Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 54 of 136
Found at i:17753168 original size:59 final size:58
Alignment explanation
Indices: 17753091--17753285 Score: 241
Period size: 59 Copynumber: 3.3 Consensus size: 58
17753081 AAGCATACTC
* *
17753091 AATTATACAAATTATTACAACTATTGTAATGTTTTGTATAATTACACAAAACATTACCT
1 AATTACACAAATTATTACAA-TATTGTAATGTTTTGTATAATTACACAAAACATTGCCT
* * * *
17753150 AATTGCACAAATTGTTACAATATTTGTAATGTTTTGTTTAATTACACAAAACATTGGCT
1 AATTACACAAATTATTACAATA-TTGTAATGTTTTGTATAATTACACAAAACATTGCCT
* ** * *
17753209 AATTACACAAATTATTACAGATCTCATAAAGTTTTGTGTAATTACAC--AACATTGCCT
1 AATTACACAAATTATTACA-ATATTGTAATGTTTTGTATAATTACACAAAACATTGCCT
*
17753266 TATTACACAAATTATTACAA
1 AATTACACAAATTATTACAA
17753286 ATCTAATAAA
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
56 1 0.01
57 27 0.23
58 2 0.02
59 87 0.73
60 2 0.02
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (58 bp):
AATTACACAAATTATTACAATATTGTAATGTTTTGTATAATTACACAAAACATTGCCT
Found at i:17755957 original size:17 final size:18
Alignment explanation
Indices: 17755935--17755968 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17755925 GATTGAGGAT
*
17755935 GGTTGTTGG-GGAATGGA
1 GGTTGTGGGAGGAATGGA
17755952 GGTTGTGGGAGGAATGG
1 GGTTGTGGGAGGAATGG
17755969 TTGACTCTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.00, G:0.56, T:0.26
Consensus pattern (18 bp):
GGTTGTGGGAGGAATGGA
Found at i:17760280 original size:108 final size:108
Alignment explanation
Indices: 17760141--17760358 Score: 427
Period size: 108 Copynumber: 2.0 Consensus size: 108
17760131 CGAGGTATTT
17760141 TTGCTTCTGTTTGTTACTCTACATGTATAACTTACCAGAAAATATATCCTTTAAGATAGAATTTT
1 TTGCTTCTGTTTGTTACTCTACATGTATAACTTACCAGAAAATATATCCTTTAAGATAGAATTTT
17760206 TGTATCAAAGAAAATAGGAATTTAATTAACATGGTGTTTGTAC
66 TGTATCAAAGAAAATAGGAATTTAATTAACATGGTGTTTGTAC
*
17760249 TTGCTTCTGTTTGTTACTCTACATGTGTAACTTACCAGAAAATATATCCTTTAAGATAGAATTTT
1 TTGCTTCTGTTTGTTACTCTACATGTATAACTTACCAGAAAATATATCCTTTAAGATAGAATTTT
17760314 TGTATCAAAGAAAATAGGAATTTAATTAACATGGTGTTTGTAC
66 TGTATCAAAGAAAATAGGAATTTAATTAACATGGTGTTTGTAC
17760357 TT
1 TT
17760359 TTATACTTGC
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 109 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (108 bp):
TTGCTTCTGTTTGTTACTCTACATGTATAACTTACCAGAAAATATATCCTTTAAGATAGAATTTT
TGTATCAAAGAAAATAGGAATTTAATTAACATGGTGTTTGTAC
Found at i:17764728 original size:38 final size:38
Alignment explanation
Indices: 17764686--17764758 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
17764676 TGCGTACCCG
* *
17764686 TATTGATATGTTTTGATGTATCT-ATTTGGATTTATCGA
1 TATTGACATGTTTTAATGTA-CTGATTTGGATTTATCGA
*
17764724 TATTGACATGTTTTAATGTACTGTTTTGGATTTAT
1 TATTGACATGTTTTAATGTACTGATTTGGATTTAT
17764759 TGATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 2 0.06
38 29 0.94
ACGTcount: A:0.23, C:0.05, G:0.18, T:0.53
Consensus pattern (38 bp):
TATTGACATGTTTTAATGTACTGATTTGGATTTATCGA
Found at i:17767105 original size:21 final size:21
Alignment explanation
Indices: 17767065--17767106 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17767055 TTTTCTTAAG
**
17767065 ATATGAATTGCATTGTATTGA
1 ATATGAATTGCATTAAATTGA
*
17767086 ATATGAATTGTATTAAATTGA
1 ATATGAATTGCATTAAATTGA
17767107 TGTTAAATTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (21 bp):
ATATGAATTGCATTAAATTGA
Found at i:17767604 original size:26 final size:26
Alignment explanation
Indices: 17767568--17767654 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
17767558 TGAGTGTCCT
*
17767568 ATTATATGGCTCTTCGTGAGCTTCCCG
1 ATTA-ATGGCTCTTCGTGAGCTTCCCA
* *
17767595 ATTGAA-GGCTCTTTGTGAGCTTCCTA
1 ATT-AATGGCTCTTCGTGAGCTTCCCA
*
17767621 ATTAATGGCTCTTCG-GAGCTTTCCA
1 ATTAATGGCTCTTCGTGAGCTTCCCA
17767646 A-T-ATGGCTC
1 ATTAATGGCTC
17767655 GCTTGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.13
24 1 0.02
25 11 0.21
26 28 0.54
27 4 0.08
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
ATTAATGGCTCTTCGTGAGCTTCCCA
Found at i:17767711 original size:24 final size:24
Alignment explanation
Indices: 17767684--17767745 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
17767674 TGGCATTCCG
17767684 GAGCTTCCCGTTATTGGCTCTTAT
1 GAGCTTCCCGTTATTGGCTCTTAT
*
17767708 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCTTAT
*
17767732 GAGCTTCCCATTAT
1 GAGCTTCCCGTTAT
17767746 ACAGCCCAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.40
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCTTAT
Found at i:17767799 original size:25 final size:25
Alignment explanation
Indices: 17767684--17767801 Score: 73
Period size: 25 Copynumber: 4.8 Consensus size: 25
17767674 TGGCATTCCG
* *
17767684 GAGCTTCCCGTTAT-TGGCTCTTAT
1 GAGCTTCCAGTTATATGGCTCATAT
* * *
17767708 GAGCTTCCTGAT-TATGGCTCTTAT
1 GAGCTTCCAGTTATATGGCTCATAT
** * *
17767732 GAGCTTCCCA-TTATACAGCCCAGAT
1 GAGCTT-CCAGTTATATGGCTCATAT
* * * *
17767757 AAGCTTCCCA-ATACATGGCTCACAT
1 GAGCTT-CCAGTTATATGGCTCATAT
17767782 GAGCTTCCAGTTATATGGCT
1 GAGCTTCCAGTTATATGGCT
17767802 TGAGAGAGGG
Statistics
Matches: 71, Mismatches: 19, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.01
24 30 0.42
25 40 0.56
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (25 bp):
GAGCTTCCAGTTATATGGCTCATAT
Found at i:17772262 original size:12 final size:12
Alignment explanation
Indices: 17772245--17772276 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
17772235 AAGATGCTGT
*
17772245 TGTGGTGCATAG
1 TGTGGTGCATAA
17772257 TGTGGTGCATAA
1 TGTGGTGCATAA
17772269 TGTGGTGC
1 TGTGGTGC
17772277 TTGTGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.41, T:0.34
Consensus pattern (12 bp):
TGTGGTGCATAA
Found at i:17774398 original size:29 final size:29
Alignment explanation
Indices: 17774366--17774428 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
17774356 CATTTATCTT
*
17774366 AGATCGCCACAAAGGGATCCTTTTAACAG
1 AGATCGCCACAAAGGCATCCTTTTAACAG
* * * *
17774395 AGATTGCCACAAATGCTTTCTTTTAACAG
1 AGATCGCCACAAAGGCATCCTTTTAACAG
17774424 AGATC
1 AGATC
17774429 ACTATAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AGATCGCCACAAAGGCATCCTTTTAACAG
Found at i:17774437 original size:29 final size:29
Alignment explanation
Indices: 17774385--17774447 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
17774375 CAAAGGGATC
** *
17774385 CTTTTAACAGAGATTGCCACAAATGCTTT
1 CTTTTAACAGAGATCACCACAAATACTTT
* *
17774414 CTTTTAACAGAGATCACTATAAATACTTT
1 CTTTTAACAGAGATCACCACAAATACTTT
*
17774443 TTTTT
1 CTTTT
17774448 TCAGAAATAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (29 bp):
CTTTTAACAGAGATCACCACAAATACTTT
Found at i:17787029 original size:18 final size:18
Alignment explanation
Indices: 17787002--17787036 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17786992 AAACAAAACT
17787002 TGAGAAAATTAAGAGAGG
1 TGAGAAAATTAAGAGAGG
* *
17787020 TGAGAGAATTGAGAGAG
1 TGAGAAAATTAAGAGAG
17787037 TTGGATTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (18 bp):
TGAGAAAATTAAGAGAGG
Found at i:17787587 original size:18 final size:18
Alignment explanation
Indices: 17787544--17787587 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17787534 TTCTCATGTT
*
17787544 TTTATATAATTTACATTAA
1 TTTATA-AATTTAAATTAA
* *
17787563 TTCATAAATTTAAATTTA
1 TTTATAAATTTAAATTAA
17787581 TTTATAA
1 TTTATAA
17787588 TTACTTGATC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATAAATTTAAATTAA
Found at i:17787767 original size:26 final size:26
Alignment explanation
Indices: 17787697--17787770 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
17787687 TTAGGGCTAA
*
17787697 TTTGATAA-TGCTTTT-AAAAAGTACT
1 TTTGAGAAGTGCTTTTGAAAAA-TACT
* *
17787722 TTTGAGAAGTGCTGTGGAAAAATACT
1 TTTGAGAAGTGCTTTTGAAAAATACT
*
17787748 TTTGAGAAGTGTTTTTGAAAAAT
1 TTTGAGAAGTGCTTTTGAAAAAT
17787771 TTGAGTGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 7 0.17
26 29 0.71
27 5 0.12
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.39
Consensus pattern (26 bp):
TTTGAGAAGTGCTTTTGAAAAATACT
Found at i:17797284 original size:14 final size:16
Alignment explanation
Indices: 17797265--17797297 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
17797255 AAATCGCAAC
17797265 AAATCAT-TTTT-CTA
1 AAATCATATTTTGCTA
17797279 AAATCATATTTTGCTA
1 AAATCATATTTTGCTA
17797295 AAA
1 AAA
17797298 ACCAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATCATATTTTGCTA
Found at i:17799799 original size:29 final size:30
Alignment explanation
Indices: 17799711--17799944 Score: 234
Period size: 29 Copynumber: 8.0 Consensus size: 30
17799701 TATTGACGAT
* *
17799711 CATCG-ACTAATGAAAAGGGATAGTCTCGAC
1 CATCGAACT-ATGAAAAGGGATGGTGTCGAC
* * *
17799741 TATCGAACAATGAAAAGGGATGGTGACGAC
1 CATCGAACTATGAAAAGGGATGGTGTCGAC
*
17799771 CATCGAA-TATGAAAAGGGATAGCT-TCGAC
1 CATCGAACTATGAAAAGGGAT-GGTGTCGAC
* * * **
17799800 TATCG-ATTATGAAAAGGGATAGTGAGGAC
1 CATCGAACTATGAAAAGGGATGGTGTCGAC
**
17799829 CATC-AACTATGAAAAGGGATGGTGAGGAC
1 CATCGAACTATGAAAAGGGATGGTGTCGAC
17799858 CATC-AACTATGAAAAGGGATGGTGAT-GAC
1 CATCGAACTATGAAAAGGGATGGTG-TCGAC
* *
17799887 CATC-AACTATGAAAAGGGATGGTTTTGAC
1 CATCGAACTATGAAAAGGGATGGTGTCGAC
*
17799916 CATCGAA-TATGAAAAGGGATGGTGACGAC
1 CATCGAACTATGAAAAGGGATGGTGTCGAC
17799945 TATCAAAATT
Statistics
Matches: 174, Mismatches: 22, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.02
29 137 0.79
30 32 0.18
31 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.28, T:0.21
Consensus pattern (30 bp):
CATCGAACTATGAAAAGGGATGGTGTCGAC
Found at i:17799840 original size:58 final size:58
Alignment explanation
Indices: 17799704--17799973 Score: 290
Period size: 58 Copynumber: 4.6 Consensus size: 58
17799694 AATGGTGTAT
* * * * *
17799704 TGACGATCATCGACTAATGAAAAGGGATAGTCTCGACTATCGAACAATGAAAAGGGATGG
1 TGACGACCATCAACT-ATGAAAAGGGATAGTTTCGACCATCG-ACTATGAAAAGGGATGG
* * * *
17799764 TGACGACCATCGAA-TATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAG
1 TGACGACCATC-AACTATGAAAAGGGATAGTTTCGACCATCGACTATGAAAAGGGATGG
* * *** *
17799822 TGAGGACCATCAACTATGAAAAGGGATGGTGAGGACCATCAACTATGAAAAGGGATGG
1 TGACGACCATCAACTATGAAAAGGGATAGTTTCGACCATCGACTATGAAAAGGGATGG
* * * *
17799880 TGATGACCATCAACTATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATGG
1 TGACGACCATCAACTATGAAAAGGGATAGTTTCGACCATCGACTATGAAAAGGGATGG
* * *
17799938 TGACGACTATCAAAATTATGAAAATGGATAGTTTCG
1 TGACGACCATC--AACTATGAAAAGGGATAGTTTCG
17799974 GTTATCGTAA
Statistics
Matches: 177, Mismatches: 29, Indels: 8
0.83 0.14 0.04
Matches are distributed among these distances:
57 2 0.01
58 120 0.68
59 24 0.14
60 30 0.17
61 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (58 bp):
TGACGACCATCAACTATGAAAAGGGATAGTTTCGACCATCGACTATGAAAAGGGATGG
Found at i:17799859 original size:87 final size:88
Alignment explanation
Indices: 17799711--17799973 Score: 275
Period size: 87 Copynumber: 3.0 Consensus size: 88
17799701 TATTGACGAT
* * *
17799711 CATCGACTAATGAAAAGGGATAGTCTCGACTATCGAACAATGAAAAGGGATGGTGACGACCATCG
1 CATCAACT-ATGAAAAGGGATAGTCTCGACCATCGAACTATGAAAAGGGATGGTGACGACCATC-
17799776 AA-TATGAAAAGGGATAGCTTCGAC
64 AACTATGAAAAGGGATAGCTTCGAC
* * * *** *
17799800 TATCGATTATGAAAAGGGATAGTGAGGACCATC-AACTATGAAAAGGGATGGTGAGGACCATCAA
1 CATCAACTATGAAAAGGGATAGTCTCGACCATCGAACTATGAAAAGGGATGGTGACGACCATCAA
*
17799864 CTATGAAAAGGGAT-GGTGAT-GAC
66 CTATGAAAAGGGATAGCT--TCGAC
* * * *
17799887 CATCAACTATGAAAAGGGATGGTTTTGACCATCGAA-TATGAAAAGGGATGGTGACGACTATCAA
1 CATCAACTATGAAAAGGGATAGTCTCGACCATCGAACTATGAAAAGGGATGGTGACGACCATC--
* * *
17799951 AATTATGAAAATGGATAGTTTCG
64 AACTATGAAAAGGGATAGCTTCG
17799974 GTTATCGTAA
Statistics
Matches: 145, Mismatches: 21, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
86 4 0.03
87 93 0.64
88 25 0.17
89 21 0.14
90 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.22
Consensus pattern (88 bp):
CATCAACTATGAAAAGGGATAGTCTCGACCATCGAACTATGAAAAGGGATGGTGACGACCATCAA
CTATGAAAAGGGATAGCTTCGAC
Found at i:17802753 original size:24 final size:23
Alignment explanation
Indices: 17802704--17802753 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
17802694 AAACAATCTT
* * *
17802704 CCATGTAGGTTTTGGATAAGCCA
1 CCATGTAGGTTGTAGAAAAGCCA
17802727 CCATGTAGGTTGTAGACAAAGCCA
1 CCATGTAGGTTGTAGA-AAAGCCA
17802751 CCA
1 CCA
17802754 ATTCTTACTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (23 bp):
CCATGTAGGTTGTAGAAAAGCCA
Found at i:17807621 original size:13 final size:13
Alignment explanation
Indices: 17807603--17807653 Score: 57
Period size: 13 Copynumber: 3.6 Consensus size: 13
17807593 GCGTGTGCCA
17807603 CACACGGGTGGTT
1 CACACGGGTGGTT
*
17807616 CACACGGGCATGTGCTG
1 CACACGGG--TG-G-TT
17807633 CACACGGGTGGTT
1 CACACGGGTGGTT
17807646 CACACGGG
1 CACACGGG
17807654 CGTGTGCCGC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 17 0.53
14 1 0.03
15 4 0.12
16 1 0.03
17 9 0.28
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (13 bp):
CACACGGGTGGTT
Found at i:17807622 original size:30 final size:30
Alignment explanation
Indices: 17807586--17807690 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
17807576 GTTTATGAAC
*
17807586 CACACGGGCGTGTGCCACACACGGGTGGTT
1 CACACGGGCGTGTGCCGCACACGGGTGGTT
* *
17807616 CACACGGGCATGTGCTGCACACGGGTGGTT
1 CACACGGGCGTGTGCCGCACACGGGTGGTT
*
17807646 CACACGGGCGTGTGCCGCACACAGGTGGTT
1 CACACGGGCGTGTGCCGCACACGGGTGGTT
* *
17807676 CACATGGCCGTGTGC
1 CACACGGGCGTGTGC
17807691 TGCTTTAGGA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 67 1.00
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.18
Consensus pattern (30 bp):
CACACGGGCGTGTGCCGCACACGGGTGGTT
Found at i:17807860 original size:21 final size:21
Alignment explanation
Indices: 17807810--17807861 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
17807800 GCACGTCTTT
* *
17807810 TAGTCACACGGTCATGTGTCA
1 TAGTCACACGGGCATGTATCA
* *
17807831 CAGTGACACGGGCATGTATGC-
1 TAGTCACACGGGCATGTAT-CA
17807852 TAGTCACACG
1 TAGTCACACG
17807862 ACCATGTCTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (21 bp):
TAGTCACACGGGCATGTATCA
Found at i:17821065 original size:8 final size:8
Alignment explanation
Indices: 17821052--17821088 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
17821042 TATTTTAATT
17821052 TTAAAATA
1 TTAAAATA
17821060 TTAAAATA
1 TTAAAATA
17821068 TTAAAA-A
1 TTAAAATA
*
17821075 -TCAAATA
1 TTAAAATA
17821082 TTAAAAT
1 TTAAAAT
17821089 GTGTATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
6 4 0.16
7 2 0.08
8 19 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
TTAAAATA
Found at i:17821156 original size:26 final size:27
Alignment explanation
Indices: 17821127--17821178 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
17821117 AATAATATTC
*
17821127 TTAATATATTATTAA-AAATATTTATA
1 TTAATATATTAATAATAAATATTTATA
*
17821153 TTAATATTTTAATAATAAATATTTAT
1 TTAATATATTAATAATAAATATTTAT
17821179 TACAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAATATATTAATAATAAATATTTATA
Found at i:17822057 original size:24 final size:24
Alignment explanation
Indices: 17822026--17822083 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
17822016 CGCACCTTTG
17822026 GATT-CACCTCTGGATGCACTACC
1 GATTGCACCTCTGGATGCACTACC
* * **
17822049 GGTTGCACCTTTGGATGCACTTTC
1 GATTGCACCTCTGGATGCACTACC
17822073 GATTGCACCTC
1 GATTGCACCTC
17822084 CAGTTGAACC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 3 0.11
24 25 0.89
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (24 bp):
GATTGCACCTCTGGATGCACTACC
Found at i:17829273 original size:16 final size:16
Alignment explanation
Indices: 17829252--17829284 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17829242 GTGAATTCTT
17829252 ATCGTTTCAAGAGTAA
1 ATCGTTTCAAGAGTAA
17829268 ATCGTTTCAAGAGTAA
1 ATCGTTTCAAGAGTAA
17829284 A
1 A
17829285 GTTGACTTCA
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:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (16 bp):
ATCGTTTCAAGAGTAA
Found at i:17830080 original size:30 final size:30
Alignment explanation
Indices: 17830044--17830166 Score: 86
Period size: 30 Copynumber: 4.4 Consensus size: 30
17830034 ATGATGAAAA
17830044 TTTTGAAAATTTTTATAAATATTTTTGAAT
1 TTTTGAAAATTTTTATAAATATTTTTGAAT
*
17830074 TTTTGAAAATTATTTTGTAAA-A-TTTT--A-
1 TTTTGAAAA-T-TTTTATAAATATTTTTGAAT
* * ** ** *
17830101 -TTT-ATAA--TTTA-AAAAATGATGAAAA
1 TTTTGAAAATTTTTATAAATATTTTTGAAT
17830126 TTTTGAAAATTTTTATAAATATTTTTGAAT
1 TTTTGAAAATTTTTATAAATATTTTTGAAT
17830156 TTTTGAAAATT
1 TTTTGAAAATT
17830167 ATTTTGTATT
Statistics
Matches: 68, Mismatches: 13, Indels: 24
0.65 0.12 0.23
Matches are distributed among these distances:
20 3 0.04
21 4 0.06
22 1 0.01
24 1 0.01
25 3 0.04
26 6 0.09
27 3 0.04
28 1 0.01
29 4 0.06
30 32 0.47
31 2 0.03
32 8 0.12
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (30 bp):
TTTTGAAAATTTTTATAAATATTTTTGAAT
Found at i:17830083 original size:20 final size:21
Alignment explanation
Indices: 17830051--17830089 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
17830041 AAATTTTGAA
17830051 AATTTTTATAAA-TATTTTTG
1 AATTTTTATAAATTATTTTTG
17830071 AATTTTTGA-AAATTATTTT
1 AATTTTT-ATAAATTATTTT
17830090 GTAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
AATTTTTATAAATTATTTTTG
Found at i:17830124 original size:82 final size:83
Alignment explanation
Indices: 17830008--17830174 Score: 327
Period size: 82 Copynumber: 2.0 Consensus size: 83
17829998 TTAAAAAAAT
17830008 TAAAATTTTATTTTATAATTTAAAAAATGATGAAAATTTTGAAAATTTTTATAAATATTTTTGAA
1 TAAAATTTTATTTTATAATTTAAAAAATGATGAAAATTTTGAAAATTTTTATAAATATTTTTGAA
17830073 TTTTTGAAAATTATTTTG
66 TTTTTGAAAATTATTTTG
17830091 TAAAATTTTA-TTTATAATTTAAAAAATGATGAAAATTTTGAAAATTTTTATAAATATTTTTGAA
1 TAAAATTTTATTTTATAATTTAAAAAATGATGAAAATTTTGAAAATTTTTATAAATATTTTTGAA
17830155 TTTTTGAAAATTATTTTG
66 TTTTTGAAAATTATTTTG
17830173 TA
1 TA
17830175 TTTTTTGTTG
Statistics
Matches: 84, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 74 0.88
83 10 0.12
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (83 bp):
TAAAATTTTATTTTATAATTTAAAAAATGATGAAAATTTTGAAAATTTTTATAAATATTTTTGAA
TTTTTGAAAATTATTTTG
Found at i:17830141 original size:40 final size:39
Alignment explanation
Indices: 17830009--17830138 Score: 127
Period size: 39 Copynumber: 3.2 Consensus size: 39
17829999 TAAAAAAATT
17830009 AAAATTTTATTTTATAATTTAAAAAATGATGAAAATTTTG
1 AAAATTTTA-TTTATAATTTAAAAAATGATGAAAATTTTG
* * *** * **
17830049 AAAATTTT-TATAAATATTTTTGAATTTTTGAAAATTATTTTG
1 AAAATTTTATTTATA-ATTTAAAAAATGATG-AAA--ATTTTG
17830091 TAAAATTTTATTTATAATTTAAAAAATGATGAAAATTTTG
1 -AAAATTTTATTTATAATTTAAAAAATGATGAAAATTTTG
17830131 AAAATTTT
1 AAAATTTT
17830139 TATAAATATT
Statistics
Matches: 68, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
38 4 0.06
39 17 0.25
40 17 0.25
42 9 0.13
43 17 0.25
44 4 0.06
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (39 bp):
AAAATTTTATTTATAATTTAAAAAATGATGAAAATTTTG
Found at i:17830165 original size:20 final size:21
Alignment explanation
Indices: 17830133--17830179 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
17830123 AAATTTTGAA
17830133 AATTTTTATAAA-TATTTTTG
1 AATTTTTATAAATTATTTTTG
17830153 AATTTTTGA-AAATTA-TTTTG
1 AATTTTT-ATAAATTATTTTTG
*
17830173 TATTTTT
1 AATTTTT
17830180 TGTTGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (21 bp):
AATTTTTATAAATTATTTTTG
Found at i:17830717 original size:17 final size:18
Alignment explanation
Indices: 17830679--17830718 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17830669 AGAAAGCCTT
* *
17830679 CAAAAAAGGAATCAACTT
1 CAAAAAAGGAACCAACTG
17830697 CAAAAAAGGAACCAA-TG
1 CAAAAAAGGAACCAACTG
17830714 CAAAA
1 CAAAA
17830719 TTTTCACCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.60, C:0.17, G:0.12, T:0.10
Consensus pattern (18 bp):
CAAAAAAGGAACCAACTG
Found at i:17831692 original size:23 final size:23
Alignment explanation
Indices: 17831666--17831724 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
17831656 CCGAAGTTCT
17831666 ACTATCACTTGTACCATAGTGCC
1 ACTATCACTTGTACCATAGTGCC
* * *
17831689 ACTAACACTTGCATCATAGTGCC
1 ACTATCACTTGTACCATAGTGCC
17831712 ACTATCACTTGTA
1 ACTATCACTTGTA
17831725 TGCATAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (23 bp):
ACTATCACTTGTACCATAGTGCC
Found at i:17841335 original size:41 final size:41
Alignment explanation
Indices: 17841279--17841443 Score: 330
Period size: 41 Copynumber: 4.0 Consensus size: 41
17841269 ACTTGGATAC
17841279 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
17841320 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
17841361 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
17841402 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
1 ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
17841443 A
1 A
17841444 AGGAAACGAG
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (41 bp):
ATACTCCATAGCAACTAAGATGTATTTGTTCTCATACGAAG
Found at i:17846820 original size:28 final size:28
Alignment explanation
Indices: 17846593--17846815 Score: 302
Period size: 28 Copynumber: 8.0 Consensus size: 28
17846583 GTAATAGTAT
* *
17846593 AGTGTGGGCCTTAGCCCGATACAGTAAT
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * *
17846621 AGTGTGGGTCTTAGCCCGATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
17846649 AGTGTGGGCCTTAGCCCGATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
17846677 AGTGTGAGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
17846705 AGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* * **
17846733 AATGTGGGCCTTAGCCCATTGTAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
**
17846761 AGTGTAAGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
17846789 AGTATGGGCCTTAGCCCAATATAGTAA
1 AGTGTGGGCCTTAGCCCAATACAGTAA
17846816 TAGTACAATG
Statistics
Matches: 173, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 173 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:17847026 original size:26 final size:26
Alignment explanation
Indices: 17846927--17847027 Score: 130
Period size: 26 Copynumber: 3.9 Consensus size: 26
17846917 ACTAATAGCA
*
17846927 CAGCAAAGCTGCCAGTAATAATAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
* * *
17846953 CAGTAAAGCTACCAGTAAAAGTAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
* *
17846979 CAGCAAAGCTGTCAGTATTAGTAATG
1 CAGCAAAGCTGCCAGTAATAGTAATG
**
17847005 CAGCAAAATTGCCAGTAATAGTA
1 CAGCAAAGCTGCCAGTAATAGTA
17847028 TATATCGCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 62 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAATAGTAATG
Found at i:17847231 original size:26 final size:26
Alignment explanation
Indices: 17847201--17847426 Score: 147
Period size: 27 Copynumber: 8.5 Consensus size: 26
17847191 GGGGTATAAC
* *
17847201 AGTCATTTTTCCC-TATGGGGTATTTT
1 AGTCATTTTACCCTTA-GGGGTAATTT
*
17847227 GGTCATTTTACCCTTCAGGGGTAATTT
1 AGTCATTTTACCCTT-AGGGGTAATTT
*
17847254 AGTCATTTTACCCTTCGAGGGTAA-TT
1 AGTCATTTTACCCTTAG-GGGTAATTT
* * *
17847280 CGATCATTTTACCCTTTGGGGGTAATTC
1 AG-TCATTTTACCC-TTAGGGGTAATTT
* *
17847308 AGTCAATTTT-CACTTTAGGGGTAATTC
1 AGTC-ATTTTAC-CCTTAGGGGTAATTT
* *
17847335 AGTCATTTTACCCTTCGGGGGT-ATTC
1 AGTCATTTTACCCTT-AGGGGTAATTT
* * * * *
17847361 GGTCATTTTACCATTCGAGTGTAATTC
1 AGTCATTTTACCCTTAG-GGGTAATTT
* *
17847388 GGTCATTTTACCCTTCGGGGGTAA-TT
1 AGTCATTTTACCCTT-AGGGGTAATTT
*
17847414 CGATCATTTTACC
1 AG-TCATTTTACC
17847427 TTTTTAGGAT
Statistics
Matches: 164, Mismatches: 22, Indels: 27
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.01
26 45 0.27
27 105 0.64
28 13 0.08
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.41
Consensus pattern (26 bp):
AGTCATTTTACCCTTAGGGGTAATTT
Found at i:17847258 original size:27 final size:27
Alignment explanation
Indices: 17847228--17847426 Score: 212
Period size: 27 Copynumber: 7.4 Consensus size: 27
17847218 GGGTATTTTG
*
17847228 GTCATTTTACCCTTCAGGGGTAATTTA
1 GTCATTTTACCCTTCAGGGGTAATTCA
17847255 GTCATTTTACCCTTC-GAGGGTAATTC-
1 GTCATTTTACCCTTCAG-GGGTAATTCA
**
17847281 GATCATTTTACCCTTTGGGGGTAATTCA
1 G-TCATTTTACCCTTCAGGGGTAATTCA
* *
17847309 GTCAATTTT-CACTTTAGGGGTAATTCA
1 GTC-ATTTTACCCTTCAGGGGTAATTCA
* *
17847336 GTCATTTTACCCTTCGGGGGT-ATTCG
1 GTCATTTTACCCTTCAGGGGTAATTCA
* * *
17847362 GTCATTTTACCATTC-GAGTGTAATTCG
1 GTCATTTTACCCTTCAG-GGGTAATTCA
*
17847389 GTCATTTTACCCTTCGGGGGTAATTC-
1 GTCATTTTACCCTTCAGGGGTAATTCA
17847415 GATCATTTTACC
1 G-TCATTTTACC
17847427 TTTTTAGGAT
Statistics
Matches: 150, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 29 0.19
27 112 0.75
28 8 0.05
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCCTTCAGGGGTAATTCA
Found at i:17847293 original size:54 final size:54
Alignment explanation
Indices: 17847229--17847426 Score: 244
Period size: 54 Copynumber: 3.7 Consensus size: 54
17847219 GGTATTTTGG
* *
17847229 TCATTTTACCCTTCAGGGGTAATTTAGTCATTTTACCCTTCGAGGGTAATTCGA
1 TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
* * *
17847283 TCATTTTACCCTTTGGGGGTAATTCAGTCAATTTT-CACTT-TAGGGGTAATTC-A
1 TCATTTTACCCTTCGGGGGTAATTCAGTC-ATTTTACCCTTCGA-GGGTAATTCGA
* * * *
17847336 GTCATTTTACCCTTCGGGGGT-ATTCGGTCATTTTACCATTCGAGTGTAATTCGG
1 -TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
17847390 TCATTTTACCCTTCGGGGGTAATTC-GATCATTTTACC
1 TCATTTTACCCTTCGGGGGTAATTCAG-TCATTTTACC
17847427 TTTTTAGGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 16
0.82 0.08 0.11
Matches are distributed among these distances:
52 5 0.04
53 41 0.33
54 73 0.59
55 5 0.04
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (54 bp):
TCATTTTACCCTTCGGGGGTAATTCAGTCATTTTACCCTTCGAGGGTAATTCGA
Found at i:17847452 original size:134 final size:134
Alignment explanation
Indices: 17847200--17847452 Score: 332
Period size: 134 Copynumber: 1.9 Consensus size: 134
17847190 AGGGGTATAA
* * * *
17847200 CAGTCATTTTTCCCTATGGGGTATTTTGGTCATTTTACCCTTCAGGGGTAATTTAGTCATTTTAC
1 CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCATTCAGGGGTAATTCAGTCATTTTAC
* * *
17847265 CCTTCGAGGGTAATTCGATCATTTTACCCTTTGGGGGTAATTCAGTCAATTTTCACTTTAGGGGT
66 CCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTCACTTTAGGGGT
17847330 AATT
131 AATT
* *
17847334 CAGTCATTTTACCCT-TCGGGGGTA-TTCGGTCATTTTACCATTC-GAGTGTAATTCGGTCATTT
1 CAGTCATTTTACCCTAT--GGGGTATTTCGGTCATTTTACCATTCAG-GGGTAATTCAGTCATTT
* * * * *
17847396 TACCCTTCGGGGGTAATTCGATCATTTTACCTTTTTAGGATATTTCAATCATTTTTC
63 TACCCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTC
17847453 GACCTCTCGA
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
133 2 0.02
134 94 0.92
135 6 0.06
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (134 bp):
CAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCATTCAGGGGTAATTCAGTCATTTTAC
CCTTCGAGGGTAATTCGATCATTTTACCCTTTGAGGATAATTCAATCAATTTTCACTTTAGGGGT
AATT
Found at i:17873236 original size:12 final size:12
Alignment explanation
Indices: 17873219--17873254 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
17873209 TTTTTACCTC
*
17873219 TTTCTTTTCTTT
1 TTTCTTTTCTGT
17873231 TTTCTTTTCTGT
1 TTTCTTTTCTGT
17873243 TTTCTTTT-TGT
1 TTTCTTTTCTGT
17873254 T
1 T
17873255 CTTTCTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTCTTTTCTGT
Found at i:17874990 original size:36 final size:36
Alignment explanation
Indices: 17874912--17874992 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
17874902 GCTAAATCGG
* ** **
17874912 GCACACCACCACCACTAGTAACATTCCTTTCGAGGC
1 GCACACCACCACCACCAACAACATTCCTTTCGAAAC
** *
17874948 ATACACCACCACCACCAACAATATTCCTTTCGAAAC
1 GCACACCACCACCACCAACAACATTCCTTTCGAAAC
17874984 GCACACCAC
1 GCACACCAC
17874993 TGTCTCTAGC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.33, C:0.41, G:0.09, T:0.17
Consensus pattern (36 bp):
GCACACCACCACCACCAACAACATTCCTTTCGAAAC
Found at i:17876672 original size:40 final size:39
Alignment explanation
Indices: 17876625--17876702 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
17876615 TTAGACAAAC
*
17876625 ATTAATGAT-TTCAAAATTAAGACACATAATTAAA-ACACAT
1 ATTAATGATGTTC-AAACTAAG--ACATAATTAAATACACAT
17876665 ATTAATGATGTTCAAACTAAGACATAATTAAATACACA
1 ATTAATGATGTTCAAACTAAGACATAATTAAATACACA
17876703 AACTAAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 11 0.31
39 5 0.14
40 16 0.46
41 3 0.09
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.29
Consensus pattern (39 bp):
ATTAATGATGTTCAAACTAAGACATAATTAAATACACAT
Found at i:17879593 original size:85 final size:84
Alignment explanation
Indices: 17879480--17879644 Score: 269
Period size: 85 Copynumber: 2.0 Consensus size: 84
17879470 ATATATACAA
* *
17879480 TTAATATTTTGTATAATCAAAGTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCA
1 TTAATATTTTGTATAATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCA
17879545 TGTCTTTTATATTTTGACC
66 TGTCTTTTATATTTTGACC
* *
17879564 TTAATA-TTTGATATGAATCAAAGTAATATATTAATTATATTATTTCTAAAAGAATATTAATTTT
1 TTAATATTTTG-TAT-AATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTC
17879628 CATGTCTTTTATATTTT
64 CATGTCTTTTATATTTT
17879645 TATTGAAATT
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
83 4 0.05
84 9 0.12
85 62 0.83
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (84 bp):
TTAATATTTTGTATAATCAAAGTAATATATTAATTATATTATTTCCAAAAGAATATTAATTTCCA
TGTCTTTTATATTTTGACC
Found at i:17879717 original size:138 final size:138
Alignment explanation
Indices: 17879564--17880017 Score: 732
Period size: 138 Copynumber: 3.3 Consensus size: 138
17879554 TATTTTGACC
* * *
17879564 TTAATA-TTTGATATGAATCAAAGTAATATATTAATTATATTATTTCTAAAAGAATATTAATTTT
1 TTAATATTTTG-TATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTT
* * ** * * * *
17879628 CATGTCTTTTATATTTTTATTGAAATTAATTAATATAATTGTTTATCTTAATAAA-TTCGATAAA
65 CATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAG-TAAA
17879692 ATATATACAA
129 ATATATACAA
* *
17879702 TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTC
1 TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTTC
17879767 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
66 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
17879832 ATATACAA
131 ATATACAA
* *
17879840 TTAATATTTTGTATGAATCAAATCCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTC
1 TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTTC
17879905 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
66 ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
17879970 ATATACAA
131 ATATACAA
*
17879978 TTAATATTTTGTATGAATTAAATTCATATATTAATTATAT
1 TTAATATTTTGTATGAATCAAATTCATATATTAATTATAT
17880018 CTATGTTCTC
Statistics
Matches: 297, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
138 290 0.98
139 7 0.02
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (138 bp):
TTAATATTTTGTATGAATCAAATTCATATATTAATTATATTATTTCCAAAAGAATATTAATTTTC
ATATCTTTTATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAAT
ATATACAA
Found at i:17879783 original size:71 final size:71
Alignment explanation
Indices: 17879705--17879921 Score: 193
Period size: 71 Copynumber: 3.1 Consensus size: 71
17879695 TATACAATTA
17879705 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTCATA
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTCATA
17879770 TCTTTT
66 TCTTTT
* * * * ** * **
17879776 ATATTTTG-ACCGAAAT-TAATT-A-ATA-TAACTAT-TTATATT--AATAAATTTAGTAA-AAT
1 ATATTTTGTA-TG-AATCAAATTCATATATTAATTATATTCT-TTCCAA-AAAAATATTAATTTT
* *
17879832 -ATATACAATTA
62 CATAT-C-TTTT
* *
17879843 ATATTTTGTATGAATCAAATCCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTCATA
17879908 TCTTTT
66 TCTTTT
17879914 ATATTTTG
1 ATATTTTG
17879922 ACCGAAATTA
Statistics
Matches: 106, Mismatches: 24, Indels: 32
0.65 0.15 0.20
Matches are distributed among these distances:
65 4 0.04
66 7 0.07
67 25 0.24
68 10 0.09
69 6 0.06
70 10 0.09
71 33 0.31
72 7 0.07
73 4 0.04
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (71 bp):
ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTTCATA
TCTTTT
Found at i:17879850 original size:67 final size:67
Alignment explanation
Indices: 17879776--17879988 Score: 179
Period size: 67 Copynumber: 3.1 Consensus size: 67
17879766 CATATCTTTT
17879776 ATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAAT
1 ATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAAT
17879841 TA
66 TA
* * * * * * * *
17879843 ATATTTTGTA-TG-AATCAAATCCATATATTAATTATATTCT-TTCCAA-AAGA-ATA-TTAATT
1 ATATTTTG-ACCGAAAT-TAAT-TA-ATA-TAACTAT-TTATATT--AATAA-ATTTAGTAAAAT
* * *
17879902 TTCATATC-TTTT
57 AT-ATA-CAATTA
17879914 ATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAAT
1 ATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAAT
17879979 TA
66 TA
17879981 ATATTTTG
1 ATATTTTG
17879989 TATGAATTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
66 7 0.07
67 32 0.30
68 15 0.14
69 6 0.06
70 15 0.14
71 24 0.23
72 7 0.07
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.45
Consensus pattern (67 bp):
ATATTTTGACCGAAATTAATTAATATAACTATTTATATTAATAAATTTAGTAAAATATATACAAT
TA
Found at i:17882604 original size:17 final size:17
Alignment explanation
Indices: 17882568--17882604 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17882558 TAATTTATTT
**
17882568 TTTTTCCTTCTTTATGA
1 TTTTTCCTTCTTTAACA
17882585 TTTTTCCTTCTTTAACA
1 TTTTTCCTTCTTTAACA
17882602 TTT
1 TTT
17882605 GGGTACTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.03, T:0.65
Consensus pattern (17 bp):
TTTTTCCTTCTTTAACA
Found at i:17884575 original size:17 final size:17
Alignment explanation
Indices: 17884550--17884583 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17884540 CTTTGGTTAT
17884550 ATTTAATTTTCTATATG
1 ATTTAATTTTCTATATG
* *
17884567 ATTTTATTTTTTATATG
1 ATTTAATTTTCTATATG
17884584 TTTCATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTAATTTTCTATATG
Found at i:17885829 original size:37 final size:37
Alignment explanation
Indices: 17885779--17885853 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
17885769 TGTTATTATC
17885779 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
1 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
17885816 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
1 TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
17885853 T
1 T
17885854 GCACCTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.36
Consensus pattern (37 bp):
TAGTTGATGCTGGATACACAAATTGTGAGGGATTTCT
Found at i:17887418 original size:16 final size:16
Alignment explanation
Indices: 17887369--17887418 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
17887359 TAATTCTCAA
* *
17887369 ATTATTTATTACTTCT
1 ATTATTTATTATTTAT
* *
17887385 AATATTT-TT-TTTAA
1 ATTATTTATTATTTAT
17887399 ATTATTTATTATTTAT
1 ATTATTTATTATTTAT
17887415 ATTA
1 ATTA
17887419 ATAATCTTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 8 0.31
15 4 0.15
16 14 0.54
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTATTTATTATTTAT
Found at i:17900582 original size:15 final size:16
Alignment explanation
Indices: 17900562--17900591 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
17900552 TAACAACTAA
17900562 TATATAAT-TATATTT
1 TATATAATATATATTT
17900577 TATATAATATATATT
1 TATATAATATATATT
17900592 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:17905718 original size:6 final size:5
Alignment explanation
Indices: 17905688--17905736 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
17905678 AAATGCTCGT
* *
17905688 GAAAA AAAAA GAAAA GAAAA GAAAA GAAAAA GAAAA -AAAGA GAGAA GAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA G-AAAA GAAAA GAAA-A GAAAA GAA
17905737 CATATGTACT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
4 3 0.08
5 27 0.73
6 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:17905719 original size:21 final size:21
Alignment explanation
Indices: 17905688--17905736 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17905678 AAATGCTCGT
17905688 GAAAA-AAAAAGAAAAGAAA-A
1 GAAAAGAAAAAGAAAA-AAAGA
17905708 GAAAAGAAAAAGAAAAAAAGA
1 GAAAAGAAAAAGAAAAAAAGA
*
17905729 GAGAAGAA
1 GAAAAGAA
17905737 CATATGTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 8 0.31
21 18 0.69
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
GAAAAGAAAAAGAAAAAAAGA
Found at i:17909009 original size:15 final size:16
Alignment explanation
Indices: 17908980--17909009 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17908970 CAAACATGTT
17908980 TTAACACATTATCAAA
1 TTAACACATTATCAAA
17908996 TTAACACA-TATCAA
1 TTAACACATTATCAA
17909010 TAAGACACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:17928058 original size:28 final size:27
Alignment explanation
Indices: 17928020--17928140 Score: 102
Period size: 27 Copynumber: 4.4 Consensus size: 27
17928010 GTGCACAACG
*
17928020 AAGGCATTCCTTATGGA-ATTTCGCCAGA
1 AAGGCTTTCCTT-T-GATATTTCGCCAGA
* *
17928048 AGGGCTTTCCTTTGATATTTCGCCATA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
* * ** *
17928075 AAGGCTTTTCTTTCATATTTATCCACA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
* * *
17928102 AAGGCTTT-CTTTCATATTTTGCCACA
1 AAGGCTTTCCTTTGATATTTCGCCAGA
17928128 AAGGCTTTTCCTT
1 AAGGC-TTTCCTT
17928141 CCTGACATGT
Statistics
Matches: 79, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
26 23 0.29
27 43 0.54
28 13 0.16
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (27 bp):
AAGGCTTTCCTTTGATATTTCGCCAGA
Found at i:17928067 original size:27 final size:27
Alignment explanation
Indices: 17928037--17928140 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
17928027 TCCTTATGGA
* * *
17928037 ATTTCGCCAGAAGGGCTTTCCTTTGAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
* *
17928064 ATTTCGCCATAAAGGCTTTTCTTTCAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
**
17928091 ATTTATCCACAAAGGCTTT-CTTTCAT
1 ATTTCGCCACAAAGGCTTTCCTTTCAT
*
17928117 ATTTTGCCACAAAGGCTTTTCCTT
1 ATTTCGCCACAAAGGC-TTTCCTT
17928141 CCTGACATGT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 21 0.32
27 42 0.64
28 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (27 bp):
ATTTCGCCACAAAGGCTTTCCTTTCAT
Found at i:17928117 original size:26 final size:25
Alignment explanation
Indices: 17928050--17928135 Score: 100
Period size: 26 Copynumber: 3.2 Consensus size: 25
17928040 TCGCCAGAAG
* * *
17928050 GGCTTTCCTTTGATATTTCGCCATAAA
1 GGCTTT-CTTTCATATTT-TCCACAAA
17928077 GGCTTTTCTTTCATATTTATCCACAAA
1 GGC-TTTCTTTCATATTT-TCCACAAA
17928104 GGCTTTCTTTCATATTTTGCCACAAA
1 GGCTTTCTTTCATATTTT-CCACAAA
17928130 GGCTTT
1 GGCTTT
17928136 TCCTTCCTGA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
25 1 0.02
26 27 0.51
27 22 0.42
28 3 0.06
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (25 bp):
GGCTTTCTTTCATATTTTCCACAAA
Found at i:17932166 original size:46 final size:46
Alignment explanation
Indices: 17932113--17932203 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
17932103 TCTGTTAATG
17932113 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
1 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
*
17932159 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCTTAGGTACAATC
1 TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATC
17932204 CTCAAAATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (46 bp):
TAAAAAATAAATTTTAGTTTAATTCAACCTCCCCTAGGTACAATCT
Found at i:17933512 original size:25 final size:25
Alignment explanation
Indices: 17933477--17933539 Score: 90
Period size: 26 Copynumber: 2.5 Consensus size: 25
17933467 ATTTTACCTA
*
17933477 GTAAAATTTTTACAAATTTATCTGTG
1 GTAAAATTTTGACAAATTTATCT-TG
* *
17933503 GTAAAATTTTGACGATTTTATCTTG
1 GTAAAATTTTGACAAATTTATCTTG
17933528 GTAAAATTTTGA
1 GTAAAATTTTGA
17933540 GAAAATTCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (25 bp):
GTAAAATTTTGACAAATTTATCTTG
Found at i:17936602 original size:143 final size:143
Alignment explanation
Indices: 17936344--17936632 Score: 542
Period size: 143 Copynumber: 2.0 Consensus size: 143
17936334 TCCTCAGGTT
17936344 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
1 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
* *
17936409 CTTTCTTAATTTTGAGACCTTATTGAATACTAGGTGTGACAACCCATATACTTGCGGACACCACT
66 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
17936474 ACTTTATTATTTA
131 ACTTTATTATTTA
17936487 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
1 TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
**
17936552 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCTGTATACTTGCGGACACCACT
66 CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
17936617 ACTTTATTATTTA
131 ACTTTATTATTTA
17936630 TCT
1 TCT
17936633 TTTTACTACA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
143 142 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (143 bp):
TCTCTTCTTTAGATTTTTTAGTAGAGTCCGTTGAACTTACTATCTCTTGCAATTAACTCTCAAAA
CTTTCTTAATTTTGAAACCTTATTGAAAACTAGGTGTGACAACCCATATACTTGCGGACACCACT
ACTTTATTATTTA
Found at i:17941390 original size:16 final size:16
Alignment explanation
Indices: 17941369--17941404 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
17941359 TTATTTATAC
17941369 TGAAATGATGCCCAAG
1 TGAAATGATGCCCAAG
17941385 TGAAATGATGCCCAAG
1 TGAAATGATGCCCAAG
17941401 TGAA
1 TGAA
17941405 TTTAGTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (16 bp):
TGAAATGATGCCCAAG
Found at i:17954081 original size:6 final size:6
Alignment explanation
Indices: 17954070--17954096 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
17954060 CGGTTTCCAA
17954070 AAATGG AAATGG AAATGG AAATGG AAA
1 AAATGG AAATGG AAATGG AAATGG AAA
17954097 CTTTCAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.30, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:17954333 original size:20 final size:20
Alignment explanation
Indices: 17954293--17954333 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
17954283 ATCGTGATTT
*
17954293 AAAAAGTTATTCCTTTTAAA
1 AAAAAGTTATTCCTTTCAAA
17954313 AAAAAGTTATTACC-TTCAAA
1 AAAAAGTTATT-CCTTTCAAA
17954333 A
1 A
17954334 CCTTGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAAAGTTATTCCTTTCAAA
Found at i:17955494 original size:27 final size:26
Alignment explanation
Indices: 17955464--17955561 Score: 88
Period size: 27 Copynumber: 3.7 Consensus size: 26
17955454 CTAAACTGAA
*
17955464 GGTATTTTGGTAATTTTGCAAATCAGG
1 GGTACTTTGGTAATTTTGCAAATC-GG
* ** *
17955491 GGTACTTTGTTAATTTCACATATCGAG
1 GGTACTTTGGTAATTTTGCAAATCG-G
* * *
17955518 GGTATTTTGTTAATTTTGCAAACTGGG
1 GGTACTTTGGTAATTTTGCAAA-TCGG
*
17955545 GGTACTTCGGTAATTTT
1 GGTACTTTGGTAATTTT
17955562 ATAAGTCGAG
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
26 1 0.02
27 53 0.95
28 2 0.04
ACGTcount: A:0.23, C:0.10, G:0.23, T:0.43
Consensus pattern (26 bp):
GGTACTTTGGTAATTTTGCAAATCGG
Found at i:17955571 original size:54 final size:53
Alignment explanation
Indices: 17955436--17955571 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 53
17955426 TACCCTATAA
* * * *
17955436 GGGTATTTCGGTAATTTTCTAAACTGAAGGTATTTTGGTAATTTTGCAAATCAG
1 GGGTACTTCGGTAATTTTATAATC-GAGGGTATTTTGGTAATTTTGCAAATCAG
* * * * * *
17955490 GGGTACTTTGTTAATTTCACATATCGAGGGTATTTTGTTAATTTTGCAAA-CTGG
1 GGGTACTTCGGTAATTTTATA-ATCGAGGGTATTTTGGTAATTTTGCAAATC-AG
17955544 GGGTACTTCGGTAATTTTATAAGTCGAG
1 GGGTACTTCGGTAATTTTATAA-TCGAG
17955572 ACTATTTCAG
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
53 2 0.03
54 61 0.94
55 2 0.03
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (53 bp):
GGGTACTTCGGTAATTTTATAATCGAGGGTATTTTGGTAATTTTGCAAATCAG
Found at i:17955578 original size:54 final size:54
Alignment explanation
Indices: 17955466--17955588 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 54
17955456 AAACTGAAGG
* * **
17955466 TATTTTGGTAATTTTGCAAATCAGGGGTACTTTGTTAATTTCACATATCGAGGG
1 TATTTTGGTAATTTTGCAAATCAGGGGTACTTCGGTAATTTCACATATCGAGAC
* * * *
17955520 TATTTTGTTAATTTTGCAAA-CTGGGGGTACTTCGGTAATTTTATA-AGTCGAGAC
1 TATTTTGGTAATTTTGCAAATC-AGGGGTACTTCGGTAATTTCACATA-TCGAGAC
**
17955574 TATTTCAGTAATTTT
1 TATTTTGGTAATTTT
17955589 ATAAACCAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
53 2 0.04
54 54 0.96
ACGTcount: A:0.26, C:0.11, G:0.20, T:0.43
Consensus pattern (54 bp):
TATTTTGGTAATTTTGCAAATCAGGGGTACTTCGGTAATTTCACATATCGAGAC
Found at i:17971009 original size:42 final size:42
Alignment explanation
Indices: 17970943--17971061 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
17970933 TACAAGGGAT
* * *
17970943 ACACGACCGTGTCGTCAGGCCGTGTGTCACACATGGCTAAGTC
1 ACACGCCCGTGTC-TCAGGCCGTGTGTCACACACGACTAAGTC
* * * *
17970986 ATATGCCCGTGTCTTAGGCCGTGTGTCACACACGATTAAGTC
1 ACACGCCCGTGTCTCAGGCCGTGTGTCACACACGACTAAGTC
* * *
17971028 ACACGCCCATGTCTCAGTCTGTGTGTCACACACG
1 ACACGCCCGTGTCTCAGGCCGTGTGTCACACACG
17971062 GCCGAGCCAC
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (42 bp):
ACACGCCCGTGTCTCAGGCCGTGTGTCACACACGACTAAGTC
Found at i:17980191 original size:9 final size:9
Alignment explanation
Indices: 17980177--17980207 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17980167 GTTAAACGAA
17980177 TCGAGTTAT
1 TCGAGTTAT
*
17980186 TCGAGTTAA
1 TCGAGTTAT
17980195 TCGAGTTAT
1 TCGAGTTAT
17980204 TCGA
1 TCGA
17980208 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:17984582 original size:22 final size:21
Alignment explanation
Indices: 17984537--17984580 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
17984527 TAAAATGATA
17984537 TTTGGAAAATTGATTGATTTT
1 TTTGGAAAATTGATTGATTTT
17984558 TTTGGAAAAATTGA-T-ATTTT
1 TTTGG-AAAATTGATTGATTTT
17984578 TTT
1 TTT
17984581 TTATATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 6 0.27
22 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
TTTGGAAAATTGATTGATTTT
Found at i:17993020 original size:3 final size:3
Alignment explanation
Indices: 17993012--17993049 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
17993002 CCAAAAAGGA
17993012 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17993050 CTAGCTAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:17994418 original size:76 final size:77
Alignment explanation
Indices: 17994329--17994482 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
17994319 GAAATCCATA
17994329 AACTGTGAC-AAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
1 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
17994393 CTAAAATGGTTT
66 CTAAAATGGTTT
17994405 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
1 AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
17994470 CTAAAATGGTTT
66 CTAAAATGGTTT
17994482 A
1 A
17994483 CTGCTATGTC
Statistics
Matches: 77, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 9 0.12
77 68 0.88
ACGTcount: A:0.51, C:0.12, G:0.14, T:0.23
Consensus pattern (77 bp):
AACTGTGACAAAAAAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAGAAATAATGTAAGCA
CTAAAATGGTTT
Found at i:17994462 original size:38 final size:38
Alignment explanation
Indices: 17994341--17994462 Score: 112
Period size: 38 Copynumber: 3.2 Consensus size: 38
17994331 CTGTGACAAA
17994341 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
1 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
** *
17994379 AAATAATGTAAGCACTAAAATGGTT--T-AAC-TG-TGACAAAA-
1 AAATAAT-T-A--A--AAAA-GGTTCATGAACATGCCCATAAAAG
17994418 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
1 AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
17994456 AAATAAT
1 AAATAAT
17994463 GTAAGCACTA
Statistics
Matches: 65, Mismatches: 6, Indels: 26
0.67 0.06 0.27
Matches are distributed among these distances:
32 4 0.06
33 4 0.06
34 1 0.02
35 4 0.06
36 2 0.03
37 6 0.09
38 15 0.23
39 8 0.12
40 6 0.09
41 2 0.03
42 4 0.06
43 1 0.02
44 4 0.06
45 4 0.06
ACGTcount: A:0.52, C:0.11, G:0.13, T:0.23
Consensus pattern (38 bp):
AAATAATTAAAAAAGGTTCATGAACATGCCCATAAAAG
Found at i:17995569 original size:30 final size:30
Alignment explanation
Indices: 17995533--17995592 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
17995523 TAGCCATCAT
*
17995533 GTACAATTACCTTAACATGAGTACCCTATA
1 GTACAATTACCTTAACATAAGTACCCTATA
17995563 GTACAATTACCTTAACATAAGTACCCTATA
1 GTACAATTACCTTAACATAAGTACCCTATA
17995593 ATGGTTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.30
Consensus pattern (30 bp):
GTACAATTACCTTAACATAAGTACCCTATA
Found at i:17996256 original size:3 final size:3
Alignment explanation
Indices: 17996248--17996292 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
17996238 CTCATAATCA
17996248 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
17996293 ACAAAAAGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:17997639 original size:21 final size:21
Alignment explanation
Indices: 17997600--17997639 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17997590 TATATTAATA
* * *
17997600 TAAAATTTTAATTTTAATTTT
1 TAAAATATTAATATCAATTTT
17997621 TAAAATATTAATATCAATT
1 TAAAATATTAATATCAATT
17997640 AATATTTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATATTAATATCAATTTT
Found at i:17997659 original size:39 final size:39
Alignment explanation
Indices: 17997584--17997659 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
17997574 GAATAAAATT
* *
17997584 AAATATTATATTAATATAAAATTTTAATTTTAATTTTTA
1 AAATATTATATCAATATAAAATTTTAATATTAATTTTTA
*
17997623 AAATATTAATATCAAT-TAATATTTTTAATATT-ATTTT
1 AAATATT-ATATCAATATAA-AATTTTAATATTAATTTT
17997660 ACATACATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
39 15 0.47
40 17 0.53
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (39 bp):
AAATATTATATCAATATAAAATTTTAATATTAATTTTTA
Found at i:18003106 original size:20 final size:20
Alignment explanation
Indices: 18003077--18003123 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18003067 TTAACATCAT
18003077 ATTTTCTAGAAAATCAATCC
1 ATTTTCTAGAAAATCAATCC
* **
18003097 ATTTTTTAGAAAATTGATCC
1 ATTTTCTAGAAAATCAATCC
18003117 ATTTTCT
1 ATTTTCT
18003124 TAAAGTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.15, G:0.06, T:0.45
Consensus pattern (20 bp):
ATTTTCTAGAAAATCAATCC
Found at i:18008619 original size:28 final size:27
Alignment explanation
Indices: 18008566--18008621 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
18008556 ACCTAGTAAT
* **
18008566 TTTATATATTTTTTTTAATATTTTATA
1 TTTATATATTTTTTATAATAAATTATA
*
18008593 TTTATATGTCTTTTTATAATAAATTATA
1 TTTATATAT-TTTTTATAATAAATTATA
18008621 T
1 T
18008622 GTTTAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TTTATATATTTTTTATAATAAATTATA
Found at i:18012169 original size:24 final size:24
Alignment explanation
Indices: 18012142--18012201 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
18012132 CTTATTCTAC
*
18012142 TTTTCATACTTTTT-AGAATTTAA
1 TTTTAATACTTTTTAAGAATTTAA
**
18012165 GTTTTTTTA-TTTTTAAGAATTTAA
1 -TTTTAATACTTTTTAAGAATTTAA
*
18012189 TCTTAATACTTTT
1 TTTTAATACTTTT
18012202 CAGATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (24 bp):
TTTTAATACTTTTTAAGAATTTAA
Found at i:18015288 original size:51 final size:51
Alignment explanation
Indices: 18015232--18015345 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
18015222 TCCTCTCTAA
*
18015232 TCCTCTCAATTTCCTTCCAAAATTCTCTGAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
* ** *
18015283 TCCTCTCAATTTTCTTTTAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
18015334 TCC-CTCAATTTC
1 TCCTCTCAATTTC
18015346 ATTTTTTAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 8 0.14
51 49 0.86
ACGTcount: A:0.28, C:0.26, G:0.01, T:0.45
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:18015373 original size:10 final size:10
Alignment explanation
Indices: 18015346--18015411 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
18015336 CCTCAATTTC
*
18015346 ATTTTTTAAA
1 ATTTTTTTAA
**
18015356 ATAATTTTAA
1 ATTTTTTTAA
*
18015366 ATTTTTTTAT
1 ATTTTTTTAA
18015376 ATTTTTTTAAA
1 ATTTTTTT-AA
**
18015387 ATAATTTTAA
1 ATTTTTTTAA
* *
18015397 TTTTTTTTAT
1 ATTTTTTTAA
18015407 ATTTT
1 ATTTT
18015412 CATCAATGGC
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:18015385 original size:31 final size:31
Alignment explanation
Indices: 18015347--18015411 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
18015337 CTCAATTTCA
18015347 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
*
18015378 TTTTTTAAAATAATTTTAATTTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
18015409 TTT
1 TTT
18015412 CATCAATGGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (31 bp):
TTTTTTAAAATAATTTTAAATTTTTTTATAT
Found at i:18016505 original size:7 final size:7
Alignment explanation
Indices: 18016493--18016524 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
18016483 AGTCGATTGA
18016493 TATTTAG
1 TATTTAG
18016500 TATTTAG
1 TATTTAG
18016507 TATTTAG
1 TATTTAG
18016514 TATTTAG
1 TATTTAG
18016521 TATT
1 TATT
18016525 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:18017727 original size:29 final size:28
Alignment explanation
Indices: 18017691--18017774 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 28
18017681 TTACTAACAA
*
18017691 TTAACTAACTTAATTAAAAACCCTAACC
1 TTAACTAATTTAATTAAAAACCCTAACC
18017719 TTAACCTAATTTAATTAAAAACCCTAACC
1 TTAA-CTAATTTAATTAAAAACCCTAACC
* *
18017748 CTAATCTAATTTAATTAAAAATCCTAA
1 TTAA-CTAATTTAATTAAAAACCCTAA
18017775 TTTAATTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 4 0.08
29 47 0.92
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (28 bp):
TTAACTAATTTAATTAAAAACCCTAACC
Found at i:18017729 original size:54 final size:54
Alignment explanation
Indices: 18017669--18017889 Score: 246
Period size: 54 Copynumber: 4.2 Consensus size: 54
18017659 TCATAAAAAC
* *
18017669 CCTAATTTAATTTTACTAACAATTAACTAACTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAATCCTAACCTTAA
** ** * * *
18017723 CCTAATTTAA--TTAAAAAC-CCTAACCCTAATCTAATT--TAAT--TAA---AAA
1 CCTAATTTAATTTTACTAACAATTAA--CTAATTTAATTAAAAATCCTAACCTTAA
*
18017769 TCCTAATTTAATTTTACTAATAATTAACTAATTTAATTAAAAATCCTAACCTTAA
1 -CCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAATCCTAACCTTAA
*
18017824 CCTAATTTAATTTTACTAATAATTAACTAATTTAATTAAAAATCCTAACCTTAA
1 CCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAATCCTAACCTTAA
18017878 CCTAATTTAATT
1 CCTAATTTAATT
18017890 AAAAACCCTA
Statistics
Matches: 137, Mismatches: 17, Indels: 26
0.76 0.09 0.14
Matches are distributed among these distances:
46 2 0.01
47 10 0.07
48 10 0.07
49 8 0.06
50 6 0.04
51 5 0.04
52 9 0.07
53 9 0.07
54 76 0.55
55 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.00, T:0.38
Consensus pattern (54 bp):
CCTAATTTAATTTTACTAACAATTAACTAATTTAATTAAAAATCCTAACCTTAA
Found at i:18017780 original size:23 final size:23
Alignment explanation
Indices: 18017747--18017817 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
18017737 AAACCCTAAC
18017747 CCTAATCTAATTTAATTAAAAAT
1 CCTAATCTAATTTAATTAAAAAT
* * * *
18017770 CCTAATTTAATTTTACTAATAAT
1 CCTAATCTAATTTAATTAAAAAT
18017793 --TAA-CTAATTTAATTAAAAAT
1 CCTAATCTAATTTAATTAAAAAT
18017813 CCTAA
1 CCTAA
18017818 CCTTAACCTA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 13 0.34
21 3 0.08
22 3 0.08
23 19 0.50
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (23 bp):
CCTAATCTAATTTAATTAAAAAT
Found at i:18017801 original size:25 final size:25
Alignment explanation
Indices: 18017771--18017860 Score: 99
Period size: 25 Copynumber: 3.4 Consensus size: 25
18017761 ATTAAAAATC
18017771 CTAATTTAATTTTACTAATAATTAA
1 CTAATTTAATTTTACTAATAATTAA
** * **
18017796 CTAATTTAATTAAAAATCCTAACCTTAA
1 CTAATTTAATT-TTACTAATAA--TTAA
18017824 CCTAATTTAATTTTACTAATAATTAA
1 -CTAATTTAATTTTACTAATAATTAA
18017850 CTAATTTAATT
1 CTAATTTAATT
18017861 AAAAATCCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
25 22 0.43
26 9 0.18
28 9 0.18
29 11 0.22
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.44
Consensus pattern (25 bp):
CTAATTTAATTTTACTAATAATTAA
Found at i:18018036 original size:30 final size:30
Alignment explanation
Indices: 18017980--18018899 Score: 1808
Period size: 30 Copynumber: 30.7 Consensus size: 30
18017970 TAACAATTAA
*
18017980 CTAACTTAATTAAAAACCCT-AACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018009 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018039 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018069 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018099 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018129 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018159 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018189 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018219 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018249 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018279 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018309 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018339 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018369 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018399 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018429 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018459 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018489 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018519 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018549 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018579 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018609 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018639 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018669 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018699 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018729 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018759 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018789 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018819 CTAATTTAATTAAAAACCCTAAACCCTAAC
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
*
18018849 CTAATTTAATTAAAAACCCT-AACCCTAAA
1 CTAATTTAATTAAAAACCCTAAACCCTAAC
18018878 CTAATTTAATTAAAAACCCTAA
1 CTAATTTAATTAAAAACCCTAA
18018900 TTTAATTTTA
Statistics
Matches: 887, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
29 47 0.05
30 840 0.95
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (30 bp):
CTAATTTAATTAAAAACCCTAAACCCTAAC
Found at i:18023905 original size:28 final size:29
Alignment explanation
Indices: 18023852--18023916 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 29
18023842 GATTAGTTAA
*
18023852 GTGACCAATTTACAAAAAATTATAGTTGG
1 GTGACCAATTTACAAAAAATCATAGTTGG
*
18023881 GTGATCAATTTA-AAAAAATCATAGTTGG
1 GTGACCAATTTACAAAAAATCATAGTTGG
18023909 GTGACCAA
1 GTGACCAA
18023917 AAAAAAGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 22 0.67
29 11 0.33
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (29 bp):
GTGACCAATTTACAAAAAATCATAGTTGG
Found at i:18024980 original size:31 final size:31
Alignment explanation
Indices: 18024919--18024976 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
18024909 TTACAAAATG
*
18024919 GTCATTGAATTATTCAAAAGTTTTTATTAAA
1 GTCATTGAACTATTCAAAAGTTTTTATTAAA
*
18024950 GTCATTGAACTATTCGAAA-TTTTTATT
1 GTCATTGAACTATTCAAAAGTTTTTATT
18024977 TAAATCACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 8 0.32
31 17 0.68
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.47
Consensus pattern (31 bp):
GTCATTGAACTATTCAAAAGTTTTTATTAAA
Found at i:18028737 original size:50 final size:50
Alignment explanation
Indices: 18028680--18028815 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 50
18028670 GTGCCCATGT
* * *
18028680 CATGTCCCAGACATAATCTTACGGGGGACCTCTCATTTTGGTGCCAACGC
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
* ** *
18028730 TATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
** * *
18028780 CATGTCCCAGACATGGTCTTACACGGGACTTCTCAT
1 CATGTCCCAGACATAATCTTACAGGGGACCTCTCAT
18028816 AATCTCAATG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
CATGTCCCAGACATAATCTTACAGGGGACCTCTCATCTCGGTGCCAACGC
Found at i:18030147 original size:1 final size:1
Alignment explanation
Indices: 18030141--18030167 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
18030131 GTAACAAAGC
18030141 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
18030168 GAAGAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18032098 original size:41 final size:41
Alignment explanation
Indices: 18032040--18032119 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 41
18032030 CCTCATCGGA
*
18032040 TAATTCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
* * * *
18032081 TAATCCGAAGTAGTAAATTGACATCTAGTGTCTCATTGA
1 TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGA
18032120 CGCGAAGTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
TAATCCGAAGTAATAAATTGACACCCAGTGCCTCATTGAAT
Found at i:18033014 original size:7 final size:7
Alignment explanation
Indices: 18033002--18033067 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
18032992 ATTTACTTAT
18033002 TATAATA
1 TATAATA
18033009 TATAATA
1 TATAATA
18033016 TGATATATA
1 T-ATA-ATA
18033025 TACTTAATA
1 TA--TAATA
*
18033034 -ATTAAGA
1 TA-TAATA
18033041 TATAATA
1 TATAATA
18033048 TTATAATA
1 -TATAATA
18033056 TTATAATA
1 -TATAATA
18033064 TATA
1 TATA
18033068 TTTTAACCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
7 21 0.41
8 21 0.41
9 7 0.14
10 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (7 bp):
TATAATA
Found at i:18033029 original size:30 final size:31
Alignment explanation
Indices: 18032989--18033067 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 31
18032979 TTTCTTTTAT
* *
18032989 TATATTTACTTATTATAATATATA-ATATGA
1 TATATATACTTATTATAATATATAGATATAA
18033019 TATATATACTTA--ATAAT-TA-AGATATAA
1 TATATATACTTATTATAATATATAGATATAA
*
18033046 TAT-TATA-ATATTATAATATATA
1 TATATATACTTATTATAATATATA
18033068 TTTTAACCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
25 2 0.05
26 5 0.12
27 15 0.37
28 7 0.17
29 1 0.02
30 11 0.27
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
TATATATACTTATTATAATATATAGATATAA
Found at i:18033054 original size:8 final size:8
Alignment explanation
Indices: 18032999--18033064 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
18032989 TATATTTACT
18032999 TATTATAA
1 TATTATAA
18033007 TA-TATAA
1 TATTATAA
*
18033014 TATGAT-A
1 TATTATAA
18033021 TATATACTTAA
1 TAT-TA--TAA
*
18033032 TAAT-TAA
1 TATTATAA
*
18033039 GA-TATAA
1 TATTATAA
18033046 TATTATAA
1 TATTATAA
18033054 TATTATAA
1 TATTATAA
18033062 TAT
1 TAT
18033065 ATATTTTAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 14
0.71 0.08 0.22
Matches are distributed among these distances:
6 1 0.02
7 19 0.41
8 21 0.46
10 2 0.04
11 3 0.07
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (8 bp):
TATTATAA
Found at i:18052376 original size:41 final size:41
Alignment explanation
Indices: 18052316--18052487 Score: 245
Period size: 41 Copynumber: 4.2 Consensus size: 41
18052306 AAACACTTCT
* *
18052316 TTTTCATTCGTTATCCTTTTCGGATAACATCGTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* * *
18052357 TTTTCATTTGCTATTCTTTTTGGATAACATCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* *
18052398 TTTTCATTTGTTATTCTTTTCGGATAACTTCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
* * * *
18052439 TTTTCATTTTTTATCCTTTTCGGATAACTTTCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
18052480 TTTTCATT
1 TTTTCATT
18052488 GATTTAGAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 119 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (41 bp):
TTTTCATTTGTTATCCTTTTCGGATAACATCCTTTTCAACA
Found at i:18053176 original size:31 final size:31
Alignment explanation
Indices: 18053133--18053200 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
18053123 AAAATTCAAT
18053133 AACACTACAAACCCATTCATGAAAAGTCCCTA
1 AACA-TACAAACCCATTCATGAAAAGTCCCTA
18053165 AACATACAAACCCATTCATGAAAAGTCCCTA
1 AACATACAAACCCATTCATGAAAAGTCCCTA
18053196 AACAT
1 AACAT
18053201 TTAATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (31 bp):
AACATACAAACCCATTCATGAAAAGTCCCTA
Found at i:18053907 original size:18 final size:19
Alignment explanation
Indices: 18053869--18053907 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
18053859 TATTTTTGTT
18053869 TTTGTTGTTTTCTTAAATTTA
1 TTTGTTGTTTTCTT--ATTTA
18053890 TTTGTTGTTTTCTT-TTTA
1 TTTGTTGTTTTCTTATTTA
18053908 GGTCAGATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
21 14 0.78
ACGTcount: A:0.13, C:0.05, G:0.10, T:0.72
Consensus pattern (19 bp):
TTTGTTGTTTTCTTATTTA
Found at i:18054203 original size:68 final size:69
Alignment explanation
Indices: 18054084--18054215 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 69
18054074 TAAATTAAAA
* * *
18054084 AATACATTTAATTAATTCATATTTTTATATATAAAAATATTTATATATAATATAATTTAGTGCAC
1 AATACATTTAATTAATTCATATTGTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
18054149 ATAT
66 ATAT
* * *
18054153 AATA-ATTTAATTAATTTATATTGTTATCTATAAAAGAT-TTTACCCT-TAATATAAATTAGTGC
1 AATACATTTAATTAATTCATATTGTTATATATAAAA-ATATTTA-CATATAATATAAATTAGTGC
18054215 A
64 A
18054216 TTGGATTAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
68 48 0.87
69 7 0.13
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (69 bp):
AATACATTTAATTAATTCATATTGTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
ATAT
Found at i:18057569 original size:12 final size:12
Alignment explanation
Indices: 18057552--18057576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18057542 CAGAGGCTAT
18057552 TAACAATATTTA
1 TAACAATATTTA
18057564 TAACAATATTTA
1 TAACAATATTTA
18057576 T
1 T
18057577 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:18060196 original size:11 final size:11
Alignment explanation
Indices: 18060180--18060222 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
18060170 TATAAATTTA
18060180 AATATATTAAT
1 AATATATTAAT
*
18060191 AATATATAAAT
1 AATATATTAAT
18060202 AAT-T-TTAAT
1 AATATATTAAT
*
18060211 AATATAATAAT
1 AATATATTAAT
18060222 A
1 A
18060223 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATATTAAT
Found at i:18060218 original size:28 final size:27
Alignment explanation
Indices: 18060164--18060224 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
18060154 TTATCATTTA
*
18060164 AATATATATAAATTTAAATATATTAAT
1 AATATATAAAAATTTAAATATATTAAT
*
18060191 AATATATAAATAATTTTAATA-ATATAAT
1 AATATATAAA-AATTTAAATATAT-TAAT
18060219 AATATA
1 AATATA
18060225 GAAAGAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATATATAAAAATTTAAATATATTAAT
Found at i:18061938 original size:13 final size:13
Alignment explanation
Indices: 18061920--18061953 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
18061910 ACCTCCTTGG
18061920 ATTAAATTATTAA
1 ATTAAATTATTAA
18061933 ATTAAAATTATTAA
1 ATT-AAATTATTAA
18061947 A-TAAATT
1 ATTAAATT
18061954 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:18066629 original size:24 final size:24
Alignment explanation
Indices: 18066585--18066630 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
18066575 ATTGGTCATT
* * *
18066585 GAGAGATTTGAGGAGGGATATTTG
1 GAGAGATTTGAGCAAGAATATTTG
18066609 GAGAGATTTGAGCAAGAATATT
1 GAGAGATTTGAGCAAGAATATT
18066631 GAGATTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGCAAGAATATTTG
Found at i:18067470 original size:27 final size:27
Alignment explanation
Indices: 18067274--18067481 Score: 227
Period size: 27 Copynumber: 7.7 Consensus size: 27
18067264 AGAGGTCGAT
* *
18067274 AAATGACAGAAATACCTCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
18067301 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* *
18067328 GAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* ** *
18067355 GAATGGTCGAAATACTCCTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* * * **
18067382 GAATGACTGAAATGCCCCCGTAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
* * *
18067409 AAATCACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCTATAGGGTA
*
18067436 AAATGACCGAAATACCCCTATAGAGTA
1 AAATGACCGAAATACCCCTATAGGGTA
**
18067463 AAATGACCGTTATACCCCT
1 AAATGACCGAAATACCCCT
18067482 GGGAGATGAA
Statistics
Matches: 150, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 150 1.00
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAGGGTA
Found at i:18070769 original size:335 final size:336
Alignment explanation
Indices: 18070150--18070821 Score: 1337
Period size: 335 Copynumber: 2.0 Consensus size: 336
18070140 CACATTTAAT
18070150 GTTATATTAAAAAGTGAACAACTATCATCTAAAAAAAGAAAGTTCTAATATATTATATAAATATT
1 GTTATATTAAAAAGTGAACAACTATCATCTAAAAAAAGAAAGTTCTAATATATTATATAAATATT
18070215 TAAATTTAAAATGTTAAAATATATGATATGGAAAAAATAAAAAAATAAAGATTTTTTTAATGTTC
66 TAAATTTAAAATGTTAAAATATATGATATGGAAAAAATAAAAAAATAAAGATTTTTTTAATGTTC
18070280 AAAGTTGGAAGGGGGGTCAAAAAACAATTTAAAGGGGGGACAAACTCTTCAAAAGTTAAGGGGCT
131 AAAGTTGGAAGGGGGGTCAAAAAACAATTTAAAGGGGGGACAAACTCTTCAAAAGTTAAGGGGCT
18070345 AAATAAGAAATATTCATTTTTATAATTTATAGGGGCCGGGGCTTCTGTCAGCCCCCTAGATTTGC
196 AAATAAGAAATATTCATTTTTATAATTTATAGGGGCCGGGGCTTCTGTCAGCCCCCTAGATTTGC
18070410 CTTTGCCTTAAGACACCATCACAAAACATGAACGAAATCCTAAAATTCTTTCCCATACATGTCAA
261 CTTTGCCTTAAGACACCATCACAAAACATGAACGAAATCCTAAAATTCTTTCCCATACATGTCAA
18070475 GATAGAAATCA
326 GATAGAAATCA
18070486 GTTATATT-AAAAGTGAACAACTATCATCTAAAAAAAGAAAGTTCTAATATATTATATAAATATT
1 GTTATATTAAAAAGTGAACAACTATCATCTAAAAAAAGAAAGTTCTAATATATTATATAAATATT
18070550 TAAATTTAAAATGTTAAAATATATGATATGGAAAAAATAAAAAAATAAAGATTTTTTTAATGTTC
66 TAAATTTAAAATGTTAAAATATATGATATGGAAAAAATAAAAAAATAAAGATTTTTTTAATGTTC
18070615 AAAGTTGGAAGGGGGGTCAAAAAACAATTTAAAGGGGGGACAAACTCTTCAAAAGTTAAGGGGCT
131 AAAGTTGGAAGGGGGGTCAAAAAACAATTTAAAGGGGGGACAAACTCTTCAAAAGTTAAGGGGCT
18070680 AAATAAGAAATATTCATTTTTATAATTTATAGGGGCCGGGGCTTCTGTCAGCCCCCTAGATTTGC
196 AAATAAGAAATATTCATTTTTATAATTTATAGGGGCCGGGGCTTCTGTCAGCCCCCTAGATTTGC
18070745 CTTTGCCTTAAGACACCATCACAAAACATGAACGAAATCCTAAAATTCTTTCCCATACATGTCAA
261 CTTTGCCTTAAGACACCATCACAAAACATGAACGAAATCCTAAAATTCTTTCCCATACATGTCAA
18070810 GATAGAAATCA
326 GATAGAAATCA
18070821 G
1 G
18070822 CCATGCATAA
Statistics
Matches: 336, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
335 328 0.98
336 8 0.02
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (336 bp):
GTTATATTAAAAAGTGAACAACTATCATCTAAAAAAAGAAAGTTCTAATATATTATATAAATATT
TAAATTTAAAATGTTAAAATATATGATATGGAAAAAATAAAAAAATAAAGATTTTTTTAATGTTC
AAAGTTGGAAGGGGGGTCAAAAAACAATTTAAAGGGGGGACAAACTCTTCAAAAGTTAAGGGGCT
AAATAAGAAATATTCATTTTTATAATTTATAGGGGCCGGGGCTTCTGTCAGCCCCCTAGATTTGC
CTTTGCCTTAAGACACCATCACAAAACATGAACGAAATCCTAAAATTCTTTCCCATACATGTCAA
GATAGAAATCA
Found at i:18074471 original size:35 final size:35
Alignment explanation
Indices: 18074432--18074579 Score: 156
Period size: 35 Copynumber: 4.2 Consensus size: 35
18074422 CCATAATGAT
*
18074432 GGTATATAGGTCCTTC-AGGGTGACACCGTGTAAAC
1 GGTATATAGGTCCTTCGA-GGTGACACCATGTAAAC
* *
18074467 GGTATGTAGGT-CTTCTGAGGCGACACCATGTAAAC
1 GGTATATAGGTCCTTC-GAGGTGACACCATGTAAAC
* * * * *
18074502 AGTATGTAGGTCTTTCGTGGTGACACCATGTAAAT
1 GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
* * *
18074537 GGTATATAGGTCCTTCGGGGTGTCACCCTGTAAAC
1 GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
*
18074572 GATATATA
1 GGTATATA
18074580 AATCCTACCG
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.04
35 86 0.91
36 4 0.04
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (35 bp):
GGTATATAGGTCCTTCGAGGTGACACCATGTAAAC
Found at i:18074597 original size:105 final size:104
Alignment explanation
Indices: 18074405--18074598 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 104
18074395 ATTATCTAAT
* *
18074405 GGTCTTTCGAGATGACACCATAATGATGGTATATAGGTCCTTCAGGGTGACACCGTGTAAACGGT
1 GGTCTTTCGAGATGACACCATAA-GATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGAT
* ** * *
18074470 ATGTAGGTCTTCTGAGGCGACACCATGTAAACAGTATGTA
65 ATATAAATCTACCGAGGCGACACCATGTAAACAGTATGTA
* * * *
18074510 GGTCTTTCGTGGTGACACCATGTAA-ATGGTATATAGGTCCTTCGGGGTGTCACCCTGTAAACGA
1 GGTCTTTCGAGATGACACCA--TAAGATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGA
*
18074574 TATATAAATCCTACCG-GGGGACACC
64 TATATAAAT-CTACCGAGGCGACACC
18074599 TTGAAAGGGG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
105 67 0.91
106 4 0.05
107 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (104 bp):
GGTCTTTCGAGATGACACCATAAGATGGTATATAGGTCCTTCAGGGTGACACCCTGTAAACGATA
TATAAATCTACCGAGGCGACACCATGTAAACAGTATGTA
Found at i:18085171 original size:21 final size:21
Alignment explanation
Indices: 18085145--18085191 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18085135 CGACGGTGGA
** *
18085145 GGTGGCTAGTGGTTGTCCAAT
1 GGTGGCTAGTGGAGGTCCAAC
18085166 GGTGGCTAGTGGAGGTCCAAC
1 GGTGGCTAGTGGAGGTCCAAC
18085187 GGTGG
1 GGTGG
18085192 TCAACGGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.45, T:0.26
Consensus pattern (21 bp):
GGTGGCTAGTGGAGGTCCAAC
Found at i:18094592 original size:14 final size:15
Alignment explanation
Indices: 18094568--18094596 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
18094558 CCACACATAT
18094568 CCCCTCCCCCCCCCA
1 CCCCTCCCCCCCCCA
18094583 CCCC-CCCCCCCCCA
1 CCCCTCCCCCCCCCA
18094597 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.07, C:0.90, G:0.00, T:0.03
Consensus pattern (15 bp):
CCCCTCCCCCCCCCA
Found at i:18107600 original size:17 final size:16
Alignment explanation
Indices: 18107578--18107609 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
18107568 TTACAGAATA
18107578 TTGGAAGCTCGATCGGT
1 TTGGAAGCTCG-TCGGT
18107595 TTGGAAGCTCGTCGG
1 TTGGAAGCTCGTCGG
18107610 AGATTTATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.19, G:0.38, T:0.28
Consensus pattern (16 bp):
TTGGAAGCTCGTCGGT
Found at i:18110841 original size:31 final size:31
Alignment explanation
Indices: 18110803--18110864 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18110793 TTTATAATAA
*
18110803 CTTAACCAATTTATACTTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
18110834 CTTAACCAATTTATACCTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
18110865 AGAAATGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.37
Consensus pattern (31 bp):
CTTAACCAATTTATACCTAATCGATCCCTGT
Found at i:18111139 original size:3 final size:3
Alignment explanation
Indices: 18111131--18111197 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
18111121 GAGAACTTTG
18111131 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
18111179 AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA A
18111198 CAGAAGTGTG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18116457 original size:20 final size:20
Alignment explanation
Indices: 18116402--18116457 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
18116392 TTTTTCTTTT
*
18116402 TGTTAATTTC-TTTACTTTAA
1 TGTTATTTTCATTT-CTTTAA
* * * *
18116422 TTTTGTTTTTAATTCTTTAA
1 TGTTATTTTCATTTCTTTAA
18116442 TGTTATTTTCATTTCT
1 TGTTATTTTCATTTCT
18116458 GTTTTTATCT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (20 bp):
TGTTATTTTCATTTCTTTAA
Found at i:18120204 original size:13 final size:13
Alignment explanation
Indices: 18120186--18120210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18120176 AATTGTTTAT
18120186 CAAATGCATATAC
1 CAAATGCATATAC
18120199 CAAATGCATATA
1 CAAATGCATATA
18120211 TATTTAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (13 bp):
CAAATGCATATAC
Found at i:18120468 original size:41 final size:42
Alignment explanation
Indices: 18120407--18120490 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
18120397 GCCGACTTTT
** *
18120407 AGCCTGCTAGATGTATAGTCTGAATAATTTCACTGGC-ATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
*
18120448 AGCCTGCTAGACATAAAGTCTGAATTATTTCACTGGCAATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
18120490 A
1 A
18120491 TCAAATTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 33 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAATAATTTCACTGGCAATAA
Found at i:18122159 original size:27 final size:27
Alignment explanation
Indices: 18122094--18122160 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
18122084 TTTGTTTAAT
* * *
18122094 TATAATATTATAATATAATATATATAT
1 TATAATATTATAATATAATATAAAAAC
*
18122121 TATAACATTTATAAT-TAATATAAAAAC
1 TATAATA-TTATAATATAATATAAAAAC
18122148 TATATATATTATA
1 TATA-ATATTATA
18122161 CACATAATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 24 0.73
28 9 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
TATAATATTATAATATAATATAAAAAC
Found at i:18132249 original size:28 final size:28
Alignment explanation
Indices: 18132217--18132317 Score: 96
Period size: 28 Copynumber: 3.6 Consensus size: 28
18132207 GATTATAAAT
*
18132217 AATAGCCTTTGTGGTAAACTATGAAAAG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* * * * *
18132245 AATAGTCGTTGTGACGAACTCTGAAAAG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* * *
18132273 AATAGCCTTTGTGGCGAACTCTGAAATG
1 AATAGCCTTTGTGGCAAACTATGAAAAG
* *
18132301 GAT-GCCTTTCTGGCAAA
1 AATAGCCTTTGTGGCAAA
18132318 TTCTGAATGG
Statistics
Matches: 60, Mismatches: 13, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 12 0.20
28 48 0.80
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (28 bp):
AATAGCCTTTGTGGCAAACTATGAAAAG
Done.