Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 63 of 210
Found at i:18965836 original size:76 final size:76
Alignment explanation
Indices: 18965670--18965822 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
18965660 ATTTATAGAG
18965670 TTAAAAAATATATATTAATTTAATTTTAACTTCAAATTGAGTAGCATGCAACAACAAATAGTAAT
1 TTAAAAAATATATATTAATTTAATTTTAACTTCAAATTGAGTAGCATGCAACAACAAATAGTAAT
18965735 ATAGTAATATA
66 ATAGTAATATA
18965746 TTAAAAAATATATATTAATTTAATTTTAACTTCAAATTGAGTAGCATGCAACAACAAATAGTAAT
1 TTAAAAAATATATATTAATTTAATTTTAACTTCAAATTGAGTAGCATGCAACAACAAATAGTAAT
18965811 ATAGTAATATA
66 ATAGTAATATA
18965822 T
1 T
18965823 ATATATATAT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (76 bp):
TTAAAAAATATATATTAATTTAATTTTAACTTCAAATTGAGTAGCATGCAACAACAAATAGTAAT
ATAGTAATATA
Found at i:18967903 original size:66 final size:66
Alignment explanation
Indices: 18967805--18967930 Score: 177
Period size: 66 Copynumber: 1.9 Consensus size: 66
18967795 GCTGTAGTTG
* *
18967805 GAGTTCGTCATATTTTCTTGTTGCATCTACTTC-CATC-ACTGCTGCCTCCACTTTAAGTTGTAG
1 GAGTTCATCATATTTTCTTGTAGCATCTACTTCTC-TCGA-TGCTGCCTCCACTTTAAGTTGTAG
18967868 CTA
64 CTA
*
18967871 GAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTG
1 GAGTTCATCATATTTTCTTGT-AGCATCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTG
18967931 AGCAATTTGC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
65 1 0.02
66 51 0.94
67 2 0.04
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.41
Consensus pattern (66 bp):
GAGTTCATCATATTTTCTTGTAGCATCTACTTCTCTCGATGCTGCCTCCACTTTAAGTTGTAGCT
A
Found at i:18968953 original size:26 final size:26
Alignment explanation
Indices: 18968922--18968999 Score: 71
Period size: 26 Copynumber: 3.3 Consensus size: 26
18968912 AGAAAGTAAA
18968922 TATAAATGAAACTTAAACCAAAGTAT
1 TATAAATGAAACTTAAACCAAAGTAT
* * *
18968948 TATAAATTACA-TT----C-ATGT-T
1 TATAAATGAAACTTAAACCAAAGTAT
*
18968967 AATAAATGAAACTTAAACCAAAGTAT
1 TATAAATGAAACTTAAACCAAAGTAT
18968993 TATAAAT
1 TATAAAT
18969000 TACATTCACA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
19 9 0.24
20 5 0.14
21 1 0.03
24 1 0.03
25 5 0.14
26 16 0.43
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.32
Consensus pattern (26 bp):
TATAAATGAAACTTAAACCAAAGTAT
Found at i:18982578 original size:11 final size:11
Alignment explanation
Indices: 18982558--18982590 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
18982548 GTTAAATTCG
18982558 TAATTGGTTGT
1 TAATTGGTTGT
*
18982569 TAATTTGTTGT
1 TAATTGGTTGT
18982580 TAATTGGTTGT
1 TAATTGGTTGT
18982591 GGTAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.58
Consensus pattern (11 bp):
TAATTGGTTGT
Found at i:18986887 original size:10 final size:10
Alignment explanation
Indices: 18986863--18986905 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
18986853 TATATGTTGA
*
18986863 ATAAAATGA-
1 ATAAAATTAG
18986872 ATAAAATTAG
1 ATAAAATTAG
*
18986882 ATAAAAAT-G
1 ATAAAATTAG
18986891 ATAAAATTAG
1 ATAAAATTAG
18986901 ATAAA
1 ATAAA
18986906 TAGATTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.55
10 13 0.45
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (10 bp):
ATAAAATTAG
Found at i:18986887 original size:19 final size:18
Alignment explanation
Indices: 18986863--18986905 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
18986853 TATATGTTGA
18986863 ATAAAATGAATAAAATTAG
1 ATAAAATG-ATAAAATTAG
18986882 ATAAAAATGATAAAATTAG
1 AT-AAAATGATAAAATTAG
18986901 ATAAA
1 ATAAA
18986906 TAGATTGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 14 0.61
20 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATGATAAAATTAG
Found at i:18989855 original size:17 final size:18
Alignment explanation
Indices: 18989829--18989862 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18989819 TTTAAAAAGA
*
18989829 TATTTGTTT-AAATAATG
1 TATTTATTTAAAATAATG
18989846 TATTTATTTAAAATAAT
1 TATTTATTTAAAATAAT
18989863 TAATTTTATG
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:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (18 bp):
TATTTATTTAAAATAATG
Found at i:18993014 original size:64 final size:64
Alignment explanation
Indices: 18992935--18993146 Score: 182
Period size: 64 Copynumber: 3.3 Consensus size: 64
18992925 GCTATTCAGA
*
18992935 GTTGCGATCTTAAATCAACTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
1 GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
* * * * * * * * ***
18992999 GTTGCGATCTTAAATCGGCGAAC-CTTAATAATATGAATT-GTGATCTTAAATC-AGCTAGTTGT
1 GTTGCGATCTTAAATCAGCTAACTC-AAATAAAAT-TATTCATGATCTGAAATCGA-AT-GAACT
*
18993061 TCGG
62 T-AG
* * *
18993065 AGTTGTGATCTTAAATCAGCTAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTA
1 -GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATC-GAATGAACTTA
18993129 G
64 G
18993130 GTTGCGAT-TTAAATCAG
1 GTTGCGATCTTAAATCAG
18993147 TGAACCTTAA
Statistics
Matches: 109, Mismatches: 29, Indels: 21
0.69 0.18 0.13
Matches are distributed among these distances:
63 11 0.10
64 46 0.42
65 7 0.06
66 7 0.06
67 36 0.33
68 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (64 bp):
GTTGCGATCTTAAATCAGCTAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAG
Found at i:18993207 original size:130 final size:131
Alignment explanation
Indices: 18992823--18993237 Score: 566
Period size: 131 Copynumber: 3.2 Consensus size: 131
18992813 GTGAAAAAAT
* * * * * *
18992823 TAACTCCAATAAAATTGTTAATGATTTTAAATCGAATGAA-TGTAAGTTGCTATCTTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACT-TAGGTTGCGATCTTAAATCAGT
* * * * * * * *
18992887 GAACCTTAACAATATCAGCTGCGATATTAAATCAGCGAGCTATTCAGAGTTGCGATCTTAAATCA
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCA
*
18992952 AC
130 GC
* * *
18992954 TAACTCAAATAAAATTATTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCGGCG
1 TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
* * * *
18993019 AACCTTAATAATATGAATTGTGATCTTAAATCAGCTAGTTGTTCGGAGTTGTGATCTTAAATCAG
66 AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCAG
18993084 C
131 C
*
18993085 TAACTCAAATAAAATTGTTCATGAACTGAAA-CTGAATGAACTTAGGTTGCGAT-TTAAATCAGT
1 TAACTCAAATAAAATTGTTCATGATCTGAAATC-GAATGAACTTAGGTTGCGATCTTAAATCAGT
*
18993148 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATTA
65 GAACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCA
18993213 GC
130 GC
*
18993215 AAACTCAAATAAAATTGTTCATG
1 TAACTCAAATAAAATTGTTCATG
18993238 TTAAATAAAG
Statistics
Matches: 251, Mismatches: 31, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
130 93 0.37
131 157 0.63
132 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (131 bp):
TAACTCAAATAAAATTGTTCATGATCTGAAATCGAATGAACTTAGGTTGCGATCTTAAATCAGTG
AACCTTAATAATATCAGTTGTGATCTTAAATCAGCAAGTTGTTCGGAGTTGCGATCTTAAATCAG
C
Found at i:18996475 original size:24 final size:24
Alignment explanation
Indices: 18996448--18996511 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
18996438 AACACAATGT
* *
18996448 AGATACAGAA-ACAAGTTCAGTTAC
1 AGATACA-AATACAAATTCAATTAC
*
18996472 AGATGCAAATACAAATTCAATTAC
1 AGATACAAATACAAATTCAATTAC
*
18996496 AGATACAAATGCAAAT
1 AGATACAAATACAAAT
18996512 GCAAACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
AGATACAAATACAAATTCAATTAC
Found at i:19000661 original size:112 final size:109
Alignment explanation
Indices: 19000423--19000642 Score: 244
Period size: 112 Copynumber: 2.0 Consensus size: 109
19000413 TATAATATTC
* * *
19000423 AAAAAAATAATTTTTTTTTGTGCTGGCACACTGATGGCCAACTCCCACTTTATCAGATAAAAAAA
1 AAAAAAAT-ATTTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAA
* * * * * **
19000488 TTTTGGTTTGGGAGAATTAGATGGCCAGCATCACCTTTTTCATATT
65 TTTTGGTTAGGGAGAACTAAATGGACAACATCACCTTTTT-ATAGG
* *
19000534 AAAAAAATAATTTTTTTTAGATGCTGGCACACTAATGGCTAACACCCACTTTATCAAATAAAAAA
1 AAAAAAAT-ATTTTTTTTTG-TGCTGGCACACTAATGGCCAACACCCACTTTATCAAAT-AAAAA
*
19000599 AATTTCTTAGGTTAGGG-GAACTAAATGGATAACATCACCTTTTT
63 AA-TT-TT-GGTTAGGGAGAACTAAATGGACAACATCACCTTTTT
19000643 TGGGAATACA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
111 19 0.20
112 34 0.37
113 7 0.08
114 2 0.02
115 24 0.26
116 7 0.08
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (109 bp):
AAAAAAATATTTTTTTTTGTGCTGGCACACTAATGGCCAACACCCACTTTATCAAATAAAAAAAT
TTTGGTTAGGGAGAACTAAATGGACAACATCACCTTTTTATAGG
Found at i:19003441 original size:24 final size:24
Alignment explanation
Indices: 19003414--19003464 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
19003404 CCCATGATTC
* * *
19003414 AATTTAATTTATAGTGTAAATAAA
1 AATTCAATTAATAGTATAAATAAA
19003438 AATTCAATTAATAGTATAAATAAA
1 AATTCAATTAATAGTATAAATAAA
19003462 AAT
1 AAT
19003465 AATAATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (24 bp):
AATTCAATTAATAGTATAAATAAA
Found at i:19003703 original size:31 final size:28
Alignment explanation
Indices: 19003632--19003710 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 28
19003622 AAATTAAAGT
*
19003632 ATAGATAATTTCAAA-TAAAAAAATTAA
1 ATAGATAATTTTAAATTAAAAAAATTAA
* *
19003659 ATACATAAATTTTAAATTAAAAACTAATTGA
1 ATAGAT-AATTTTAAATTAAAAA--AATTAA
19003690 ATAGATATATTTT-AATTAAAA
1 ATAGATA-ATTTTAAATTAAAA
19003711 TATCAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.12
28 8 0.19
29 6 0.14
30 9 0.21
31 15 0.35
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (28 bp):
ATAGATAATTTTAAATTAAAAAAATTAA
Found at i:19003784 original size:161 final size:162
Alignment explanation
Indices: 19003502--19003844 Score: 501
Period size: 161 Copynumber: 2.1 Consensus size: 162
19003492 GATTTTAAAT
*
19003502 TAAAGTTTAAATTAAAATTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGATTATA
1 TAAAGTTTAAATTAAAACTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGATTATA
* * * *
19003567 AATAAAATATAATTTAATACATTTTAATTGAATAGATTAAAACTAATTACTGTATAAATTAAAGT
66 AATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAGT
19003632 ATAGATAATTTCAAATAAAAAAATTAAATACA
131 ATAGATAATTTCAAATAAAAAAATTAAATACA
* * * *
19003664 TAAATTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAATATCAATTTAAA-A-TAT
1 TAAAGTTTAAATT-AAAACTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGATTAT
*
19003727 AAATAAAAAATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
65 AAATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAG
* *
19003792 TATAGTTAATTTCAAGTAAAAATTAAAAATTAAATACA
130 TATAGATAATTTC-A--AATAA--AAAAATTAAATACA
*
19003830 TAAAGTTTAACTTAA
1 TAAAGTTTAAATTAA
19003845 TAATTAAATT
Statistics
Matches: 161, Mismatches: 14, Indels: 9
0.88 0.08 0.05
Matches are distributed among these distances:
161 75 0.47
162 14 0.09
163 41 0.25
164 4 0.02
165 2 0.01
166 25 0.16
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (162 bp):
TAAAGTTTAAATTAAAACTAATTGAACAAATATATTTTAATTAAAAAATCAATTTAAAGATTATA
AATAAAAAATAATTGAATACATTTTAATTGAATAGATTAAAACCAATTAATGTATAAATTAAAGT
ATAGATAATTTCAAATAAAAAAATTAAATACA
Found at i:19003819 original size:96 final size:93
Alignment explanation
Indices: 19003718--19004002 Score: 204
Period size: 96 Copynumber: 3.0 Consensus size: 93
19003708 AAATATCAAT
*
19003718 TTAAAATATAAATAAAAAATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGTAT
1 TTAAAATATAAATAAAAAATAATT-AATATATTTAAATTGAATAGATTAAAA-CAATTAAT-TAT
19003783 AAATTAAAGTATAGTTAATTTCAAGTAAAAA
63 AAATTAAAGTATAGTTAATTTCAAGTAAAAA
* * *
19003814 TTAAAA-ATTAAATACATAAAGTTTAACTTAATA-A-TTAAATT--TTAAATT-AAA-AATTAAT
1 TTAAAATA-TAAATA-A-AAA--ATAA-TTAATATATTTAAATTGAATAGATTAAAACAATTAAT
* * *
19003872 TGAGTAGA-T--A-TAT-TTTAA-TT-AA-AAAATCAA
60 T-A-TAAATTAAAGTATAGTTAATTTCAAGTAAA--AA
*
19003902 TTTAAAGATTATAAATAAAAATAATAATTTAATATATTTCAATTGAATAGATTAAAATCAATTAA
1 -TTAAA-A-TATAAAT-AAAA-AATAA-TTAATATATTTAAATTGAATAGATTAAAA-CAATTAA
19003967 TATATAAATTAAAGTATAGTTAATTTCAAGTAAAAA
59 T-TATAAATTAAAGTATAGTTAATTTCAAGTAAAAA
19004003 AATAAAAATT
Statistics
Matches: 142, Mismatches: 15, Indels: 59
0.66 0.07 0.27
Matches are distributed among these distances:
86 3 0.02
87 2 0.01
88 4 0.03
89 18 0.13
90 7 0.05
91 14 0.10
92 3 0.02
93 14 0.10
94 6 0.04
95 7 0.05
96 26 0.18
97 2 0.01
98 10 0.07
99 4 0.03
100 11 0.08
101 6 0.04
102 2 0.01
103 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (93 bp):
TTAAAATATAAATAAAAAATAATTAATATATTTAAATTGAATAGATTAAAACAATTAATTATAAA
TTAAAGTATAGTTAATTTCAAGTAAAAA
Found at i:19003852 original size:19 final size:19
Alignment explanation
Indices: 19003830--19003870 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
19003820 ATTAAATACA
* *
19003830 TAAAGTTTAACTTAATAAT
1 TAAAGTTTAAATTAAAAAT
*
19003849 TAAATTTTAAATTAAAAAT
1 TAAAGTTTAAATTAAAAAT
19003868 TAA
1 TAA
19003871 TTGAGTAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAGTTTAAATTAAAAAT
Found at i:19003864 original size:185 final size:190
Alignment explanation
Indices: 19003656--19004041 Score: 631
Period size: 189 Copynumber: 2.1 Consensus size: 190
19003646 ATAAAAAAAT
*
19003656 TAAATACA-TAAATTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAATATCAATTT
1 TAAATA-ATTAAATTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTT
* *
19003720 AAA-A-TATAAAT-AAAA-AATAATTGAATATATTTTAATTGAATAGATTAAAACCAATTAATGT
65 AAAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATAT
*
19003781 ATAAATTAAAGTATAGTTAATTTCAAGT-AAAAATTAAAAATTAAATACATAAAGTTTAAC
130 ATAAATTAAAGTATAGTTAATTTCAAGTAAAAAAATAAAAATTAAATACATAAAGTTTAAC
* * *
19003841 TTAATAATTAAATTTTAAATTAAAAATTAATTGAGTAGATATATTTTAATTAAAAAATCAATTTA
1 TAAATAATTAAATTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
* *
19003906 AAGATTATAAATAAAAATAATAATTTAATATATTTCAATTGAATAGATTAAAATCAATTAATATA
66 AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
*
19003971 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAAATAAAAATTAAATACATAAATTTTAAC
131 TAAATTAAAGTATAGTTAATTTCAAGTAAAAAAATAAAAATTAAATACATAAAGTTTAAC
19004031 TAAATAATTAA
1 TAAATAATTAA
19004042 TTGAAATAAA
Statistics
Matches: 184, Mismatches: 11, Indels: 7
0.91 0.05 0.03
Matches are distributed among these distances:
184 1 0.01
185 61 0.33
186 1 0.01
187 7 0.04
188 4 0.02
189 70 0.38
190 40 0.22
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (190 bp):
TAAATAATTAAATTTTAAATTAAAAACTAATTGAATAGATATATTTTAATTAAAAAATCAATTTA
AAGATTATAAATAAAAATAATAATTGAATATATTTCAATTGAATAGATTAAAACCAATTAATATA
TAAATTAAAGTATAGTTAATTTCAAGTAAAAAAATAAAAATTAAATACATAAAGTTTAAC
Found at i:19007013 original size:90 final size:89
Alignment explanation
Indices: 19006898--19007176 Score: 267
Period size: 90 Copynumber: 3.1 Consensus size: 89
19006888 AGAAAATACA
* * *
19006898 AACATTCTACAAAACTAATATACGAAAATATATAATTCGACCAACAAATAATACCGCCTAAATTT
1 AACATTTTACAAAACTAATATACGAAAATATAAAATTCGACCAACAAATAATACAG-CTAAATTT
*
19006963 TATTTATAGATACAAAACTCATATG
65 TATTTATAGATACAAAACTAATATG
* * **
19006988 AACATTTTAGAAAATTAATATACGAAAATATAAAATTCGATCGGA-AAATAATACAAGCTAAAAT
1 AACATTTTACAAAACTAATATACGAAAATATAAAATTCGA-CCAACAAATAATAC-AGCT-AAAT
* * * * **
19007052 ATT-TTTACAGATCCAAAAATAATACA
63 TTTATTTATAGATACAAAACTAATATG
* * ** *
19007078 AACATTTTACAGAACTGATATACGAAAAATATAAAAATT-GACCAACAAATAATATGGACTAAAA
1 AACATTTTACAAAACTAATATACG-AAAATAT-AAAATTCGACCAACAAATAATACAG-CTAAAT
* * *
19007142 TTGATTTATGGACACAAAACTAATATG
63 TTTATTTATAGATACAAAACTAATATG
*
19007169 AATATTTT
1 AACATTTT
19007177 GAATAATAGT
Statistics
Matches: 148, Mismatches: 33, Indels: 15
0.76 0.17 0.08
Matches are distributed among these distances:
90 91 0.61
91 51 0.34
92 6 0.04
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (89 bp):
AACATTTTACAAAACTAATATACGAAAATATAAAATTCGACCAACAAATAATACAGCTAAATTTT
ATTTATAGATACAAAACTAATATG
Found at i:19017131 original size:30 final size:30
Alignment explanation
Indices: 19017095--19017152 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
19017085 CAACTTAACA
19017095 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
* *
19017125 AACAAATGTCTTTAAAATAATAACAAAA
1 AACAAATGCCTCTAAAATAATAACAAAA
19017153 GTAATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.14, G:0.03, T:0.24
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:19017209 original size:14 final size:14
Alignment explanation
Indices: 19017190--19017220 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19017180 GTCCAAACAA
19017190 TAACAACAAAATAG
1 TAACAACAAAATAG
*
19017204 TAACAACATAATAG
1 TAACAACAAAATAG
19017218 TAA
1 TAA
19017221 AATGGTCACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (14 bp):
TAACAACAAAATAG
Found at i:19018414 original size:22 final size:22
Alignment explanation
Indices: 19018389--19018460 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
19018379 TAACTAAACC
19018389 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
19018411 CTCATGGCTAACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
** *
19018433 CTCATGTTTCACGTACTAAGCT
1 CTCATGGCTAACGTACTAAGCT
19018455 CTCATG
1 CTCATG
19018461 TTTGAACAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (22 bp):
CTCATGGCTAACGTACTAAGCT
Found at i:19018638 original size:18 final size:19
Alignment explanation
Indices: 19018615--19018665 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
19018605 ACACAAGCTT
19018615 TAAATTTAAAAT-TGTTCA
1 TAAATTTAAAATGTGTTCA
*
19018633 TAAATTGTAAAATGTTTTCA
1 TAAATT-TAAAATGTGTTCA
* *
19018653 AAAATATAAAATG
1 TAAATTTAAAATG
19018666 ATAATTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 13 0.46
20 9 0.32
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (19 bp):
TAAATTTAAAATGTGTTCA
Found at i:19018905 original size:26 final size:25
Alignment explanation
Indices: 19018876--19018925 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
19018866 CTAATTTTAT
19018876 TAAAAATTATTTAT-ATTATAAAATAA
1 TAAAAATTATTT-TGA-TATAAAATAA
*
19018902 TAAATATTATTTTGATATAAAATA
1 TAAAAATTATTTTGATATAAAATA
19018926 TTAAGGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAAATTATTTTGATATAAAATAA
Found at i:19023562 original size:3 final size:3
Alignment explanation
Indices: 19023554--19023614 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
19023544 TATAGTAAGG
19023554 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19023602 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
19023615 ATATAGCATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19025753 original size:15 final size:13
Alignment explanation
Indices: 19025728--19025768 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
19025718 TCTTTAAATC
19025728 ATTTTTTATATAA
1 ATTTTTTATATAA
19025741 ATTTATGTTATAT-A
1 ATTT-T-TTATATAA
19025755 ATTTTTTATATAA
1 ATTTTTTATATAA
19025768 A
1 A
19025769 CTTAACGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 6 0.24
15 6 0.24
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
ATTTTTTATATAA
Found at i:19027755 original size:18 final size:18
Alignment explanation
Indices: 19027732--19027786 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
19027722 AAAATTATCA
19027732 TTTTAACTTTTTTTTAAT
1 TTTTAACTTTTTTTTAAT
19027750 TTTTAAC-TTTTTTTATAT
1 TTTTAACTTTTTTTTA-AT
*
19027768 TCTTTAAATATTTTTTTAA
1 T-TTTAACT-TTTTTTTAA
19027787 AAAAACTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 8 0.25
18 10 0.31
19 5 0.16
20 1 0.03
21 8 0.25
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTAACTTTTTTTTAAT
Found at i:19027795 original size:23 final size:22
Alignment explanation
Indices: 19027769--19027811 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19027759 TTTTTATATT
*
19027769 CTTTAAATATTTTTTTAAAAAAA
1 CTTTAAA-ATTTTTTCAAAAAAA
*
19027792 CTTTATAATTTTTTCAAAAA
1 CTTTAAAATTTTTTCAAAAA
19027812 TATAATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
CTTTAAAATTTTTTCAAAAAAA
Found at i:19036656 original size:27 final size:27
Alignment explanation
Indices: 19036618--19036673 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
19036608 CTAAGGAAAA
19036618 CTCTGTCGCCAATCCTTCTTTCAGGGT
1 CTCTGTCGCCAATCCTTCTTTCAGGGT
19036645 CTCTGTCGCCAATCCTTCTTTCAGGGT
1 CTCTGTCGCCAATCCTTCTTTCAGGGT
19036672 CT
1 CT
19036674 ACTATGGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.34, G:0.18, T:0.38
Consensus pattern (27 bp):
CTCTGTCGCCAATCCTTCTTTCAGGGT
Found at i:19043121 original size:90 final size:87
Alignment explanation
Indices: 19042983--19043242 Score: 239
Period size: 90 Copynumber: 3.0 Consensus size: 87
19042973 TAAAACGCCT
* * *
19042983 TCAAACTTTTTT--AAAAAAGCAATTAAAC-CATTAATTTTTTT--ACTCAATTGGGTACTTGAA
1 TCAAA-TTTTTTCAAAAAAAGCAATTAAGCTC-CTGATTTTTTTACACTCAATTGGGTACTTGAA
*
19043043 CTTTCAAAATGCATAAAAAAGACCC
64 CTTT-AAAATGCATAAAAAAGACAC
* ****
19043068 TCAATCTTTTTTTTTTAAAA-CAATTAAGC-CCATGTTATTTTTTTACACTCAATTGGGTACTTG
1 TCAA-ATTTTTTCAAAAAAAGCAATTAAGCTCC-TG--ATTTTTTTACACTCAATTGGGTACTTG
*
19043131 AACTTTTAAAATGCATTAAAAAA-TCAC
62 AAC-TTTAAAATGCA-TAAAAAAGACAC
* * * *
19043158 TCAAATTTTTTCAAAAAAAGTAATTAAGCTCCTGATTTTTTTACACTAAATTAGGTACTTTAACT
1 TCAAATTTTTTCAAAAAAAGCAATTAAGCTCCTGATTTTTTTACACTCAATTGGGTACTTGAACT
* *
19043223 GTAAAATGCATCAAAAAGAC
66 TTAAAATGCATAAAAAAGAC
19043243 TATTTGACCG
Statistics
Matches: 142, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
85 10 0.07
86 16 0.11
87 15 0.11
88 35 0.25
89 10 0.07
90 44 0.31
91 12 0.08
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (87 bp):
TCAAATTTTTTCAAAAAAAGCAATTAAGCTCCTGATTTTTTTACACTCAATTGGGTACTTGAACT
TTAAAATGCATAAAAAAGACAC
Found at i:19043376 original size:16 final size:16
Alignment explanation
Indices: 19043344--19043389 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
19043334 ACATGTGACA
**
19043344 AAAAAATATAATTAAT
1 AAAAAATATAAAAAAT
**
19043360 AAAAGTTATAAAAAAT
1 AAAAAATATAAAAAAT
19043376 AAAAAATATAAAAA
1 AAAAAATATAAAAA
19043390 TCGTAGAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAAATATAAAAAAT
Found at i:19043442 original size:19 final size:18
Alignment explanation
Indices: 19043358--19043457 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 18
19043348 AATATAATTA
*
19043358 ATAAAAGTTATAAAAA--
1 ATAAAAATTATAAAAATC
*
19043374 ATAAAAAATATAAAAATC
1 ATAAAAATTATAAAAATC
* * *
19043392 GTAGAAAAATATAAAATATT
1 ATA-AAAATTATAAAA-ATC
* *
19043412 GTAAAATTTTATAAAAATC
1 ATAAAA-ATTATAAAAATC
19043431 ATAAAAACTTATAAAAATGC
1 ATAAAAA-TTATAAAAAT-C
19043451 ATAAAAA
1 ATAAAAA
19043458 ACCCCCTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
16 14 0.21
18 2 0.03
19 32 0.47
20 20 0.29
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (18 bp):
ATAAAAATTATAAAAATC
Found at i:19043447 original size:10 final size:9
Alignment explanation
Indices: 19043353--19043448 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 9
19043343 AAAAAAATAT
19043353 AATTAATAAA
1 AATT-ATAAA
*
19043363 AGTTATAAA
1 AATTATAAA
19043372 AA--ATAAA
1 AATTATAAA
*
19043379 AAATATAAA
1 AATTATAAA
*
19043388 AATCGTAGAAA
1 AAT--TATAAA
19043399 AA-TATAAA
1 AATTATAAA
*
19043407 ATATTGTAAA
1 A-ATTATAAA
*
19043417 ATTTTATAAA
1 A-ATTATAAA
*
19043427 AATCATAAA
1 AATTATAAA
19043436 AACTTATAAA
1 AA-TTATAAA
19043446 AAT
1 AAT
19043449 GCATAAAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
7 7 0.10
8 6 0.09
9 23 0.34
10 25 0.37
11 7 0.10
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (9 bp):
AATTATAAA
Found at i:19044080 original size:95 final size:89
Alignment explanation
Indices: 19043958--19044125 Score: 221
Period size: 90 Copynumber: 1.8 Consensus size: 89
19043948 TTTCAGGGCC
* *
19043958 TTTTTTATGCATTTTGAAAGTTCAAGTAC-CAATTGAGTGCAAAAAAAAAAAGTAGGGGCTTAAT
1 TTTTTTATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTG----AAAAAAAAG--GGGGCTTAAT
19044022 TGCTTTTTTTTTTTTTTTAAGTTTGAGGGT
60 TGCTTTTTTTTTTTTTTTAAGTTTGAGGGT
* * *
19044052 TTTTTTGATGGATTGTGAAAGTTGAAGTACTCAAGTGAGTGAAAAGAAAGGGGGCTTAATTGCTT
1 TTTTTT-ATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTGAAAAAAAAGGGGGCTTAATTGCTT
19044117 TTTTTTTTT
65 TTTTTTTTT
19044126 AAATTAAAGA
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
90 24 0.36
92 8 0.12
94 6 0.09
95 20 0.30
96 9 0.13
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (89 bp):
TTTTTTATGCATTGTGAAAGTTCAAGTACTCAAGTGAGTGAAAAAAAAGGGGGCTTAATTGCTTT
TTTTTTTTTTTTAAGTTTGAGGGT
Found at i:19045777 original size:43 final size:43
Alignment explanation
Indices: 19045677--19045869 Score: 191
Period size: 43 Copynumber: 4.5 Consensus size: 43
19045667 CATTGAATAA
* * * * *
19045677 AAAGGGGTTGCTAAGTGCTGA-TTC-CCCGAATTATTGAATCT-
1 AAAGGGGTTGCTATGTGCTGATTTCACCC-TATCATTGATTGTG
*
19045718 AAAGGTGGTTGCTATGTGCTGATTTCACCCTATCTTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
* * *
19045762 AAAGGGATTGCTATGTGCTGA-TTC-CCCGTATCATTGAATAT-
1 AAAGGGGTTGCTATGTGCTGATTTCACCC-TATCATTGATTGTG
* * * *
19045803 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTG
1 AAAGG-GGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
19045847 AAAGGGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATT
19045870 CCCCGTATCA
Statistics
Matches: 125, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
41 13 0.10
42 42 0.34
43 55 0.44
44 15 0.12
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
AAAGGGGTTGCTATGTGCTGATTTCACCCTATCATTGATTGTG
Found at i:19045784 original size:85 final size:85
Alignment explanation
Indices: 19045677--19045915 Score: 336
Period size: 85 Copynumber: 2.8 Consensus size: 85
19045667 CATTGAATAA
* * * *
19045677 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGAATCTAAAGGTGGTTGCTATGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
* *
19045742 TCACCCTATCTTTGATTGTG
66 CCACCCTATCCTTGATTGTG
* *
19045762 AAAGGGATTGCTATGTGCTGATTCCCCGTATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
*
19045827 CCACCGTATCCTTGATTGTG
66 CCACCCTATCCTTGATTGTG
* * * * * *
19045847 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTAATGTTGTTGCTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
19045911 CCACC
66 CCACC
19045916 AAGTAACGGA
Statistics
Matches: 139, Mismatches: 15, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 26 0.19
85 113 0.81
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATT
CCACCCTATCCTTGATTGTG
Found at i:19045870 original size:43 final size:41
Alignment explanation
Indices: 19045667--19045908 Score: 243
Period size: 42 Copynumber: 5.8 Consensus size: 41
19045657 GACCGGAATA
** * *
19045667 CATTGAATAAAAAGGGGTTGCTAAGTGCTGATTCCCCGAAT
1 CATTGAATGTAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* *
19045708 TATTGAATCTAAAGGTGGTTGCTATGTGCTGATTTCACCC-TAT
1 CATTGAATGTAAAGG-GGTTGCTATGTGCTGA-TTC-CCCGTAT
* * *
19045751 CTTTGATTGTGAAAGGGATTGCTATGTGCTGATTCCCCGTAT
1 CATTGAATGT-AAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* *
19045793 CATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTAT
1 CATTGAATGTAAAGG-GGTTGCTATGTGCTGATTCC-CCGTAT
* *
19045836 CCTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
1 CATTGAATGT-AAAGGGGTTGCTATGTGCTGATTCCCCGTAT
* * * ** *
19045878 CACTGAATTTAATGTTGTTGCTAAGTGCTGA
1 CATTGAATGTAAAGGGGTTGCTATGTGCTGA
19045909 ATCCACCAAG
Statistics
Matches: 166, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
41 37 0.22
42 58 0.35
43 58 0.35
44 13 0.08
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
CATTGAATGTAAAGGGGTTGCTATGTGCTGATTCCCCGTAT
Found at i:19046886 original size:2 final size:2
Alignment explanation
Indices: 19046879--19046940 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
19046869 TTTAGTCATG
19046879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19046921 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
19046941 GTGTGTGTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19046945 original size:2 final size:2
Alignment explanation
Indices: 19046940--19046979 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19046930 TATATATATA
19046940 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
19046980 ACAATAATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:19048377 original size:24 final size:23
Alignment explanation
Indices: 19048347--19048402 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
19048337 GGATTAATTA
19048347 AAAATATTATAAAATATAAAATAT
1 AAAATATTATAAAAT-TAAAATAT
*
19048371 AAAATATTTTTAAAATTAAAATAT
1 AAAATA-TTATAAAATTAAAATAT
19048395 -AAATATTA
1 AAAATATTA
19048403 AATCCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.07
23 5 0.17
24 14 0.48
25 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATATTATAAAATTAAAATAT
Found at i:19049039 original size:33 final size:33
Alignment explanation
Indices: 19048990--19049091 Score: 116
Period size: 33 Copynumber: 3.1 Consensus size: 33
19048980 GGGTTTTTGG
*
19048990 TAGGTTTAGGGTTTTTAAAAAAATTAATTAAAT
1 TAGGATTAGGGTTTTTAAAAAAATTAATTAAAT
* * * * *
19049023 TAGGTTTTTGGG-TTTTAAATAAATAAATAAAAT
1 TAGG-ATTAGGGTTTTTAAAAAAATTAATTAAAT
*
19049056 TAAGGATTAGGGTTTTTAAGAAAATTAATTAAAT
1 T-AGGATTAGGGTTTTTAAAAAAATTAATTAAAT
19049090 TA
1 TA
19049092 TAGTTTAGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 29 0.52
34 27 0.48
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (33 bp):
TAGGATTAGGGTTTTTAAAAAAATTAATTAAAT
Found at i:19049090 original size:34 final size:34
Alignment explanation
Indices: 19048991--19049091 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 34
19048981 GGTTTTTGGT
19048991 AGGT-TTAGGGTTTTTAAAAAAATTAATTAAATT-
1 AGGTATTAGGGTTTTT-AAAAAATTAATTAAATTA
* * * *
19049024 AGGTTTTTGGG-TTTTAAATAAATAAATAAAATTA
1 AGGTATTAGGGTTTTTAAA-AAATTAATTAAATTA
19049058 AGG-ATTAGGGTTTTTAAGAAAATTAATTAAATTA
1 AGGTATTAGGGTTTTTAA-AAAATTAATTAAATTA
19049092 TAGTTTAGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
32 3 0.05
33 25 0.45
34 27 0.48
35 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.41
Consensus pattern (34 bp):
AGGTATTAGGGTTTTTAAAAAATTAATTAAATTA
Found at i:19049366 original size:125 final size:124
Alignment explanation
Indices: 19049169--19049439 Score: 361
Period size: 125 Copynumber: 2.2 Consensus size: 124
19049159 AACTTTTGTT
** *
19049169 TTTTTCTACAGTAGTTTTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAGATAATGTAAAAA
1 TTTTTCTACAGTAGTTCCT-AAAAAATAATTTTGAGAAGACGATTCTGAAAAGATAATGTAAAAA
*
19049234 GCACTTCAAGCAGGATGCACTGTCAGCAAAATT-ACTGAAAAAAGCTCCCACATGGACGCTC
65 G-ACTTCAAGCAGGATACACTGTCAGCAAAATTGA-TGAAAAAAGCTCCCACATGGACGCTC
**
19049295 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAACAA-ATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAA-AAGATAATGT-AAAA
* ** *
19049359 ATG-CTTCAAGCAGGATACACTGTCAGTAAAATTGATGAAAAAAGCTCCCATGTGGACGCTG
64 A-GACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
19049420 TTTTTCTACAAG-AGTTCCTA
1 TTTTTCTAC-AGTAGTTCCTA
19049440 TTTGACCTTA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
125 102 0.78
126 27 0.21
127 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGATTCTGAAAAGATAATGTAAAAAG
ACTTCAAGCAGGATACACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGACGCTC
Found at i:19056327 original size:3 final size:3
Alignment explanation
Indices: 19056319--19056408 Score: 162
Period size: 3 Copynumber: 30.0 Consensus size: 3
19056309 ATTTTAGTCG
*
19056319 GAA GAA GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
19056367 GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
19056409 TAGAGAGAGG
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19062478 original size:21 final size:20
Alignment explanation
Indices: 19062454--19062492 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
19062444 TTTTATCATC
*
19062454 TTTAATTATTTCTCTTTTCAG
1 TTTAATCATTT-TCTTTTCAG
*
19062475 TTTAGTCATTTTCTTTTC
1 TTTAATCATTTTCTTTTC
19062493 TTAAATTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTAATCATTTTCTTTTCAG
Found at i:19070038 original size:48 final size:48
Alignment explanation
Indices: 19069789--19070016 Score: 332
Period size: 48 Copynumber: 4.7 Consensus size: 48
19069779 TAATTGCAAT
* ** * *
19069789 ATTAAAACTTGGAACAAATTTTGTGGTCATAAATTAGATTA-ATTGCAAC
1 ATTAAAACTTGGAACAAACTTTGTAAT-ATAAATTA-AATACATTACAAC
*
19069838 ATTAAAACTTGGAACAAACTTTGTAGTATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
*
19069886 ATTAAAACTTGGAACAAACTTTGTAATATAAGTTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
* * *
19069934 ATTATAACTTGGAACAAACTCTATAATATAAATTAAATACATTACAAC
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
*
19069982 ATTAAAACTTGAAACAAACTTTGTAATATAAATTA
1 ATTAAAACTTGGAACAAACTTTGTAATATAAATTA
19070017 GGTACATTGG
Statistics
Matches: 164, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
47 3 0.02
48 136 0.83
49 25 0.15
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (48 bp):
ATTAAAACTTGGAACAAACTTTGTAATATAAATTAAATACATTACAAC
Found at i:19074138 original size:7 final size:7
Alignment explanation
Indices: 19074126--19074153 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
19074116 TAATATAAAT
19074126 AATTTAA
1 AATTTAA
19074133 AATTTAA
1 AATTTAA
19074140 AATTTAA
1 AATTTAA
19074147 AATTTAA
1 AATTTAA
19074154 TTTAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATTTAA
Found at i:19074683 original size:9 final size:9
Alignment explanation
Indices: 19074669--19074705 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
19074659 TATAGTTTGA
19074669 TATTCGAAT
1 TATTCGAAT
19074678 TATTCGAAT
1 TATTCGAAT
19074687 TATTCGAAT
1 TATTCGAAT
19074696 TATTCGAAT
1 TATTCGAAT
19074705 T
1 T
19074706 CAAAAACTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:19076588 original size:2 final size:2
Alignment explanation
Indices: 19076581--19076614 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19076571 GTATACTACT
19076581 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19076615 GTCAAACATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19080044 original size:20 final size:20
Alignment explanation
Indices: 19079998--19080037 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
19079988 TGATATGTTT
19079998 AAAT-ATTTTAACTTAATTC
1 AAATAATTTTAACTTAATTC
*
19080017 AAATAATTTT-ACTTTATTC
1 AAATAATTTTAACTTAATTC
19080036 AA
1 AA
19080038 TTCAATTCGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATAATTTTAACTTAATTC
Found at i:19082848 original size:14 final size:14
Alignment explanation
Indices: 19082829--19082858 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19082819 ATAATTTAAC
*
19082829 TAAAAACTTTTGAA
1 TAAAAACTTTCGAA
19082843 TAAAAACTTTCGAA
1 TAAAAACTTTCGAA
19082857 TA
1 TA
19082859 TGTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (14 bp):
TAAAAACTTTCGAA
Found at i:19087471 original size:3 final size:3
Alignment explanation
Indices: 19087463--19087502 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
19087453 ATTATCTCCG
* *
19087463 ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
19087503 AAAACCTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:19091836 original size:11 final size:11
Alignment explanation
Indices: 19091822--19091847 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19091812 AATTTTGAGC
19091822 ATAATTTGTTA
1 ATAATTTGTTA
19091833 ATAATTTGTTA
1 ATAATTTGTTA
19091844 ATAA
1 ATAA
19091848 GTATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (11 bp):
ATAATTTGTTA
Found at i:19093684 original size:12 final size:12
Alignment explanation
Indices: 19093667--19093692 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19093657 TTCATTTAAG
19093667 TTTTTGTTTGCT
1 TTTTTGTTTGCT
19093679 TTTTTGTTTGCT
1 TTTTTGTTTGCT
19093691 TT
1 TT
19093693 ATTAGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.15, T:0.77
Consensus pattern (12 bp):
TTTTTGTTTGCT
Found at i:19096670 original size:44 final size:44
Alignment explanation
Indices: 19096620--19096771 Score: 259
Period size: 44 Copynumber: 3.5 Consensus size: 44
19096610 TTCTTATTCC
* *
19096620 TAATTTAAAACACGTTAAATTATAATACAATATACATGCATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
19096664 TAATTTAAAGCACATTAAATTATAACACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
19096708 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
19096752 TAATTTAAAACACATTAAAT
1 TAATTTAAAACACATTAAAT
19096772 GAAATAAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 100 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:19096722 original size:22 final size:22
Alignment explanation
Indices: 19096697--19096766 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
19096687 AACACAATAT
19096697 ACATACATATTTATTTTAAAAC
1 ACATACATATTTATTTTAAAAC
** *
19096719 ACATTA-A-A-TTATAATACAATAT
1 ACA-TACATATTTATTTTA-AA-AC
*
19096741 ACATACATATTTAATTTAAAAC
1 ACATACATATTTATTTTAAAAC
19096763 ACAT
1 ACAT
19096767 TAAATGAAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
20 6 0.17
21 5 0.14
22 14 0.40
23 5 0.14
24 5 0.14
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (22 bp):
ACATACATATTTATTTTAAAAC
Found at i:19096867 original size:49 final size:49
Alignment explanation
Indices: 19096804--19097143 Score: 487
Period size: 49 Copynumber: 7.0 Consensus size: 49
19096794 AAATTAATAT
* * *
19096804 GAAAAAAACA-TAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAA-ATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
* ** *
19096853 GAAAAAAAAGTAAATAAAAATGGAAAGAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
19096902 G-AAAAAAATTAAATTTAAATGGAAAAAAAGGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAA-GATAATTTAAATGAAATGA
19096951 G-AAAAAAATTAAATTTAAATGGAAAAAAGAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGGAAAAAA-AGATAATTTAAATGAAATGA
19097000 G--AAAAAATTAAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATGA
1 GAAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGA
* * * *
19097048 GAAAAAAAATTAAATTTAAATGGAAAGAAACAAAATTTAAATGAAATTA
1 GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
19097097 GAAAAAAAAATTAAATTTAAAT--AAAAAAAGATAATTTAAATGAAATG
1 G-AAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
19097144 GATATGGAAA
Statistics
Matches: 270, Mismatches: 14, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
48 87 0.32
49 142 0.53
50 41 0.15
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (49 bp):
GAAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGA
Found at i:19096973 original size:97 final size:97
Alignment explanation
Indices: 19096804--19097143 Score: 499
Period size: 97 Copynumber: 3.5 Consensus size: 97
19096794 AAATTAATAT
* * * * * *
19096804 GAAAAAAACATAAATTAAAATGGCAAGAAAGATAATTTAAATGAAATGAGAAAAAAAAGTAAATA
1 GAAAAAAA-TTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
*
19096869 AAAATGGAAAGAAAGATAATTTAAATGAAATGA
65 TAAATGGAAAGAAAGATAATTTAAATGAAATGA
19096902 GAAAAAAATTAAATTTAAATGGAAAAAAAGGATAATTTAAATGAAATGAG-AAAAAAATTAAATT
1 GAAAAAAATTAAATTTAAATGGAAAAAAA-GATAATTTAAATGAAATGAGAAAAAAAATTAAATT
*
19096966 TAAATGGAAAAAAGAGATAATTTAAATGAAATGA
65 TAAATGGAAAGAA-AGATAATTTAAATGAAATGA
19097000 G-AAAAAATTAAATTTAAATGGAAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
1 GAAAAAAATTAAATTTAAATGG-AAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATT
* *
19097064 TAAATGGAAAGAAACAAAATTTAAATGAAATTAGA
65 TAAATGGAAAGAAAGATAATTTAAATGAAA-T-GA
*
19097099 AAAAAAAATTAAATTTAAAT--AAAAAAAGATAATTTAAATGAAATG
1 GAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATG
19097144 GATATGGAAA
Statistics
Matches: 223, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
97 120 0.54
98 83 0.37
99 2 0.01
100 18 0.08
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (97 bp):
GAAAAAAATTAAATTTAAATGGAAAAAAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTT
AAATGGAAAGAAAGATAATTTAAATGAAATGA
Found at i:19097158 original size:5 final size:5
Alignment explanation
Indices: 19097134--19097200 Score: 80
Period size: 5 Copynumber: 12.6 Consensus size: 5
19097124 AAGATAATTT
*
19097134 AAATG AAATGG ATATGG AAATG AAATG AAATG AAATG AAATG AAATGG
1 AAATG AAAT-G AAAT-G AAATG AAATG AAATG AAATG AAATG AAAT-G
*
19097182 AAATAG AAATT AAATG AAA
1 AAAT-G AAATG AAATG AAA
19097201 AAAGAAGAAG
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
5 36 0.65
6 19 0.35
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:19097175 original size:32 final size:32
Alignment explanation
Indices: 19097135--19097200 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
19097125 AGATAATTTA
*
19097135 AATGAAATGGATATGGAAAT-GAAATGAAATGA
1 AATGAAAT-GAAATGGAAATAGAAATGAAATGA
*
19097167 AATGAAATGAAATGGAAATAGAAATTAAATGA
1 AATGAAATGAAATGGAAATAGAAATGAAATGA
19097199 AA
1 AA
19097201 AAAGAAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (32 bp):
AATGAAATGAAATGGAAATAGAAATGAAATGA
Found at i:19097202 original size:97 final size:98
Alignment explanation
Indices: 19096831--19097203 Score: 358
Period size: 97 Copynumber: 3.8 Consensus size: 98
19096821 AAATGGCAAG
** * * **
19096831 AAAGATAATTTAAATGAAATGAGAAAAAAAA-GTAAATAAAAATGGAAAGAAAGATAATTTAAAT
1 AAAGATAATTTAAATGAAATGAGAAAAAAAATG-AAATTGAAATGGAAAGAAACAAAATGGAAAT
*
19096895 GAAATGAG-A-AAAAAATTAAATTTAAATGGAAAA
65 GAAATTAGAAGAAAAAATTAAATTTAAAT-GAAAA
* * * **
19096928 AAAGGATAATTTAAATGAAATGAG-AAAAAAATTAAATTTAAATGGAAA-AAAGAGATAATTTAA
1 AAA-GATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACA-A-AATGGAA
19096991 ATGAAA-T-G-AGAAAAAATTAAATTTAAATGGAAAAA
63 ATGAAATTAGAAGAAAAAATTAAATTTAAAT-G-AAAA
* * **
19097026 AAAGATAATTTAAATGAAATGAGAAAAAAAATTAAATTTAAATGGAAAGAAACAAAATTTAAATG
1 AAAGATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACAAAATGGAAATG
*
19097091 AAATTAGAAAAAAAAATTAAATTTAAAT-AAAA
66 AAATTAGAAGAAAAAATTAAATTTAAATGAAAA
*** **
19097123 AAAGATAATTTAAATGAAATG-GATATGGAAATGAAA-TGAAAT-GAAATGAAATGAAATGGAAA
1 AAAGATAATTTAAATGAAATGAGA-AAAAAAATGAAATTGAAATGGAAA-GAAACAAAATGGAAA
19097185 TAGAAATTA-AATGAAAAAA
64 T-GAAATTAGAA-GAAAAAA
19097204 GAAGAAGATG
Statistics
Matches: 244, Mismatches: 17, Indels: 30
0.84 0.06 0.10
Matches are distributed among these distances:
95 4 0.02
96 28 0.11
97 122 0.50
98 66 0.27
99 5 0.02
100 19 0.08
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.23
Consensus pattern (98 bp):
AAAGATAATTTAAATGAAATGAGAAAAAAAATGAAATTGAAATGGAAAGAAACAAAATGGAAATG
AAATTAGAAGAAAAAATTAAATTTAAATGAAAA
Found at i:19098556 original size:19 final size:18
Alignment explanation
Indices: 19098526--19098575 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
19098516 TTACTGCTAT
*
19098526 TATTTCTTTATTTTTGTTC
1 TATTT-TTTATTTTTGGTC
19098545 ATATTTTTTA-TTTTGGTC
1 -TATTTTTTATTTTTGGTC
19098563 TA-TTTTTATTTTT
1 TATTTTTTATTTTT
19098576 TCGGTCATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 7 0.25
19 4 0.14
20 5 0.18
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (18 bp):
TATTTTTTATTTTTGGTC
Found at i:19098575 original size:17 final size:18
Alignment explanation
Indices: 19098532--19098575 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
19098522 CTATTATTTC
*
19098532 TTTATTTTTGTTCATATT
1 TTTATTTTTGGTCATATT
19098550 TTT-TATTTTGGTC-TATT
1 TTTAT-TTTTGGTCATATT
19098567 TTTATTTTT
1 TTTATTTTT
19098576 TCGGTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTATTTTTGGTCATATT
Found at i:19098648 original size:3 final size:3
Alignment explanation
Indices: 19098601--19098631 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19098591 ATTTTATTCT
19098601 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19098632 ATTTATGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19098813 original size:3 final size:3
Alignment explanation
Indices: 19098805--19098887 Score: 116
Period size: 3 Copynumber: 28.0 Consensus size: 3
19098795 ATTGTTTGTC
19098805 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
19098853 ATT ATT ATC ATC ATT -TT TTT ATTT ATT -TT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
19098888 TATTTCATTT
Statistics
Matches: 74, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
2 4 0.05
3 67 0.91
4 3 0.04
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19099894 original size:5 final size:5
Alignment explanation
Indices: 19099884--19100168 Score: 100
Period size: 5 Copynumber: 53.2 Consensus size: 5
19099874 GAAAAAAATT
* *
19099884 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGTA ATTTGT AATGA
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATG-A A-ATGA AATGA
19099934 ATATGA AATGA AATGA AATGTTA AATGA ATATGA AATGA AATG- -ATGA
1 A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA AATGA
* * * * *
19099981 TTATGA AATGG AATGA AAGTTTA AATGA ACAT-A AATTATA AATTAA AATGA
1 -AATGA AATGA AATGA AA--TGA AATGA A-ATGA AA-T-GA AA-TGA AATGA
** * ** * *
19100032 AAACA AA--A ACTGA AATGAA AAAAA AATTTGA AATGA GAA-AA AATTA
1 AATGA AATGA AATGA AATG-A AATGA AA--TGA AATGA -AATGA AATGA
* * * *
19100078 AATTTA AATGGA AA-AA TAAT-A ATTTA AATGA AATGTA AATGTA AATGA
1 AA-TGA AAT-GA AATGA -AATGA AATGA AATGA AATG-A AATG-A AATGA
*
19100126 AATGA AATGGA AATGGA AATGA AATGA AATGA AATAA AATGA A
1 AATGA AAT-GA AAT-GA AATGA AATGA AATGA AATGA AATGA A
19100169 CAAAAAAGGT
Statistics
Matches: 220, Mismatches: 28, Indels: 64
0.71 0.09 0.21
Matches are distributed among these distances:
3 5 0.02
4 6 0.03
5 123 0.56
6 62 0.28
7 24 0.11
ACGTcount: A:0.56, C:0.01, G:0.16, T:0.27
Consensus pattern (5 bp):
AATGA
Found at i:19099910 original size:56 final size:56
Alignment explanation
Indices: 19099849--19099969 Score: 138
Period size: 56 Copynumber: 2.2 Consensus size: 56
19099839 ACTTGTGATT
*
19099849 AATATGAAAAAAAATTGTATAATAGGAA-AAAAAT-TAATGAAATGAAATGTTAAATG
1 AATATGAAAAAAAA-TGTA-AATAGGAATAAAAATGAAATGAAATGAAATGTTAAATG
** * * * * *
19099905 AATATGAAATGAAATGTAATTTGTAATGAATATGAAATGAAATGAAATGTTAAATG
1 AATATGAAAAAAAATGTAAATAGGAATAAAAATGAAATGAAATGAAATGTTAAATG
19099961 AATATGAAA
1 AATATGAAA
19099970 TGAAATGATG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
54 5 0.09
55 8 0.15
56 42 0.76
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (56 bp):
AATATGAAAAAAAATGTAAATAGGAATAAAAATGAAATGAAATGAAATGTTAAATG
Found at i:19099945 original size:33 final size:28
Alignment explanation
Indices: 19099884--19099977 Score: 154
Period size: 28 Copynumber: 3.4 Consensus size: 28
19099874 GAAAAAAATT
19099884 AATGAAATGAAATGTTAAATGAATATGA
1 AATGAAATGAAATGTTAAATGAATATGA
* *
19099912 AATGAAATGTAAT-TTGTAATGAATATGA
1 AATGAAATGAAATGTT-AAATGAATATGA
19099940 AATGAAATGAAATGTTAAATGAATATGA
1 AATGAAATGAAATGTTAAATGAATATGA
19099968 AATGAAATGA
1 AATGAAATGA
19099978 TGATTATGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.03
28 56 0.93
29 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.18, T:0.30
Consensus pattern (28 bp):
AATGAAATGAAATGTTAAATGAATATGA
Found at i:19100049 original size:18 final size:18
Alignment explanation
Indices: 19100026--19100074 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
19100016 TTATAAATTA
19100026 AAATGAAAACAAAAA-CTG
1 AAATGAAAA-AAAAATCTG
*
19100044 AAATGAAAAAAAAATTTG
1 AAATGAAAAAAAAATCTG
19100062 AAATGAGAAAAAA
1 AAATGA-AAAAAA
19100075 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.12, T:0.14
Consensus pattern (18 bp):
AAATGAAAAAAAAATCTG
Found at i:19100129 original size:22 final size:21
Alignment explanation
Indices: 19100103--19100168 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
19100093 ATAATAATTT
*
19100103 AAATGAAATGTAAATGTAAATG
1 AAATGAAATG-AAATGAAAATG
*
19100125 AAATGAAATGGAAATGGAAATG
1 AAATGAAAT-GAAATGAAAATG
19100147 AAATGAAATGAAAT-AAAATG
1 AAATGAAATGAAATGAAAATG
19100167 AA
1 AA
19100169 CAAAAAAGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.17
21 5 0.12
22 28 0.68
23 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.21
Consensus pattern (21 bp):
AAATGAAATGAAATGAAAATG
Found at i:19107596 original size:15 final size:16
Alignment explanation
Indices: 19107566--19107599 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
19107556 TACAATCTCT
*
19107566 TTTTACTTTGTTTTAA
1 TTTTAATTTGTTTTAA
19107582 TTTTAATTT-TTTTAA
1 TTTTAATTTGTTTTAA
19107597 TTT
1 TTT
19107600 AAACCCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTAATTTGTTTTAA
Found at i:19109814 original size:21 final size:21
Alignment explanation
Indices: 19109790--19109840 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
19109780 TACGGTTTAG
19109790 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
19109811 GGTTTAGGGGATAAGGGTTGT
1 GGTTTAGGGGATAAGGGTTGT
19109832 GGTTTAGGG
1 GGTTTAGGG
19109841 TCTAGGTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.49, T:0.33
Consensus pattern (21 bp):
GGTTTAGGGGATAAGGGTTGT
Found at i:19110563 original size:251 final size:251
Alignment explanation
Indices: 19110152--19110647 Score: 665
Period size: 251 Copynumber: 2.0 Consensus size: 251
19110142 TTGGCTAAAG
* * * * *
19110152 GAATTTGAATTTTAGTGGCGTTTTTATTAAAAACGCCACTGAAGGTATGCTATAGTGGCGTTTTA
1 GAATTTGAAATTTAGTGGCGTTTGTATGAAAAACGCCACAGAAGGTATGATATAGTGGCGTTTTA
* * *
19110217 TATTGAAACGCCGCAAATACATAAATGTTTCTCTGTACGAAAACGGCGTCGTTTTCTTAAATGAT
66 TATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACAGCGTCGTTTTCTTAAATGAT
* * * * * *
19110282 TTGAACTCCTTACTGGCCTTTTTATTTAAAACGCCGCAAAATGTTATCTTTAGCGGCGTTTGGTA
131 TTGAACTCCTTACTGGCCTTTGTATTTAAAACACCGC-AAATGTAAGCTTTAGCAGCGTTTAGTA
* *
19110347 T-AGAAACGCCACAAATGTGTATTACAAAATGTTCAGGACGTCACCGTTTCGTTACAT
195 TGA-AAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCGTTACAT
*
19110404 GAATTTGAAATTTAGTGGCGTTTGTATGAAAAATGCCACAGAAGGTAT-ATAGTAGTGGCGTTTT
1 GAATTTGAAATTTAGTGGCGTTTGTATGAAAAACGCCACAGAAGGTATGATA-TAGTGGCGTTTT
* * * * * *
19110468 -TATAGAAACGCCGCAAATCCGTATATGTTTTTGTGAACGAAAACAGCGTCGTTTTCTTGAATGA
65 ATATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACAGCGTCGTTTTCTTAAATGA
* * * * *
19110532 TTTGAACTCTTTAGTGGCGTTTGTATTTAAAATACCGCAACTGTAAGCTTTAGCAGCGTTTAGTA
130 TTTGAACTCCTTACTGGCCTTTGTATTTAAAACACCGCAAATGTAAGCTTTAGCAGCGTTTAGTA
* * *
19110597 TGAAAATGCCACAAATGTGTATTAAAAAATTTTCAGAACGTCGCCGTTTCG
195 TGAAAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCG
19110648 GTTAAGGAAT
Statistics
Matches: 211, Mismatches: 31, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
250 66 0.31
251 90 0.43
252 55 0.26
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (251 bp):
GAATTTGAAATTTAGTGGCGTTTGTATGAAAAACGCCACAGAAGGTATGATATAGTGGCGTTTTA
TATAGAAACGCCGCAAATACATAAATGTTTCTCTGAACGAAAACAGCGTCGTTTTCTTAAATGAT
TTGAACTCCTTACTGGCCTTTGTATTTAAAACACCGCAAATGTAAGCTTTAGCAGCGTTTAGTAT
GAAAACGCCACAAATGTGTATTAAAAAATGTTCAGAACGTCACCGTTTCGTTACAT
Found at i:19111694 original size:22 final size:22
Alignment explanation
Indices: 19111667--19111713 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
19111657 GTCTTTCTAC
19111667 TTAGGTTTAATCAGTATAAAAT
1 TTAGGTTTAATCAGTATAAAAT
*
19111689 TTAGGTTTAATCAGTATTAAAT
1 TTAGGTTTAATCAGTATAAAAT
19111711 TTA
1 TTA
19111714 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.13, T:0.45
Consensus pattern (22 bp):
TTAGGTTTAATCAGTATAAAAT
Found at i:19112823 original size:19 final size:19
Alignment explanation
Indices: 19112801--19112841 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
19112791 TTTATTAGTA
19112801 AACAATTTTTAAATTACAT
1 AACAATTTTTAAATTACAT
*
19112820 AACAATTTTTAAATTATAT
1 AACAATTTTTAAATTACAT
19112839 AAC
1 AAC
19112842 TTACATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
AACAATTTTTAAATTACAT
Found at i:19112903 original size:17 final size:18
Alignment explanation
Indices: 19112877--19112910 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19112867 ACATTTTTAA
19112877 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
19112894 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
19112911 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:19112935 original size:25 final size:25
Alignment explanation
Indices: 19112907--19112957 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19112897 ATTTTTTTCA
19112907 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
19112932 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
19112957 A
1 A
19112958 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:19113050 original size:19 final size:19
Alignment explanation
Indices: 19113026--19113069 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
19113016 TATAAACTTG
19113026 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
19113045 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAATTA
*
19113064 TATAAC
1 CATAAC
19113070 TTACATAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (19 bp):
CATAACAATTTTTAAATTA
Found at i:19113125 original size:17 final size:18
Alignment explanation
Indices: 19113105--19113138 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
19113095 ACATTTTTAA
19113105 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
19113122 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
19113139 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:19113163 original size:25 final size:25
Alignment explanation
Indices: 19113135--19113185 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19113125 ATTTTTTTCA
19113135 AAATTTATCAATCATAGCATAACTT
1 AAATTTATCAATCATAGCATAACTT
*
19113160 AAATTTATCAATCATATCATAACTT
1 AAATTTATCAATCATAGCATAACTT
19113185 A
1 A
19113186 TATATAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (25 bp):
AAATTTATCAATCATAGCATAACTT
Found at i:19113198 original size:228 final size:228
Alignment explanation
Indices: 19112801--19113309 Score: 964
Period size: 228 Copynumber: 2.2 Consensus size: 228
19112791 TTTATTAGTA
*
19112801 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
19112866 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
* *
19112931 TAAATTTATCAATCATATCATAACTTATATATAAACTTACCTAATGCATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
19112996 ATACAATACATAAACATGCATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
19113029 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
19113094 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
19113159 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
19113224 ATACAATACATAAACTTACATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
*
19113257 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTA
19113310 CATACCTTAC
Statistics
Matches: 275, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 275 1.00
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.41
Consensus pattern (228 bp):
AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
ATACAATACATAAACATACATATAAACTTGCAT
Found at i:19113296 original size:19 final size:19
Alignment explanation
Indices: 19113254--19113297 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
19113244 TATAAACTTG
*
19113254 CATAACAATTTTTAAATTA
1 CATAACAATTTTTAAAGTA
19113273 CATAACAATTTTTAAAGTA
1 CATAACAATTTTTAAAGTA
*
19113292 TATAAC
1 CATAAC
19113298 TTACATAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (19 bp):
CATAACAATTTTTAAAGTA
Found at i:19113307 original size:9 final size:9
Alignment explanation
Indices: 19113293--19113863 Score: 427
Period size: 9 Copynumber: 62.2 Consensus size: 9
19113283 TTTAAAGTAT
19113293 ATAACTTAC
1 ATAACTTAC
19113302 ATAACTTAC
1 ATAACTTAC
*
19113311 ATACCTTAC
1 ATAACTTAC
* *
19113320 ATAAATTAA
1 ATAACTTAC
*
19113329 ATAATTTAC
1 ATAACTTAC
19113338 ATAACTTAC
1 ATAACTTAC
*
19113347 ATAACTTAA
1 ATAACTTAC
19113356 ATAACTTAC
1 ATAACTTAC
19113365 ATAA--TAC
1 ATAACTTAC
*
19113372 ATAACCTAC
1 ATAACTTAC
*
19113381 ATAACTTAA
1 ATAACTTAC
* *
19113390 ATTATTTAC
1 ATAACTTAC
19113399 ATAA--TAC
1 ATAACTTAC
19113406 ATAACTTAGTAC
1 ATAAC-T--TAC
*
19113418 ATAATTTAC
1 ATAACTTAC
19113427 ATAA--TAC
1 ATAACTTAC
19113434 ATAACTTAGTAC
1 ATAAC-T--TAC
19113446 ATAACTTAC
1 ATAACTTAC
** *
19113455 ATTATTTTTTC
1 A-TA-ACTTAC
19113466 -TAAATTGCTTAC
1 AT-AA---CTTAC
* *
19113478 ATAAATTAA
1 ATAACTTAC
19113487 ATAACTTAC
1 ATAACTTAC
* *
19113496 GTAACTTAT
1 ATAACTTAC
*
19113505 ATAACTTAA
1 ATAACTTAC
19113514 ATAACTTAC
1 ATAACTTAC
19113523 ATAACTTAC
1 ATAACTTAC
*
19113532 ATATCTTAC
1 ATAACTTAC
19113541 ATAACTTAC
1 ATAACTTAC
19113550 ATAACTTAC
1 ATAACTTAC
* *
19113559 GTTACTTAC
1 ATAACTTAC
*
19113568 ATAAATTAC
1 ATAACTTAC
*
19113577 ATAATTTAC
1 ATAACTTAC
19113586 ATAACTTAC
1 ATAACTTAC
19113595 ATAA--TAC
1 ATAACTTAC
*
19113602 ATAACCTAC
1 ATAACTTAC
* *
19113611 CTAACTTAA
1 ATAACTTAC
* *
19113620 ATTATTTAC
1 ATAACTTAC
19113629 ATAA--TAC
1 ATAACTTAC
19113636 ATAACTTAGTAC
1 ATAAC-T--TAC
*
19113648 ATAATTTAC
1 ATAACTTAC
19113657 ATAA--TAC
1 ATAACTTAC
19113664 ATAACTTAGTAC
1 ATAAC-T--TAC
19113676 ATAACTTAC
1 ATAACTTAC
*
19113685 ATACCATCTTTC
1 ATA--A-CTTAC
19113697 TACTAATTGCTTAC
1 -A-TAA---CTTAC
* *
19113711 ATAAATTAA
1 ATAACTTAC
19113720 ATAACTTAC
1 ATAACTTAC
19113729 ATAACTTAC
1 ATAACTTAC
* *
19113738 ATAAATTAA
1 ATAACTTAC
*
19113747 ATAACTTAA
1 ATAACTTAC
19113756 ATAACTTAC
1 ATAACTTAC
19113765 ATAACTTAC
1 ATAACTTAC
* *
19113774 ATAAATTAA
1 ATAACTTAC
19113783 ATAACTTAC
1 ATAACTTAC
*
19113792 ATTACTTAC
1 ATAACTTAC
*
19113801 ATAAATTAC
1 ATAACTTAC
19113810 ATAACTTAC
1 ATAACTTAC
19113819 ATAACTTAC
1 ATAACTTAC
19113828 ATAACTTAC
1 ATAACTTAC
19113837 ATAA--TAC
1 ATAACTTAC
19113844 ATAACCTT-C
1 ATAA-CTTAC
*
19113853 CTAACTTAC
1 ATAACTTAC
19113862 AT
1 AT
19113864 TATTGTCTAA
Statistics
Matches: 450, Mismatches: 70, Indels: 84
0.75 0.12 0.14
Matches are distributed among these distances:
7 49 0.11
8 3 0.01
9 334 0.74
10 4 0.01
11 8 0.02
12 43 0.10
13 3 0.01
14 6 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
ATAACTTAC
Found at i:19113386 original size:228 final size:228
Alignment explanation
Indices: 19112801--19113435 Score: 721
Period size: 228 Copynumber: 2.8 Consensus size: 228
19112791 TTTATTAGTA
* * **
19112801 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTTTA
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
* ** * ** * *** * **
19112866 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
* *
19112931 TAAATTTATCAATCATATCATAACTTATATATAAACTTACCTAATGCATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
19112996 ATACAATACATAAACATGCATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
* * *
19113029 AACAATTTTTAAATTACATAACAATTTTTAAATTATATAACTTACATAACTTATAAATATTTATA
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
* ** * ** * *** * **
19113094 TACATTTTTAATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACT
66 TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
19113159 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
131 TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
*
19113224 ATACAATACATAAACTTACATATAAACTTGCAT
196 ATACAATACATAAACATACATATAAACTTGCAT
*
19113257 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAAC-T-TACATACCTTAC
1 AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATA-CTTAC
* * *
19113320 ATAAATTAAATAATTTACATAACTTACATAA-CTTAAATAACTTACATAATACAT-AA-CCTA-C
65 ATAAATT-AATAATATACAT-ACTTA-A-AATC-TAAATAACTTACAAAATACATCAATCATAGC
** * *
19113381 ATAACTTAAA-TTATTTA-CATAATACATAACTTAGTACAT-AATTTACATAATACAT
125 ATAACTTAAATTTATCAATCAT-AT-CATAACTTA-TATATAAACTTACATAATACAT
19113436 AACTTAGTAC
Statistics
Matches: 369, Mismatches: 29, Indels: 18
0.89 0.07 0.04
Matches are distributed among these distances:
226 8 0.02
227 17 0.05
228 315 0.85
229 10 0.03
230 4 0.01
231 15 0.04
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (228 bp):
AACAATTTTTAAATTACATAACAATTTTTAAAGTATATAACTTACATAACTTATAAATACTTACA
TAAATTAATAATATACATACTTAAAATCTAAATAACTTACAAAATACATCAATCATAGCATAACT
TAAATTTATCAATCATATCATAACTTATATATAAACTTACATAATACATGCATATCTTAAATAAC
ATACAATACATAAACATACATATAAACTTGCAT
Found at i:19119958 original size:43 final size:43
Alignment explanation
Indices: 19119853--19119980 Score: 163
Period size: 42 Copynumber: 3.0 Consensus size: 43
19119843 GCGTTTGTGA
* *
19119853 AACAAGCGCCGCTAAAGAACACTACTTTTAGCGGCG-TTTTTG
1 AACAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTC
* *
19119895 AACAAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTC
1 AACAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTT-TTC
* *
19119939 CA-AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTC
1 AACAAGCGCCGCTAAAGAACATTACT-TTTAGCGGCGTTTTTTC
19119981 TGTAAGCGCC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 37 0.49
43 35 0.47
44 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
AACAAGCGCCGCTAAAGAACATTACTTTTAGCGGCGTTTTTTC
Found at i:19121426 original size:17 final size:17
Alignment explanation
Indices: 19121404--19121440 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
19121394 GATTTAGTCA
*
19121404 CTCATGTTATTCATAAT
1 CTCATGTTATACATAAT
19121421 CTCATGTTATACATAAT
1 CTCATGTTATACATAAT
19121438 CTC
1 CTC
19121441 TATATCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.05, T:0.43
Consensus pattern (17 bp):
CTCATGTTATACATAAT
Found at i:19122681 original size:17 final size:18
Alignment explanation
Indices: 19122661--19122704 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
19122651 TAATTTAATT
19122661 AACTAAATTAA-TTTCTC
1 AACTAAATTAATTTTCTC
19122678 AACTAAA-TAATTTTCTC
1 AACTAAATTAATTTTCTC
19122695 AACTAAATTA
1 AACTAAATTA
19122705 TAATTCTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.80
18 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (18 bp):
AACTAAATTAATTTTCTC
Found at i:19122707 original size:20 final size:19
Alignment explanation
Indices: 19122661--19122709 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 19
19122651 TAATTTAATT
19122661 AACTAAAT-TAA-TTTCTC
1 AACTAAATATAATTTTCTC
19122678 AACT-AA-ATAATTTTCTC
1 AACTAAATATAATTTTCTC
19122695 AACTAAATTATAATT
1 AACTAAA-TATAATT
19122710 CTATTGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.19
17 14 0.52
18 2 0.07
20 6 0.22
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (19 bp):
AACTAAATATAATTTTCTC
Found at i:19125648 original size:19 final size:20
Alignment explanation
Indices: 19125614--19125651 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
19125604 AATAATAATA
*
19125614 TTTTAATTGTTATCAATATG
1 TTTTAAATGTTATCAATATG
19125634 TTTTAAATG-TATCAATAT
1 TTTTAAATGTTATCAATAT
19125652 TATTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTAAATGTTATCAATATG
Found at i:19127662 original size:27 final size:27
Alignment explanation
Indices: 19127619--19127671 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
19127609 TGGGCTATTC
* *
19127619 GGGTCTTAATATTTGGGCTTGAATTTT
1 GGGTCTTAATATCTGGGCTTAAATTTT
*
19127646 GGGT-TTAATAATCTGGGTTTAAATTT
1 GGGTCTTAAT-ATCTGGGCTTAAATTT
19127672 CTGTAAATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.47
Consensus pattern (27 bp):
GGGTCTTAATATCTGGGCTTAAATTTT
Found at i:19128206 original size:44 final size:44
Alignment explanation
Indices: 19128144--19128824 Score: 305
Period size: 44 Copynumber: 14.6 Consensus size: 44
19128134 GATCTACTCT
* * * *
19128144 ACTGTAA-CTTCAGAGAGATAAGATTCTTTGTTTTAATCCACTCC
1 ACTGTAATC-TCAGGGAGATAAGATTCTTAGCTTTAATCCGCTCC
* * *
19128188 ACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-CTTAGCTTTAATCCGCTCC
* *
19128232 GCTGTAATCTCAGGGAGATAAGATT-TCTGGCTTTAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTCT-TAGCTTTAATC-----CG--CT-C-C
* * * * *
19128285 TACTGTAA-CTTTAGAGAGATAAGATCCTTTA-TTTTAATCAGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTC-TTAGCTTTAATCCGCTCC
* * **
19128330 ACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTCAATTTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-CTTAGCTTTAATCCGCTCC
* * *
19128374 GCTGTAATCTCAGGGAGATAAGATT-TCTGGCTTCAATCTGGTGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTCT-TAGCTTTAATC-----CG--CT-C-C
* * * *
19128427 TACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTCTTAGCTTTAATCCGCTCC
* *
19128472 ACTGTAATCTCAGGGAGATAGGATTAC-TAGCTTTAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-CTTAGCTTTAATCCGCTCC
** * *
19128516 GTTGTAATCTCAGGGAGATAAGATT-TCTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTCT-TAGCTTTAATC-----CG--CT-C-C
* * *
19128569 TACTGTAA-CTTCAGAGAGATAAGATCCTTTA-TTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTC-TTAGCTTTAATCCGCTCC
* *
19128614 ACTGTAATCTCAGGGAGATAAGATTAC-TAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-CTTAGCTTTAATCCGCTCC
* * * *
19128658 GCTGTAATCACAGGGAGATAAGATT-TCTGGCTTCAATCTGATGCGATCTACTC
1 ACTGTAATCTCAGGGAGATAAGATTCT-TAGCTTTAATC-----CG--CT-C-C
* * * *
19128711 TACTGTAA-CTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCC
1 -ACTGTAATC-TCAGGGAGATAAGATTCTTAGCTTTAATCCGCTCC
* * * *
19128756 ACTGTAATCTTAGGGAGATAGGATTAC-TAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATT-CTTAGCTTTAATCCGCTCC
*
19128800 GCTGTAATCTCAGGGAGATAAGATT
1 ACTGTAATCTCAGGGAGATAAGATT
19128825 TCTGGCTTCA
Statistics
Matches: 483, Mismatches: 84, Indels: 140
0.68 0.12 0.20
Matches are distributed among these distances:
43 4 0.01
44 310 0.64
45 14 0.03
46 4 0.01
47 8 0.02
49 11 0.02
51 8 0.02
52 4 0.01
53 8 0.02
54 106 0.22
55 4 0.01
56 2 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTCTTAGCTTTAATCCGCTCC
Found at i:19128302 original size:142 final size:142
Alignment explanation
Indices: 19128127--19128839 Score: 1291
Period size: 142 Copynumber: 5.0 Consensus size: 142
19128117 GAGATAAGAC
* * *
19128127 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTGTTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
19128192 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
19128257 TCTGGCTTTAAT
131 TCTGGCTTCAAT
* * *
19128269 CTGATGCGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCAGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
*
19128334 TAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19128399 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
19128411 CTGGTGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* *
19128476 TAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGCTCCGTTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19128541 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
19128553 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* *
19128618 TAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGCTCCGCTGTAATCACAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19128683 TCTGGCTTCAAT
131 TCTGGCTTCAAT
19128695 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
*
19128760 TAATCTTAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
19128825 TCTGGCTTCAAT
131 TCTGGCTTCAAT
19128837 CTG
1 CTG
19128840 CTTCCTTACA
Statistics
Matches: 546, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 546 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:19128510 original size:98 final size:97
Alignment explanation
Indices: 19128369--19128795 Score: 272
Period size: 98 Copynumber: 4.5 Consensus size: 97
19128359 GCTTCAATTT
* * *
19128369 GCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGGTGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT-GTGCGATCTACTCTACTGTA
19128434 A-CTTCAGAGAGATAAGATCCTTTGTTTTAATCC
65 ATC-TCAGAGAGATAAGATCCTTTGTTTTAATCC
* * *
19128467 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTTAATC--TGC--TC--C-GT--TGTAA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGTGCGATCTACTCTACTGTAA
* * *
19128523 TCTCAGGGAGATAAGAT--TTCTGGCTTCAATCTGATGC
66 TCTCAGAGAGATAAGATCCTT-T-G-TT---T-TAATCC
* * ** ** *
19128560 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTT-TAT-T-T-TAATCCGCTCCA
1 G--CT-C-C-ACTGTAATC-TCAGGGAGATAAGATTACTAGCTTCAATCTGTGCGATCTACTCTA
* * * * * *
19128615 CTGTAATCTCAGGGAGATAAGATTAC-TAGCTTCAATCT
60 CTGTAATCTCAGAGAGATAAGA-TCCTTTGTTTTAATCC
* * * *
19128653 GCTCCGCTGTAATCACAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCTACTGTA
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG-TGCGATCTACTCTACTGTA
19128718 A-CTTCAGAGAGATAAGATCCTTTGTTTTAATCC
65 ATC-TCAGAGAGATAAGATCCTTTGTTTTAATCC
* *
19128751 GCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTCAATCTG
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTG
19128796 CTCCGCTGTA
Statistics
Matches: 249, Mismatches: 42, Indels: 76
0.68 0.11 0.21
Matches are distributed among these distances:
86 2 0.01
87 1 0.00
88 38 0.15
89 6 0.02
90 3 0.01
91 3 0.01
92 4 0.02
93 18 0.07
94 3 0.01
95 7 0.03
96 2 0.01
97 8 0.03
98 152 0.61
99 1 0.00
100 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (97 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTGTGCGATCTACTCTACTGTAA
TCTCAGAGAGATAAGATCCTTTGTTTTAATCC
Found at i:19128833 original size:44 final size:44
Alignment explanation
Indices: 19128746--19128841 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
19128736 CCTTTGTTTT
* * *
19128746 AATCCGCTCCACTGTAATCTTAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
19128790 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
19128834 AATCTGCT
1 AATCTGCT
19128842 TCCTTACACT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:19141371 original size:20 final size:19
Alignment explanation
Indices: 19141334--19141371 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
19141324 TTTTTAAATA
*
19141334 ATATTGATACATTTAAAAC
1 ATATTGATACAATTAAAAC
19141353 ATATTGATAACAATTAAAA
1 ATATTGAT-ACAATTAAAA
19141372 TATTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (19 bp):
ATATTGATACAATTAAAAC
Found at i:19147993 original size:234 final size:231
Alignment explanation
Indices: 19147364--19148025 Score: 695
Period size: 236 Copynumber: 2.8 Consensus size: 231
19147354 TAGTACTAAT
* * * * *
19147364 CACATCTAATGCTCATCCAAGATGAACATATCTATTTGTGACAAGTTACCTGTCTGGATTAAACC
1 CACATCTGATGCTCATCCAAGCTGAACATA--TATTTGTGTCAAGTTACCTGTCAGG-CTAAACC
* * * * *
19147429 TTTTATCGACACATCAAATAGCTTAGGCAAAGCTGTAAATATATATGTTAGGTTACCTGTCCAGG
63 TTTTATCGACACATCAAATAG-TTTGGCAAAGC--TATATATATATGTAAGGTTACCTGTTCGGG
* * * * *
19147494 CTAAACCTTTAAAACGACATCATGTTACTCG-TCTGAGCAAAAACTGTGTCACATGTATCTTCAA
125 CTAAACCTTTAAAACAACATCAAGTTACTTGTTC-GAGCTAAACCTGTGTCACATGTATCTTCAA
* * * * **
19147558 GTTTGCAACAAATGTTGGATCTTAGTAATCATCGGTAATTAAC
189 GTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
* * ** * * ** *
19147601 CATATCTGATGCTCGTCTGAGCTTAACAGATCCATTTGTGTCAAGTTACCCATCCGGGCTAAACC
1 CACATCTGATGCTCATCCAAGCTGAACATAT--ATTTGTGTCAAGTTACCTGT-CAGGCTAAACC
19147666 TTTTATCGACACAT-AAATA-TCTTGGCCAAAGCTATAAATATATATGTCAA-GTTACCTG-TCT
63 TTTTATCGACACATCAAATAGT-TTGG-CAAAGCTAT--ATATATATGT-AAGGTTACCTGTTC-
* * *
19147727 GAGCTAAACCTTTAAAACAATATCAAGTTACTTGTTCGAGCTAAACCTGTATCACATGTATCTTC
122 GGGCTAAACCTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTC
*
19147792 GAGTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
187 AAGTCTGCAAAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
* * ** *
19147837 CACATTTGTTGCTCATCCAAGCTGAACATATATTCATGTCAGGTTACCTGTACAGGCTAAACCTT
1 CACATCTGATGCTCATCCAAGCTGAACATATATTTGTGTCAAGTTACCTGT-CAGGCTAAACCTT
* ** * *
19147902 TATATCGACACATCAAATAGTTTGTCTACGGCTATATATACATGTAAGGTTACCCGTTCGGGCTA
65 T-TATCGACACATCAAATAGTTTGGC-AAAGCTATATATATATGTAAGGTTACCTGTTCGGGCTA
* * *
19147967 AACCTTTAAAACAAGATCAAGTTACTTGTCCGAGCTAAACCTATGTCACATGTATCTTC
128 AACCTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTC
19148026 TAGCCAAAAA
Statistics
Matches: 351, Mismatches: 58, Indels: 35
0.79 0.13 0.08
Matches are distributed among these distances:
233 2 0.01
234 107 0.30
235 19 0.05
236 157 0.45
237 63 0.18
238 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (231 bp):
CACATCTGATGCTCATCCAAGCTGAACATATATTTGTGTCAAGTTACCTGTCAGGCTAAACCTTT
TATCGACACATCAAATAGTTTGGCAAAGCTATATATATATGTAAGGTTACCTGTTCGGGCTAAAC
CTTTAAAACAACATCAAGTTACTTGTTCGAGCTAAACCTGTGTCACATGTATCTTCAAGTCTGCA
AAAAATGTTGAATCTCAGTAATCATCAATAATTAAC
Found at i:19149567 original size:22 final size:22
Alignment explanation
Indices: 19149524--19149567 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19149514 CTTTAAACAA
*
19149524 AAATAATAATATCTATATAATT
1 AAATAATAATATCAATATAATT
*
19149546 AAATAATATTAT-AATATGAATT
1 AAATAATAATATCAATAT-AATT
19149568 TATTTTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATAATAATATCAATATAATT
Found at i:19150304 original size:145 final size:147
Alignment explanation
Indices: 19150006--19150345 Score: 402
Period size: 145 Copynumber: 2.3 Consensus size: 147
19149996 CATGTGTACG
* * * *
19150006 TAATTTTATGGTATATTATAATATATACAATCAACATTATATAATTAAGGTATATTATTAATGAT
1 TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATT-AGGTATATTATTAATGAT
** ** * ** *
19150071 ATATAACCCCATATACAACTATTTTTTTTATAATGTACATTTTTATGTTTTTGATTTGTAAACTT
65 ATATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAACTT
*
19150136 AAACTCTAAGCATATAAC
130 AAACTCTAAACATATAAC
* *
19150154 TAATTTTATGGTAGATTATAATA-ATATAATTAGCGTTATATAATTAGGTATATTATTAATGATC
1 TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTATATTATTAATGATA
* * * *
19150218 TCTAACCCTATATACAATTA-TGATACTATAATGTATATTTTTATATTAATGATATGT-AACTTT
66 TATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAAC-TT
* * *
19150281 ATAC-CTTAAACGTGTAAC
130 AAACTC-TAAACATATAAC
*
19150299 TAATTTTATGGTAGATCATAATATATATAATT-GACATTATATAATTA
1 TAATTTTATGGTAGATTATAATATATATAATTAG-CATTATATAATTA
19150346 TGGTTAAGTA
Statistics
Matches: 164, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
144 4 0.02
145 65 0.40
146 55 0.34
147 18 0.11
148 22 0.13
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (147 bp):
TAATTTTATGGTAGATTATAATATATATAATTAGCATTATATAATTAGGTATATTATTAATGATA
TATAACCCCATATACAACTATTGATACTATAATGTACATTTTTATATTAATGATATGTAAACTTA
AACTCTAAACATATAAC
Found at i:19150412 original size:24 final size:24
Alignment explanation
Indices: 19150385--19150448 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 24
19150375 TTATGGAACT
*
19150385 TTTAATTTATTTGAAATTCGTATG
1 TTTAATTTGTTTGAAATTCGTATG
* **
19150409 TTTAAATTGTTCTGAAATTTTTATG
1 TTTAATTTGTT-TGAAATTCGTATG
19150434 TTTAATTTGTTTGAA
1 TTTAATTTGTTTGAA
19150449 TTGTTAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 13 0.38
25 21 0.62
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.56
Consensus pattern (24 bp):
TTTAATTTGTTTGAAATTCGTATG
Found at i:19155347 original size:25 final size:25
Alignment explanation
Indices: 19155313--19155379 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
19155303 TTTACATCAT
19155313 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
19155338 TGCTCACACGAGCTGTGAAATAGCC
1 TGCTCACACGAGCTGTGAAATAGCC
* *
19155363 TGTTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
19155380 GGTCGGAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (25 bp):
TGCTCACACGAGCTGTGAAATAGCC
Found at i:19169799 original size:2 final size:2
Alignment explanation
Indices: 19169794--19169821 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19169784 GCCAATAAAC
19169794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19169822 TATGCGGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19173250 original size:2 final size:2
Alignment explanation
Indices: 19173243--19173330 Score: 176
Period size: 2 Copynumber: 44.0 Consensus size: 2
19173233 NNNNNNNNNN
19173243 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19173285 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
19173327 CT CT
1 CT CT
19173331 TTAGAAAAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:19180518 original size:14 final size:14
Alignment explanation
Indices: 19180499--19180550 Score: 79
Period size: 14 Copynumber: 3.8 Consensus size: 14
19180489 TATGCTATTA
19180499 TTTTTTATAACATT
1 TTTTTTATAACATT
*
19180513 TTTTTTATAATATT
1 TTTTTTATAACATT
*
19180527 ATTTTTATAA-ATT
1 TTTTTTATAACATT
19180540 TTTTTTATAAC
1 TTTTTTATAAC
19180551 CTTAATTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTTTATAACATT
Found at i:19180540 original size:27 final size:29
Alignment explanation
Indices: 19180494--19180549 Score: 98
Period size: 27 Copynumber: 2.0 Consensus size: 29
19180484 CATAATATGC
19180494 TATTATTTTTTATAACATTTTTTTTATAA
1 TATTATTTTTTATAACATTTTTTTTATAA
19180523 TATTA-TTTTTATAA-ATTTTTTTTATAA
1 TATTATTTTTTATAACATTTTTTTTATAA
19180550 CCTTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 13 0.48
28 9 0.33
29 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (29 bp):
TATTATTTTTTATAACATTTTTTTTATAA
Found at i:19180558 original size:28 final size:28
Alignment explanation
Indices: 19180495--19180559 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
19180485 ATAATATGCT
*
19180495 ATTATTTTTTATAACATTTTTTTTATAAT
1 ATTA-TTTTTATAACATTTTTTTTATAAC
19180524 ATTATTTTTATAA-ATTTTTTTTATAAC
1 ATTATTTTTATAACATTTTTTTTATAAC
* *
19180551 CTTAATTTT
1 ATTATTTTT
19180560 CTTTTTGCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 20 0.61
28 9 0.27
29 4 0.12
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.65
Consensus pattern (28 bp):
ATTATTTTTATAACATTTTTTTTATAAC
Found at i:19181878 original size:18 final size:18
Alignment explanation
Indices: 19181857--19181891 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
19181847 GTATGTATAT
19181857 AAATATATATAAAAAATG
1 AAATATATATAAAAAATG
*
19181875 AAATATATATATAAAAT
1 AAATATATATAAAAAAT
19181892 ATATGTATAT
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:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATATATATAAAAAATG
Found at i:19181900 original size:19 final size:19
Alignment explanation
Indices: 19181853--19181913 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 19
19181843 ATATGTATGT
19181853 ATATAAATATATATA-AAA
1 ATATAAATATATATATAAA
19181871 A-ATGAAATATATATATAAA
1 ATAT-AAATATATATATAAA
**
19181890 ATATATGTATATATATAAA
1 ATATAAATATATATATAAA
19181909 ATATA
1 ATATA
19181914 GGAAATGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
17 2 0.05
18 12 0.32
19 22 0.58
20 2 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATAAATATATATATAAA
Found at i:19182718 original size:12 final size:12
Alignment explanation
Indices: 19182697--19182728 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
19182687 AACAAGGAAG
19182697 AAAA-TAAAAAA
1 AAAAGTAAAAAA
19182708 AAAAGTAAAAAA
1 AAAAGTAAAAAA
19182720 AAAAG-AAAA
1 AAAAGTAAAA
19182729 GGAAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.88, C:0.00, G:0.06, T:0.06
Consensus pattern (12 bp):
AAAAGTAAAAAA
Found at i:19182722 original size:17 final size:17
Alignment explanation
Indices: 19182696--19182737 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
19182686 AAACAAGGAA
*
19182696 GAAAATAAAAAAAAAAG
1 GAAAAAAAAAAAAAAAG
* *
19182713 TAAAAAAAAAAGAAAAG
1 GAAAAAAAAAAAAAAAG
19182730 GAAAAAAA
1 GAAAAAAA
19182738 CAAACTAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAAAAAAAAG
Found at i:19196492 original size:12 final size:12
Alignment explanation
Indices: 19196470--19196512 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
19196460 GTTAGGTTCT
*
19196470 CACACGTCCTAG
1 CACACGGCCTAG
*
19196482 CACATGGCCTAG
1 CACACGGCCTAG
* *
19196494 CATACGGCCTGG
1 CACACGGCCTAG
19196506 CACACGG
1 CACACGG
19196513 GCGTGTGAGG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.23, C:0.37, G:0.26, T:0.14
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:19206355 original size:20 final size:22
Alignment explanation
Indices: 19206330--19206377 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
19206320 CGAATCTGTC
19206330 AAAAATAA-T-AAAAATTCACT
1 AAAAATAATTGAAAAATTCACT
* *
19206350 AAAAATAATTGTAAAATTGACT
1 AAAAATAATTGAAAAATTCACT
19206372 AAAAAT
1 AAAAAT
19206378 TAACATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 1 0.04
22 15 0.62
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.27
Consensus pattern (22 bp):
AAAAATAATTGAAAAATTCACT
Found at i:19207644 original size:36 final size:36
Alignment explanation
Indices: 19207597--19207669 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
19207587 CAAAAATATA
19207597 TCATATTCATAATTAAAAGAAAAATTTTATTCTGAG
1 TCATATTCATAATTAAAAGAAAAATTTTATTCTGAG
19207633 TCATATTCATAATTAAAAGAAAAATTTTATTCTGAG
1 TCATATTCATAATTAAAAGAAAAATTTTATTCTGAG
19207669 T
1 T
19207670 GGAAATATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (36 bp):
TCATATTCATAATTAAAAGAAAAATTTTATTCTGAG
Found at i:19218853 original size:13 final size:13
Alignment explanation
Indices: 19218835--19218859 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19218825 TCTCCCTGAA
19218835 GTTACAGTGGAGC
1 GTTACAGTGGAGC
19218848 GTTACAGTGGAG
1 GTTACAGTGGAG
19218860 TAGATTAAAG
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:0.24, C:0.12, G:0.40, T:0.24
Consensus pattern (13 bp):
GTTACAGTGGAGC
Found at i:19218943 original size:44 final size:44
Alignment explanation
Indices: 19218872--19219281 Score: 266
Period size: 44 Copynumber: 9.0 Consensus size: 44
19218862 GATTAAAGAC
* * * *
19218872 AAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCATATTA
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* * * * *
19218916 AAGCCACAAACCTTATCTCCCTGAAGTTGTAGTGGAACAGGTGAAA
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT--TA
*** *
19218962 AATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--A
* * *
19219008 GACAGACTACAAATCTTATC-CCCTTGAAGTTGCTGTGGAGCAGATTG
1 -A-AG-CCACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTA
* * ** *
19219055 AAGCGACAAACCTTATCTCCCTGAAGTTGCAGTGGATTAGGTTGA
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-A
* ** * *
19219100 AGATTCCAATCTTATCTTAT-TCCCTTGAAGTTGCAGTGGAGCATATTG
1 A-A-GCC-A-CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTA
* * * * *
19219148 AAGCGACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTG
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
*** * * * *
19219192 AAGATTCTAATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTG
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
** ** * * * *
19219236 AAGATACTGATCCTATCTCCCTGAAGTTGTAGTTGAGCGGATTA
1 AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
19219280 AA
1 AA
19219282 ATGATGAATC
Statistics
Matches: 283, Mismatches: 67, Indels: 32
0.74 0.18 0.08
Matches are distributed among these distances:
44 163 0.58
45 11 0.04
46 39 0.14
47 3 0.01
48 10 0.04
49 57 0.20
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (44 bp):
AAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
Found at i:19219036 original size:49 final size:48
Alignment explanation
Indices: 19218852--19219239 Score: 280
Period size: 44 Copynumber: 8.4 Consensus size: 48
19218842 TGGAGCGTTA
* * * * *
19218852 CAGTGGAGTAGATTAAAGACAAGCTACAAATCTTATCTCCCTAAAGTTA
1 CAGTGGAGCAGATTGAAGAC-AGATACAAATCTTATCTCCCTGAAGTTG
* ** *
19218901 CAGTGGAGCATATT--A-A-AGCCACAAACCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
* * * * * * *
19218945 TAGTGGAACAG-GTGAA-AAATAAACCAATCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
19218991 CAGTGGAGCAGATTGAAGACAGACTACAAATCTTATC-CCCTTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGA-TACAAATCTTATCTCCC-TGAAGTTG
* *
19219040 CTGTGGAGCAGATTGAAG-C-G--ACAAACCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
** * **
19219084 CAGTGGATTAGGTTGAAGATTCCA-AT-CTTATCTTAT-TCCCTTGAAGTTG
1 CAGTGGAGCAGATTGAAGA---CAGATACAAATCTTATCTCCC-TGAAGTTG
* *
19219133 CAGTGGAGCATATTGAAG-C-G--ACAAACCTTATCTCCCTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
* * * * *
19219177 CAGTGGAACAGGTT---GA-AGATTCTAATCTTATCTCTCTGAAGTTG
1 CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
*
19219221 CAGTGGAGTAGATTGAAGA
1 CAGTGGAGCAGATTGAAGA
19219240 TACTGATCCT
Statistics
Matches: 265, Mismatches: 48, Indels: 54
0.72 0.13 0.15
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 1 0.00
44 122 0.46
45 10 0.04
46 33 0.12
47 8 0.03
48 12 0.05
49 77 0.29
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (48 bp):
CAGTGGAGCAGATTGAAGACAGATACAAATCTTATCTCCCTGAAGTTG
Found at i:19219089 original size:93 final size:91
Alignment explanation
Indices: 19218973--19219264 Score: 335
Period size: 93 Copynumber: 3.2 Consensus size: 91
19218963 ATAAACCAAT
* *
19218973 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-CAGACTACAAATCTTATCCCCTTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATCA-A-T-CAAATCTTATCCCCTTGAAG
*
19219037 TTGCTGTGGAGCAGATTGAAGCGACAAAC
63 TTGCAGTGGAGCAGATTGAAGCGACAAAC
** ** *
19219066 CTTATCTCCCTGAAGTTGCAGTGGATTAGGTTGAAGATTCCAATCTTATCTTATTCCCTTGAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGA-T-CAATCAAATCTTATCCCCTTGAAGT
*
19219131 TGCAGTGGAGCATATTGAAGCGACAAAC
64 TGCAGTGGAGCAGATTGAAGCGACAAAC
* *
19219159 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGAT---TCTAATCTTAT-CTCTCTGAAGTT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATCAATCAAATCTTATCCCCT-TGAAGTT
* ** * *
19219220 GCAGTGGAGTAGATTGAAGATACTGATC
65 GCAGTGGAGCAGATTGAAGCGAC-AAAC
19219248 C-TATCTCCCTGAAGTTG
1 CTTATCTCCCTGAAGTTG
19219265 TAGTTGAGCG
Statistics
Matches: 176, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
87 3 0.02
88 52 0.30
89 3 0.02
92 1 0.01
93 113 0.64
94 1 0.01
95 1 0.01
96 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (91 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATCAATCAAATCTTATCCCCTTGAAGTTG
CAGTGGAGCAGATTGAAGCGACAAAC
Found at i:19219193 original size:137 final size:135
Alignment explanation
Indices: 19218872--19219278 Score: 394
Period size: 137 Copynumber: 3.0 Consensus size: 135
19218862 GATTAAAGAC
* * * * *
19218872 AAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCATATTAAAGCCACAAACCTTATCTCCC
1 AAGCGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCC
* * * *
19218937 TGAAGTTGTAGTGGAACAGG-TGAAAAATAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
66 TGAAGTTGCAGTGGAATAGGTTGAAGATTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
19219001 GATTG
131 GATTG
* *
19219006 AAGACAGACTACAAATCTTATC-CCCTTGAAGTTGCTGTGGAGCAGATTGAAGCGACAAACCTTA
1 AAG-C-G---ACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTA
* * **
19219070 TCTCCCTGAAGTTGCAGTGGATTAGGTTGAAGATTCCAATCTTATCTTAT-TCCCTTGAAGTTGC
60 TCTCCCTGAAGTTGCAGTGGAATAGGTTGAAGATT--AAACCAATCTTATCTCCC-TGAAGTTGC
*
19219134 AGTGGAGCATATTG
122 AGTGGAGCAGATTG
* * * *** * * *
19219148 AAGCGACAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGGTTGAAGATTCTAATCTTATCTCTC
1 AAGCGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCC
* * ** * * * *
19219213 TGAAGTTGCAGTGGAGTAGATTGAAGA-T--ACTGATCCTATCTCCCTGAAGTTGTAGTTGAGCG
66 TGAAGTTGCAGTGGAATAGGTTGAAGATTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
19219275 GATT
131 GATT
19219279 AAAATGATGA
Statistics
Matches: 226, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
132 26 0.12
133 4 0.02
134 3 0.01
135 1 0.00
136 1 0.00
137 71 0.31
138 6 0.03
139 67 0.30
140 7 0.03
141 5 0.02
142 35 0.15
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (135 bp):
AAGCGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAACCTTATCTCCC
TGAAGTTGCAGTGGAATAGGTTGAAGATTAAACCAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
GATTG
Found at i:19229247 original size:39 final size:38
Alignment explanation
Indices: 19229193--19229304 Score: 118
Period size: 37 Copynumber: 2.9 Consensus size: 38
19229183 AAAAGATCTT
* * *
19229193 ATTCAATATGATCAATGGATAATGCTCGTTTGAGCAAAC
1 ATTCAATATAATCAATAGATATTGCTCGTTTGAGC-AAC
* * * * *
19229232 ATTCAGTATAATCAATTGACATTGCTCTTTTGAGC-TC
1 ATTCAATATAATCAATAGATATTGCTCGTTTGAGCAAC
* *
19229269 ATTCAATATATTCAGTAGATATTGCTCGTTTGAGCA
1 ATTCAATATAATCAATAGATATTGCTCGTTTGAGCA
19229305 TACTTTCAGT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
37 30 0.51
39 29 0.49
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (38 bp):
ATTCAATATAATCAATAGATATTGCTCGTTTGAGCAAC
Found at i:19229335 original size:39 final size:39
Alignment explanation
Indices: 19229292--19229401 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
19229282 AGTAGATATT
*
19229292 GCTCGTTTGAGCATACTTTCAGTAGAATCAGTGGGTATG
1 GCTCGATTGAGCATACTTTCAGTAGAATCAGTGGGTATG
* *
19229331 GCTCGATTGAACATACCTTT-AGTACAATCAGTGGGTATG
1 GCTCGATTGAGCATA-CTTTCAGTAGAATCAGTGGGTATG
19229370 GCTCGATTGAGCATACTTTCAGTAGAATCAGT
1 GCTCGATTGAGCATACTTTCAGTAGAATCAGT
19229402 ATCCCATTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
38 4 0.06
39 56 0.88
40 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (39 bp):
GCTCGATTGAGCATACTTTCAGTAGAATCAGTGGGTATG
Found at i:19233308 original size:16 final size:18
Alignment explanation
Indices: 19233289--19233321 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
19233279 TTAAATAAAA
19233289 AATTAAA-C-AAATTTAC
1 AATTAAATCTAAATTTAC
19233305 AATTAAATCTAAATTTA
1 AATTAAATCTAAATTTA
19233322 TTCTATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTAAATCTAAATTTAC
Found at i:19237056 original size:23 final size:23
Alignment explanation
Indices: 19237030--19237082 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
19237020 AAACTAAGCA
*
19237030 TTATTTAAAAAAAATACTCATAT
1 TTATATAAAAAAAATACTCATAT
** *
19237053 TTATATAATTAAAATATTCATAT
1 TTATATAAAAAAAATACTCATAT
*
19237076 TTTTATA
1 TTATATA
19237083 TTAGGTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (23 bp):
TTATATAAAAAAAATACTCATAT
Done.