
Indices: 24283029--24283168 Score: 120
Period size: 26 Copynumber: 5.1 Consensus size: 25
24283019 AGTTTGATCC
24283029 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAAT-TTGTAATGTATTT
* *
24283055 AATTAGTGTTCTAATTAGATTAATGTATTT
1 AATTA--GAT-TAATTTG--TAATGTATTT
24283085 AATTAGATTAATATTGTAATGTATTT
1 AATTAGATTAAT-TTGTAATGTATTT
*
24283111 AATTA-ATGTTCCAATTAGATTAATGTATTT
1 AATTAGA--TT--AATTTG--TAATGTATTT
24283141 AATTAGATTAATGTTGTAATGTATTT
1 AATTAGATTAAT-TTGTAATGTATTT
24283167 AA
1 AA
24283169 AGTTTATTCC
Statistics
Matches: 94, Mismatches: 6, Indels: 28
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.01
26 32 0.34
27 9 0.10
28 12 0.13
29 9 0.10
30 30 0.32
31 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (25 bp):
AATTAGATTAATTTGTAATGTATTT
Found at i:24283079 original size:30 final size:30
Alignment explanation
Indices: 24283045--24283146 Score: 124
Period size: 30 Copynumber: 3.5 Consensus size: 30
24283035 ATTAATGTTG
24283045 TAATGTATTTAATTAGTGTTCTAATTAGAT
1 TAATGTATTTAATTAGTGTTCTAATTAGAT
* *
24283075 TAATGTATTTAATTA--GAT-TAA-TA-TT
1 TAATGTATTTAATTAGTGTTCTAATTAGAT
* *
24283100 GTAATGTATTTAATTAATGTTCCAATTAGAT
1 -TAATGTATTTAATTAGTGTTCTAATTAGAT
24283131 TAATGTATTTAATTAG
1 TAATGTATTTAATTAG
24283147 ATTAATGTTG
Statistics
Matches: 60, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.02
26 17 0.28
27 3 0.05
28 4 0.07
29 2 0.03
30 32 0.53
31 1 0.02
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (30 bp):
TAATGTATTTAATTAGTGTTCTAATTAGAT
Found at i:24283089 original size:18 final size:18
Alignment explanation
Indices: 24283066--24283154 Score: 92
Period size: 18 Copynumber: 4.8 Consensus size: 18
24283056 ATTAGTGTTC
24283066 TAATTAGATTAATGTATT
1 TAATTAGATTAATGTATT
*
24283084 TAATTAGATTAATATTGTAATG
1 TAATTAGATT-A-A-TGT-ATT
* *
24283106 TATTTA-ATTAATGT-TC
1 TAATTAGATTAATGTATT
*
24283122 CAATTAGATTAATGTATT
1 TAATTAGATTAATGTATT
24283140 TAATTAGATTAATGT
1 TAATTAGATTAATGT
24283155 TGTAATGTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
16 5 0.09
17 8 0.14
18 28 0.48
19 2 0.03
20 2 0.03
21 6 0.10
22 7 0.12
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.48
Consensus pattern (18 bp):
TAATTAGATTAATGTATT
Found at i:24283090 original size:56 final size:56
Alignment explanation
Indices: 24283029--24283168 Score: 253
Period size: 56 Copynumber: 2.5 Consensus size: 56
24283019 AGTTTGATCC
* *
24283029 AATTAGATTAATGTTGTAATGTATTTAATTAGTGTTCTAATTAGATTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTTAATTAATGTTCCAATTAGATTAATGTATTT
*
24283085 AATTAGATTAATATTGTAATGTATTTAATTAATGTTCCAATTAGATTAATGTATTT
1 AATTAGATTAATGTTGTAATGTATTTAATTAATGTTCCAATTAGATTAATGTATTT
24283141 AATTAGATTAATGTTGTAATGTATTTAA
1 AATTAGATTAATGTTGTAATGTATTTAA
24283169 AGTTTATTCC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 80 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (56 bp):
AATTAGATTAATGTTGTAATGTATTTAATTAATGTTCCAATTAGATTAATGTATTT
Found at i:24285955 original size:51 final size:50
Alignment explanation
Indices: 24285851--24285962 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 50
24285841 AAATATATTA
* * * *
24285851 TTTTTATATTATTTTAGTACATAATGTTTCATACTATTTTCATATTTTATT
1 TTTTTATATTATTTTAGTACATAATATTTCAAACTATTTTCATA-GTGATT
* *
24285902 TTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATT-TTAGTG-TT
1 TTTTTATATTATTTTAGTACATAATATTTCAAA-CTATT-TTCATAGTGATT
24285952 TTTTTATATTA
1 TTTTTATATTA
24285963 ATTTGATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
50 13 0.25
51 32 0.60
52 6 0.11
53 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (50 bp):
TTTTTATATTATTTTAGTACATAATATTTCAAACTATTTTCATAGTGATT
Found at i:24286145 original size:143 final size:146
Alignment explanation
Indices: 24285901--24286194 Score: 438
Period size: 145 Copynumber: 2.0 Consensus size: 146
24285891 CATATTTTAT
* * *
24285901 TTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTAGTGTTTTTTTATATTAATT
1 TTTTTTATATTATTTTAATACATAATATTTCAAATGTATTATTTTAATGATTTTTTATATTAATT
*
24285966 TGATAAATAACTCTGATTTTGACACTTTGTTGGTATTTTTT-ATTTTCGGATTTTATTTTTTAAA
66 TGATAAATAACCCTGATTTTGACACTTTGTTGGTATTTTTTAATTTTCGGATTTTATTTTTTAAA
24286030 ATATCA-TATTTTCGTA
131 ATAT-ATTATTTTCGTA
* *
24286046 TTTTTTATATTATTTTAATATATAATGTTTCAAATGTATTATTTTAAT-ATTTTTT-TATTAATT
1 TTTTTTATATTATTTTAATACATAATATTTCAAATGTATTATTTTAATGATTTTTTATATTAATT
* *
24286109 T-AGTAAATTACCCTGATTTTGACTA-TTTGTTTGTATTTTTTAAATTTTCGGATTTTATTTTTT
66 TGA-TAAATAACCCTGATTTTGAC-ACTTTGTTGGTATTTTTT-AATTTTCGGATTTTATTTTTT
24286172 AAAATATATTATTTTCGTA
128 AAAATATATTATTTTCGTA
24286191 TTTT
1 TTTT
24286195 ATTTTTTATA
Statistics
Matches: 136, Mismatches: 8, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
142 1 0.01
143 42 0.31
144 8 0.06
145 85 0.62
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (146 bp):
TTTTTTATATTATTTTAATACATAATATTTCAAATGTATTATTTTAATGATTTTTTATATTAATT
TGATAAATAACCCTGATTTTGACACTTTGTTGGTATTTTTTAATTTTCGGATTTTATTTTTTAAA
ATATATTATTTTCGTA
Found at i:24286278 original size:17 final size:17
Alignment explanation
Indices: 24286252--24286284 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
24286242 AAAAAAGTTT
24286252 TTTTCATATTTTATTTC
1 TTTTCATATTTTATTTC
*
24286269 TTTTCGTATTTTATTT
1 TTTTCATATTTTATTT
24286285 TTTCATTAAG
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:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTCATATTTTATTTC
Found at i:24286318 original size:17 final size:17
Alignment explanation
Indices: 24286249--24286329 Score: 51
Period size: 16 Copynumber: 4.9 Consensus size: 17
24286239 CTCAAAAAAG
*
24286249 TTTTTTTCA-TATTTTA
1 TTTTTTTTAGTATTTTA
* *
24286265 TTTCTTTTCGTATTTTA
1 TTTTTTTTAGTATTTTA
* * ***
24286282 -TTTTTTCATTAAGATA
1 TTTTTTTTAGTATTTTA
24286298 -TTTTTTTAGTATTTTA
1 TTTTTTTTAGTATTTTA
* *
24286314 TTTTTTATACTATTTT
1 TTTTTTTTAGTATTTT
24286330 TGTAAAAGGT
Statistics
Matches: 46, Mismatches: 17, Indels: 3
0.70 0.26 0.05
Matches are distributed among these distances:
16 26 0.57
17 20 0.43
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTTTTAGTATTTTA
Found at i:24286833 original size:3 final size:3
Alignment explanation
Indices: 24286827--24286879 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
24286817 TTTCCTCCTT
* *
24286827 TTC TTC TTTC TT- TTC TTC TTC TCC TTC TT- TTC TTC TTC TCC TTC
1 TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
24286871 TTTC TTC TT
1 -TTC TTC TT
24286880 TCCGAAATGG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 4 0.10
3 32 0.76
4 6 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:24286842 original size:9 final size:8
Alignment explanation
Indices: 24286834--24286880 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
24286824 CTTTTCTTCT
24286834 TTCTTTTC
1 TTCTTTTC
*
24286842 TTCTTCTCC
1 TTCTT-TTC
24286851 TTCTTTTC
1 TTCTTTTC
*
24286859 TTCTTCTCC
1 TTCTT-TTC
24286868 TTC-TTTC
1 TTCTTTTC
24286875 TTCTTT
1 TTCTTT
24286881 CCGAAATGGA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.16
8 15 0.47
9 12 0.38
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
TTCTTTTC
Found at i:24286856 original size:17 final size:17
Alignment explanation
Indices: 24286834--24286879 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
24286824 CTTTTCTTCT
24286834 TTCTTTTCTTCTTCTCC
1 TTCTTTTCTTCTTCTCC
24286851 TTCTTTTCTTCTTCTCC
1 TTCTTTTCTTCTTCTCC
24286868 TTC-TTTCTTCTT
1 TTCTTTTCTTCTT
24286880 TCCGAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (17 bp):
TTCTTTTCTTCTTCTCC
Found at i:24286871 original size:29 final size:30
Alignment explanation
Indices: 24286819--24286878 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
24286809 CTCCTTCCTT
*
24286819 TCCTCCTTTTCTTCTTTCTTTTC-TTCTTC
1 TCCTCCTTTTCTTCTTTCTCTTCTTTCTTC
*
24286848 TCCTTCTTTTCTTC-TTCTCCTTCTTTCTTC
1 TCCTCCTTTTCTTCTTTCT-CTTCTTTCTTC
24286878 T
1 T
24286879 TTCCGAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (30 bp):
TCCTCCTTTTCTTCTTTCTCTTCTTTCTTC
Found at i:24287071 original size:16 final size:15
Alignment explanation
Indices: 24287052--24287081 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
24287042 TTTCGTTTTT
24287052 TATTTTTTTATAACAG
1 TATTTTTTT-TAACAG
24287068 TATTTTTTTTAACA
1 TATTTTTTTTAACA
24287082 AAAATGTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (15 bp):
TATTTTTTTTAACAG
Found at i:24289712 original size:19 final size:20
Alignment explanation
Indices: 24289675--24289715 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24289665 AAACTACGTT
*
24289675 AAAATAGATGAAGAAAGAAG
1 AAAATAGAGGAAGAAAGAAG
24289695 AAAATAGAGGAA-AAAGAAG
1 AAAATAGAGGAAGAAAGAAG
24289714 AA
1 AA
24289716 GAGAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.24, T:0.07
Consensus pattern (20 bp):
AAAATAGAGGAAGAAAGAAG
Found at i:24291842 original size:34 final size:34
Alignment explanation
Indices: 24291799--24291866 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
24291789 CATCATTGTT
24291799 GTCTTATTGAGAAGGCTCTAGTGCTTGATGTGTA
1 GTCTTATTGAGAAGGCTCTAGTGCTTGATGTGTA
**
24291833 GTCTTATTGAGAATTCTCTAGTGCTTGATGTGTA
1 GTCTTATTGAGAAGGCTCTAGTGCTTGATGTGTA
24291867 AGGACATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.12, G:0.26, T:0.41
Consensus pattern (34 bp):
GTCTTATTGAGAAGGCTCTAGTGCTTGATGTGTA
Found at i:24294404 original size:8 final size:8
Alignment explanation
Indices: 24294391--24294448 Score: 55
Period size: 8 Copynumber: 6.9 Consensus size: 8
24294381 TACGCTTTTT
24294391 TATATTTA
1 TATATTTA
24294399 TATATTTTTA
1 TATA--TTTA
*
24294409 CATATGTTA
1 TATAT-TTA
*
24294418 TAGGATTTA
1 TA-TATTTA
24294427 TATATTTA
1 TATATTTA
24294435 TAT-TTTA
1 TATATTTA
24294442 TATATTT
1 TATATTT
24294449 TCAAAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
7 7 0.17
8 16 0.39
9 9 0.22
10 9 0.22
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (8 bp):
TATATTTA
Found at i:24295832 original size:49 final size:49
Alignment explanation
Indices: 24295776--24295875 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
24295766 AATCTTAACA
* * *
24295776 TTCCATCATTCATTTAACCAACATTCTTTACCAAAATGCATGATAAACC
1 TTCCATCATTCATGTAACCAACATTCTTTACCAAAATACACGATAAACC
24295825 TTCCATCATTCATGTAACCAACATTCTTTACCAAAATACACGATAAACC
1 TTCCATCATTCATGTAACCAACATTCTTTACCAAAATACACGATAAACC
24295874 TT
1 TT
24295876 AACCAACTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (49 bp):
TTCCATCATTCATGTAACCAACATTCTTTACCAAAATACACGATAAACC
Done.