Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 123 of 147
Found at i:22126249 original size:10 final size:10
Alignment explanation
Indices: 22126234--22126272 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
22126224 GAACTTTCTT
22126234 GGATTTTTTG
1 GGATTTTTTG
*
22126244 GGATTTTTTA
1 GGATTTTTTG
22126254 GGATTTTTTG
1 GGATTTTTTG
*
22126264 TGATTTTTT
1 GGATTTTTT
22126273 TCGTTTTTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.64
Consensus pattern (10 bp):
GGATTTTTTG
Found at i:22126259 original size:20 final size:20
Alignment explanation
Indices: 22126234--22126272 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22126224 GAACTTTCTT
22126234 GGATTTTTTGGGATTTTTTA
1 GGATTTTTTGGGATTTTTTA
*
22126254 GGATTTTTTGTGATTTTTT
1 GGATTTTTTGGGATTTTTT
22126273 TCGTTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.64
Consensus pattern (20 bp):
GGATTTTTTGGGATTTTTTA
Found at i:22126706 original size:5 final size:5
Alignment explanation
Indices: 22126696--22126735 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
22126686 GTTTTTCCCT
22126696 TTTTA TTTTA TTTT- TCTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
22126736 ACCTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 1 0.03
5 31 0.94
6 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:22126825 original size:6 final size:6
Alignment explanation
Indices: 22126816--22126857 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
22126806 AAAGTGATTC
* *
22126816 AATAAA AATAAA AA-AAT AATAAA AATAGA AAT-AA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AA
22126858 AATCTTTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 8 0.27
6 22 0.73
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:22126836 original size:17 final size:17
Alignment explanation
Indices: 22126816--22126857 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
22126806 AAAGTGATTC
22126816 AATAAAAATA-AAAAAA
1 AATAAAAATAGAAAAAA
*
22126832 TAATAAAAATAGAAATAA
1 -AATAAAAATAGAAAAAA
22126850 AATAAAAA
1 AATAAAAA
22126858 AATCTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (17 bp):
AATAAAAATAGAAAAAA
Found at i:22137445 original size:58 final size:55
Alignment explanation
Indices: 22137373--22137547 Score: 160
Period size: 58 Copynumber: 3.1 Consensus size: 55
22137363 TGACCTTAAG
22137373 AAAAAAAG--AGAAGAAAAAGTTCAAGTTAAAAACGCAAAAGGGCAGCTTGAACCTA
1 AAAAAAAGAAAGAAGAAAAAGTTCAAGTTAAAAAC-CAAAAGGGCAGCTTGAACC-A
* * ** * * *
22137428 AAAAAATATATAGAAGAAAAAGTTCAAGTCGAAAACTTAAAAGGGCAACTTGAACCGC
1 AAAAAA-AGAAAGAAGAAAAAGTTCAAGTTAAAAAC-CAAAAGGGCAGCTTGAACC-A
* * * *
22137486 CAAAAAAGAAAGGA-AAAAAGTT-AGAGCTAAAAACCTAAAAGGGTAGCTTGAACCA
1 AAAAAAAGAAAGAAGAAAAAGTTCA-AGTTAAAAACC-AAAAGGGCAGCTTGAACCA
22137541 AAAAAAA
1 AAAAAAA
22137548 AAAAAAAGTT
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
55 13 0.14
56 32 0.34
57 5 0.05
58 45 0.47
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.14
Consensus pattern (55 bp):
AAAAAAAGAAAGAAGAAAAAGTTCAAGTTAAAAACCAAAAGGGCAGCTTGAACCA
Found at i:22137536 original size:56 final size:50
Alignment explanation
Indices: 22137459--22137584 Score: 135
Period size: 50 Copynumber: 2.4 Consensus size: 50
22137449 GTTCAAGTCG
* *
22137459 AAAACTTAAAAGGGCAACTTGAACCGCCAAAAAAGAAAGGAAAAAAGTTAGAGCTA
1 AAAACTTAAAAGGGTAGCTTGAA---CCAAAAAA-AAA--AAAAAAGTTAGAGCTA
* * * *
22137515 AAAACCTAAAAGGGTAGCTTGAACCAAAAAAAAAAAAAAAGTTCGAGTTG
1 AAAACTTAAAAGGGTAGCTTGAACCAAAAAAAAAAAAAAAGTTAGAGCTA
*
22137565 AAAACTTGAAAGGGTAGCTT
1 AAAACTTAAAAGGGTAGCTT
22137585 AAATTGAATG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
50 31 0.50
52 3 0.05
53 8 0.13
56 20 0.32
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.16
Consensus pattern (50 bp):
AAAACTTAAAAGGGTAGCTTGAACCAAAAAAAAAAAAAAAGTTAGAGCTA
Found at i:22138917 original size:3 final size:3
Alignment explanation
Indices: 22138909--22139022 Score: 97
Period size: 3 Copynumber: 36.7 Consensus size: 3
22138899 TATACTATAG
22138909 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * **
22138954 TATA CTA -TA GTTA TTA TTA TTA TATA TTA TATA TTA TATA CTA TGG
1 T-TA TTA TTA -TTA TTA TTA TTA T-TA TTA T-TA TTA T-TA TTA TTA
** *
22139000 TTA TTA TTA CCA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
22139023 TATTTATTTA
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
2 4 0.04
3 73 0.79
4 15 0.16
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:22138953 original size:36 final size:36
Alignment explanation
Indices: 22138890--22139008 Score: 118
Period size: 36 Copynumber: 3.2 Consensus size: 36
22138880 AGTTGGAGAT
* *
22138890 ATTA-TATTATATACTATAGTTATTAT-TATTATTATT
1 ATTATTATTATATATTATA--TATTATATACTATTATT
22138926 ATTATTATTATTATTATATTATATATTATATACTA-TAGTT
1 ATTATTATTA-TA-TAT--TATATATTATATACTATTA-TT
**
22138966 ATTATTATTATATATTATATATTATATACTATGGTT
1 ATTATTATTATATATTATATATTATATACTATTATT
22139002 ATTATTA
1 ATTATTA
22139009 CCACTATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
36 29 0.41
37 5 0.07
38 5 0.07
39 12 0.17
40 16 0.23
41 4 0.06
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (36 bp):
ATTATTATTATATATTATATATTATATACTATTATT
Found at i:22145219 original size:127 final size:127
Alignment explanation
Indices: 22145047--22145288 Score: 344
Period size: 127 Copynumber: 1.9 Consensus size: 127
22145037 TAACCTATTG
* * * * * * *
22145047 TATTATTTGAATATTTTGAACATATATAATATTCTTTTCAAAGAATTGCAATA-CTGTGTGATGG
1 TATTATTTAAAAATTTTAAACAGATATAATATTCTTTTCAAAGAATAGCAATATC-ATGTGAGGG
* *
22145111 AGAAAAGACAGAGACGGTCAACAATGACAA-AAGAAAAATGAAATTGAAAATGTGTCCTATCA
65 AGAAAAGACAAAGACGGTCAACAATGACAATAAAAAAAATGAAATTGAAAATGTGTCCTATCA
* *
22145173 TATTATTTAAAAATTTTAAACAGATATGTATATTCTTTTCAAAGAATAGGAATATCATGTGAGGG
1 TATTATTTAAAAATTTTAAACAGATAT-AATATTCTTTTCAAAGAATAGCAATATCATGTGAGGG
*
22145238 AGAAAAGACAAAGATGGTCAACAATGACAATAAAAAAAATGAAATTGAAAA
65 AGAAAAGACAAAGACGGTCAACAATGACAATAAAAAAAATGAAATTGAAAA
22145289 GGTTGCATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
126 23 0.23
127 58 0.57
128 20 0.20
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (127 bp):
TATTATTTAAAAATTTTAAACAGATATAATATTCTTTTCAAAGAATAGCAATATCATGTGAGGGA
GAAAAGACAAAGACGGTCAACAATGACAATAAAAAAAATGAAATTGAAAATGTGTCCTATCA
Found at i:22145357 original size:90 final size:91
Alignment explanation
Indices: 22145220--22145402 Score: 305
Period size: 90 Copynumber: 2.0 Consensus size: 91
22145210 TTCAAAGAAT
*
22145220 AGGAATATCATGTGAGGGAGAAAAGACAAAGATGGTCAACAATGACAATAAAAAAAATGAAATTG
1 AGGAATATCATGTGAGGGAGAAAAGA-AAAGATGGTCAACAACGACAATAAAAAAAATGAAATTG
22145285 AAAAGGTTGCATATCGTATTGTTTGAA
65 AAAAGGTTGCATATCGTATTGTTTGAA
* * *
22145312 AGGAATATTATGTGAGGGAGATAAG-ATAGATGGTCAACAACGACAATAAAAAAAATGAAATTGA
1 AGGAATATCATGTGAGGGAGAAAAGAAAAGATGGTCAACAACGACAATAAAAAAAATGAAATTGA
*
22145376 AAAGGTTGCCTATCGTATTGTTTGAA
66 AAAGGTTGCATATCGTATTGTTTGAA
22145402 A
1 A
22145403 ATTTTAAACG
Statistics
Matches: 86, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
90 63 0.73
92 23 0.27
ACGTcount: A:0.45, C:0.08, G:0.23, T:0.24
Consensus pattern (91 bp):
AGGAATATCATGTGAGGGAGAAAAGAAAAGATGGTCAACAACGACAATAAAAAAAATGAAATTGA
AAAGGTTGCATATCGTATTGTTTGAA
Found at i:22145420 original size:2 final size:2
Alignment explanation
Indices: 22145413--22145437 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22145403 ATTTTAAACG
22145413 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
22145438 TTCAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22145558 original size:138 final size:134
Alignment explanation
Indices: 22145343--22145763 Score: 454
Period size: 138 Copynumber: 3.2 Consensus size: 134
22145333 TAAGATAGAT
*
22145343 GGTCAACAACGACAATAAAAAAAATGAAATTGAAAAGGTTGCCTATCGTATTGTTTGAAAATTTT
1 GGTCAACAATGACAATAAAAAAAATGAAATTGAAAAGG-TGCCTATCGTATTGTTTGAAAATTTT
*
22145408 AAACGTATATATATATATATATATATATATTTCAAAGAATAGGAATGCTATGTGACGGAGAAAAC
65 AAACGTATATATATATATATATAT-T-T-TTTCAAAGAATAGGAATACTATGTGACGGAGAAAAC
22145473 ACATGGAC
127 ACATGGAC
*
22145481 GGTCAACAATGACAATAAGAAAAATGAAATTGAAAAGGTGCCCTATCGTATTGTTTGAAAATTTT
1 GGTCAACAATGACAATAAAAAAAATGAAATTGAAAAGGTG-CCTATCGTATTGTTTGAAAATTTT
** * ***
22145546 AAACG----------TATATATATTTTTTCACTGAATAGGAATACTATGTTAC-G-GAAAATGGA
65 AAACGTATATATATATATATATATTTTTTCAAAGAATAGGAATACTATGTGACGGAGAAAACACA
* *
22145599 TAGAA
130 TGGAC
* * * *
22145604 AGTCAACAATGACAATAAAAAAAATTGAAACTGAAAAAGTGTCCTATCGTATTATTTGAAAATTT
1 GGTCAACAATGACAATAAAAAAAA-TGAAATTGAAAAGGTG-CCTATCGTATTGTTTGAAAATTT
* ** * * * *
22145669 TAAACATATATATATATATATATATTCTTTTCAAAGAATAAAAATATTATGTGATGAAGAAAAGA
64 TAAACGTATATATATATATATATATT-TTTTCAAAGAATAGGAATACTATGTGACGGAGAAAACA
22145734 CA-GAGAC
128 CATG-GAC
* *
22145741 GGTTAACAATGCCAATAAAAAAA
1 GGTCAACAATGACAATAAAAAAA
22145764 GTTTTTGAAA
Statistics
Matches: 233, Mismatches: 34, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
123 31 0.13
124 42 0.18
125 23 0.10
126 1 0.00
127 1 0.00
128 9 0.04
134 10 0.04
135 21 0.09
137 30 0.13
138 65 0.28
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (134 bp):
GGTCAACAATGACAATAAAAAAAATGAAATTGAAAAGGTGCCTATCGTATTGTTTGAAAATTTTA
AACGTATATATATATATATATATTTTTTCAAAGAATAGGAATACTATGTGACGGAGAAAACACAT
GGAC
Found at i:22145577 original size:125 final size:125
Alignment explanation
Indices: 22145424--22145687 Score: 343
Period size: 124 Copynumber: 2.1 Consensus size: 125
22145414 ATATATATAT
* * **
22145424 ATATATATATATATTTCAAAGAATAGGAATGCTATGTGACGGAGAAAACACATGGACGGTCAACA
1 ATATATATATATATTTCAAAGAATAGGAATACTATGTGAC-G-GAAAACACATAGAAAGTCAACA
* * * *
22145489 ATGACAATAAGAAAAA-TGAAATTGAAAAGGTGCCCTATCGTATTGTTTGAAAATTTTAAAC
64 ATGACAATAAAAAAAATTGAAACTGAAAAAGTGCCCTATCGTATTATTTGAAAATTTTAAAC
* * ** * ***
22145550 GTATATATAT-TTTTTCACTGAATAGGAATACTATGTTACGGAAAATGGATAGAAAGTCAACAAT
1 ATATATATATATATTTCAAAGAATAGGAATACTATGTGACGGAAAACACATAGAAAGTCAACAAT
*
22145614 GACAATAAAAAAAATTGAAACTGAAAAAGTGTCCTATCGTATTATTTGAAAATTTTAAAC
66 GACAATAAAAAAAATTGAAACTGAAAAAGTGCCCTATCGTATTATTTGAAAATTTTAAAC
22145674 ATATATATATATAT
1 ATATATATATATAT
22145688 ATATATTCTT
Statistics
Matches: 117, Mismatches: 19, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
123 31 0.26
124 51 0.44
125 26 0.22
126 9 0.08
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (125 bp):
ATATATATATATATTTCAAAGAATAGGAATACTATGTGACGGAAAACACATAGAAAGTCAACAAT
GACAATAAAAAAAATTGAAACTGAAAAAGTGCCCTATCGTATTATTTGAAAATTTTAAAC
Found at i:22149218 original size:18 final size:18
Alignment explanation
Indices: 22149195--22149229 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
22149185 ACCTGAGGTC
22149195 AGCCTTAGGGCCCAAGAT
1 AGCCTTAGGGCCCAAGAT
22149213 AGCCTTAGGGCCCAAGA
1 AGCCTTAGGGCCCAAGA
22149230 GATCGAGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (18 bp):
AGCCTTAGGGCCCAAGAT
Found at i:22151552 original size:13 final size:13
Alignment explanation
Indices: 22151534--22151558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22151524 TGTACTGTGT
22151534 TTATTTTACCAAA
1 TTATTTTACCAAA
22151547 TTATTTTACCAA
1 TTATTTTACCAA
22151559 CGCTTAACTT
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATTTTACCAAA
Found at i:22156726 original size:18 final size:18
Alignment explanation
Indices: 22156703--22156749 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
22156693 GCAAGTGTCA
22156703 AGCTTAAAAGCTTAGAGT
1 AGCTTAAAAGCTTAGAGT
22156721 AGCTTAAAAGCTTAGAGT
1 AGCTTAAAAGCTTAGAGT
22156739 AGCTTAAAAGC
1 AGCTTAAAAGC
22156750 ATGCTTGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.26
Consensus pattern (18 bp):
AGCTTAAAAGCTTAGAGT
Found at i:22159191 original size:14 final size:15
Alignment explanation
Indices: 22159166--22159194 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
22159156 TCAACAAAGG
22159166 AGAATAATAGAAAAA
1 AGAATAATAGAAAAA
22159181 AGAAT-ATAGAAAAA
1 AGAATAATAGAAAAA
22159195 GTAAAAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AGAATAATAGAAAAA
Found at i:22161208 original size:20 final size:22
Alignment explanation
Indices: 22161179--22161223 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
22161169 AACAATATGC
22161179 ATAAAGAAAT-AAAGAAA-TAT
1 ATAAAGAAATGAAAGAAAGTAT
* *
22161199 ATAAATAAATGAATGAAAGTAT
1 ATAAAGAAATGAAAGAAAGTAT
22161221 ATA
1 ATA
22161224 TATTATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 6 0.29
22 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.24
Consensus pattern (22 bp):
ATAAAGAAATGAAAGAAAGTAT
Found at i:22162731 original size:2 final size:2
Alignment explanation
Indices: 22162724--22162757 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
22162714 GTGTCATCTT
22162724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22162758 TTTTAATAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:22166677 original size:22 final size:23
Alignment explanation
Indices: 22166652--22166709 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
22166642 AGATTTTGAC
22166652 TTGAAATTCAAAAGTTCACA-AT
1 TTGAAATTCAAAAGTTCACATAT
* *
22166674 TTGAAACTTCAAAAGTTCTCATTT
1 TTGAAA-TTCAAAAGTTCACATAT
*
22166698 TTTAAATTCAAA
1 TTGAAATTCAAA
22166710 GATTTGCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.19
23 19 0.61
24 6 0.19
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (23 bp):
TTGAAATTCAAAAGTTCACATAT
Found at i:22166725 original size:18 final size:18
Alignment explanation
Indices: 22166702--22166787 Score: 68
Period size: 18 Copynumber: 4.8 Consensus size: 18
22166692 TCATTTTTTA
22166702 AATTCAAAGATTTGCAAG
1 AATTCAAAGATTTGCAAG
**
22166720 AATTCAAA-AGTTTGTTAG
1 AATTCAAAGA-TTTGCAAG
22166738 AAATT-AAAGATTTGCAAG
1 -AATTCAAAGATTTGCAAG
* ** * *
22166756 AACTCCTAGGTTCGCAAG
1 AATTCAAAGATTTGCAAG
*
22166774 ATTTCAAAGATTTG
1 AATTCAAAGATTTG
22166788 TAAATTTTAA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
17 4 0.08
18 40 0.82
19 5 0.10
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (18 bp):
AATTCAAAGATTTGCAAG
Found at i:22166883 original size:17 final size:17
Alignment explanation
Indices: 22166865--22166934 Score: 72
Period size: 16 Copynumber: 4.2 Consensus size: 17
22166855 GTAGATTTAT
*
22166865 AAGAATTGAAGATTCAT
1 AAGAATTGAAGATTCAC
** *
22166882 AAG-ATTTTATATTCAC
1 AAGAATTGAAGATTCAC
*
22166898 AAGAATT-TAGATTCAC
1 AAGAATTGAAGATTCAC
*
22166914 AAGAATTGAAGATTTAC
1 AAGAATTGAAGATTCAC
22166931 AAGA
1 AAGA
22166935 TTTTAGGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
16 27 0.61
17 17 0.39
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (17 bp):
AAGAATTGAAGATTCAC
Found at i:22166944 original size:17 final size:16
Alignment explanation
Indices: 22166874--22166952 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 16
22166864 TAAGAATTGA
* *
22166874 AGATTCATAAGATTTT
1 AGATTCACAAGAATTT
*
22166890 ATATTCACAAGAATTT
1 AGATTCACAAGAATTT
*
22166906 AGATTCACAAGAATTGA
1 AGATTCACAAGAATT-T
* *
22166923 AGATTTACAAGATTTT
1 AGATTCACAAGAATTT
*
22166939 AGGATTCGCAAGAA
1 A-GATTCACAAGAA
22166953 CTCCGACTCG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
16 28 0.56
17 22 0.44
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (16 bp):
AGATTCACAAGAATTT
Found at i:22166973 original size:50 final size:49
Alignment explanation
Indices: 22166865--22167087 Score: 126
Period size: 50 Copynumber: 4.5 Consensus size: 49
22166855 GTAGATTTAT
* * * * *
22166865 AAGAATTGAAGATTCATAAGATTTTATATTCACAAGAATTTAGATTCAC
1 AAGAATTGAAGATTCACAAGATTTTAGATTCACAAGAACTCAGACTCAC
* * * *
22166914 AAGAATTGAAGATTTACAAGATTTTAGGATTCGCAAGAACTCCGACTCGC
1 AAGAATTGAAGATTCACAAGATTTTA-GATTCACAAGAACTCAGACTCAC
* * ** * * * ***
22166964 GAGAATTGAATATTGGCAA-ATTTTTAGA-TCTGCAAGATCTCAGATTTGT
1 AAGAATTGAAGATTCACAAGA-TTTTAGATTC-ACAAGAACTCAGACTCAC
* * * *** * *
22167013 AAAAAATGAAAATTTGTAAGATTTTAAGATTCCCAAGAACTCAGATTCAC
1 AAGAATTGAAGATTCACAAGATTTT-AGATTCACAAGAACTCAGACTCAC
* * *
22167063 AAAAATTAAAGATTCATAAGATTTT
1 AAGAATTGAAGATTCACAAGATTTT
22167088 CAAATTCGTA
Statistics
Matches: 134, Mismatches: 34, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
48 2 0.01
49 57 0.43
50 73 0.54
51 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (49 bp):
AAGAATTGAAGATTCACAAGATTTTAGATTCACAAGAACTCAGACTCAC
Found at i:22167101 original size:50 final size:50
Alignment explanation
Indices: 22167029--22167183 Score: 134
Period size: 50 Copynumber: 3.1 Consensus size: 50
22167019 TGAAAATTTG
** * *
22167029 TAAGATTTT-AAGATTCCCAAGAACTCAGATTCACAAAAATTAAAGATTCA
1 TAAGATTTTCAA-ATTCGTAAGAACTCAAATTCACAAGAATTAAAGATTCA
* * * * * *
22167079 TAAGATTTTCAAATTCGTAAGAATTGAATATTCATAAGAACTAAATATTCG
1 TAAGATTTTCAAATTCGTAAGAACTCAA-ATTCACAAGAATTAAAGATTCA
* * ** * *
22167130 CAAG-TTTTCAAATTCGTAGGAACTCAAATTTGCAAGAATTGAAGATTTA
1 TAAGATTTTCAAATTCGTAAGAACTCAAATTCACAAGAATTAAAGATTCA
22167179 TAAGA
1 TAAGA
22167184 ATTGAAAATT
Statistics
Matches: 79, Mismatches: 23, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
49 17 0.22
50 40 0.51
51 22 0.28
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (50 bp):
TAAGATTTTCAAATTCGTAAGAACTCAAATTCACAAGAATTAAAGATTCA
Found at i:22167111 original size:17 final size:17
Alignment explanation
Indices: 22167091--22167129 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22167081 AGATTTTCAA
* *
22167091 ATTCGTAAGAATTGAAT
1 ATTCGTAAGAACTAAAT
*
22167108 ATTCATAAGAACTAAAT
1 ATTCGTAAGAACTAAAT
22167125 ATTCG
1 ATTCG
22167130 CAAGTTTTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (17 bp):
ATTCGTAAGAACTAAAT
Found at i:22167200 original size:17 final size:17
Alignment explanation
Indices: 22167155--22167200 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
22167145 GTAGGAACTC
*
22167155 AAATTTGCAAGAATTGA
1 AAATTTACAAGAATTGA
* *
22167172 AGATTTATAAGAATTGA
1 AAATTTACAAGAATTGA
*
22167189 AAATTTCCAAGA
1 AAATTTACAAGA
22167201 TTTTAAGATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (17 bp):
AAATTTACAAGAATTGA
Found at i:22167391 original size:23 final size:23
Alignment explanation
Indices: 22167345--22167391 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22167335 TTTACATCCT
**
22167345 AAATTCAAATATTCACATTTAAA
1 AAATTCAAATATTCACATCAAAA
22167368 AAATTCAAGA-ATTCACATCAAAA
1 AAATTCAA-ATATTCACATCAAAA
22167391 A
1 A
22167392 TTTAAAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (23 bp):
AAATTCAAATATTCACATCAAAA
Found at i:22167511 original size:44 final size:44
Alignment explanation
Indices: 22167408--22167522 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
22167398 AGCTCATATC
* * * * *
22167408 CAAAATTCAAATATTAATATTCTAAAATTTTAGAGATTCACACC
1 CAAAATTCAAATATTTACATTCGAAAATATTAGAGATTCACACA
* * *
22167452 CAAAGTTCAAATATTTACATTGGAAAATATTAGATATTCACACA
1 CAAAATTCAAATATTTACATTCGAAAATATTAGAGATTCACACA
* *
22167496 CAAAATTCAAATATTTTCATTTGAAAA
1 CAAAATTCAAATATTTACATTCGAAAA
22167523 ACTTTAGGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (44 bp):
CAAAATTCAAATATTTACATTCGAAAATATTAGAGATTCACACA
Found at i:22167561 original size:45 final size:45
Alignment explanation
Indices: 22167487--22167612 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 45
22167477 AATATTAGAT
* * *
22167487 ATTCACA-CACAAAATTCAAATATTTTCATTTGAAAAACT-TT-AGG
1 ATTCACATC-CAAGATTCAAATATTCTCATTT-AAAAACTCTTAAAG
* *
22167531 ATTTCACAT-CAAGATTTCAAAAATTCTCATTCAAAAAACTCTTAAAG
1 A-TTCACATCCAAGA-TTCAAATATTCTCATT-TAAAAACTCTTAAAG
22167578 ATTCACATCCAAGATTCAAATATTCTCATTTAAAA
1 ATTCACATCCAAGATTCAAATATTCTCATTTAAAA
22167613 TTTTTTTGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
44 5 0.07
45 31 0.46
46 24 0.35
47 8 0.12
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (45 bp):
ATTCACATCCAAGATTCAAATATTCTCATTTAAAAACTCTTAAAG
Found at i:22176540 original size:67 final size:68
Alignment explanation
Indices: 22176431--22176560 Score: 190
Period size: 67 Copynumber: 1.9 Consensus size: 68
22176421 GAATAGGCTG
* ** * * *
22176431 TAGGTTCAAGGCTGCATCTTTCCTTTTCAGGTTTTCGAGGGTCGACGTGCATTATTGGTATACGT
1 TAGGTTCAACGCTGCATCAATCCTTTTCAGGATTTCGAGGGTCAACGTGCAATATTGGTATACGT
22176496 AGT
66 AGT
*
22176499 TAGGTTCAACGCTG-ATCAATCCTTTTCAGGATTTCGAGGGTCAAGGTGCAATATTGGTATAC
1 TAGGTTCAACGCTGCATCAATCCTTTTCAGGATTTCGAGGGTCAACGTGCAATATTGGTATAC
22176561 TTAACTAGAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
67 42 0.76
68 13 0.24
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (68 bp):
TAGGTTCAACGCTGCATCAATCCTTTTCAGGATTTCGAGGGTCAACGTGCAATATTGGTATACGT
AGT
Found at i:22183371 original size:17 final size:17
Alignment explanation
Indices: 22183351--22183397 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
22183341 ATTACTGTAA
* *
22183351 TAATTTAATTATTTAAG
1 TAATTTTATTATTAAAG
22183368 TAATTTTATTATTAAAG
1 TAATTTTATTATTAAAG
*
22183385 TGATTTTATTATT
1 TAATTTTATTATT
22183398 CATAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TAATTTTATTATTAAAG
Found at i:22183755 original size:15 final size:16
Alignment explanation
Indices: 22183724--22183755 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
22183714 ATATAATTTG
22183724 AAAATATAAAGAAATT
1 AAAATATAAAGAAATT
22183740 AAAATATAAA-AAATT
1 AAAATATAAAGAAATT
22183755 A
1 A
22183756 TAATTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
AAAATATAAAGAAATT
Found at i:22191151 original size:21 final size:20
Alignment explanation
Indices: 22191122--22191161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22191112 CTAACATAAG
*
22191122 AAACATAGTTTTTACTTATTA
1 AAACATAGTGTTTA-TTATTA
*
22191143 AAACGTAGTGTTTATTATT
1 AAACATAGTGTTTATTATT
22191162 TACGCAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (20 bp):
AAACATAGTGTTTATTATTA
Found at i:22192346 original size:42 final size:42
Alignment explanation
Indices: 22192287--22192371 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
22192277 TCAGTGTGAA
22192287 AAGTGCCATATTCTTTGCCCTTCCATATCACTCTATGGAGAG
1 AAGTGCCATATTCTTTGCCCTTCCATATCACTCTATGGAGAG
22192329 AAGTGCCATATTCTTTGCCCTTCCATATCACTCTATGGAGAG
1 AAGTGCCATATTCTTTGCCCTTCCATATCACTCTATGGAGAG
22192371 A
1 A
22192372 GTAGTAGACT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (42 bp):
AAGTGCCATATTCTTTGCCCTTCCATATCACTCTATGGAGAG
Found at i:22198745 original size:1 final size:1
Alignment explanation
Indices: 22198739--22198763 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
22198729 CATCAGCTTG
22198739 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
22198764 CCTCTTCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:22201348 original size:29 final size:28
Alignment explanation
Indices: 22201287--22201348 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
22201277 ACAAAACTTT
**
22201287 TTAAAATTATTTTTAATAATTAATCAAA
1 TTAAAATTATAATTAATAATTAATCAAA
* * *
22201315 ATAAAATTATAATTAATTTATTAATTAAA
1 TTAAAATTATAATTAA-TAATTAATCAAA
22201344 TTAAA
1 TTAAA
22201349 TCGATTCGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAAAATTATAATTAATAATTAATCAAA
Found at i:22203498 original size:20 final size:20
Alignment explanation
Indices: 22203456--22203498 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
22203446 TAAAATAATA
**
22203456 TAAATTAATTAATTTAATTT
1 TAAATTAATTAATTTAAAAT
22203476 TAAA-TAATTAGATTTAAAAT
1 TAAATTAATTA-ATTTAAAAT
22203496 TAA
1 TAA
22203499 TTGAATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAATTAATTAATTTAAAAT
Found at i:22204449 original size:21 final size:21
Alignment explanation
Indices: 22204400--22204452 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
22204390 AAGTTCAACC
*
22204400 AAACCAAGAAAATTTTAGAAA
1 AAACCAAAAAAATTTTAGAAA
**
22204421 AATTCAAAACAAATTTTA-AAA
1 AAACCAAAA-AAATTTTAGAAA
22204442 AAACCAAAAAA
1 AAACCAAAAAA
22204453 TTGCCCAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.08
21 16 0.62
22 8 0.31
ACGTcount: A:0.66, C:0.11, G:0.04, T:0.19
Consensus pattern (21 bp):
AAACCAAAAAAATTTTAGAAA
Found at i:22204872 original size:6 final size:6
Alignment explanation
Indices: 22204864--22204928 Score: 85
Period size: 6 Copynumber: 10.8 Consensus size: 6
22204854 AAAATAGAAA
* * *
22204864 AATAAA AATAAA AATAAC AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
* *
22204912 AACAAT AATAAC AATAA
1 AATAAT AATAAT AATAA
22204929 AAAAATCTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.25
Consensus pattern (6 bp):
AATAAT
Found at i:22204894 original size:9 final size:9
Alignment explanation
Indices: 22204864--22204928 Score: 85
Period size: 9 Copynumber: 7.2 Consensus size: 9
22204854 AAAATAGAAA
*
22204864 AATAAAAAT
1 AATAATAAT
* *
22204873 AAAAATAAC
1 AATAATAAT
22204882 AATAATAAT
1 AATAATAAT
22204891 AATAATAAT
1 AATAATAAT
22204900 AATAATAAT
1 AATAATAAT
*
22204909 AATAACAAT
1 AATAATAAT
*
22204918 AATAACAAT
1 AATAATAAT
22204927 AA
1 AA
22204929 AAAAATCTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.25
Consensus pattern (9 bp):
AATAATAAT
Found at i:22205341 original size:31 final size:31
Alignment explanation
Indices: 22205304--22205376 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
22205294 AAGGGTCAAA
*
22205304 AATAAATGATCGGGATAGAACCATGAATCAT
1 AATAAATGATCCGGATAGAACCATGAATCAT
22205335 AATAAATGATCCGGATAGAACCATGAATCAT
1 AATAAATGATCCGGATAGAACCATGAATCAT
22205366 AATAAATGATC
1 AATAAATGATC
22205377 TGGTCTGAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.23
Consensus pattern (31 bp):
AATAAATGATCCGGATAGAACCATGAATCAT
Found at i:22205430 original size:151 final size:150
Alignment explanation
Indices: 22205184--22205464 Score: 382
Period size: 151 Copynumber: 1.9 Consensus size: 150
22205174 CGATATCAAA
* * * * *
22205184 AATAAATGATCGGGACAGAATCACGAATCATAAAAAATGATCTGGACTGAGGCAATACCAAGTTA
1 AATAAATGATCCGGACAGAACCACGAATCATAAAAAATGATCTGGACTGAGCCAAGACCAAGTGA
** ** * * *
22205249 TTGGGATGAAACCACAAGTTGAAATAAAGCAACCAGGATCGAGTCAAGGGTCAAAAATAAATGAT
66 CCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAGACCAAGTCAA-GGTCAAAAATAAATGAT
22205314 CGGGATAGAACCATGAATCAT
130 CGGGATAGAACCATGAATCAT
* * * * *
22205335 AATAAATGATCCGGATAGAACCATGAATCATAATAAATGATCTGGTCTGAGCCAAGATCAAGTGA
1 AATAAATGATCCGGACAGAACCACGAATCATAAAAAATGATCTGGACTGAGCCAAGACCAAGTGA
* *
22205400 CCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAGACCAAGTCAAGGTTAATAATAAATGATC
66 CCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAGACCAAGTCAAGGTCAAAAATAAATGATC
22205465 AAAACGAAAC
Statistics
Matches: 111, Mismatches: 19, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
150 16 0.14
151 95 0.86
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.19
Consensus pattern (150 bp):
AATAAATGATCCGGACAGAACCACGAATCATAAAAAATGATCTGGACTGAGCCAAGACCAAGTGA
CCGGGATGAAACCACAAGTCAAAATAAAGCAACCAAGACCAAGTCAAGGTCAAAAATAAATGATC
GGGATAGAACCATGAATCAT
Found at i:22205511 original size:119 final size:118
Alignment explanation
Indices: 22205352--22205872 Score: 446
Period size: 119 Copynumber: 4.4 Consensus size: 118
22205342 GATCCGGATA
* *
22205352 GAACCATGAATCATAATAAATGATCTGG-TCTGAGCCAAGATCAAGTGACCGGGATGAAACCACA
1 GAACCATAAATCATAAGAAATGATCTGGAT-TGAGCCAAGATCAAGTGACCGGGATGAAACCACA
* * * * *
22205416 AGTCAAAATAAAGCAACCAAGACCAAGTCAAGGTTAATAATAAATGATCAAAAC
65 AGTCAAAATAAAGCAACCAAGATCGAGTCAAGGTCAAAAATAAATAATCAAAAC
* * * * * **
22205470 GAAACCATAAATCATAAGAAATGATTTGGATTGAGCTAAGATTAGGTGACTGGGACAAAACCACA
1 G-AACCATAAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTGACCGGGATGAAACCACA
* * * * *
22205535 AGTTAAAATAAAGCAACCAGGATCGAGTCAAGGTCGAGAATAAATAATCAAGAC
65 AGTCAAAATAAAGCAACCAAGATCGAGTCAAGGTCAAAAATAAATAATCAAAAC
* * * * ** ** *
22205589 GGAACCATGAATTATAATAAATAATCTGGACCGAGCCAAGATCAAGTGACCAAGATGAAATCACA
1 -GAACCATAAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTGACCGGGATGAAACCACA
* * ** *
22205654 AGTCAAAATAAAACGACCAAGATCGAGTCAAGGTCAAAAATAAATAATTGGGATA-
65 AGTCAAAATAAAGCAACCAAGATCGAGTCAAGGTCAAAAATAAATAA-T-CAAAAC
* * * * * * *
22205709 GAACCATAAATCATAAGAAATGATCTTGACTGAGTCAATATCAAATGATCGGGA-CAGAACCACA
1 GAACCATAAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTGACCGGGATGA-AACCACA
* * * ** * * *
22205773 AGT-TAAAT-GAGACAACCAATA-CTGAGTTGAGGT-AAAAA-AAATGATCGAGAC
65 AGTCAAAATAAAG-CAACCAAGATC-GAGTCAAGGTCAAAAATAAATAATCAAAAC
* * *
22205824 AGAATCATAAATTATAAGAAATGATCTGGATTGAGCCAAGATAAAGTGA
1 -GAACCATAAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTGA
22205873 GTGAGATAAT
Statistics
Matches: 318, Mismatches: 75, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
114 3 0.01
115 1 0.00
116 45 0.14
117 7 0.02
118 21 0.07
119 236 0.74
120 3 0.01
121 2 0.01
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (118 bp):
GAACCATAAATCATAAGAAATGATCTGGATTGAGCCAAGATCAAGTGACCGGGATGAAACCACAA
GTCAAAATAAAGCAACCAAGATCGAGTCAAGGTCAAAAATAAATAATCAAAAC
Found at i:22206225 original size:10 final size:10
Alignment explanation
Indices: 22206210--22206247 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
22206200 TGGAAGTTAA
*
22206210 TTTTTTTTTC
1 TTTTTTTTTG
22206220 TTTTTTTTTG
1 TTTTTTTTTG
22206230 TTTTTTTTTG
1 TTTTTTTTTG
22206240 TTTTTTTT
1 TTTTTTTT
22206248 GTTCATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:22206235 original size:19 final size:19
Alignment explanation
Indices: 22206210--22206250 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
22206200 TGGAAGTTAA
*
22206210 TTTTTTTTTCTTTTTTTTTG
1 TTTTTTTTT-GTTTTTTTTG
22206230 TTTTTTTTTGTTTTTTTTG
1 TTTTTTTTTGTTTTTTTTG
22206249 TT
1 TT
22206251 CATTTTTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (19 bp):
TTTTTTTTTGTTTTTTTTG
Found at i:22206256 original size:19 final size:19
Alignment explanation
Indices: 22206221--22206257 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22206211 TTTTTTTTCT
**
22206221 TTTTTTTTGTTTTTTTTTG
1 TTTTTTTTGTTCATTTTTG
22206240 TTTTTTTTGTTCATTTTT
1 TTTTTTTTGTTCATTTTT
22206258 TGCCTTTATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.03, C:0.03, G:0.08, T:0.86
Consensus pattern (19 bp):
TTTTTTTTGTTCATTTTTG
Found at i:22217552 original size:10 final size:10
Alignment explanation
Indices: 22217531--22217569 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
22217521 CTAAACCCAG
22217531 AAAAATTC-A
1 AAAAATTCAA
22217540 AAAAATTCAAAA
1 AAAAATTC--AA
22217552 AAAAATTCAA
1 AAAAATTCAA
22217562 AAAAATTC
1 AAAAATTC
22217570 GCAGATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.30
10 10 0.37
12 9 0.33
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAATTCAA
Found at i:22217556 original size:12 final size:12
Alignment explanation
Indices: 22217539--22217566 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
22217529 AGAAAAATTC
22217539 AAAAAATTCAAA
1 AAAAAATTCAAA
22217551 AAAAAATTCAAA
1 AAAAAATTCAAA
22217563 AAAA
1 AAAA
22217567 TTCGCAGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAATTCAAA
Found at i:22217996 original size:3 final size:3
Alignment explanation
Indices: 22217990--22218018 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22217980 AAATAATAAT
22217990 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
22218019 TAATAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:22218023 original size:3 final size:3
Alignment explanation
Indices: 22218017--22218042 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22218007 CAACAACAAC
22218017 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
22218043 AATCTAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22218113 original size:26 final size:26
Alignment explanation
Indices: 22218084--22218135 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
22218074 AGTTGTGTTA
* * *
22218084 AACCAAAATGAGCCTAGTTGAGCCCG
1 AACCAAAACGAGCCCAATTGAGCCCG
22218110 AACCAAAACGAGCCCAATTGAGCCCG
1 AACCAAAACGAGCCCAATTGAGCCCG
22218136 GCTAAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.31, G:0.21, T:0.12
Consensus pattern (26 bp):
AACCAAAACGAGCCCAATTGAGCCCG
Found at i:22219862 original size:13 final size:13
Alignment explanation
Indices: 22219844--22219882 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
22219834 TTTTCGATTT
*
22219844 AAATTAAATTTAA
1 AAATTAAATATAA
22219857 AAATTAAATATAA
1 AAATTAAATATAA
*
22219870 ATA-TAAATATAA
1 AAATTAAATATAA
22219882 A
1 A
22219883 TATTTTGGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAATTAAATATAA
Found at i:22219870 original size:6 final size:6
Alignment explanation
Indices: 22219843--22219885 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
22219833 TTTTTCGATT
* *
22219843 TAAAT- TAAATT TAAAAA TTAAATA TAAATA TAAATA TAAATA T
1 TAAATA TAAATA TAAATA -TAAATA TAAATA TAAATA TAAATA T
22219886 TTTGGATTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
5 5 0.15
6 23 0.70
7 5 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
TAAATA
Found at i:22220012 original size:10 final size:10
Alignment explanation
Indices: 22219991--22220029 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
22219981 ATAATTATTT
*
22219991 TTAAAATTTA
1 TTAAAATATA
*
22220001 TTTAAATATA
1 TTAAAATATA
22220011 TTAAAATTATA
1 TTAAAA-TATA
22220022 TTAAAATA
1 TTAAAATA
22220030 ATATATAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATATA
Found at i:22220016 original size:20 final size:21
Alignment explanation
Indices: 22219991--22220038 Score: 62
Period size: 20 Copynumber: 2.2 Consensus size: 21
22219981 ATAATTATTT
*
22219991 TTAAAATT-TATTTAAATATA
1 TTAAAATTATATTAAAATATA
22220011 TTAAAATTATATTAAAATAATA
1 TTAAAATTATATTAAAAT-ATA
22220033 TATAAA
1 T-TAAA
22220039 GATAAAACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 8 0.33
22 4 0.17
23 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTAAAATTATATTAAAATATA
Found at i:22222979 original size:2 final size:2
Alignment explanation
Indices: 22222972--22222997 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22222962 CGTCAACAGC
22222972 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
22222998 CAAATATCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22224695 original size:2 final size:2
Alignment explanation
Indices: 22224688--22224717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22224678 AAATAAATAA
22224688 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
22224718 TGATCTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22229370 original size:34 final size:33
Alignment explanation
Indices: 22229332--22229423 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 33
22229322 AAGACTCTTA
22229332 AAAATAAATTTTTGAAAAGTTTTAAAGGCTTTCG
1 AAAATAAATTTTTGAAAAGTTTTAAA-GCTTTCG
* * * * *
22229366 AAAATACATCTTTGAGAAGCCTTTGAAGCTTTCG
1 AAAATAAATTTTTGAAAAG-TTTTAAAGCTTTCG
* *
22229400 AAAA-AAA-TTTTCAAGAGTTTTAAA
1 AAAATAAATTTTTGAAAAGTTTTAAA
22229424 TACATTTCTA
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
31 5 0.11
32 6 0.13
33 2 0.04
34 27 0.60
35 5 0.11
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (33 bp):
AAAATAAATTTTTGAAAAGTTTTAAAGCTTTCG
Found at i:22230035 original size:21 final size:21
Alignment explanation
Indices: 22230009--22230052 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
22229999 TAGTGTGATG
22230009 TTGTTGTTAATCTTATTATTA
1 TTGTTGTTAATCTTATTATTA
** *
22230030 TTGTTGTTGTTGTTATTATTA
1 TTGTTGTTAATCTTATTATTA
22230051 TT
1 TT
22230053 TATACATGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.66
Consensus pattern (21 bp):
TTGTTGTTAATCTTATTATTA
Found at i:22232044 original size:33 final size:33
Alignment explanation
Indices: 22232007--22232072 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
22231997 ATTATGTACT
* *
22232007 GATACTTATTTTATATTTAGTTAATTATGTTTA
1 GATACTAATTTTATATTAAGTTAATTATGTTTA
22232040 GATACTAATTTTATATTAAGTTAATTATGTTTA
1 GATACTAATTTTATATTAAGTTAATTATGTTTA
22232073 TATTTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.09, T:0.55
Consensus pattern (33 bp):
GATACTAATTTTATATTAAGTTAATTATGTTTA
Found at i:22232615 original size:107 final size:107
Alignment explanation
Indices: 22232428--22232641 Score: 302
Period size: 107 Copynumber: 2.0 Consensus size: 107
22232418 TTATTAACAC
** * * *
22232428 CTACATAAAATAGGAATGATAAATATAAACAATAAATGACAACATTAATTAACAGAATCTGCATA
1 CTACATAAAATAGGAACAATAAATATAAACAATAAATGACAACACTAATTAACAGAATCTACACA
* *
22232493 AAATGACAAGCATTAACAAATTCAATGGTGGTACAAATCTAA
66 AAATGACAAGCATTAACAAATCCAATGATGGTACAAATCTAA
** * *
22232535 CTACATAAAATAGGAACAATAAATATAAGTAGTAAATGACAACACTAATTAATAGAATCTACACA
1 CTACATAAAATAGGAACAATAAATATAAACAATAAATGACAACACTAATTAACAGAATCTACACA
** *
22232600 AAATGACAATTATTAACAAATCCAATGATGGTACAGATCTAA
66 AAATGACAAGCATTAACAAATCCAATGATGGTACAAATCTAA
22232642 TAAAAAAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
107 93 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.24
Consensus pattern (107 bp):
CTACATAAAATAGGAACAATAAATATAAACAATAAATGACAACACTAATTAACAGAATCTACACA
AAATGACAAGCATTAACAAATCCAATGATGGTACAAATCTAA
Found at i:22235156 original size:68 final size:68
Alignment explanation
Indices: 22235030--22235157 Score: 152
Period size: 68 Copynumber: 1.9 Consensus size: 68
22235020 TTCATTTCCA
** * * * *
22235030 AGAATACAATGTAATTCTCGAAATTTCATTTTTGAGATTTATGTTGTATTTTCAAAAATGAATTT
1 AGAATACAATGTAATTCTCGAAATTGAAATTTTGAAAATTATGTTGTATTATCAAAAATGAATTT
22235095 TTG
66 TTG
* *
22235098 AGAATACAATGTAATTTTCAGAAA-TGAAATTTTGAAAATTATGTTGCT-TTATCGAAAATG
1 AGAATACAATGTAATTCTC-GAAATTGAAATTTTGAAAATTATGTTG-TATTATCAAAAATG
22235158 GACTTTCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
68 45 0.90
69 5 0.10
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (68 bp):
AGAATACAATGTAATTCTCGAAATTGAAATTTTGAAAATTATGTTGTATTATCAAAAATGAATTT
TTG
Found at i:22235357 original size:25 final size:24
Alignment explanation
Indices: 22235329--22235393 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
22235319 TTTAGCATAT
*
22235329 AAGAAAGAAGAATAAAAAAAGGAAA
1 AAGAAAAAAGAA-AAAAAAAGGAAA
*
22235354 AAGAAAAAAAAGAAAAAAAAGGGAAA
1 AAG--AAAAAAGAAAAAAAAAGGAAA
*
22235380 AAAAAAAAAGAAAA
1 AAGAAAAAAGAAAA
22235394 GGTGTACAGG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 11 0.31
25 3 0.09
26 13 0.37
27 8 0.23
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAGAAAAAAGAAAAAAAAAGGAAA
Found at i:22235362 original size:15 final size:15
Alignment explanation
Indices: 22235332--22235393 Score: 52
Period size: 15 Copynumber: 3.9 Consensus size: 15
22235322 AGCATATAAG
* *
22235332 AAAGAAGAATAAAAA
1 AAAGAAAAAGAAAAA
*
22235347 AAGGAAAAAGAAAAA
1 AAAGAAAAAGAAAAA
*
22235362 AAAGAAAAAAAAGGGAAA
1 AAAGAAAAAGAA---AAA
*
22235380 AAAAAAAAAGAAAA
1 AAAGAAAAAGAAAA
22235394 GGTGTACAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 24 0.65
18 13 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGAAAAA
Found at i:22235363 original size:9 final size:9
Alignment explanation
Indices: 22235351--22235394 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
22235341 TAAAAAAAGG
22235351 AAAAAGAAA
1 AAAAAGAAA
22235360 AAAAAGAAA
1 AAAAAGAAA
22235369 AAAAAGGGAAA
1 AAAAA--GAAA
22235380 AAAAA-AAA
1 AAAAAGAAA
22235388 AGAAAAG
1 A-AAAAG
22235395 GTGTACAGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.13
9 18 0.58
11 9 0.29
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:22235381 original size:20 final size:20
Alignment explanation
Indices: 22235342--22235395 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
22235332 AAAGAAGAAT
* *
22235342 AAAAAAAGGAAAA-AGAAAA
1 AAAAAAAAGAAAAGGGAAAA
22235361 AAAAGAAAA-AAAAGGGAAAA
1 AAAA-AAAAGAAAAGGGAAAA
22235381 AAAAAAAAGAAAAGG
1 AAAAAAAAGAAAAGG
22235396 TGTACAGGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAAAAGGGAAAA
Found at i:22235384 original size:24 final size:25
Alignment explanation
Indices: 22235342--22235393 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
22235332 AAAGAAGAAT
22235342 AAAAAAAGGAAAAAGAAAAAAAAGA
1 AAAAAAAGGAAAAAGAAAAAAAAGA
*
22235367 AAAAAAAGGGAAAA-AAAAAAAAGA
1 AAAAAAAGGAAAAAGAAAAAAAAGA
22235391 AAA
1 AAA
22235394 GGTGTACAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (25 bp):
AAAAAAAGGAAAAAGAAAAAAAAGA
Found at i:22235637 original size:21 final size:20
Alignment explanation
Indices: 22235607--22235647 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
22235597 CCTACTATTC
*
22235607 TTTTTTTCTTCCTTTTTTCT
1 TTTTTTTCTTCATTTTTTCT
22235627 TTTTCTTTCTTCATTTTTTCT
1 TTTT-TTTCTTCATTTTTTCT
22235648 CATGCACTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTTCATTTTTTCT
Found at i:22237901 original size:78 final size:78
Alignment explanation
Indices: 22237817--22237971 Score: 247
Period size: 78 Copynumber: 2.0 Consensus size: 78
22237807 ATCTATTGCA
* * * *
22237817 AAAAAACAACTACTAATTAAGCTTACAGAATATATTTAACAAACCTTAAGCTTAGATAATAGATA
1 AAAAAACAACAACTAATTAAGCTTACAGAATATATTTAACAAACCTTAAACTCAGATAACAGATA
22237882 CACTTAATATAAC
66 CACTTAATATAAC
* * *
22237895 AAAAAACAACAACTAATTAAGCTTACAGGATATATTTAACAAACTTTAAACTCAGATAACATATA
1 AAAAAACAACAACTAATTAAGCTTACAGAATATATTTAACAAACCTTAAACTCAGATAACAGATA
22237960 CACTTAATATAA
66 CACTTAATATAA
22237972 AATCATTATC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (78 bp):
AAAAAACAACAACTAATTAAGCTTACAGAATATATTTAACAAACCTTAAACTCAGATAACAGATA
CACTTAATATAAC
Found at i:22238532 original size:16 final size:15
Alignment explanation
Indices: 22238490--22238532 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
22238480 TTTATATTTT
22238490 AAAATATTTTTTTCA
1 AAAATATTTTTTTCA
22238505 AAAATATATTTTCTT-A
1 AAAATAT-TTTT-TTCA
22238521 AAAATATTTTTT
1 AAAATATTTTTT
22238533 AAGAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 12 0.46
17 2 0.08
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
AAAATATTTTTTTCA
Found at i:22240331 original size:14 final size:14
Alignment explanation
Indices: 22240278--22240333 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
22240268 TTTATTTTTT
*
22240278 TATT-TTTTCTTTA
1 TATTATTTTATTTA
*
22240291 TA-TATATTATTTA
1 TATTATTTTATTTA
22240304 TATTATTTTGATTT-
1 TATTATTTT-ATTTA
22240318 TATTATTGTTATTTA
1 TATTATT-TTATTTA
22240333 T
1 T
22240334 GTATGTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
12 1 0.03
13 11 0.31
14 16 0.46
15 7 0.20
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (14 bp):
TATTATTTTATTTA
Found at i:22240791 original size:13 final size:14
Alignment explanation
Indices: 22240744--22240788 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
22240734 TTTAAATTAA
*
22240744 AAAATCTAAACCCT
1 AAAATCCAAACCCT
*
22240758 AAAATCAAAACCCT
1 AAAATCCAAACCCT
22240772 AAAATCCAAACCCT
1 AAAATCCAAACCCT
22240786 AAA
1 AAA
22240789 TCCTCCAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.16
Consensus pattern (14 bp):
AAAATCCAAACCCT
Found at i:22240799 original size:30 final size:29
Alignment explanation
Indices: 22240744--22240879 Score: 80
Period size: 30 Copynumber: 4.6 Consensus size: 29
22240734 TTTAAATTAA
* * *
22240744 AAAATCTAAACCCTAAA-ATCAAAACCCT
1 AAAATCCAAACCCTAAACCTCCAAACCCT
*
22240772 AAAATCCAAACCCTAAATCCTCCAAACCGT
1 AAAATCCAAACCCTAAA-CCTCCAAACCCT
* * ** *
22240802 AAAA-CTAAAACCTTAAACCCTTTAAACCTT
1 AAAATC-CAAACCCTAAA-CCTCCAAACCCT
* *
22240832 AAAAT-CAAAGCCCTTAAACTTTTCAAACCCT
1 AAAATCCAAA-CCC-TAAAC-CTCCAAACCCT
* *
22240863 AAAATTCAAGCCCTAAA
1 AAAATCCAAACCCTAAA
22240880 ACTCTCTAAA
Statistics
Matches: 84, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
28 16 0.19
29 4 0.05
30 41 0.49
31 20 0.24
32 3 0.04
ACGTcount: A:0.47, C:0.29, G:0.02, T:0.21
Consensus pattern (29 bp):
AAAATCCAAACCCTAAACCTCCAAACCCT
Found at i:22240850 original size:31 final size:31
Alignment explanation
Indices: 22240812--22240895 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
22240802 AAAACTAAAA
22240812 CCTTAAACCCTTTAAACCTTAAAA-TCAAAGC
1 CCTTAAACCCTTTAAACCTTAAAATTC-AAGC
* *
22240843 CCTTAAA-CTTTTCAAACCCTAAAATTCAAGC
1 CCTTAAACCCTTT-AAACCTTAAAATTCAAGC
* * * *
22240874 CCTAAAACTCTCTAAACATTAA
1 CCTTAAACCCTTTAAACCTTAA
22240896 GACCAAATCC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
30 4 0.10
31 34 0.81
32 4 0.10
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (31 bp):
CCTTAAACCCTTTAAACCTTAAAATTCAAGC
Found at i:22240876 original size:14 final size:14
Alignment explanation
Indices: 22240751--22240880 Score: 59
Period size: 14 Copynumber: 8.8 Consensus size: 14
22240741 TAAAAAATCT
22240751 AAACCCTAAAA-TC
1 AAACCCTAAAATTC
*
22240764 AAAACCCTAAAATCC
1 -AAACCCTAAAATTC
22240779 AAACCCT-AAATCCTCC
1 AAACCCTAAAAT--T-C
* * *
22240795 AAACCGTAAAACTA
1 AAACCCTAAAATTC
* * *
22240809 AAACCTTAAACCCTTT
1 AAACCCTAAA--ATTC
*
22240825 AAACCTTAAAA-TC
1 AAACCCTAAAATTC
*
22240838 AAAGCCCTTAAACTTTTC
1 AAA-CCC-TAAA--ATTC
22240856 AAACCCTAAAATTC
1 AAACCCTAAAATTC
*
22240870 AAGCCCTAAAA
1 AAACCCTAAAA
22240881 CTCTCTAAAC
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
13 8 0.09
14 42 0.47
15 6 0.07
16 22 0.25
17 6 0.07
18 5 0.06
ACGTcount: A:0.47, C:0.30, G:0.02, T:0.21
Consensus pattern (14 bp):
AAACCCTAAAATTC
Found at i:22243856 original size:95 final size:95
Alignment explanation
Indices: 22243693--22243884 Score: 366
Period size: 95 Copynumber: 2.0 Consensus size: 95
22243683 TGGTTGAGTT
22243693 TATTACTCCTCAAGGATCGTTATCACTTTCATTAAGTCAAAATCGATCAGCTCATATTATTTCAG
1 TATTACTCCTCAAGGATCGTTATCACTTTCATTAAGTCAAAATCGATCAGCTCATATTATTTCAG
*
22243758 CACTTTCTCAGAGTACACTAAGGTATTGGG
66 CACTTTCTCAGAGTACACTAAAGTATTGGG
*
22243788 TATTACTCCTCAAGGATCGTTATCACTTTCATTAAGTCAAAATCGGTCAGCTCATATTATTTCAG
1 TATTACTCCTCAAGGATCGTTATCACTTTCATTAAGTCAAAATCGATCAGCTCATATTATTTCAG
22243853 CACTTTCTCAGAGTACACTAAAGTATTGGG
66 CACTTTCTCAGAGTACACTAAAGTATTGGG
22243883 TA
1 TA
22243885 ATTTGAATAG
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (95 bp):
TATTACTCCTCAAGGATCGTTATCACTTTCATTAAGTCAAAATCGATCAGCTCATATTATTTCAG
CACTTTCTCAGAGTACACTAAAGTATTGGG
Found at i:22247667 original size:14 final size:14
Alignment explanation
Indices: 22247648--22247708 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 14
22247638 ATGGGGCATC
22247648 ACAAAAAAAATAAG
1 ACAAAAAAAATAAG
*
22247662 ACAAAAAACAAAAAG
1 ACAAAAAA-AATAAG
22247677 -CAAAAAAAA-AAG
1 ACAAAAAAAATAAG
*
22247689 AC-CAAAAAATAA-
1 ACAAAAAAAATAAG
22247701 A-AAAAAAA
1 ACAAAAAAA
22247709 CAAAAAGACA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 15 0.38
13 5 0.12
14 15 0.38
15 5 0.12
ACGTcount: A:0.82, C:0.10, G:0.05, T:0.03
Consensus pattern (14 bp):
ACAAAAAAAATAAG
Found at i:22247689 original size:27 final size:26
Alignment explanation
Indices: 22247648--22247718 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 26
22247638 ATGGGGCATC
22247648 ACAAAAAAAATAAGACAAAAAACAAAA
1 ACAAAAAAAA-AAGACAAAAAACAAAA
*
22247675 AGCAAAAAAAAAAGACCAAAAAATAAAA
1 A-CAAAAAAAAAAGA-CAAAAAACAAAA
22247703 A-AAAAACAAAAAGACA
1 ACAAAAA-AAAAAGACA
22247719 TCTTCAATGA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 7 0.17
27 12 0.30
28 21 0.52
ACGTcount: A:0.80, C:0.11, G:0.06, T:0.03
Consensus pattern (26 bp):
ACAAAAAAAAAAGACAAAAAACAAAA
Found at i:22248513 original size:171 final size:171
Alignment explanation
Indices: 22248228--22248572 Score: 663
Period size: 171 Copynumber: 2.0 Consensus size: 171
22248218 AAAAGCAAAA
22248228 AAAAAAGTCAGAGAATGCTCCTCAGGATCCTTGGCCTAATTACCCTAAATAATATATTTTAAGCC
1 AAAAAAGTCAGAGAATGCTCCTCAGGATCCTTGGCCTAATTACCCTAAATAATATATTTTAAGCC
*
22248293 CATTTGTCCATTTTTTTTCAGAACCCCTAACCTTGGCCTACATCACACACATTGAAAAGTCTATT
66 CATTTGTCCATTTTTTTTCAGAACCCCTAACCTTGGCCTACATCACACACATTAAAAAGTCTATT
* *
22248358 TTGATCAAATGTGGACACTTGGATTGAAGAGTAAAGTCCTC
131 TTGATCAAATGTGGACACTTGGATTGAAAAGCAAAGTCCTC
22248399 AAAAAAGTCAGAGAATGCTCCTCAGGATCCTTGGCCTAATTACCCTAAATAATATATTTTAAGCC
1 AAAAAAGTCAGAGAATGCTCCTCAGGATCCTTGGCCTAATTACCCTAAATAATATATTTTAAGCC
22248464 CATTTGTCCATTTTTTTTCAGAACCCCTAACCTTGGCCTACATCACACACATTAAAAAGTCTATT
66 CATTTGTCCATTTTTTTTCAGAACCCCTAACCTTGGCCTACATCACACACATTAAAAAGTCTATT
22248529 TTGATCAAATGTGGACACTTGGATTGAAAAGCAAAGTCCTC
131 TTGATCAAATGTGGACACTTGGATTGAAAAGCAAAGTCCTC
22248570 AAA
1 AAA
22248573 TTTGTATATA
Statistics
Matches: 171, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
171 171 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (171 bp):
AAAAAAGTCAGAGAATGCTCCTCAGGATCCTTGGCCTAATTACCCTAAATAATATATTTTAAGCC
CATTTGTCCATTTTTTTTCAGAACCCCTAACCTTGGCCTACATCACACACATTAAAAAGTCTATT
TTGATCAAATGTGGACACTTGGATTGAAAAGCAAAGTCCTC
Found at i:22249423 original size:41 final size:40
Alignment explanation
Indices: 22249309--22249424 Score: 117
Period size: 41 Copynumber: 2.9 Consensus size: 40
22249299 AAAAAAAATA
* * * * * *
22249309 AAAAAAATATTCATAATTGCATCACTTGCCTGTGCACCCT
1 AAAAAGATATTCCTATTTGCATCACTTGCATTTGCACCAT
* * *
22249349 AAAATGGATATTTGC-ATTTGCATCACTTACATTTGCACCAT
1 AAAA-AGATA-TTCCTATTTGCATCACTTGCATTTGCACCAT
22249390 AAGAAAGATATTCCTATTTGCATCACTTGCATTTG
1 AA-AAAGATATTCCTATTTGCATCACTTGCATTTG
22249425 TACTTGTACA
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
40 7 0.12
41 49 0.82
42 4 0.07
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (40 bp):
AAAAAGATATTCCTATTTGCATCACTTGCATTTGCACCAT
Found at i:22249876 original size:22 final size:22
Alignment explanation
Indices: 22249841--22249898 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
22249831 GTCTCAGTTG
*
22249841 ATTTTGTAAGACCTTCGGGTATA
1 ATTTT-TAAGACCTTCGGGCATA
*
22249864 ATTTTTATGACCTTCGGGCATA
1 ATTTTTAAGACCTTCGGGCATA
*
22249886 ATCTTTAAGACCT
1 ATTTTTAAGACCT
22249899 CTGGGCAGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 26 0.84
23 5 0.16
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (22 bp):
ATTTTTAAGACCTTCGGGCATA
Found at i:22250144 original size:22 final size:22
Alignment explanation
Indices: 22250119--22250170 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
22250109 GTCAATTTTG
*
22250119 TAAGACTTTCGAACATGATTTC
1 TAAGACTTTCGAACATAATTTC
* **
22250141 TAAGACTTTTGGGCATAATTTC
1 TAAGACTTTCGAACATAATTTC
22250163 TAAGACTT
1 TAAGACTT
22250171 CCTAGCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (22 bp):
TAAGACTTTCGAACATAATTTC
Found at i:22250178 original size:22 final size:22
Alignment explanation
Indices: 22250136--22250206 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
22250126 TTCGAACATG
* *
22250136 ATTTCTAAGACTT-TTGGGCATA
1 ATTTCTAAGACTTCCT-AGCATA
22250158 ATTTCTAAGACTTCCTAGCATA
1 ATTTCTAAGACTTCCTAGCATA
*
22250180 ATCTT-TAAGACCTCC-AGGCATA
1 AT-TTCTAAGACTTCCTA-GCATA
22250202 ATTTC
1 ATTTC
22250207 GATTCGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.07
22 36 0.86
23 3 0.07
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (22 bp):
ATTTCTAAGACTTCCTAGCATA
Found at i:22250300 original size:22 final size:22
Alignment explanation
Indices: 22250295--22250340 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
22250285 GCATGATTTA
*
22250295 TAAGACTTCCAAGCATAATCTT
1 TAAGACCTCCAAGCATAATCTT
*
22250317 TAAGACCTCCAAACATAAT-TT
1 TAAGACCTCCAAGCATAATCTT
22250338 TAA
1 TAA
22250341 TTTGCGATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAGACCTCCAAGCATAATCTT
Found at i:22250413 original size:132 final size:132
Alignment explanation
Indices: 22250151--22250519 Score: 379
Period size: 132 Copynumber: 2.8 Consensus size: 132
22250141 TAAGACTTTT
* * * ** *
22250151 GGGCATAATTTCTAAGACTTCCTAGCATAATCTTTAAGACCTCCAGGCATAATTTCGATTCGTAA
1 GGGCATGATTTCTAAGACTTCCAAGCATAATCTTTAAGACCTCCAAGCATAATTTTAATTCGCAA
* * * * *
22250216 TGTTATCTAAATCGATTTGTTATTTTTTGACTTACGATATTGTCCTGGTCGATTTTGCAAGACCT
66 TGTTATCTAAATCGATTTGTTATTTTTTGACTTACGATATTGTCCTGATCAATTCTACAAAACCT
22250281 CC
131 CC
* * * *
22250283 GGGCATGATTTATAAGACTTCCAAGCATAATCTTTAAGACCTCCAAACATAATTTTAATTTGCGA
1 GGGCATGATTTCTAAGACTTCCAAGCATAATCTTTAAGACCTCCAAGCATAATTTTAATTCGCAA
* * * *
22250348 TGTTATCTCAATCGATTCT-TTATTTTTTGACTTGCGATGTTGT-CTCGATCAATTCTATAAAAC
66 TGTTATCTAAATCGATT-TGTTATTTTTTGACTTACGATATTGTCCT-GATCAATTCTACAAAAC
*
22250411 CTCT
129 CTCC
** * * * * *
22250415 AAGCATGATTTCTAAAACCTT-CAGGCATAATCTTTAAGACCTCTAAGCATAATTTTTA-TCGCG
1 GGGCATGATTTCTAAGA-CTTCCAAGCATAATCTTTAAGACCTCCAAGCATAATTTTAATTCGCA
* * * * *
22250478 GTATTATCCT-GATCAATTTGTTATTTTTTGACTTGCGATATT
65 ATGTTAT-CTAAATCGATTTGTTATTTTTTGACTTACGATATT
22250520 ATCCCAATCG
Statistics
Matches: 198, Mismatches: 34, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
130 1 0.01
131 38 0.19
132 155 0.78
133 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (132 bp):
GGGCATGATTTCTAAGACTTCCAAGCATAATCTTTAAGACCTCCAAGCATAATTTTAATTCGCAA
TGTTATCTAAATCGATTTGTTATTTTTTGACTTACGATATTGTCCTGATCAATTCTACAAAACCT
CC
Found at i:22250424 original size:286 final size:286
Alignment explanation
Indices: 22249957--22250472 Score: 675
Period size: 286 Copynumber: 1.8 Consensus size: 286
22249947 CCTCTGGGCA
* * * * * * * *
22249957 TGACTTATGGTATTGTCCTAGTCGATTTTGTAAGACCTTCTGGCATGATTTTTAAGACTTTCGAG
1 TGACTTACGATATTGTCCTAGTCGATTTTGCAAGACCTCCGGGCATGATTTATAAGACTTCCAAG
* * * *
22250022 TATAATTTCTAAGATCTCCGAACATAATTTCAATTCGCGATGTTATCCTAATTGATTCTTTATTT
66 CATAATTTCTAAGACCTCCAAACATAATTTCAATTCGCGATGTTATCCTAATCGATTCTTTATTT
* * * * * * * * * **
22250087 TTTGACTTGTGGTGTTGTTCTAGTCAATTTTGTAAGACTTTCGAACATGATTTCTAAGACTTTTG
131 TTTGACTTGCGATGTTGTTCGAGTCAATTCTATAAAACTCTCGAACATGATTTCTAAAACCTTCA
*
22250152 GGCATAAT-TTCTAAGACTTCCT-AGCATAATCTTTAAGACCTCCAGGCATAATTTCGATTCGTA
196 GGCATAATCTT-TAAGACCT-CTAAGCATAATCTTTAAGACCTCCAGGCATAATTTCGATTCGTA
22250215 ATGTTATCTAAATCGATTTGTTATTTTT
259 ATGTTATCTAAATCGATTTGTTATTTTT
*
22250243 TGACTTACGATATTGTCCTGGTCGATTTTGCAAGACCTCCGGGCATGATTTATAAGACTTCCAAG
1 TGACTTACGATATTGTCCTAGTCGATTTTGCAAGACCTCCGGGCATGATTTATAAGACTTCCAAG
* *
22250308 CATAATCTT-TAAGACCTCCAAACATAATTTTAATTTGCGATGTTAT-CTCAATCGATTCTTTAT
66 CATAAT-TTCTAAGACCTCCAAACATAATTTCAATTCGCGATGTTATCCT-AATCGATTCTTTAT
*
22250371 TTTTTGACTTGCGATGTTGTCTCGA-TCAATTCTATAAAAC-CTCTAAGCATGATTTCTAAAACC
129 TTTTTGACTTGCGATGTTGT-TCGAGTCAATTCTATAAAACTCTCGAA-CATGATTTCTAAAACC
*
22250434 TTCAGGCATAATCTTTAAGACCTCTAAGCATAATTTTTA
192 TTCAGGCATAATCTTTAAGACCTCTAAGCATAATCTTTA
22250473 TCGCGGTATT
Statistics
Matches: 195, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
285 8 0.04
286 180 0.92
287 7 0.04
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (286 bp):
TGACTTACGATATTGTCCTAGTCGATTTTGCAAGACCTCCGGGCATGATTTATAAGACTTCCAAG
CATAATTTCTAAGACCTCCAAACATAATTTCAATTCGCGATGTTATCCTAATCGATTCTTTATTT
TTTGACTTGCGATGTTGTTCGAGTCAATTCTATAAAACTCTCGAACATGATTTCTAAAACCTTCA
GGCATAATCTTTAAGACCTCTAAGCATAATCTTTAAGACCTCCAGGCATAATTTCGATTCGTAAT
GTTATCTAAATCGATTTGTTATTTTT
Found at i:22250472 original size:22 final size:22
Alignment explanation
Indices: 22250405--22250472 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
22250395 ATCAATTCTA
* *
22250405 TAAAACCTCTAAGCATGATTTC
1 TAAAACCTCTAAGCATAATTTT
* *
22250427 TAAAACCT-TCAGGCATAATCTT
1 TAAAACCTCT-AAGCATAATTTT
*
22250449 TAAGACCTCTAAGCATAATTTT
1 TAAAACCTCTAAGCATAATTTT
22250471 TA
1 TA
22250473 TCGCGGTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.03
22 35 0.95
23 1 0.03
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.34
Consensus pattern (22 bp):
TAAAACCTCTAAGCATAATTTT
Found at i:22250647 original size:37 final size:37
Alignment explanation
Indices: 22250567--22250647 Score: 99
Period size: 37 Copynumber: 2.2 Consensus size: 37
22250557 CGATTCGTGG
* * *
22250567 TGTTATCCCAATCGATTCTCTATCTCTCGACTCGTGA
1 TGTTGTCCCAATCAATTCTCTATCTCTCGACTCGCGA
* * * *
22250604 TATTGTCCCAATCAATTCTTTATCTCTTGACTTGCGA
1 TGTTGTCCCAATCAATTCTCTATCTCTCGACTCGCGA
22250641 TGTTGTC
1 TGTTGTC
22250648 TTGGTTGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.19, C:0.26, G:0.14, T:0.42
Consensus pattern (37 bp):
TGTTGTCCCAATCAATTCTCTATCTCTCGACTCGCGA
Found at i:22250796 original size:22 final size:22
Alignment explanation
Indices: 22250771--22250836 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
22250761 GTTGATTCTG
*
22250771 TAAGACCTTCAGGCATTATTTC
1 TAAGACCTTCAGGCATAATTTC
* *
22250793 TAAGACCTCCTGGCATAATCTT-
1 TAAGACCTTCAGGCATAAT-TTC
*
22250815 TAAGACCTTCGGGCATAATTTC
1 TAAGACCTTCAGGCATAATTTC
22250837 GATTCATGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCAGGCATAATTTC
Found at i:22250880 original size:36 final size:36
Alignment explanation
Indices: 22250830--22250900 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
22250820 CCTTCGGGCA
* *
22250830 TAATTTCGATTCATGGTGTTGT-GTCAGTTGATTCTT
1 TAATTTCGACTCATGGTGTTGTCCT-AGTTGATTCTT
*
22250866 TAATTTTGACTCATGGTGTTGTCCTAGTTGATTCT
1 TAATTTCGACTCATGGTGTTGTCCTAGTTGATTCT
22250901 CTATCTCTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.17, C:0.13, G:0.21, T:0.49
Consensus pattern (36 bp):
TAATTTCGACTCATGGTGTTGTCCTAGTTGATTCTT
Found at i:22251032 original size:37 final size:36
Alignment explanation
Indices: 22250933--22251032 Score: 85
Period size: 37 Copynumber: 2.8 Consensus size: 36
22250923 GTTTCGATAA
* ** * *
22250933 ATTCTTTATCTCTCAACTTGTGATGTTGTCCAATCG
1 ATTCTTTATTTCTCAACTTACGGTGTTATCCAATCG
* * * * *
22250969 ATTCTTTACTTT-TTAACATACAGTGTTATCTCAGTTG
1 ATTCTTTA-TTTCTCAACTTACGGTGTTATC-CAATCG
22251006 ATTCTTTATTTCTCAACTTACGGTGTT
1 ATTCTTTATTTCTCAACTTACGGTGTT
22251033 GTCAAATTGA
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
36 22 0.46
37 26 0.54
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (36 bp):
ATTCTTTATTTCTCAACTTACGGTGTTATCCAATCG
Found at i:22251377 original size:16 final size:16
Alignment explanation
Indices: 22251355--22251400 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
22251345 TTTTCAAGTT
* *
22251355 AATTAATAATTAAATA
1 AATTAATAATAAAAAA
*
22251371 TATTAATAATAAAAAA
1 AATTAATAATAAAAAA
22251387 AATTAATAA-AAAAA
1 AATTAATAATAAAAA
22251401 GCAGCAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 5 0.19
16 21 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATTAATAATAAAAAA
Found at i:22252853 original size:16 final size:15
Alignment explanation
Indices: 22252834--22252867 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
22252824 TAAATTTTCA
22252834 TAAAAAAGATTTTTTT
1 TAAAAAA-ATTTTTTT
*
22252850 TAAAATAATTTTTTT
1 TAAAAAAATTTTTTT
22252865 TAA
1 TAA
22252868 TCATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
TAAAAAAATTTTTTT
Found at i:22252873 original size:16 final size:15
Alignment explanation
Indices: 22252814--22252867 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 15
22252804 ATTAATAATA
*
22252814 TTTTTAATAATAAATT
1 TTTTTAA-AATAATTT
** *
22252830 TTCATAAAAAAGATTT
1 TTTTTAAAATA-ATTT
22252846 TTTTTAAAATAATTT
1 TTTTTAAAATAATTT
22252861 TTTTTAA
1 TTTTTAA
22252868 TCATAAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTTTAAAATAATTT
Found at i:22257828 original size:24 final size:25
Alignment explanation
Indices: 22257778--22257829 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
22257768 ACAGTCTCGA
*
22257778 ATCTAATAAAGGATCTTTACGCGAG
1 ATCTAATAAAGGATCTTCACGCGAG
* *
22257803 ATCTAATAAGGGATCTTCATGC-AG
1 ATCTAATAAAGGATCTTCACGCGAG
22257827 ATC
1 ATC
22257830 AGGGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (25 bp):
ATCTAATAAAGGATCTTCACGCGAG
Found at i:22259245 original size:22 final size:22
Alignment explanation
Indices: 22259214--22259264 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
22259204 TAATTTTTGG
*
22259214 CTTAGCTTCACACAAAAGCTTT
1 CTTAGTTTCACACAAAAGCTTT
22259236 CTTAGTTTCACACAAAAGCTTT
1 CTTAGTTTCACACAAAAGCTTT
22259258 CTTAGTT
1 CTTAGTT
22259265 ACATTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (22 bp):
CTTAGTTTCACACAAAAGCTTT
Found at i:22259543 original size:26 final size:26
Alignment explanation
Indices: 22259509--22259562 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
22259499 TGTAAAGGCT
* *
22259509 CTAGTAACTGATGGTTTCATTCCGGG
1 CTAGTAACTAATGGTTTCATTCCAGG
22259535 CTAGTAACTAATGGTTTCATTCCAGG
1 CTAGTAACTAATGGTTTCATTCCAGG
22259561 CT
1 CT
22259563 TTTCGAGTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
CTAGTAACTAATGGTTTCATTCCAGG
Found at i:22267669 original size:202 final size:202
Alignment explanation
Indices: 22267285--22267678 Score: 437
Period size: 202 Copynumber: 2.0 Consensus size: 202
22267275 AAAAAGGAAT
* * * **
22267285 TTTTATTATATTGAAGATTTTCTATAAATATTCCAATACACTGGTAATATTTAAAAAATATATTC
1 TTTTATTATATTAAAAATTTTCTATAAATACTCCAATACACTAATAATATTTAAAAAATATATTC
* * * * *
22267350 TCACCTAAAGAGTTCTTAAAGCATCTCTACTCGAAATACTTTTAGAATCCCATCATTGGATAAAT
66 TCACCTAAAGAGTTCGTAAAGCATCACTACTCGAAATACCTTTAGAAACCCATCATAGGATAAAT
* *
22267415 TTTTTTTTTACATTTTTATTACTTATTCTTAATTTATTAATTAATTTTATTTTTTTATTATTAAA
131 TTTTTTTTTACATTTTTATTAATTATTCGTAATTTATTAATTAATTTTATTTTTTTATTATTAAA
22267480 AAAAAAA
196 AAAAAAA
* * *
22267487 TTTTATTATATTAAAAATTTTTTATAAATACTCCAATACACTAATAGTATTTAAAAAA-ATCTTC
1 TTTTATTATATTAAAAATTTTCTATAAATACTCCAATACACTAATAATATTTAAAAAATATATTC
* * * * * * * *
22267551 TCACCTAGAGATTTTCGTAGA-TATCACTACTTGTAGTACCTTT-GAAACTCATCATCAGG-TAA
66 TCACCTAAAGA-GTTCGTAAAGCATCACTACTCGAAATACCTTTAGAAACCCATCAT-AGGATAA
* *
22267613 ATGTTCTTTTTCTTACAATTTTTATTAATT-TT-GT-A-TTATT-ATTAAGTTTATTATTTTATT
129 AT-TT-TTTTT-TTAC-ATTTTTATTAATTATTCGTAATTTATTAATTAATTTTATTTTTTTATT
*
22267673 TTTAAA
190 ATTAAA
22267679 GTTTATTTTA
Statistics
Matches: 160, Mismatches: 26, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
199 23 0.14
200 20 0.12
201 36 0.22
202 63 0.39
203 6 0.04
204 12 0.08
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (202 bp):
TTTTATTATATTAAAAATTTTCTATAAATACTCCAATACACTAATAATATTTAAAAAATATATTC
TCACCTAAAGAGTTCGTAAAGCATCACTACTCGAAATACCTTTAGAAACCCATCATAGGATAAAT
TTTTTTTTTACATTTTTATTAATTATTCGTAATTTATTAATTAATTTTATTTTTTTATTATTAAA
AAAAAAA
Found at i:22268767 original size:22 final size:23
Alignment explanation
Indices: 22268742--22268794 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
22268732 TATTTTTTCC
22268742 TTTTGTTTCTTAGCTTTTGT-TT
1 TTTTGTTTCTTAGCTTTTGTATT
* * * *
22268764 TTTTTTTTTTTTGGTTTTGTATT
1 TTTTGTTTCTTAGCTTTTGTATT
*
22268787 TTCTGTTT
1 TTTTGTTT
22268795 GTTTTTTTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.04, C:0.06, G:0.13, T:0.77
Consensus pattern (23 bp):
TTTTGTTTCTTAGCTTTTGTATT
Found at i:22268800 original size:32 final size:31
Alignment explanation
Indices: 22268759--22268820 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
22268749 TCTTAGCTTT
22268759 TGTTTTTTTTTT-TTTTTGGTTT-TGTATTTTC
1 TGTTTTTTTTTTCTTTTT--TTTGTGTATTTTC
22268790 TGTTTGTTTTTTTCTTTTTTTTGTGTATTTT
1 TGTTT-TTTTTTTCTTTTTTTTGTGTATTTT
22268821 GTTTAATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 8 0.29
32 15 0.54
33 5 0.18
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (31 bp):
TGTTTTTTTTTTCTTTTTTTTGTGTATTTTC
Found at i:22268824 original size:30 final size:29
Alignment explanation
Indices: 22268756--22268824 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 29
22268746 GTTTCTTAGC
22268756 TTTTGTTTTTTTTTTTTTTTGGTTTTGTAT
1 TTTTGTTTTTTTTTTTTTTT-GTTTTGTAT
22268786 TTTCTGTTTGTTTTTTTCTTTTT-TTTGTGTA-
1 TTT-TGTTT-TTTTTTT-TTTTTGTTT-TGTAT
22268817 TTTTGTTT
1 TTTTGTTT
22268825 AATTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
30 8 0.23
31 11 0.31
32 11 0.31
33 5 0.14
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.81
Consensus pattern (29 bp):
TTTTGTTTTTTTTTTTTTTTGTTTTGTAT
Found at i:22269243 original size:48 final size:47
Alignment explanation
Indices: 22269163--22269617 Score: 415
Period size: 48 Copynumber: 9.5 Consensus size: 47
22269153 CTTCTTACTC
* * *
22269163 GAGGCTCCACAACTTTAAAAATTTTATCTTAAAAAGCTCCTCTCAGCG
1 GAGGCTCAACAACTTT-AAAATTCTATCTTAAAAAGCTCCTCTCAGCA
* * * * *
22269211 GAGGCTTAACAACTTCAAAAATTCTATGTTAAAAGGGGTCCTCTCAGCA
1 GAGGCTCAACAACTT-TAAAATTCTATCTTAAAA-AGCTCCTCTCAGCA
*
22269260 GAGGCTCAACAACTTTAAAACTT-TATCTTGAAAAAGCTCATCTCAGCA
1 GAGGCTCAACAACTTTAAAA-TTCTATCTT-AAAAAGCTCCTCTCAGCA
* *
22269308 GAGGCTCAACAACTTTAAAATTC--TCTTAAAAAAGGCTCTTCTCAACA
1 GAGGCTCAACAACTTTAAAATTCTATCTT-AAAAA-GCTCCTCTCAGCA
* * *
22269355 GAAGCTCAATAACTTTAAAATT-T-TCTTGAAAAAGACTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAATTCTATCTT-AAAAAG-CTCCTCTCAGCA
* * * *
22269402 GAGGCTCAACAACTTTAAAACTCTATCCTAAAAAAGTTCCTCTCAACA
1 GAGGCTCAACAACTTTAAAATTCTAT-CTTAAAAAGCTCCTCTCAGCA
* * * *
22269450 GAGGCTCAGCAACTTTAAAACTCTATCCTGAAAAAGCTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAATTCTAT-CTTAAAAAGCTCCTCTCAGCA
* * *
22269498 AAGACTCAACAACTTTAAAATTC--TCTTGAAAAAAGCTCCTCTCAGTA
1 GAGGCTCAACAACTTTAAAATTCTATCTT--AAAAAGCTCCTCTCAGCA
* * * *
22269545 GAGGCTTAACAACTTTAAAACTT-TATGTTGAAAAAGGCTTCTC-CAAACA
1 GAGGCTCAACAACTTTAAAA-TTCTATCTT-AAAAA-GCTCCTCTC-AGCA
* *
22269594 AAAGCTCAACAACTTTAAAATTCT
1 GAGGCTCAACAACTTTAAAATTCT
22269618 TTTTTTTTAA
Statistics
Matches: 341, Mismatches: 47, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 11 0.03
47 107 0.31
48 152 0.45
49 67 0.20
50 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (47 bp):
GAGGCTCAACAACTTTAAAATTCTATCTTAAAAAGCTCCTCTCAGCA
Found at i:22269484 original size:190 final size:191
Alignment explanation
Indices: 22269166--22269613 Score: 537
Period size: 190 Copynumber: 2.3 Consensus size: 191
22269156 CTTACTCGAG
* * * * * *
22269166 GCTCCACAACTTTAAAAATTTTATCTT-AAAAAGCTCCTCTCAGCGGAGGCTTAACAACTTCAAA
1 GCTCAACAACTTT-AAAACTTTATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTT-TAA
* ** ** * * *
22269230 AATTCTATGTTAAAAGGGGTCCTCTCAGCAGAGGCTCAACAACTTTAAAACTTTATCTTGAAAAA
64 AACTCTATCCTAAAAAAGGTCCTCTCAACAGAGGCTCAACAACTTTAAAACTCTATCCTGAAAAA
* * *
22269295 GCTCATCTCAGCAGAGGCTCAACAACTTTAAAATTCTCTT-AAAAAAGGCTCTTCTCAACAGAA
129 GCTCATCTCAGCAAAGACTCAACAACTTTAAAATTCTCTTGAAAAAA-GCTCCTCTCAACAGAA
*
22269358 GCTCAATAACTTTAAAA-TTT-TCTTGAAAAAGACTCCTCTCAACAGAGGCTCAACAACTTTAAA
1 GCTCAACAACTTTAAAACTTTATCTTGAAAAAG-CTCCTCTCAACAGAGGCTCAACAACTTTAAA
* *
22269421 ACTCTATCCTAAAAAAGTTCCTCTCAACAGAGGCTCAGCAACTTTAAAACTCTATCCTGAAAAAG
65 ACTCTATCCTAAAAAAGGTCCTCTCAACAGAGGCTCAACAACTTTAAAACTCTATCCTGAAAAAG
* * ** *
22269486 CTCCTCTCAGTAAAGACTCAACAACTTTAAAATTCTCTTGAAAAAAGCTCCTCTCAGTAGAG
130 CTCATCTCAGCAAAGACTCAACAACTTTAAAATTCTCTTGAAAAAAGCTCCTCTCAACAGAA
* * * * *
22269548 GCTTAACAACTTTAAAACTTTATGTTGAAAAAGGCTTCTC-CAAACAAAAGCTCAACAACTTTAA
1 GCTCAACAACTTTAAAACTTTATCTTGAAAAA-GCTCCTCTC-AACAGAGGCTCAACAACTTTAA
22269612 AA
64 AA
22269614 TTCTTTTTTT
Statistics
Matches: 219, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
189 4 0.02
190 129 0.59
191 38 0.17
192 47 0.21
193 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.27
Consensus pattern (191 bp):
GCTCAACAACTTTAAAACTTTATCTTGAAAAAGCTCCTCTCAACAGAGGCTCAACAACTTTAAAA
CTCTATCCTAAAAAAGGTCCTCTCAACAGAGGCTCAACAACTTTAAAACTCTATCCTGAAAAAGC
TCATCTCAGCAAAGACTCAACAACTTTAAAATTCTCTTGAAAAAAGCTCCTCTCAACAGAA
Found at i:22282247 original size:19 final size:18
Alignment explanation
Indices: 22282225--22282284 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
22282215 TTAGCTTTTG
*
22282225 TTTTTTTTGGTTTTGTAT
1 TTTTTTTTTGTTTTGTAT
* *
22282243 TTTTTATTTGTTTTTTTCAT
1 TTTTTTTTTG-TTTTGT-AT
22282263 TTTGTTTTTT-TTTGTGTAT
1 TTT-TTTTTTGTTT-TGTAT
22282282 TTT
1 TTT
22282285 GTTTAATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 8 0.24
19 13 0.39
20 7 0.21
21 5 0.15
ACGTcount: A:0.07, C:0.02, G:0.12, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTGTTTTGTAT
Found at i:22282253 original size:42 final size:42
Alignment explanation
Indices: 22282194--22282274 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
22282184 CCACTGGCCA
22282194 TTTGTATTTTCCTTTTGTTTCTTAGC-TTTTGTTTTTTTTGGT
1 TTTGTATTTTCCTTTTGTTT-TTAGCATTTTGTTTTTTTTGGT
* **
22282236 TTTGTATTTT-TTATTTGTTTTTTTCATTTTGTTTTTTTT
1 TTTGTATTTTCCT-TTTGTTTTTAGCATTTTGTTTTTTTT
22282275 TGTGTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.06, C:0.06, G:0.11, T:0.77
Consensus pattern (42 bp):
TTTGTATTTTCCTTTTGTTTTTAGCATTTTGTTTTTTTTGGT
Found at i:22282256 original size:27 final size:28
Alignment explanation
Indices: 22282221--22282274 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
22282211 TTTCTTAGCT
**
22282221 TTTGTTTTTTTTGGTTTTGTATTTTTTA
1 TTTGTTTTTTTTCATTTTGTATTTTTTA
*
22282249 TTTG-TTTTTTTCATTTTGTTTTTTTT
1 TTTGTTTTTTTTCATTTTGTATTTTTT
22282275 TGTGTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.06, C:0.02, G:0.11, T:0.81
Consensus pattern (28 bp):
TTTGTTTTTTTTCATTTTGTATTTTTTA
Found at i:22287905 original size:19 final size:19
Alignment explanation
Indices: 22287881--22287919 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22287871 GGCATATAAT
22287881 TTGAAGGGCTAAGTGAGCC
1 TTGAAGGGCTAAGTGAGCC
22287900 TTGAAGGGCTAAGTGAGCC
1 TTGAAGGGCTAAGTGAGCC
22287919 T
1 T
22287920 CCCAACCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (19 bp):
TTGAAGGGCTAAGTGAGCC
Found at i:22289281 original size:19 final size:18
Alignment explanation
Indices: 22289257--22289303 Score: 55
Period size: 17 Copynumber: 2.7 Consensus size: 18
22289247 AATATTTAGC
22289257 ATAAATAAAAAAATTAAAA
1 ATAAATAAAAAAA-TAAAA
*
22289276 ATAAAT--AATAATAAAA
1 ATAAATAAAAAAATAAAA
22289292 AT-AATAAAAAAA
1 ATAAATAAAAAAA
22289304 ATTTACCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 8 0.33
19 6 0.25
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
ATAAATAAAAAAATAAAA
Found at i:22289292 original size:16 final size:15
Alignment explanation
Indices: 22289259--22289301 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
22289249 TATTTAGCAT
22289259 AAATAAAAAAATTAA
1 AAATAAAAAAATTAA
22289274 AAATAAATAATAA-TAA
1 AAATAAA-AA-AATTAA
22289290 AAATAATAAAAA
1 AAATAA-AAAAA
22289302 AAATTTACCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 9 0.36
16 13 0.52
17 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAAAATTAA
Found at i:22289295 original size:12 final size:12
Alignment explanation
Indices: 22289257--22289305 Score: 55
Period size: 12 Copynumber: 3.9 Consensus size: 12
22289247 AATATTTAGC
22289257 ATAAATAAAAA-A
1 ATAAA-AAAAATA
22289269 ATTAAAAATAAATA
1 A-TAAAAA-AAATA
*
22289283 ATAATAAAAATA
1 ATAAAAAAAATA
22289295 ATAAAAAAAAT
1 ATAAAAAAAAT
22289306 TTACCAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 18 0.56
13 12 0.38
14 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
ATAAAAAAAATA
Found at i:22291902 original size:12 final size:12
Alignment explanation
Indices: 22291887--22291926 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
22291877 TTGGTAATTC
22291887 TTTTTTTTCTTT
1 TTTTTTTTCTTT
*
22291899 TTTTTTATCTTT
1 TTTTTTTTCTTT
**
22291911 TTTGGTTTCTTT
1 TTTTTTTTCTTT
22291923 TTTT
1 TTTT
22291927 CTTCTCAGCT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.07, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:22296816 original size:14 final size:15
Alignment explanation
Indices: 22296791--22296821 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22296781 TAACAATATT
22296791 TTTTATTTAATTTAA
1 TTTTATTTAATTTAA
22296806 TTTTA-TTAATTTAA
1 TTTTATTTAATTTAA
22296820 TT
1 TT
22296822 AATTATGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTTAATTTAA
Found at i:22303390 original size:28 final size:27
Alignment explanation
Indices: 22303359--22303421 Score: 69
Period size: 28 Copynumber: 2.4 Consensus size: 27
22303349 AATGATTAAG
22303359 ATTAAAAATATT-ATTTTAATTTAAATTA
1 ATTAAAAATATTAATTTTAATTT-AA-TA
* *
22303387 ATTATAAAT-TTAATTTTGATTTAATA
1 ATTAAAAATATTAATTTTAATTTAATA
22303413 A-TAAAAATA
1 ATTAAAAATA
22303422 ATAAGATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 6 0.20
26 3 0.10
27 4 0.13
28 17 0.57
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTAAAAATATTAATTTTAATTTAATA
Found at i:22303723 original size:16 final size:16
Alignment explanation
Indices: 22303704--22303741 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
22303694 AAAAAACCTC
22303704 AAATCTTAAAAAATTT
1 AAATCTTAAAAAATTT
* *
22303720 AAATCGTAAATAATTT
1 AAATCTTAAAAAATTT
22303736 AAATCT
1 AAATCT
22303742 ACATTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.08, G:0.03, T:0.37
Consensus pattern (16 bp):
AAATCTTAAAAAATTT
Found at i:22304339 original size:29 final size:28
Alignment explanation
Indices: 22304290--22304352 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
22304280 AAATATTAAA
**
22304290 AATA-TTATTTATAATTTAAATTTGATC
1 AATATTTATTTATAATAAAAATTTGATC
* *
22304317 GATATTTATTTAATAATAAAAATTTTATC
1 AATATTTATTT-ATAATAAAAATTTGATC
22304346 AATATTT
1 AATATTT
22304353 TTACTAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 3 0.10
28 6 0.21
29 20 0.69
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (28 bp):
AATATTTATTTATAATAAAAATTTGATC
Found at i:22304454 original size:14 final size:14
Alignment explanation
Indices: 22304429--22304455 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22304419 TTAATTTAAC
22304429 AATTTTAATTTTTT
1 AATTTTAATTTTTT
22304443 AATTTTAATTTTT
1 AATTTTAATTTTT
22304456 ATTTACTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
AATTTTAATTTTTT
Found at i:22304917 original size:12 final size:13
Alignment explanation
Indices: 22304902--22304961 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 13
22304892 AAATTATTTT
22304902 TTTAATTT-TATA
1 TTTAATTTATATA
22304914 TTTAATTATATATA
1 TTTAATT-TATATA
22304928 TTT--TTATATATA
1 TTTAATT-TATATA
22304940 TTTAATTT-TATA
1 TTTAATTTATATA
22304952 TTTATATTTA
1 TTTA-ATTTA
22304962 AAATAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
12 27 0.64
13 6 0.14
14 9 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTAATTTATATA
Found at i:22304934 original size:22 final size:22
Alignment explanation
Indices: 22304907--22304962 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
22304897 ATTTTTTTAA
22304907 TTTTATATTTAATT-ATATATAT
1 TTTTATATTTAATTAAT-TATAT
* * *
22304929 TTTTATATATATTTAATTTTAT
1 TTTTATATTTAATTAATTATAT
*
22304951 ATTTATATTTAA
1 TTTTATATTTAA
22304963 AATAATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 25 0.93
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTATATTTAATTAATTATAT
Done.