Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 46 of 127
Found at i:9105572 original size:60 final size:60
Alignment explanation
Indices: 9105447--9105572 Score: 189
Period size: 60 Copynumber: 2.1 Consensus size: 60
9105437 CTCAGATGCT
** ****
9105447 CATGAACATAGTTTATTTCAAGAAAAGGAGAGAAAGTGGTTCCAGGAGGACTCAGATGCT
1 CATGAACATAGTTTATTTCAAGAAAAGGAGAGAAAGTGGTTCCAGGAGGAAGCAGAAAAG
9105507 CATGAACATAGTTTATTTCAAGAAAAGGAGAGAAAGTGGTTCCAGGAGGAAGCAGAAAAG
1 CATGAACATAGTTTATTTCAAGAAAAGGAGAGAAAGTGGTTCCAGGAGGAAGCAGAAAAG
*
9105567 GATGAA
1 CATGAA
9105573 AGGTATTGTG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (60 bp):
CATGAACATAGTTTATTTCAAGAAAAGGAGAGAAAGTGGTTCCAGGAGGAAGCAGAAAAG
Found at i:9110026 original size:28 final size:29
Alignment explanation
Indices: 9109994--9110051 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
9109984 ATCCAAAAAC
9109994 TTAAAAAATATTATTAAATAATT-TAATA
1 TTAAAAAATATTATTAAATAATTCTAATA
* * *
9110022 TTAAAAATTATTTTTAAATTATTCTAATA
1 TTAAAAAATATTATTAAATAATTCTAATA
9110051 T
1 T
9110052 GTTAGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (29 bp):
TTAAAAAATATTATTAAATAATTCTAATA
Found at i:9110446 original size:14 final size:15
Alignment explanation
Indices: 9110406--9110447 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
9110396 TAGGATTTCA
*
9110406 TAAAAATTATTATTT
1 TAAAAATTAATATTT
*
9110421 TAAACATATAAT-TTT
1 TAAAAAT-TAATATTT
9110436 TAAAAATTAATA
1 TAAAAATTAATA
9110448 ACACTTTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TAAAAATTAATATTT
Found at i:9113480 original size:53 final size:53
Alignment explanation
Indices: 9113380--9113481 Score: 127
Period size: 53 Copynumber: 1.9 Consensus size: 53
9113370 AGTTTGAAAT
* *
9113380 CTTCCAATATATTAGTAAGATTTTATTTTATTATTCAAAATTATTTTCATGAC
1 CTTCCAATATATTAGTAAGATTTTATTTTATAAGTCAAAATTATTTTCATGAC
* * *
9113433 CTTCCAATATGTTGGTAAGATTTTATTTCCTA-AAGTCAATATT-TTTTCA
1 CTTCCAATATATTAGTAAGATTTTATTT--TATAAGTCAAAATTATTTTCA
9113482 AATTTCAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
53 32 0.76
54 8 0.19
55 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (53 bp):
CTTCCAATATATTAGTAAGATTTTATTTTATAAGTCAAAATTATTTTCATGAC
Found at i:9115229 original size:5 final size:5
Alignment explanation
Indices: 9115219--9115272 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
9115209 TAGTTTTATC
9115219 ATTTT ATTTT ATTTT ATTTT A-TTT ATTTT ATGGTTAT ATTTT A-TTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT--TT-T ATTTT ATTTT
9115265 A-TTT ATTT
1 ATTTT ATTT
9115273 ATCATTATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
4 12 0.27
5 25 0.57
6 2 0.05
7 2 0.05
8 3 0.07
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:9119725 original size:14 final size:12
Alignment explanation
Indices: 9119682--9119724 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
9119672 TTTATTATTA
9119682 TTTTTTTCTTTT
1 TTTTTTTCTTTT
9119694 TATTTTTTCTATTT
1 T-TTTTTTCT-TTT
* *
9119708 TTTCTTTCTTTC
1 TTTTTTTCTTTT
9119720 TTTTT
1 TTTTT
9119725 CCTTCTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 7 0.27
13 15 0.58
14 4 0.15
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:9128720 original size:12 final size:12
Alignment explanation
Indices: 9128705--9128743 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9128695 TTTTTCTATT
9128705 ATTTTTATTTTC
1 ATTTTTATTTTC
* *
9128717 ATTTTTCTTTCC
1 ATTTTTATTTTC
9128729 ATTTTTTATTTTC
1 A-TTTTTATTTTC
9128742 AT
1 AT
9128744 CATTTTCTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTATTTTC
Found at i:9133113 original size:49 final size:49
Alignment explanation
Indices: 9133056--9133811 Score: 721
Period size: 49 Copynumber: 15.4 Consensus size: 49
9133046 ATAGATAAAA
* * * * *
9133056 TTTTAAAGTTGTTAAGTCTCTACTTAGAGAAACTTTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* * * * *
9133105 TTTTAAAGTTGTTGAGCC-CTACTTAAATGACCTTTTTTCAATATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAGATGAGAT
* * ** * *
9133154 TTTTAAAATTGTTAAGCCT-TTATGAGAGGAGCTTTTTTCAAGATAAGA-
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAGATGAGAT
** * *
9133202 TTTT-AAGTTGTTGAGCCTCTATTTAGAAGAGCTTTTCCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* *
9133250 TTTTAAAGTTGTTGTTGAGCTTCTGCCTAGAGGAGCTTTTTCAAGATTGAGA-
1 TTTTAAA---GTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGA-TGAGAT
*
9133302 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAAC-TTTTCAAGATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* * * * *
9133350 TTTTAAAGTTGTTGAGCCTTTACTAAGATGAGCTTTTTTTAAGATGAGA-
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAGATGAGAT
* * * *
9133399 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAACTTTTCCAAAATGAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* * * * * *
9133448 TTTTAAAATTGTTGAGCTTTTGTTTAGAGGAGCTTTTTCAAGATTA-AA
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* * * * *
9133496 TTTTAAGGTTGTTAAGCCTCTGCTGAAGAGGAGCTTTTCCAAGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCT-TAGAGGAGCTTTTTCAAGATGAGAT
* * *
9133546 TTTTAAAGTTGTTGAGCTTTTGCTTAGAGGAGCTTTTTTCAAGATAAGA-
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTTCAAGATGAGAT
* * * * * *
9133595 TTTTAAAGTTGTTAAGCCTCTACTTAGATGAGCTTTTTTATGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
* * *
9133644 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTTAAGATAAGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
9133693 TTTTAAAGTTGTTGAGCCTCTG-TTGAGAGGAG-TTTTTCCAAGAT-AGGAT
1 TTTTAAAGTTGTTGAGCCTCTGCTT-AGAGGAGCTTTTT-CAAGATGA-GAT
* * * * * * *
9133742 TTTTAAAGTTGTTAAACCTTTCCTTAGAAGAGCTTTTTTAAAATGA-ATTT
1 TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGA--T
*
9133792 TTTTAAA-TTGTTAAGCCTCT
1 TTTTAAAGTTGTTGAGCCTCT
9133812 ACTCAAAAAG
Statistics
Matches: 584, Mismatches: 98, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
47 30 0.05
48 117 0.20
49 331 0.57
50 64 0.11
52 37 0.06
53 5 0.01
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.41
Consensus pattern (49 bp):
TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTCAAGATGAGAT
Found at i:9133599 original size:196 final size:194
Alignment explanation
Indices: 9133056--9133814 Score: 807
Period size: 196 Copynumber: 3.9 Consensus size: 194
9133046 ATAGATAAAA
* * * * * *
9133056 TTTTAAAGTTGTTAAG-TCTCTACTTAGAGAAACTTTTTCAAGATGAGATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCT-TCTGCTTAGAGGAGCTTTTTCAAGATTA-AATTTTAAAGTTGTTGA
* * * * * * * * * * *
9133120 GCC-CTACTTAAATGACCTTTTTTCAATATGAGATTTTTAAAATTGTTAAGCCTTTATGAGAGGA
64 GCCTCTGCTGAGAGGAGC-TTTTCCAAGATAAGATTTTTAAAGTTGTTAAGCCTTTCTTAGAGGA
*
9133184 GCTTTTTTCAAGATAAGATTTT-AAGTTGTTGAGCCTCTATTTAGA-AGAGCTTTTCCAAGATGA
128 GCTTTTTTCAAGATAAGATTTTAAAGTTGTTGAGCCTCTACTTAGAGA-AGCTTTTCCAAGATGA
9133247 GAT
192 GAT
* *
9133250 TTTTAAAGTTGTTGTTGAGCTTCTGCCTAGAGGAGCTTTTTCAAGATTGAGATTTTAAAGTTGTT
1 TTTTAAA---GTTGTTGAGCTTCTGCTTAGAGGAGCTTTTTCAAGATT-AAATTTTAAAGTTGTT
* * * * * *
9133315 GAGCCTCTGCTTAGAGGAACTTTT-CAAGATGAGATTTTTAAAGTTGTTGAGCCTTTACTAAGAT
62 GAGCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTTGTTAAGCCTTT-CTTAGAG
* * * * *
9133379 GAGCTTTTTTTAAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTTAGAGAAACTTTTCCAAAATG
126 GAGCTTTTTTCAAGATAAGATTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCCAAGATG
9133444 AGAT
191 AGAT
* * * * *
9133448 TTTTAAAATTGTTGAGCTTTTGTTTAGAGGAGCTTTTTCAAGATTAAATTTTAAGGTTGTTAAGC
1 TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTTCAAGATTAAATTTTAAAGTTGTTGAGC
* *
9133513 CTCTGCTGAAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTTGTTGAGCTTTTGCTTAGAGGAG
66 CTCTGCTG-AGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTTGTTAAGCCTTT-CTTAGAGGAG
* ** * *
9133578 CTTTTTTCAAGATAAGATTTTAAAGTTGTTAAGCCTCTACTTAGATG-AGCTTTTTTATGATAAG
129 CTTTTTTCAAGATAAGATTTTAAAGTTGTTGAGCCTCTACTTAGA-GAAGCTTTTCCAAGATGAG
9133642 AT
193 AT
* * *
9133644 TTTTAAAGTTATTGAGCCTCTGCTTAGAGGAGCTTTTTTAAGA-TAAGATTTTTAAAGTTGTTGA
1 TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTTCAAGATTAA-A-TTTTAAAGTTGTTGA
* * * * *
9133708 GCCTCTGTTGAGAGGAGTTTTTCCAAGATAGGATTTTTAAAGTTGTTAAACCTTTCCTTAGAAGA
64 GCCTCTGCTGAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTTGTTAAGCCTTT-CTTAGAGGA
* ** *
9133773 GCTTTTTT-AAAATGAATTTTTTTAAA-TTGTTAAGCCTCTACT
128 GCTTTTTTCAAGAT-AA-GATTTTAAAGTTGTTGAGCCTCTACT
9133815 CAAAAAGCCT
Statistics
Matches: 482, Mismatches: 67, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
194 31 0.06
195 52 0.11
196 233 0.48
197 108 0.22
198 57 0.12
199 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.41
Consensus pattern (194 bp):
TTTTAAAGTTGTTGAGCTTCTGCTTAGAGGAGCTTTTTCAAGATTAAATTTTAAAGTTGTTGAGC
CTCTGCTGAGAGGAGCTTTTCCAAGATAAGATTTTTAAAGTTGTTAAGCCTTTCTTAGAGGAGCT
TTTTTCAAGATAAGATTTTAAAGTTGTTGAGCCTCTACTTAGAGAAGCTTTTCCAAGATGAGAT
Found at i:9134026 original size:12 final size:12
Alignment explanation
Indices: 9133989--9134043 Score: 58
Period size: 12 Copynumber: 4.5 Consensus size: 12
9133979 ATTTTTTTTA
9133989 ATTTTT-TTATT
1 ATTTTTATTATT
**
9134000 ATCATTATTATT
1 ATTTTTATTATT
9134012 ATTTTTATTATT
1 ATTTTTATTATT
*
9134024 ATTTTCTTTCTATT
1 ATTTT-TAT-TATT
9134038 ATTTTT
1 ATTTTT
9134044 CTTTCTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 4 0.11
12 20 0.56
13 3 0.08
14 9 0.25
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (12 bp):
ATTTTTATTATT
Found at i:9134043 original size:15 final size:14
Alignment explanation
Indices: 9134008--9134049 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
9133998 TTATCATTAT
*
9134008 TATTATTTT-TAT-
1 TATTATTTTCTTTC
9134020 TATTATTTTCTTTC
1 TATTATTTTCTTTC
9134034 TATTATTTTTCTTTC
1 TATTA-TTTTCTTTC
9134049 T
1 T
9134050 TTCTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 5 0.19
15 10 0.38
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTTCTTTC
Found at i:9134050 original size:19 final size:18
Alignment explanation
Indices: 9134026--9134068 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9134016 TTATTATTAT
9134026 TTTCTTTCTATTATTTTTC
1 TTTCTTTCT-TTATTTTTC
*
9134045 TTTCTTTCTTTCTTTTTC
1 TTTCTTTCTTTATTTTTC
*
9134063 CTTCTT
1 TTTCTT
9134069 CTTCTTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTCTTTCTTTATTTTTC
Found at i:9138121 original size:21 final size:20
Alignment explanation
Indices: 9138080--9138131 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
9138070 CCTGAAATTA
9138080 ATAAAATATTTTTTTAAAAT
1 ATAAAATATTTTTTTAAAAT
**
9138100 ATAAAATATTATTTTTTTAAT
1 ATAAAATATT-TTTTTAAAAT
9138121 ATAAAATATTT
1 ATAAAATATTT
9138132 AAAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 11 0.38
21 18 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAAATATTTTTTTAAAAT
Found at i:9138151 original size:14 final size:14
Alignment explanation
Indices: 9138134--9138166 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9138124 AAATATTTAA
9138134 AAATAT-TATTATAT
1 AAATATATA-TATAT
9138148 AAATATATATATAT
1 AAATATATATATAT
9138162 AAATA
1 AAATA
9138167 AATAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.89
15 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:9144500 original size:26 final size:26
Alignment explanation
Indices: 9144450--9144502 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9144440 AATTTTATAA
* * *
9144450 TTTTTATCATATTAATATTTAAAATT
1 TTTTTATCACATTAACATCTAAAATT
*
9144476 TTTTTATCACATTAACATCTGAAATT
1 TTTTTATCACATTAACATCTAAAATT
9144502 T
1 T
9144503 CAAATCATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (26 bp):
TTTTTATCACATTAACATCTAAAATT
Found at i:9144677 original size:10 final size:10
Alignment explanation
Indices: 9144664--9144798 Score: 54
Period size: 10 Copynumber: 13.8 Consensus size: 10
9144654 AAATTTTTTT
9144664 AAAATTTTAA
1 AAAATTTTAA
*
9144674 AAAA-TGT-A
1 AAAATTTTAA
9144682 AAAATTTTAA
1 AAAATTTTAA
* *
9144692 ACAATTCTAAAA
1 AAAATT-T-TAA
*
9144704 AAAATTTTAC
1 AAAATTTTAA
9144714 AAAA--TTAA
1 AAAATTTTAA
9144722 AAAAGTTCTTAA
1 AAAA-TT-TTAA
*
9144734 AACA--TTAA
1 AAAATTTTAA
* *
9144742 AACTATTATAA
1 AA-AATTTTAA
* *
9144753 AATATTATAA
1 AAAATTTTAA
9144763 AAAATATTT--
1 AAAAT-TTTAA
*
9144772 AAAATTTTGA
1 AAAATTTTAA
*
9144782 AAAATTTT-T
1 AAAATTTTAA
9144791 AAAATTTT
1 AAAATTTT
9144799 TTGGATTTTT
Statistics
Matches: 97, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
8 21 0.22
9 18 0.19
10 35 0.36
11 9 0.09
12 14 0.14
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:9144725 original size:22 final size:22
Alignment explanation
Indices: 9144681--9144725 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9144671 TAAAAAATGT
**
9144681 AAAAATTTTAAACAATTCTAAA
1 AAAAATTTTAAACAATTAAAAA
9144703 AAAAATTTTACAA-AATTAAAAA
1 AAAAATTTTA-AACAATTAAAAA
9144725 A
1 A
9144726 GTTCTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATTTTAAACAATTAAAAA
Found at i:9144786 original size:19 final size:19
Alignment explanation
Indices: 9144762--9144798 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9144752 AAATATTATA
9144762 AAAAATATTTAAAATTTTG
1 AAAAATATTTAAAATTTTG
*
9144781 AAAAATTTTTAAAATTTT
1 AAAAATATTTAAAATTTT
9144799 TTGGATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
AAAAATATTTAAAATTTTG
Found at i:9144799 original size:10 final size:10
Alignment explanation
Indices: 9144769--9145225 Score: 121
Period size: 10 Copynumber: 47.3 Consensus size: 10
9144759 ATAAAAAATA
9144769 TTTAAAA-TT
1 TTTAAAATTT
* *
9144778 TTGAAAAATT
1 TTTAAAATTT
9144788 TTTAAAATTT
1 TTTAAAATTT
**
9144798 TTT-GGATTT
1 TTTAAAATTT
*
9144807 TTTTAAA---
1 TTTAAAATTT
**
9144814 TTTGGAATTT
1 TTTAAAATTT
9144824 TTTGAAAA--T
1 TTT-AAAATTT
*
9144833 TTTAAAGTTT
1 TTTAAAATTT
9144843 TCTT--AATTCT
1 T-TTAAAATT-T
*
9144853 TTTCAAA-TT
1 TTTAAAATTT
*
9144862 TTTAAATTTT
1 TTTAAAATTT
**
9144872 TTTTTAATTT
1 TTTAAAATTT
*
9144882 TCTACAAA-TT
1 TTTA-AAATTT
9144892 TTT-AAATTT
1 TTTAAAATTT
*
9144901 TTT-TAATTT
1 TTTAAAATTT
*
9144910 TTTAAAAGTT
1 TTTAAAATTT
* *
9144920 TTTAGATTCTT
1 TTTAAAAT-TT
*
9144931 TTTAAATTTT
1 TTTAAAATTT
9144941 TTTAGAAA--T
1 TTTA-AAATTT
9144950 TTT---ATTT
1 TTTAAAATTT
* *
9144957 TTT-TAACTT
1 TTTAAAATTT
*
9144966 TTT---ATAT
1 TTTAAAATTT
*
9144973 CTTAAAA-TT
1 TTTAAAATTT
**
9144982 TTTAAAAGCT
1 TTTAAAATTT
*
9144992 TTTAGAATTT
1 TTTAAAATTT
*
9145002 CTTAAAATTT
1 TTTAAAATTT
9145012 TATT----TTT
1 T-TTAAAATTT
**
9145019 TTTTGAATTT
1 TTTAAAATTT
*
9145029 TCTAAAATTT
1 TTTAAAATTT
9145039 TTTAAAATTAT
1 TTTAAAATT-T
* *
9145050 TTTAGAATTG
1 TTTAAAATTT
* **
9145060 TTGAGCATTT
1 TTTAAAATTT
* *
9145070 GTTAGAATTT
1 TTTAAAATTT
* *
9145080 TTAAAAACTT
1 TTTAAAATTT
* *
9145090 TTCATAATTT
1 TTTAAAATTT
*
9145100 TTTAAGATTT
1 TTTAAAATTT
9145110 TTTAAAATTAT
1 TTTAAAATT-T
9145121 TTT-AAA-TT
1 TTTAAAATTT
***
9145129 TTTAAAAAAA
1 TTTAAAATTT
9145139 TTTAAAATTTT
1 TTTAAAA-TTT
**
9145150 TATTTGAATTT
1 T-TTAAAATTT
*
9145161 TGTAAAA-TT
1 TTTAAAATTT
9145170 TTTAAAATTT
1 TTTAAAATTT
9145180 TTTAAAAATTAT
1 TTT-AAAATT-T
*
9145192 TTTAGAATTAT
1 TTTAAAATT-T
*
9145203 TTTTAAA-TT
1 TTTAAAATTT
9145212 TTTAAGAATTT
1 TTTAA-AATTT
9145223 TTT
1 TTT
9145226 TTATTTTTTC
Statistics
Matches: 325, Mismatches: 81, Indels: 82
0.67 0.17 0.17
Matches are distributed among these distances:
5 1 0.00
6 2 0.01
7 17 0.05
8 10 0.03
9 75 0.23
10 150 0.46
11 62 0.19
12 8 0.02
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:9144850 original size:28 final size:27
Alignment explanation
Indices: 9144819--9144969 Score: 112
Period size: 28 Copynumber: 5.3 Consensus size: 27
9144809 TTAAATTTGG
*
9144819 AATTTTTTGAAAA-TTTTAAAGTTTTCTT
1 AATTTTTT-AAAAGTTTTAAA-TTTTTTT
* *
9144847 AATTCTTTTCAAATTTTTAAATTTTTTTTT
1 AATT-TTTTAAAAGTTTTAAA--TTTTTTT
* *
9144877 AATTTTCTACAAATTTTTAAATTTTTTT
1 AATTTTTTA-AAAGTTTTAAATTTTTTT
*
9144905 AATTTTTTAAAAGTTTTTAGATTCTTTTT
1 AATTTTTTAAAAG-TTTTAAATT-TTTTT
9144934 AAATTTTTTTAGAAA-TTTT--ATTTTTTT
1 -AA-TTTTTTA-AAAGTTTTAAATTTTTTT
*
9144961 AACTTTTTA
1 AATTTTTTA
9144970 TATCTTAAAA
Statistics
Matches: 105, Mismatches: 9, Indels: 21
0.78 0.07 0.16
Matches are distributed among these distances:
25 6 0.06
26 2 0.02
27 8 0.08
28 33 0.31
29 19 0.18
30 27 0.26
31 7 0.07
32 3 0.03
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (27 bp):
AATTTTTTAAAAGTTTTAAATTTTTTT
Found at i:9144874 original size:19 final size:18
Alignment explanation
Indices: 9144832--9144941 Score: 69
Period size: 19 Copynumber: 5.7 Consensus size: 18
9144822 TTTTTGAAAA
*
9144832 TTTTAAAGTTTTCTTAATTCT
1 TTTTAAA-TTTT-TAAATT-T
*
9144853 TTTCAAATTTTTAAATTTT
1 TTTTAAATTTTTAAA-TTT
* *
9144872 TTTTTAATTTTCTACAA-AT
1 TTTTAAATTTT-TA-AATTT
*
9144891 TTTTAAATTTTTTTAATTT
1 TTTTAAA-TTTTTAAATTT
* *
9144910 TTTAAAAGTTTTTAGATTCT
1 TTTTAAA-TTTTTAAATT-T
9144930 TTTTAAATTTTT
1 TTTTAAATTTTT
9144942 TTAGAAATTT
Statistics
Matches: 70, Mismatches: 13, Indels: 14
0.72 0.13 0.14
Matches are distributed among these distances:
18 2 0.03
19 41 0.59
20 19 0.27
21 8 0.11
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTTAAATTTTTAAATTT
Found at i:9144953 original size:58 final size:56
Alignment explanation
Indices: 9144819--9145040 Score: 157
Period size: 58 Copynumber: 3.8 Consensus size: 56
9144809 TTAAATTTGG
* * * * *
9144819 AATTTTTTGAAAATTTTAAAGTTTTCTTAATTCTTTTCAAATTTTTAAATTTTTTTTT
1 AATTTTTTTAAAATTTTAAA-TTTTTTTAATT-TTTTAAAATTTTTAAATTCTTTTTA
* *
9144877 AA-TTTTCTACAAATTTTTAAATTTTTTTAATTTTTTAAAAGTTTTTAGATTCTTTTTA
1 AATTTTTTTA-AAA-TTTTAAATTTTTTTAATTTTTTAAAA-TTTTTAAATTCTTTTTA
**
9144935 AATTTTTTTAGAAATTTT--ATTTTTTTAACTTTTTATATCTTAAAATTTTTAAAAGC-TTTTA
1 AATTTTTTTA-AAATTTTAAATTTTTTTAA----TT-T-T-TTAAAATTTTTAAATTCTTTTTA
* ** *
9144996 GAA-TTTCTTAAAATTTTATTTTTTTTTGAATTTTCTAAAATTTTT
1 -AATTTTTTTAAAATTTTAAATTTTTTT-AATTTTTTAAAATTTTT
9145041 TAAAATTATT
Statistics
Matches: 134, Mismatches: 15, Indels: 32
0.74 0.08 0.18
Matches are distributed among these distances:
56 20 0.15
57 13 0.10
58 36 0.27
59 18 0.13
60 9 0.07
61 12 0.09
62 18 0.13
63 8 0.06
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (56 bp):
AATTTTTTTAAAATTTTAAATTTTTTTAATTTTTTAAAATTTTTAAATTCTTTTTA
Found at i:9145234 original size:21 final size:20
Alignment explanation
Indices: 9145098--9145228 Score: 63
Period size: 19 Copynumber: 6.3 Consensus size: 20
9145088 TTTTCATAAT
*
9145098 TTTTTAAGATTTTTTAAAATTA
1 TTTTTAA-A-TTTTTAGAATTA
**
9145120 -TTTTAAATTTTTA-AAAAA
1 TTTTTAAATTTTTAGAATTA
* *
9145138 ATTTAAAATTTTTATTTGAATT-
1 TTTTTAAATTTTTA---GAATTA
* * *
9145160 TTGTAAAATTTTTAAAATT-
1 TTTTTAAATTTTTAGAATTA
*
9145179 TTTTAAAAATTATTTTAGAATTA
1 TTTT-TAAA-T-TTTTAGAATTA
*
9145202 TTTTTAAATTTTTAAGAATTT
1 TTTTTAAATTTTT-AGAATTA
9145223 TTTTTA
1 TTTTTA
9145229 TTTTTTCTCA
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
18 3 0.03
19 25 0.29
20 9 0.10
21 20 0.23
22 24 0.28
23 6 0.07
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTTAAATTTTTAGAATTA
Found at i:9145934 original size:12 final size:12
Alignment explanation
Indices: 9145917--9145946 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9145907 TCTCAATTCT
9145917 TCACAATCATAA
1 TCACAATCATAA
9145929 TCACAATCATAA
1 TCACAATCATAA
9145941 TCACAA
1 TCACAA
9145947 CTTCACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (12 bp):
TCACAATCATAA
Found at i:9151303 original size:12 final size:13
Alignment explanation
Indices: 9151283--9151325 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
9151273 ATAGAAAATT
*
9151283 TCAAGATCAAAA-
1 TCAAAATCAAAAG
9151295 TCAAAATCAAAAG
1 TCAAAATCAAAAG
*
9151308 TCAAAGATTAAAAG
1 TCAAA-ATCAAAAG
9151322 TCAA
1 TCAA
9151326 TGGGTCAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 11 0.41
13 5 0.19
14 11 0.41
ACGTcount: A:0.58, C:0.14, G:0.09, T:0.19
Consensus pattern (13 bp):
TCAAAATCAAAAG
Found at i:9151322 original size:14 final size:14
Alignment explanation
Indices: 9151285--9151325 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
9151275 AGAAAATTTC
9151285 AAGATCAAAA-TCA
1 AAGATCAAAAGTCA
9151298 AA-ATCAAAAGTCA
1 AAGATCAAAAGTCA
*
9151311 AAGATTAAAAGTCA
1 AAGATCAAAAGTCA
9151325 A
1 A
9151326 TGGGTCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 7 0.28
13 7 0.28
14 11 0.44
ACGTcount: A:0.61, C:0.12, G:0.10, T:0.17
Consensus pattern (14 bp):
AAGATCAAAAGTCA
Found at i:9152241 original size:23 final size:23
Alignment explanation
Indices: 9152197--9152242 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9152187 AGTAAATTAT
* * * *
9152197 ACCTTAAACAAAAGACACAAAAA
1 ACCTAAAACAAAAAAAAAAAAAA
9152220 ACCTAAAACAAAAAAAAAAAAAA
1 ACCTAAAACAAAAAAAAAAAAAA
9152243 TCCCCTAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.74, C:0.17, G:0.02, T:0.07
Consensus pattern (23 bp):
ACCTAAAACAAAAAAAAAAAAAA
Found at i:9152747 original size:16 final size:17
Alignment explanation
Indices: 9152710--9152745 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
9152700 TACCTAAAAT
9152710 TTTATTTTAT-TATTTTA
1 TTTA-TTTATGTATTTTA
9152727 TTTATTTATGTATTTTA
1 TTTATTTATGTATTTTA
9152744 TT
1 TT
9152746 ATGTATGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTATTTATGTATTTTA
Found at i:9160233 original size:6 final size:6
Alignment explanation
Indices: 9160222--9160267 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
9160212 TAAAGAGAAA
* *
9160222 AAAGAG AAAGAG AGAGAG AGAGAG AAAGAG AGATAGAG AAAGAG AA
1 AAAGAG AAAGAG AAAGAG AAAGAG AAAGAG A-A-AGAG AAAGAG AA
9160268 TTTATTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 29 0.81
7 2 0.06
8 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (6 bp):
AAAGAG
Found at i:9160241 original size:8 final size:8
Alignment explanation
Indices: 9160224--9160266 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
9160214 AAGAGAAAAA
*
9160224 AGAGAAAG
1 AGAGAGAG
9160232 AGAGAGAG
1 AGAGAGAG
*
9160240 AGAGAGAA
1 AGAGAGAG
*
9160248 AGAGAGAT
1 AGAGAGAG
*
9160256 AGAGAAAG
1 AGAGAGAG
9160264 AGA
1 AGA
9160267 ATTTATTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (8 bp):
AGAGAGAG
Found at i:9161349 original size:360 final size:359
Alignment explanation
Indices: 9160655--9161367 Score: 1291
Period size: 360 Copynumber: 2.0 Consensus size: 359
9160645 TTATATGATA
*
9160655 AATTATGTGTTATTTATGGAGATGTTTTGTCACTAGATCAAATGCACGACCTTTTATACATTATC
1 AATTATGTGTTATTTATGGAGATGTTTTGCCACTAGATCAAATGCACGACCTTTTATACATTATC
* * *
9160720 CATCAAATAGTGTCAATGAGTGAATGAAACTTACTTATGACATAGATAAAGAATTAGAAGAAGAA
66 CATCAAATAGTGTCAAGGAGTGAATGAAACTTACTTATGACATAGACAAAGAATTAAAAGAAGAA
*
9160785 GCAGAAGGTGATGGCAGTGTTACTACCAACTGTAGTAATACTAAAAAGTGTACCCATTCTACTAC
131 GCAAAAGGTGATGGCAGTGTTACTACCAACTGTAGTAATACTAAAAAGTGTACCCATTCTACTAC
9160850 TCCTATTATTCACCAAAGTTTCATTATAATGCAATCTACGATTAACTTTATTAGTGAAAATTCTA
196 TCCTATTATTCACCAAAGTTTCATTATAATGCAATCTACGATTAACTTTATTAGTGAAAATTCTA
*
9160915 GAAGAAAGGTTGACATATGGGAGAGCTTAATAGTTAATTAGTTCAACTTATTCTGCTCATTCAGA
261 GAAGAAAAGTTGACATATGGGAGAGCTTAATAGTTAATTAGTTCAACTTATTCTGCTCATTCAGA
*
9160980 GGGATCTACTGAGGACATTTATTCGAAGATAAAG
326 GGCATCTACTGAGGACATTTATTCGAAGATAAAG
*
9161014 AATTATGTGTTATTTATGGAGATGCTTTTGCCACTAGATCAAATGCATGACCTTTTATACATTAT
1 AATTATGTGTTATTTATGGAGATG-TTTTGCCACTAGATCAAATGCACGACCTTTTATACATTAT
*
9161079 CCATCAGATAGTGTCAAGGAGTGAATGAAACTTACTTATGACATAGACAAAGAATTAAAAGAAGA
65 CCATCAAATAGTGTCAAGGAGTGAATGAAACTTACTTATGACATAGACAAAGAATTAAAAGAAGA
*
9161144 AGCAAAAGGTGATGGTAGTGTTACTACCAACTGTAGTAATACTAAAAAGTGTACCCATTCTACTA
130 AGCAAAAGGTGATGGCAGTGTTACTACCAACTGTAGTAATACTAAAAAGTGTACCCATTCTACTA
* *
9161209 CTCCTATTATTCACCGAAGTTTCATTATAATGCAATTTACGATTAACTTTATTAGTGAAAATTCT
195 CTCCTATTATTCACCAAAGTTTCATTATAATGCAATCTACGATTAACTTTATTAGTGAAAATTCT
* *
9161274 AGAAGAAAAGTTGACATATGGGAGAGCTTAATAGTTAATTAGTTCAATTTGTTCTGCTCATTCAG
260 AGAAGAAAAGTTGACATATGGGAGAGCTTAATAGTTAATTAGTTCAACTTATTCTGCTCATTCAG
9161339 AGGCATCTACTGAGGACATTTATTCGAAG
325 AGGCATCTACTGAGGACATTTATTCGAAG
9161368 CTCTTTTTGG
Statistics
Matches: 339, Mismatches: 14, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
359 24 0.07
360 315 0.93
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (359 bp):
AATTATGTGTTATTTATGGAGATGTTTTGCCACTAGATCAAATGCACGACCTTTTATACATTATC
CATCAAATAGTGTCAAGGAGTGAATGAAACTTACTTATGACATAGACAAAGAATTAAAAGAAGAA
GCAAAAGGTGATGGCAGTGTTACTACCAACTGTAGTAATACTAAAAAGTGTACCCATTCTACTAC
TCCTATTATTCACCAAAGTTTCATTATAATGCAATCTACGATTAACTTTATTAGTGAAAATTCTA
GAAGAAAAGTTGACATATGGGAGAGCTTAATAGTTAATTAGTTCAACTTATTCTGCTCATTCAGA
GGCATCTACTGAGGACATTTATTCGAAGATAAAG
Found at i:9165038 original size:15 final size:16
Alignment explanation
Indices: 9165013--9165042 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9165003 AAAAAATATT
9165013 ATTTAAAATAAAAAAC
1 ATTTAAAATAAAAAAC
9165029 ATTT-AAATAAAAAA
1 ATTTAAAATAAAAAA
9165043 TTGTCCTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
ATTTAAAATAAAAAAC
Found at i:9178916 original size:33 final size:34
Alignment explanation
Indices: 9178861--9178936 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 34
9178851 TTAATTTATG
*
9178861 AAAAATTTCATTTTCGAAAATATAACATAAATTT-
1 AAAAA-TTAATTTTCGAAAATATAACATAAATTTC
* *
9178895 AAAAATTAATTTTC-AAGAATATAGCATAATTTTC
1 AAAAATTAATTTTCGAA-AATATAACATAAATTTC
9178929 AAAAATTA
1 AAAAATTA
9178937 TGCTATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 2 0.05
33 22 0.59
34 13 0.35
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (34 bp):
AAAAATTAATTTTCGAAAATATAACATAAATTTC
Found at i:9179490 original size:19 final size:20
Alignment explanation
Indices: 9179466--9179503 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
9179456 CACATTAAAA
*
9179466 TTATTTTTTAT-TAATTTTT
1 TTATTTTTAATCTAATTTTT
9179485 TTATTTTTAATCTAATTTT
1 TTATTTTTAATCTAATTTT
9179504 ATATCTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TTATTTTTAATCTAATTTTT
Found at i:9189754 original size:24 final size:24
Alignment explanation
Indices: 9189722--9189769 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
9189712 AAAAGTATGT
9189722 TGGGAGAGTAGCCATGAACTCCAA
1 TGGGAGAGTAGCCATGAACTCCAA
9189746 TGGGAGAGTAGCCATGAACTCCAA
1 TGGGAGAGTAGCCATGAACTCCAA
9189770 ATACAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (24 bp):
TGGGAGAGTAGCCATGAACTCCAA
Found at i:9191485 original size:30 final size:29
Alignment explanation
Indices: 9191449--9191535 Score: 74
Period size: 30 Copynumber: 3.0 Consensus size: 29
9191439 ATAATTTTGA
9191449 TACCTAAACTTTGAAAAATGTACAAATTAG
1 TACCTAAACTTT-AAAAATGTACAAATTAG
**
9191479 TACCTAAGA-AAT-AAAATGTACAAATT-G
1 TACCTAA-ACTTTAAAAATGTACAAATTAG
* *
9191506 CACCTGAACTTTCAAATAATGTAC-AATTAG
1 TACCTAAACTTT-AAA-AATGTACAAATTAG
9191536 CACCATGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
26 1 0.02
27 7 0.16
28 14 0.31
29 6 0.13
30 16 0.36
31 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (29 bp):
TACCTAAACTTTAAAAATGTACAAATTAG
Found at i:9191539 original size:30 final size:31
Alignment explanation
Indices: 9191493--9191553 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
9191483 TAAGAAATAA
9191493 AATGTACAAATTGCACC-TGAACTTTCAAAT
1 AATGTACAAATTGCACCATGAACTTTCAAAT
*
9191523 AATGTAC-AATTAGCACCATGAACTTTTAAAT
1 AATGTACAAATT-GCACCATGAACTTTCAAAT
9191554 TATGCACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 4 0.14
30 12 0.43
31 12 0.43
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (31 bp):
AATGTACAAATTGCACCATGAACTTTCAAAT
Found at i:9202084 original size:17 final size:20
Alignment explanation
Indices: 9202050--9202091 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
9202040 AATATTAAAA
*
9202050 ATAAAATATTATGAATAA-T
1 ATAAAATATTAAGAATAATT
9202069 ATAAAAT-TTAAG-ATAATT
1 ATAAAATATTAAGAATAATT
9202087 ATAAA
1 ATAAA
9202092 TTTTTATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 10 0.48
19 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAAATATTAAGAATAATT
Found at i:9204422 original size:20 final size:18
Alignment explanation
Indices: 9204394--9204433 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
9204384 TACATTTTTT
9204394 ATTTAAAAAAAACTAAAAAA
1 ATTT-AAAAAAAC-AAAAAA
*
9204414 ATTTTAAAAAACAAAAAA
1 ATTTAAAAAAACAAAAAA
9204432 AT
1 AT
9204434 GAAACGGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (18 bp):
ATTTAAAAAAACAAAAAA
Found at i:9205266 original size:12 final size:12
Alignment explanation
Indices: 9205222--9205267 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
9205212 TACACATATA
*
9205222 TAAATATAAAAT
1 TAAATATATAAT
*
9205234 TAAATAAATAAT
1 TAAATATATAAT
*
9205246 TAAAAATATAAT
1 TAAATATATAAT
*
9205258 TATATATATA
1 TAAATATATA
9205268 TATATACTAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAATATATAAT
Found at i:9205526 original size:28 final size:30
Alignment explanation
Indices: 9205467--9205526 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
9205457 TATCTAATTA
**
9205467 AAATGATAATAAACAAACTAAAAAAAAGGG
1 AAATGATAATAAACAAAAGAAAAAAAAGGG
*
9205497 AAATGATAA-AAA-AAAAGAAAGAAAAGGG
1 AAATGATAATAAACAAAAGAAAAAAAAGGG
9205525 AA
1 AA
9205527 GGAAACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 15 0.56
29 3 0.11
30 9 0.33
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (30 bp):
AAATGATAATAAACAAAAGAAAAAAAAGGG
Found at i:9206256 original size:17 final size:16
Alignment explanation
Indices: 9206232--9206266 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
9206222 AAAAATAAAT
*
9206232 AAGACAAAAAGAAAGA
1 AAGACAAAAAAAAAGA
9206248 AAGAGCAAAAAAAAAGA
1 AAGA-CAAAAAAAAAGA
9206265 AA
1 AA
9206267 AAATATCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (16 bp):
AAGACAAAAAAAAAGA
Found at i:9213877 original size:3 final size:3
Alignment explanation
Indices: 9213841--9214039 Score: 82
Period size: 3 Copynumber: 69.0 Consensus size: 3
9213831 GCCTAGCCCA
* * * * * *
9213841 ATT ATC ATT AGT ATT ATT AGT ATC ATC ATC ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * *
9213889 CCT ATT ATT A-T AAT ATT ATT ATT ATT GA-T ATT -TT ATT A-T CTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
* * * *
9213931 ATT -TT -TT ATT TTT AAGTA ATT ATCT TTGT ATT -TT A-T CTT ATT ATT
1 ATT ATT ATT ATT ATT -A-TT ATT AT-T AT-T ATT ATT ATT ATT ATT ATT
* * * *
9213976 A-T CTT ATT -TT ATT ATT GTT -TT ATT ATT A-T CTT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9214020 -TT ATT TTT ATT TTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT
9214040 TGTTTTAAAA
Statistics
Matches: 145, Mismatches: 35, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
2 21 0.14
3 117 0.81
4 6 0.04
5 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:9213920 original size:26 final size:25
Alignment explanation
Indices: 9213876--9213933 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
9213866 TCATCATTAT
*
9213876 TATTATTATTATTCCTATTATTATAA
1 TATTATTATTATTCATATT-TTATAA
* *
9213902 TATTATTATTATTGATATTTTATTA
1 TATTATTATTATTCATATTTTATAA
*
9213927 TCTTATT
1 TATTATT
9213934 TTTTATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (25 bp):
TATTATTATTATTCATATTTTATAA
Found at i:9213979 original size:11 final size:10
Alignment explanation
Indices: 9213959--9214023 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 10
9213949 ATTATCTTTG
9213959 TATTTTATCT
1 TATTTTATCT
9213969 TATTATTATCT
1 TATT-TTATCT
9213980 TATTTTA--T
1 TATTTTATCT
*
9213988 TATTGT-T-T
1 TATTTTATCT
9213996 TATTATTATCT
1 TATT-TTATCT
*
9214007 TATTTT-TAT
1 TATTTTATCT
9214016 TATTTTAT
1 TATTTTAT
9214024 TTTTATTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
8 11 0.24
9 9 0.20
10 11 0.24
11 15 0.33
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.71
Consensus pattern (10 bp):
TATTTTATCT
Found at i:9213982 original size:8 final size:7
Alignment explanation
Indices: 9213963--9214040 Score: 56
Period size: 8 Copynumber: 10.9 Consensus size: 7
9213953 TCTTTGTATT
9213963 TTATCTTA
1 TTAT-TTA
*
9213971 TTATTATC
1 TTATT-TA
9213979 TTATTTTA
1 TTA-TTTA
*
9213987 TTATTGTT
1 TTATT-TA
9213995 TTA-TTA
1 TTATTTA
9214001 TTATCTTA
1 TTAT-TTA
9214009 TT-TTTA
1 TTATTTA
9214015 TTATTTTA
1 TTA-TTTA
9214023 TT-TTTA
1 TTATTTA
9214029 TT-TTTA
1 TTATTTA
9214035 TTATTT
1 TTATTT
9214041 GTTTTAAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
6 21 0.36
7 8 0.14
8 27 0.47
9 2 0.03
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (7 bp):
TTATTTA
Found at i:9213988 original size:5 final size:5
Alignment explanation
Indices: 9213959--9214032 Score: 60
Period size: 5 Copynumber: 14.2 Consensus size: 5
9213949 ATTATCTTTG
* * * *
9213959 TATTT TATCT TATTAT TATCT TATTT TATTAT TGTTT TATTAT TATCT
1 TATTT TATTT TATT-T TATTT TATTT TATT-T TATTT TATT-T TATTT
*
9214007 TATTT T-TAT TATTT TATTTT TATTT T
1 TATTT TATTT TATTT TA-TTT TATTT T
9214033 TATTATTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
4 3 0.06
5 34 0.63
6 17 0.31
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:9214015 original size:14 final size:14
Alignment explanation
Indices: 9213971--9214030 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
9213961 TTTTATCTTA
9213971 TTATTATCTTA-TT
1 TTATTATCTTATTT
9213984 TTATTAT-TGT-TTT
1 TTATTATCT-TATTT
9213997 ATTATTATCTTATTT
1 -TTATTATCTTATTT
*
9214012 TTATTATTTTATTT
1 TTATTATCTTATTT
9214026 TTATT
1 TTATT
9214031 TTTATTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
12 1 0.02
13 10 0.24
14 26 0.63
15 4 0.10
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (14 bp):
TTATTATCTTATTT
Found at i:9214029 original size:11 final size:11
Alignment explanation
Indices: 9213979--9214036 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
9213969 TATTATTATC
*
9213979 TTATTTTATTA
1 TTATTTTATTT
* *
9213990 TTGTTTTATTA
1 TTATTTTATTT
*
9214001 TTATCTTATTT
1 TTATTTTATTT
9214012 TTA--TTA-TT
1 TTATTTTATTT
9214020 TTATTTTTATTT
1 TTA-TTTTATTT
9214032 TTATT
1 TTATT
9214037 ATTTGTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
11 26 0.67
12 5 0.13
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (11 bp):
TTATTTTATTT
Found at i:9215068 original size:23 final size:23
Alignment explanation
Indices: 9215028--9215074 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
9215018 AAATTTTAGG
9215028 AAAATTATAAAAAAT-AAAATAA
1 AAAATTATAAAAAATAAAAATAA
**
9215050 AAAATTAATAAAATTTAAAAATAA
1 AAAATT-ATAAAAAATAAAAATAA
9215074 A
1 A
9215075 TGATAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (23 bp):
AAAATTATAAAAAATAAAAATAA
Found at i:9219352 original size:8 final size:8
Alignment explanation
Indices: 9219339--9219430 Score: 66
Period size: 8 Copynumber: 11.6 Consensus size: 8
9219329 GGATTAAGTA
9219339 AAAAAATG
1 AAAAAATG
*
9219347 AAAAAATT
1 AAAAAATG
*
9219355 AAAAAATAA
1 AAAAAAT-G
9219364 AAAAAATG
1 AAAAAATG
9219372 -AAAAA-G
1 AAAAAATG
9219378 CAAAAAATG
1 -AAAAAATG
9219387 AAAAAAT-
1 AAAAAATG
9219394 -AAAAATG
1 AAAAAATG
* **
9219401 TGAAATGTG
1 -AAAAAATG
*
9219410 AAAAAATA
1 AAAAAATG
*
9219418 AAAAAAGG
1 AAAAAATG
9219426 AAAAA
1 AAAAA
9219431 GAATACTCAA
Statistics
Matches: 66, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
6 7 0.11
7 5 0.08
8 41 0.62
9 13 0.20
ACGTcount: A:0.75, C:0.01, G:0.11, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:9219383 original size:25 final size:24
Alignment explanation
Indices: 9219338--9219392 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
9219328 TGGATTAAGT
*
9219338 AAAAAAATGAAAAAATTAAAAAATA
1 AAAAAAATGAAAAAA-CAAAAAATA
* *
9219363 AAAAAAATGAAAAAGCAAAAAATG
1 AAAAAAATGAAAAAACAAAAAATA
9219387 AAAAAA
1 AAAAAA
9219393 TAAAAATGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (24 bp):
AAAAAAATGAAAAAACAAAAAATA
Found at i:9219398 original size:23 final size:23
Alignment explanation
Indices: 9219339--9219422 Score: 78
Period size: 23 Copynumber: 3.6 Consensus size: 23
9219329 GGATTAAGTA
* *
9219339 AAAAAATGAAAAAATTAAAAAATAA
1 AAAAAAT-AAAAAAGTAAAAAAT-G
* *
9219364 AAAAAATGAAAAAGCAAAAAATG
1 AAAAAATAAAAAAGTAAAAAATG
* * **
9219387 AAAAAATAAAAATGTGAAATGTG
1 AAAAAATAAAAAAGTAAAAAATG
9219410 AAAAAATAAAAAA
1 AAAAAATAAAAAA
9219423 AGGAAAAAGA
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 29 0.60
24 12 0.25
25 7 0.15
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.14
Consensus pattern (23 bp):
AAAAAATAAAAAAGTAAAAAATG
Found at i:9220573 original size:21 final size:21
Alignment explanation
Indices: 9220549--9220600 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
9220539 AAAAATGATG
9220549 AGAATCTTTGAGTTTTAAATA
1 AGAATCTTTGAGTTTTAAATA
*
9220570 AGAATCTTTGAGTTTTAAATG
1 AGAATCTTTGAGTTTTAAATA
9220591 AGAATCTTTG
1 AGAATCTTTG
9220601 TCTTTGAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (21 bp):
AGAATCTTTGAGTTTTAAATA
Found at i:9220612 original size:27 final size:27
Alignment explanation
Indices: 9220574--9220625 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
9220564 TAAATAAGAA
* *
9220574 TCTTTGAGTTTTAAATGAGAATCTTTG
1 TCTTTGAGTTTTAAATAAAAATCTTTG
9220601 TCTTTGAGTTTTAAATAAAAATCTT
1 TCTTTGAGTTTTAAATAAAAATCTT
9220626 GAGAATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (27 bp):
TCTTTGAGTTTTAAATAAAAATCTTTG
Found at i:9220832 original size:66 final size:66
Alignment explanation
Indices: 9220747--9220940 Score: 200
Period size: 66 Copynumber: 3.0 Consensus size: 66
9220737 AGAAGTTTTG
* *
9220747 AATGAGAAATTTTGAAATTTTAGATGTGAAACTTTAAAATTTATTGAATATAAATCTTTGAACTA
1 AATGAGAAATTTTGAAATTTTAGATGTGAAACTTTAAAATTTATCGAATATGAATCTTTGAACTA
9220812 A
66 A
* * * *
9220813 AATGAGAATTTTTGAAA-TTTGGTTGTG-AA-TTTATGAATTTATCGAATGA-GAATCTTTGAAT
1 AATGAGAAATTTTGAAATTTTAGATGTGAAACTTTA-AAATTTATCGAAT-ATGAATCTTTGAA-
*
9220874 TTAA
63 CTAA
* * ** * * *
9220878 AATGA-AAATCTTGAATTTTTTTATGTGAAACTCTAAAATTTATCAAATGTGAATCTTTGAACT
1 AATGAGAAATTTTGAAATTTTAGATGTGAAACTTTAAAATTTATCGAATATGAATCTTTGAACT
9220941 TGAGTGAGAA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
63 4 0.04
64 31 0.30
65 25 0.24
66 40 0.39
67 3 0.03
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (66 bp):
AATGAGAAATTTTGAAATTTTAGATGTGAAACTTTAAAATTTATCGAATATGAATCTTTGAACTA
A
Found at i:9220893 original size:20 final size:21
Alignment explanation
Indices: 9220857--9220895 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9220847 GAATTTATCG
*
9220857 AATGAGAATCTTTGAATTTAA
1 AATGAAAATCTTTGAATTTAA
9220878 AATGAAAATC-TTGAATTT
1 AATGAAAATCTTTGAATTT
9220896 TTTTATGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (21 bp):
AATGAAAATCTTTGAATTTAA
Found at i:9221230 original size:15 final size:15
Alignment explanation
Indices: 9221210--9221241 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
9221200 TGAATTTCTC
*
9221210 AAATGCGAAATTGAA
1 AAATGCAAAATTGAA
9221225 AAATGCAAAATTGAA
1 AAATGCAAAATTGAA
9221240 AA
1 AA
9221242 TCTTACGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.06, G:0.16, T:0.19
Consensus pattern (15 bp):
AAATGCAAAATTGAA
Found at i:9221346 original size:16 final size:16
Alignment explanation
Indices: 9221325--9221398 Score: 80
Period size: 17 Copynumber: 4.6 Consensus size: 16
9221315 ACCTAACTTG
*
9221325 TGAATCTAAGTTCTTA
1 TGAATCTAAATTCTTA
*
9221341 TGAATCTAAAATTTTTA
1 TGAATCT-AAATTCTTA
*
9221358 -GAATC-AAATTCTTG
1 TGAATCTAAATTCTTA
*
9221372 TGAAGCTAAAATTCTTA
1 TGAATCT-AAATTCTTA
9221389 TGAATCTAAA
1 TGAATCTAAA
9221399 AATTCTTGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
14 7 0.15
15 4 0.09
16 15 0.32
17 21 0.45
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (16 bp):
TGAATCTAAATTCTTA
Found at i:9221370 original size:31 final size:33
Alignment explanation
Indices: 9221325--9221398 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 33
9221315 ACCTAACTTG
* * *
9221325 TGAATCTAAGTTCTTATGAATCTAAAATTTTTA
1 TGAATCTAAATTCTTATGAAGCTAAAATTCTTA
*
9221358 -GAATC-AAATTCTTGTGAAGCTAAAATTCTTA
1 TGAATCTAAATTCTTATGAAGCTAAAATTCTTA
9221389 TGAATCTAAA
1 TGAATCTAAA
9221399 AATTCTTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 22 0.63
32 10 0.29
33 3 0.09
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (33 bp):
TGAATCTAAATTCTTATGAAGCTAAAATTCTTA
Found at i:9221385 original size:17 final size:18
Alignment explanation
Indices: 9221363--9221407 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
9221353 TTTTAGAATC
9221363 AAATTCTTGTGAAGCT-A
1 AAATTCTTGTGAAGCTAA
* *
9221380 AAATTCTTATGAATCTAA
1 AAATTCTTGTGAAGCTAA
9221398 AAATTCTTGT
1 AAATTCTTGT
9221408 AAATTTGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (18 bp):
AAATTCTTGTGAAGCTAA
Found at i:9221855 original size:16 final size:16
Alignment explanation
Indices: 9221834--9221884 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
9221824 GTGTTTTATC
9221834 TTATTATTATCCTA--
1 TTATTATTATCCTATT
9221848 TT-TTATTAT--TATT
1 TTATTATTATCCTATT
*
9221861 TTATTTTTATCCTATT
1 TTATTATTATCCTATT
9221877 TTATTATT
1 TTATTATT
9221885 GTTTTATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
11 2 0.07
13 9 0.30
14 8 0.27
16 11 0.37
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTATTATCCTATT
Found at i:9221870 original size:27 final size:27
Alignment explanation
Indices: 9221829--9221927 Score: 119
Period size: 27 Copynumber: 3.6 Consensus size: 27
9221819 TCTTTGTGTT
*
9221829 TTATCTTATTATTATCCTATTTTATTA
1 TTATTTTATTATTATCCTATTTTATTA
*
9221856 TTATTTTATTTTTATCCTATTTTATTA
1 TTATTTTATTATTATCCTATTTTATTA
* *
9221883 TTGTTTTATTATTATCTTACTATTTATTTA
1 TTATTTTATTATTATCCTA-T-TTTA-TTA
9221913 TT-TTCTTATTATTAT
1 TTATT-TTATTATTAT
9221928 TAGTGTTTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 41 0.65
28 1 0.02
29 6 0.10
30 15 0.24
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (27 bp):
TTATTTTATTATTATCCTATTTTATTA
Found at i:9221913 original size:19 final size:18
Alignment explanation
Indices: 9221887--9221929 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
9221877 TTATTATTGT
9221887 TTTATTATTATCTTACTA
1 TTTATTATTATCTTACTA
* *
9221905 TTTATTTATTTTCTTATTA
1 TTTA-TTATTATCTTACTA
9221924 -TTATTA
1 TTTATTA
9221930 GTGTTTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 7 0.32
19 12 0.55
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTATTATCTTACTA
Found at i:9221915 original size:38 final size:38
Alignment explanation
Indices: 9221848--9221922 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
9221838 TATTATCCTA
* *
9221848 TTTTATTATTATTTTATTTTTATCCTATTTTATTATTG
1 TTTTATTATTATCTTATATTTATCCTATTTTATTATTG
* *
9221886 TTTTATTATTATCTTACTATTTAT-TTATTTTCTTATT
1 TTTTATTATTATCTTA-TATTTATCCTATTTTATTATT
9221923 ATTATTAGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 26 0.81
39 6 0.19
ACGTcount: A:0.21, C:0.07, G:0.01, T:0.71
Consensus pattern (38 bp):
TTTTATTATTATCTTATATTTATCCTATTTTATTATTG
Found at i:9221944 original size:3 final size:3
Alignment explanation
Indices: 9221786--9221929 Score: 52
Period size: 3 Copynumber: 47.3 Consensus size: 3
9221776 GCTTGACCCA
* * * *
9221786 ATT ATT ATT ATT ATT ATT ATT GATA AGTA ATT ATCT -TT GTGT TTT A-T
1 ATT ATT ATT ATT ATT ATT ATT -ATT A-TT ATT AT-T ATT AT-T ATT ATT
* *
9221833 CTT ATT ATT ATCCT ATT -TT ATT ATT ATT -TT ATT TTT ATCCT ATT -TT
1 ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT
* * * *
9221879 ATT ATT GTT -TT ATT ATT A-T CTT ACT ATTT ATTT ATT -TT CTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT
9221923 ATT ATT A
1 ATT ATT A
9221930 GTGTTTAATT
Statistics
Matches: 110, Mismatches: 14, Indels: 34
0.70 0.09 0.22
Matches are distributed among these distances:
2 13 0.12
3 77 0.70
4 14 0.13
5 6 0.05
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9222384 original size:138 final size:142
Alignment explanation
Indices: 9222114--9222403 Score: 390
Period size: 138 Copynumber: 2.0 Consensus size: 142
9222104 TTCTTAACTA
*
9222114 TAAATAAGCTTCAATCAATAAAAGAGAGGAAGATAGCACAAAAAAAAAAAGAAAAGGTAAACATA
1 TAAATAAGCTTCAATCAATAAAAGAGAGGAAGAT------AAAAAAAAAAGAAAAGGTAAACAAA
* * * **
9222179 AAGAAAAGAAAAAAAGTCAAAAGGGGATTTTTTTTTTTTTGCAAAATTTGATTTTGGGTTGATTG
60 AAGAAAAGAAAAAAAGTCAAAAAGGAATTTTTTTTTTTATG-AAAATTCAATTTTGGGTTGATTG
9222244 TTGGATTTTGGAGTACTTT
124 TTGGATTTTGGAGTACTTT
* * *
9222263 TAAATAAGTTTCAATCAGTAAAAGAGAGGAAGAT-AAAAAAAAA-AAAAGGTAAACAAAAAGGAA
1 TAAATAAGCTTCAATCAATAAAAGAGAGGAAGATAAAAAAAAAAGAAAAGGTAAACAAAAAGAAA
*
9222326 AG-AAAAGAGTCAAAAAGGAATTTTTTTTTTTATG-AAATTCAATTTTGGGTTGATTGTTGGATT
66 AGAAAAAAAGTCAAAAAGGAATTTTTTTTTTTATGAAAATTCAATTTTGGGTTGATTGTTGGATT
*
9222389 TTGGAGTGCTTT
131 TTGGAGTACTTT
9222401 TAA
1 TAA
9222404 GAGTTTTTAT
Statistics
Matches: 130, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
138 41 0.32
140 28 0.22
141 20 0.15
142 9 0.07
149 32 0.25
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (142 bp):
TAAATAAGCTTCAATCAATAAAAGAGAGGAAGATAAAAAAAAAAGAAAAGGTAAACAAAAAGAAA
AGAAAAAAAGTCAAAAAGGAATTTTTTTTTTTATGAAAATTCAATTTTGGGTTGATTGTTGGATT
TTGGAGTACTTT
Found at i:9227938 original size:22 final size:21
Alignment explanation
Indices: 9227913--9227988 Score: 62
Period size: 22 Copynumber: 3.5 Consensus size: 21
9227903 ACCTCAAGAC
9227913 ATGATCTAAAAGACCTTAAGGT
1 ATGATCTAAAA-ACCTTAAGGT
* * ** **
9227935 ATGATTTAAAAAACTTTTGAC
1 ATGATCTAAAAACCTTAAGGT
* *
9227956 ATGATTTATAAAACCTTAGGGT
1 ATGATCTA-AAAACCTTAAGGT
9227978 ATGATCTAAAA
1 ATGATCTAAAA
9227989 CCTCTTGGTA
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
21 16 0.39
22 25 0.61
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGATCTAAAAACCTTAAGGT
Found at i:9228152 original size:46 final size:44
Alignment explanation
Indices: 9228100--9228197 Score: 115
Period size: 45 Copynumber: 2.2 Consensus size: 44
9228090 ATGATTTATT
* *
9228100 AAACCTTTAAGCATAATCTTTTAAAACTTTCAAGTATCTTTTTCAA
1 AAACCTTTAAACATAATC-TTTAAAACTTTCAAGTATCTCTTT-AA
** * **
9228146 AAACCTTTAAATGTCATCTTTAAAACTTTTGAGTATCTCTTTAA
1 AAACCTTTAAACATAATCTTTAAAACTTTCAAGTATCTCTTTAA
9228190 AAACCTTT
1 AAACCTTT
9228198 GGGTATCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 10 0.22
45 21 0.47
46 14 0.31
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (44 bp):
AAACCTTTAAACATAATCTTTAAAACTTTCAAGTATCTCTTTAA
Found at i:9228192 original size:22 final size:22
Alignment explanation
Indices: 9228100--9228197 Score: 74
Period size: 22 Copynumber: 4.4 Consensus size: 22
9228090 ATGATTTATT
* * *
9228100 AAACCTTTAAGCATAATCTTTTA
1 AAACCTTTAAGTAT-CTCTTTAA
*
9228123 AAA-CTTTCAAGTATCTTTTTCAA
1 AAACCTTT-AAGTATCTCTTT-AA
* *
9228146 AAACCTTTAAATGTCATCTTT-A
1 AAACCTTTAAGTATC-TCTTTAA
* *
9228168 AAACTTTTGAGTATCTCTTTAA
1 AAACCTTTAAGTATCTCTTTAA
9228190 AAACCTTT
1 AAACCTTT
9228198 GGGTATCATT
Statistics
Matches: 58, Mismatches: 12, Indels: 11
0.72 0.15 0.14
Matches are distributed among these distances:
21 5 0.09
22 28 0.48
23 17 0.29
24 8 0.14
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.42
Consensus pattern (22 bp):
AAACCTTTAAGTATCTCTTTAA
Found at i:9229576 original size:15 final size:15
Alignment explanation
Indices: 9229556--9229585 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9229546 GAGAAAATGA
9229556 ACAAGAAAAGTAAAT
1 ACAAGAAAAGTAAAT
*
9229571 ACAAGAAATGTAAAT
1 ACAAGAAAAGTAAAT
9229586 CCTAAAATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (15 bp):
ACAAGAAAAGTAAAT
Found at i:9230347 original size:27 final size:27
Alignment explanation
Indices: 9230308--9230363 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9230298 CCAAAATGCA
*
9230308 TCCAAAATTACTCAAAATCAACATTTT
1 TCCAAAATGACTCAAAATCAACATTTT
*
9230335 TCCAAAATGACTCCAAATCAACATTTT
1 TCCAAAATGACTCAAAATCAACATTTT
9230362 TC
1 TC
9230364 TACTTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (27 bp):
TCCAAAATGACTCAAAATCAACATTTT
Found at i:9230708 original size:24 final size:23
Alignment explanation
Indices: 9230681--9230737 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
9230671 AAGTATATTT
* *
9230681 TTTTGAAAAGTCTCTGAATATCTA
1 TTTTCAAAA-TCTATGAATATCTA
* *
9230705 TTTTCAAAATCTATGGATATCTCT
1 TTTTCAAAATCTATGAATATCT-A
9230729 TTTTCAAAA
1 TTTTCAAAA
9230738 CCGCAGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTTCAAAATCTATGAATATCTA
Found at i:9234442 original size:30 final size:30
Alignment explanation
Indices: 9234408--9234466 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
9234398 TAAAAGGTGA
9234408 CATAAAAG-TAAA-ACATATGAAAATTAAATG
1 CATAAAAGATAAACACA-A-GAAAATTAAATG
9234438 CATAAAAGATAAACTACAAGAAAATTAAA
1 CATAAAAGATAAAC-ACAAGAAAATTAAA
9234467 AAGCATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.31
31 14 0.54
32 1 0.04
33 3 0.12
ACGTcount: A:0.63, C:0.08, G:0.08, T:0.20
Consensus pattern (30 bp):
CATAAAAGATAAACACAAGAAAATTAAATG
Found at i:9235340 original size:44 final size:43
Alignment explanation
Indices: 9235278--9235362 Score: 143
Period size: 44 Copynumber: 2.0 Consensus size: 43
9235268 TAATGTGAAG
*
9235278 TAAAAAAAAAATCATGCTAAAGAAAACCATTGAATGAAAACCT
1 TAAAAAAAAAATCATGCTAAAAAAAACCATTGAATGAAAACCT
*
9235321 TAAAAAAAATAATCATGCTAAAAAAAACCATTGAATGCAAAC
1 TAAAAAAAA-AATCATGCTAAAAAAAACCATTGAATGAAAAC
9235363 TAACAGCAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.59, C:0.14, G:0.08, T:0.19
Consensus pattern (43 bp):
TAAAAAAAAAATCATGCTAAAAAAAACCATTGAATGAAAACCT
Found at i:9245220 original size:176 final size:175
Alignment explanation
Indices: 9244907--9245400 Score: 769
Period size: 176 Copynumber: 2.8 Consensus size: 175
9244897 TAAATATTAC
* * * * * *
9244907 TAAAATATTAAAGTTAAGTA-TATCAATATGCTATCAAATATT-AAA-ATATAGTATATAAATTT
1 TAAAATATTAAAATTAA-AACTACCATTATGATATCAAAAATTAAAACATATAGTATA-AAATTT
* * * * * *
9244969 ATAGATAACATACTTGTTATAATATCACAAAAACATTAAAATCAAATATATCATCATGCTATAAA
64 ATAGATAACATGCTTATTTTAATATTAC-AAAATATTAAAAT--AA-A-ATCATCATGCTATCAA
9245034 AAATTAAAACATATAGCATAGAAAGTTAAACAACATGCTCTTTTTAATATCA
124 AAATTAAAACATATAGCATAGAAAGTTAAACAACATGCTCTTTTTAATATCA
9245086 TAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATAAAAGTTTA
1 TAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATAAAA-TTTA
9245151 TAGATAACATGCTTATTTTAATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTA
65 TAGATAACATGCTTATTTTAATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTA
*
9245216 AAACATATAGCATAGAAAGTTAAACAACATGCTTTTTTTAATATCA
130 AAACATATAGCATAGAAAGTTAAACAACATGCTCTTTTTAATATCA
9245262 TAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATAAAAATTTA
1 TAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTAT-AAAATTTA
9245327 TAGATAACATGCTTATTTTAATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTA
65 TAGATAACATGCTTATTTTAATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTA
9245392 AAACATATA
130 AAACATATA
9245401 ATATATAAAT
Statistics
Matches: 297, Mismatches: 13, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
176 200 0.67
177 5 0.02
178 3 0.01
179 34 0.11
180 18 0.06
181 37 0.12
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (175 bp):
TAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATAAAATTTAT
AGATAACATGCTTATTTTAATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAA
AACATATAGCATAGAAAGTTAAACAACATGCTCTTTTTAATATCA
Found at i:9245416 original size:87 final size:87
Alignment explanation
Indices: 9244899--9245488 Score: 615
Period size: 87 Copynumber: 6.6 Consensus size: 87
9244889 ATGCGAAATA
* *
9244899 AATATTACTAAAATATTAAAGTTAAGTATATCAAT-ATGCTATCAAATATT-AAA-ATATAGTAT
1 AATATTAC-AAAATATTAAA-ATAA--A-ATC-ATCATGCTATCAAAAATTAAAACATATAGTAT
* * * *
9244961 ATAAATTTATAGATAACATACTTGTTAT
60 AGAAATTTATAGATAACATGCTTATTTT
* * * *
9244989 AATATCACAAAAACATTAAAATCAAATATATCATCATGCTATAAAAAATTAAAACATATAGCATA
1 AATATTAC-AAAATATTAAAAT--AA-A-ATCATCATGCTATCAAAAATTAAAACATATAGTATA
* *
9245054 GAAAGTTA-A-ACAACATGCTCT-TTTT
61 GAAATTTATAGATAACATGCT-TATTTT
* * * *
9245079 AATATCATAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATA-
1 AATATTACAAAATATTAAAA-TAAAA-T--CATCATGCTATCAAAAATTAAAACATATAGTATAG
9245143 AAAGTTTATAGATAACATGCTTATTTT
62 AAA-TTTATAGATAACATGCTTATTTT
* *
9245170 AATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAAAACATATAGCATAGAAAG
1 AATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAAAACATATAGTATAGAAAT
* *
9245235 TTA-A-ACAACATGCTTTTTTT
66 TTATAGATAACATGCTTATTTT
* * * * *
9245255 AATATCATAAAATATTAAAATTAAAACTACCATTATGATATCAAAAATTAAAACATATAGTATAA
1 AATATTACAAAATATTAAAA-TAAAA-T--CATCATGCTATCAAAAATTAAAACATATAGTATAG
9245320 AAATTTATAGATAACATGCTTATTTT
62 AAATTTATAGATAACATGCTTATTTT
* *
9245346 AATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAAAACATATAATATATAAAT
1 AATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAAAACATATAGTATAGAAAT
*
9245411 TTATAGATAGCATGCTTATTTT
66 TTATAGATAACATGCTTATTTT
* *
9245433 AAAATTACAAAAATATTAAAATAAATAAATCATCATGTTAT-AAAAATTAAAACATA
1 AATATTAC-AAAATATTAAAAT--A-AAATCATCATGCTATCAAAAATTAAAACATA
9245489 AATCAACATT
Statistics
Matches: 429, Mismatches: 46, Indels: 50
0.82 0.09 0.10
Matches are distributed among these distances:
85 32 0.07
86 7 0.02
87 100 0.23
88 21 0.05
89 86 0.20
90 84 0.20
91 84 0.20
92 15 0.03
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.34
Consensus pattern (87 bp):
AATATTACAAAATATTAAAATAAAATCATCATGCTATCAAAAATTAAAACATATAGTATAGAAAT
TTATAGATAACATGCTTATTTT
Found at i:9246942 original size:17 final size:17
Alignment explanation
Indices: 9246906--9246938 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9246896 CTAAAGTTTG
*
9246906 AAAGCATAAAGAAAACT
1 AAAGAATAAAGAAAACT
9246923 AAAGAATAAA-AAAACT
1 AAAGAATAAAGAAAACT
9246939 TAAAAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAGAATAAAGAAAACT
Found at i:9248244 original size:14 final size:14
Alignment explanation
Indices: 9248221--9248256 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9248211 AAGGAGAAAG
9248221 AAAAAT-AAAAGAA
1 AAAAATGAAAAGAA
9248234 AAAAATGAAAAGAA
1 AAAAATGAAAAGAA
9248248 AAAATATGA
1 AAAA-ATGA
9248257 TACAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 4 0.19
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (14 bp):
AAAAATGAAAAGAA
Found at i:9248250 original size:15 final size:15
Alignment explanation
Indices: 9248215--9248256 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
9248205 GTATAAAAGG
9248215 AGAAAGAAAAAT-AAA
1 AGAAA-AAAAATGAAA
9248230 AG-AAAAAAATGAAA
1 AGAAAAAAAATGAAA
*
9248244 AGAAAAAATATGA
1 AGAAAAAAAATGA
9248257 TACAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 6 0.25
14 7 0.29
15 11 0.46
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AGAAAAAAAATGAAA
Found at i:9248451 original size:3 final size:3
Alignment explanation
Indices: 9248443--9248478 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
9248433 GATCAATTTA
9248443 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
9248479 ATTTATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9248749 original size:38 final size:37
Alignment explanation
Indices: 9248664--9248751 Score: 104
Period size: 39 Copynumber: 2.3 Consensus size: 37
9248654 ATTTATTTTT
*
9248664 ATGAAAAATGATTATAATTTAAATATTTATGCCTTTTG
1 ATGAAAAA-GATTATAATTTAAATATTTATGCCTTTCG
* * *
9248702 GTGGAAAAAAATTATAATTTAAGATAATTTATGTCTTTCG
1 AT-GAAAAAGATTATAATTTAA-AT-ATTTATGCCTTTCG
9248742 ATGAAAAAGA
1 ATGAAAAAGA
9248752 GAGAAAGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
38 13 0.32
39 15 0.37
40 13 0.32
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (37 bp):
ATGAAAAAGATTATAATTTAAATATTTATGCCTTTCG
Found at i:9262029 original size:18 final size:17
Alignment explanation
Indices: 9262003--9262036 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9261993 ACCAAAAGGT
9262003 AAAAAAAAAAAAAAGAA
1 AAAAAAAAAAAAAAGAA
9262020 AAAAAGAAAAAAAAAGA
1 AAAAA-AAAAAAAAAGA
9262037 GACTCCCCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAA
Found at i:9263636 original size:32 final size:33
Alignment explanation
Indices: 9263581--9263642 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
9263571 TCAATCTTTA
9263581 GATTAAGAAAAAAAAAATAAAAATA-AATAATT
1 GATTAAGAAAAAAAAAATAAAAATAGAATAATT
* *
9263613 GATTAAGATAAGATAAAAT-AAAATAGAATA
1 GATTAAGA-AAAAAAAAATAAAAATAGAATA
9263643 CACAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (33 bp):
GATTAAGAAAAAAAAAATAAAAATAGAATAATT
Found at i:9263862 original size:1 final size:1
Alignment explanation
Indices: 9263858--9263884 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
9263848 CATTTTTTAT
9263858 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
9263885 CTTAGGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9264189 original size:16 final size:16
Alignment explanation
Indices: 9264168--9264198 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9264158 TGATTTGAAC
9264168 CTAAAATAACTCAAAT
1 CTAAAATAACTCAAAT
*
9264184 CTAAAATGACTCAAA
1 CTAAAATAACTCAAA
9264199 CTTGAATGAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.19, G:0.03, T:0.23
Consensus pattern (16 bp):
CTAAAATAACTCAAAT
Found at i:9265411 original size:21 final size:20
Alignment explanation
Indices: 9265387--9265431 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
9265377 ACCAAATTAG
9265387 CTTCAACCTTTATAATTTTAT
1 CTTCAACCTTT-TAATTTTAT
** *
9265408 CTTCATGCTTTTCATTTTAT
1 CTTCAACCTTTTAATTTTAT
9265428 CTTC
1 CTTC
9265432 TATTTATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.20, C:0.22, G:0.02, T:0.56
Consensus pattern (20 bp):
CTTCAACCTTTTAATTTTAT
Found at i:9268695 original size:24 final size:23
Alignment explanation
Indices: 9268643--9268734 Score: 71
Period size: 24 Copynumber: 3.8 Consensus size: 23
9268633 TTTTTTTTAT
*
9268643 TTGTATAAATAGAACAAATTTGT-AT
1 TTGTATAAAT-GAAC-AA-TTGTCAC
* *
9268668 TTGTGTAAATGATACAATT-TAGAC
1 TTGTATAAATGA-ACAATTGT-CAC
*
9268692 TTGTATATATGAACAAATTGTCAC
1 TTGTATAAATGAAC-AATTGTCAC
9268716 TTGTATAAATGAAACAATT
1 TTGTATAAATG-AACAATT
9268735 ATAAATTGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
22 1 0.02
23 4 0.07
24 35 0.64
25 15 0.27
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (23 bp):
TTGTATAAATGAACAATTGTCAC
Found at i:9268743 original size:24 final size:23
Alignment explanation
Indices: 9268668--9268745 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
9268658 AAATTTGTAT
* *
9268668 TTGTGTAAATGATACAATTTAGAC
1 TTGTATAAATGAAACAATTTA-AC
* *
9268692 TTGTATATATG-AACAAATTGTCAC
1 TTGTATAAATGAAAC-AATT-TAAC
*
9268716 TTGTATAAATGAAACAATTATAAA
1 TTGTATAAATGAAACAATT-TAAC
9268740 TTGTAT
1 TTGTAT
9268746 TACTGAAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 2 0.05
24 37 0.86
25 4 0.09
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (23 bp):
TTGTATAAATGAAACAATTTAAC
Found at i:9268744 original size:48 final size:49
Alignment explanation
Indices: 9268643--9268745 Score: 122
Period size: 48 Copynumber: 2.1 Consensus size: 49
9268633 TTTTTTTTAT
* * * *
9268643 TTGTATAAATAGAACAAATTTGTATTTGTGTAAATGATACAATTTAGAC
1 TTGTATAAATAGAACAAATTTGTACTTGTATAAATGAAACAATTTAGAA
*
9268692 TTGTATATAT-GAACAAA-TTGTCACTTGTATAAATGAAACAATTATA-AA
1 TTGTATAAATAGAACAAATTTGT-ACTTGTATAAATGAAACAATT-TAGAA
9268740 TTGTAT
1 TTGTAT
9268746 TACTGAAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
47 4 0.09
48 32 0.68
49 11 0.23
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.39
Consensus pattern (49 bp):
TTGTATAAATAGAACAAATTTGTACTTGTATAAATGAAACAATTTAGAA
Found at i:9269625 original size:12 final size:12
Alignment explanation
Indices: 9269608--9269632 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9269598 TATGTAAGTA
9269608 TCAATCTTTTGT
1 TCAATCTTTTGT
9269620 TCAATCTTTTGT
1 TCAATCTTTTGT
9269632 T
1 T
9269633 TATCCTTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TCAATCTTTTGT
Found at i:9270365 original size:24 final size:23
Alignment explanation
Indices: 9270340--9270395 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
9270330 AGCCCAAAAT
9270340 TTTTAA-TTATAATTTAATTTTGA
1 TTTTAATTTA-AATTTAATTTTGA
* *
9270363 TTTCAATCTTAAATTTGATTTTGA
1 TTTTAAT-TTAAATTTAATTTTGA
9270387 TTTTAATTT
1 TTTTAATTT
9270396 TTTTATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 7 0.25
24 18 0.64
25 3 0.11
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTTAATTTAAATTTAATTTTGA
Found at i:9271310 original size:2 final size:2
Alignment explanation
Indices: 9271303--9271336 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9271293 CTTTTGCATG
* *
9271303 AT AT AT AT AT AT AT AT AT AT AC AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9271337 TTTTTCCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9271476 original size:21 final size:21
Alignment explanation
Indices: 9271446--9271500 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
9271436 ATAATTAATA
*
9271446 TATTTACATGATACTA-TATGAT
1 TATTTGCATGATA-TAGTAT-AT
9271468 TA-TTGCATGATATAGTATAT
1 TATTTGCATGATATAGTATAT
9271488 TATTTGCATGATA
1 TATTTGCATGATA
9271501 ATTTTAGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.20
21 22 0.73
22 2 0.07
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (21 bp):
TATTTGCATGATATAGTATAT
Found at i:9271752 original size:16 final size:17
Alignment explanation
Indices: 9271718--9271762 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
9271708 ATATTGAAAG
*
9271718 ATATTTTTAAAAATAAA
1 ATATTTTCAAAAATAAA
*
9271735 ATATTTTCACAAATAAA
1 ATATTTTCAAAAATAAA
*
9271752 TAAATTTTCAA
1 -ATATTTTCAA
9271763 TCCTACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTTTCAAAAATAAA
Found at i:9271760 original size:18 final size:17
Alignment explanation
Indices: 9271728--9271761 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9271718 ATATTTTTAA
*
9271728 AAATAAAATATTTTCAC
1 AAATAAAAAATTTTCAC
9271745 AAATAAATAAATTTTCA
1 AAATAAA-AAATTTTCA
9271762 ATCCTACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
AAATAAAAAATTTTCAC
Found at i:9271833 original size:102 final size:103
Alignment explanation
Indices: 9271642--9271852 Score: 239
Period size: 102 Copynumber: 2.1 Consensus size: 103
9271632 AATTTTCTTA
* * * * * **
9271642 AAATAAACAAATTTTTAATTCTACCAACACATTACAGGATAATCTTTGACAGAAAATCTTATTAA
1 AAATAAACAAATTTTCAATCCTACCAAAACATTAAAGGATAATCTTTGACAGAAAATATTACCAA
* *
9271707 CATATTGAAAGATATTTTTAAAAATAAAATATTTTCAC
66 CAAATTGAAAGATATTTCTAAAAATAAAATATTTTCAC
* * *
9271745 AAATAAATAAATTTTCAATCCTACCAAAATATTAAAGG-TAATTTTTGAC-GAAAAATATTACCA
1 AAATAAACAAATTTTCAATCCTACCAAAACATTAAAGGATAATCTTTGACAG-AAAATATTACCA
* * * *
9271808 ACAAATTAGAAA-ATATTTCTGAAAATAAATTATTTTTAT
65 ACAAATT-GAAAGATATTTCTAAAAATAAAATATTTTCAC
9271847 AAATAA
1 AAATAA
9271853 GAGTTTTTTT
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
101 1 0.01
102 53 0.59
103 36 0.40
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.35
Consensus pattern (103 bp):
AAATAAACAAATTTTCAATCCTACCAAAACATTAAAGGATAATCTTTGACAGAAAATATTACCAA
CAAATTGAAAGATATTTCTAAAAATAAAATATTTTCAC
Found at i:9273023 original size:28 final size:31
Alignment explanation
Indices: 9272992--9273058 Score: 104
Period size: 28 Copynumber: 2.3 Consensus size: 31
9272982 TTTTTATTAA
*
9272992 ATTAATTATAATTTATT-ATAA-AAATAA-T
1 ATTAATTATAATTAATTAATAACAAATAATT
9273020 ATTAATTATAATTAATTAATAACAAATAATT
1 ATTAATTATAATTAATTAATAACAAATAATT
9273051 ATTAATTA
1 ATTAATTA
9273059 ACCCATTTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 16 0.46
29 4 0.11
30 6 0.17
31 9 0.26
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (31 bp):
ATTAATTATAATTAATTAATAACAAATAATT
Found at i:9273035 original size:10 final size:10
Alignment explanation
Indices: 9272987--9273037 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
9272977 TTATCTTTTT
9272987 ATTA-AATTA
1 ATTATAATTA
*
9272996 ATTATAATTT
1 ATTATAATTA
*
9273006 ATTATAA-AA
1 ATTATAATTA
*
9273015 ATAAT-ATTA
1 ATTATAATTA
9273024 ATTATAATTA
1 ATTATAATTA
9273034 ATTA
1 ATTA
9273038 ATAACAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 1 0.03
9 13 0.39
10 19 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTATAATTA
Found at i:9273162 original size:28 final size:28
Alignment explanation
Indices: 9273084--9273162 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 28
9273074 ATTATTTATT
* *
9273084 ATTACTTAATAAAAATTTATATTAATAATA
1 ATTAATTAAT-AAAACTTA-ATTAATAATA
* * ** *
9273114 ATTAGTCAATAAAACAAAATTAATCATA
1 ATTAATTAATAAAACTTAATTAATAATA
*
9273142 ATTAATTAATAAAAGTTAATT
1 ATTAATTAATAAAACTTAATT
9273163 GTTAAAAATA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
28 25 0.66
29 5 0.13
30 8 0.21
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (28 bp):
ATTAATTAATAAAACTTAATTAATAATA
Found at i:9277208 original size:3 final size:3
Alignment explanation
Indices: 9277200--9277225 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9277190 ACTTACCAAA
9277200 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
9277226 ACAAAATAAA
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:9282454 original size:16 final size:16
Alignment explanation
Indices: 9282433--9282464 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9282423 AAAATAAATA
9282433 TTAATATTATAATTTT
1 TTAATATTATAATTTT
*
9282449 TTAATATTTTAATTTT
1 TTAATATTATAATTTT
9282465 AAATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTAATATTATAATTTT
Found at i:9282469 original size:15 final size:16
Alignment explanation
Indices: 9282435--9282474 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
9282425 AATAAATATT
* *
9282435 AATATTATAATTTTTT
1 AATATTTTAATTTTTA
9282451 AATATTTTAA-TTTTA
1 AATATTTTAATTTTTA
9282466 AATATTTTA
1 AATATTTTA
9282475 TAGTTCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
AATATTTTAATTTTTA
Found at i:9283121 original size:16 final size:16
Alignment explanation
Indices: 9283014--9283123 Score: 68
Period size: 16 Copynumber: 6.7 Consensus size: 16
9283004 ATAAAGAAAT
*
9283014 ATAAATAATTTT-ATT
1 ATAAATAATTTTAATA
* *
9283029 TTAAATATTTTTTATATTA
1 ATAAATA-ATTTTA-A-TA
9283048 ATATAAT-ATTTTAATA
1 ATA-AATAATTTTAATA
*
9283064 TTAAAT-ATTATTAA-A
1 ATAAATAATT-TTAATA
*
9283079 ATATAATTATTCTTGAATA
1 ATA-AATAATT-TT-AATA
9283098 AT-AATAATTTTAATA
1 ATAAATAATTTTAATA
9283113 ATAAATAATTT
1 ATAAATAATTT
9283124 CAATCTACTT
Statistics
Matches: 75, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
15 21 0.28
16 25 0.33
17 12 0.16
18 8 0.11
19 6 0.08
20 3 0.04
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
ATAAATAATTTTAATA
Found at i:9283282 original size:16 final size:16
Alignment explanation
Indices: 9283258--9283304 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 16
9283248 ACTCTCAAAT
9283258 TTTTC-AGAAAATATA
1 TTTTCTAGAAAATATA
*
9283273 TTTTCTAGAAAACAT-
1 TTTTCTAGAAAATATA
9283288 TTTT-TA-AAAATA-A
1 TTTTCTAGAAAATATA
9283301 TTTT
1 TTTT
9283305 ATGTGAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 9 0.32
14 2 0.07
15 9 0.32
16 8 0.29
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (16 bp):
TTTTCTAGAAAATATA
Found at i:9283303 original size:14 final size:15
Alignment explanation
Indices: 9283255--9283304 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
9283245 TAAACTCTCA
*
9283255 AATTTTTCAGAAAAT
1 AATTTTTTAGAAAAT
*
9283270 ATATTTTCTAGAAAA-
1 A-ATTTTTTAGAAAAT
*
9283285 CATTTTTTA-AAAAT
1 AATTTTTTAGAAAAT
9283299 AATTTT
1 AATTTT
9283305 ATGTGAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 4 0.14
14 12 0.43
15 1 0.04
16 11 0.39
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (15 bp):
AATTTTTTAGAAAAT
Found at i:9286226 original size:2 final size:2
Alignment explanation
Indices: 9286219--9286249 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9286209 TGAATGAACA
*
9286219 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9286250 AGAGGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9294276 original size:10 final size:10
Alignment explanation
Indices: 9294234--9294279 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
9294224 AAAAAGAACA
*
9294234 AGAGAGTGGG
1 AGAGAGAGGG
*
9294244 AAGAAAGAGGG
1 -AGAGAGAGGG
*
9294255 ACAGAGAGGG
1 AGAGAGAGGG
9294265 AGAGAGAGGG
1 AGAGAGAGGG
9294275 AGAGA
1 AGAGA
9294280 ACTAACCAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.43, C:0.02, G:0.52, T:0.02
Consensus pattern (10 bp):
AGAGAGAGGG
Found at i:9295545 original size:2 final size:2
Alignment explanation
Indices: 9295538--9295585 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
9295528 AACATGACCA
9295538 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
9295580 CC TC TC
1 TC TC TC
9295586 ACACACACAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:9299420 original size:13 final size:13
Alignment explanation
Indices: 9299402--9299429 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9299392 TTAACTCGCT
9299402 TTTTACTCTTTGC
1 TTTTACTCTTTGC
9299415 TTTTACTCTTTGC
1 TTTTACTCTTTGC
9299428 TT
1 TT
9299430 CCAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTACTCTTTGC
Found at i:9299563 original size:7 final size:8
Alignment explanation
Indices: 9299547--9299571 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
9299537 TCCTTCAAAG
9299547 TTATTTTT
1 TTATTTTT
9299555 TTATTTTT
1 TTATTTTT
9299563 TTATTTTT
1 TTATTTTT
9299571 T
1 T
9299572 CACCCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTATTTTT
Found at i:9302574 original size:14 final size:14
Alignment explanation
Indices: 9302552--9302594 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
9302542 GTTCGATCCA
9302552 AAAAAAAAGAAAAG
1 AAAAAAAAGAAAAG
* *
9302566 AAAAGAAAGAAAGG
1 AAAAAAAAGAAAAG
9302580 AAATTAAAAAGAAAA
1 AAA--AAAAAGAAAA
9302595 AGTAGAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 15 0.65
16 8 0.35
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (14 bp):
AAAAAAAAGAAAAG
Found at i:9304387 original size:189 final size:189
Alignment explanation
Indices: 9304060--9304444 Score: 594
Period size: 189 Copynumber: 2.0 Consensus size: 189
9304050 ATGTTTTATA
* * *
9304060 TAAAATTATGTGTCATAATTTATGTCGATACAAAAATATAAAATATATTTTTTTATTTTGTTTAC
1 TAAAATTATGTGTCATAATTTATGTCGATACAAAAATATAAAATATATTTCTCTATTTTGTTAAC
* * * ** *
9304125 CACTATGTTTGCTAAAATTTTAAATTGTATCACCTTCGTATCTCTCAATTGTATTATTTTTGTGT
66 CACTATGTTTGCTAAAATTTGAAATTGTATCACCATCGTATCTCTCAATTATATTATTTTCATAT
* *
9304190 CATGTTATCGTGTAGTGTTTTAAATTATCAAGTCTACTATTGTCATTGAAATTTTCATC
131 CATGTTATCGTGTAGTATTTTAAATTATCAAATCTACTATTGTCATTGAAATTTTCATC
*
9304249 TAAAAGTTATGTGTCATAATTTGTGTCGATACAAAAATATAAAATATA-TTCTCTATTTTGTTAA
1 TAAAA-TTATGTGTCATAATTTATGTCGATACAAAAATATAAAATATATTTCTCTATTTTGTTAA
9304313 CCA-TGATGTTTGCTAAAATTTGAAATTGTATCACCATCGTATCTCTCAATTATATTATTTTCAT
65 CCACT-ATGTTTGCTAAAATTTGAAATTGTATCACCATCGTATCTCTCAATTATATTATTTTCAT
* * * *
9304377 ATCGTGTTATCGTGTCGTATTTTAAATTATCAAATCTATTATTGTCGTTGAAATTTTCATC
129 ATCATGTTATCGTGTAGTATTTTAAATTATCAAATCTACTATTGTCATTGAAATTTTCATC
9304438 TAAAATT
1 TAAAATT
9304445 TTCATCAATC
Statistics
Matches: 178, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
188 3 0.02
189 134 0.75
190 41 0.23
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (189 bp):
TAAAATTATGTGTCATAATTTATGTCGATACAAAAATATAAAATATATTTCTCTATTTTGTTAAC
CACTATGTTTGCTAAAATTTGAAATTGTATCACCATCGTATCTCTCAATTATATTATTTTCATAT
CATGTTATCGTGTAGTATTTTAAATTATCAAATCTACTATTGTCATTGAAATTTTCATC
Found at i:9308852 original size:17 final size:17
Alignment explanation
Indices: 9308830--9308864 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
9308820 CACATTATAA
9308830 TTGATACATATCATTTC
1 TTGATACATATCATTTC
*
9308847 TTGATACTTATCATTTC
1 TTGATACATATCATTTC
9308864 T
1 T
9308865 ATTTATTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (17 bp):
TTGATACATATCATTTC
Found at i:9309101 original size:12 final size:12
Alignment explanation
Indices: 9309084--9309109 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9309074 TATTTTTAAT
9309084 ATATTTTATTTG
1 ATATTTTATTTG
9309096 ATATTTTATTTG
1 ATATTTTATTTG
9309108 AT
1 AT
9309110 GTCTTTTTTT
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:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
ATATTTTATTTG
Found at i:9313309 original size:66 final size:66
Alignment explanation
Indices: 9313165--9313416 Score: 233
Period size: 66 Copynumber: 3.8 Consensus size: 66
9313155 ACTTGAATTT
* * * * *
9313165 AAAGATTTACAATTTGAAAATTTCAAATATTCGCGACTGAATTTTAAAAAATTCTCATATAAAAA
1 AAAGATTCACAATTTGAAAATTTCAAAGATTCGCAACTGAAATTT-AGAAATTCTCATATAAAAA
9313230 TTA
65 -TA
* * * *
9313233 AAAAATTCACAATTTGAAAA-TTCAAAGATTCGCAAATGAAATTTAGAAATACTCATTTAAAAAT
1 AAAGATTCACAATTTGAAAATTTCAAAGATTCGCAACTGAAATTTAGAAATTCTCATATAAAAAT
9313297 A
66 A
* * * * * * * *
9313298 CAAAGATTCAC-ATTTGAAAATTTTAAAGATTTGTAACTAAAATTTAGAGATTTTCATCTAAAAT
1 -AAAGATTCACAATTTGAAAATTTCAAAGATTCGCAACTGAAATTTAGAAATTCTCATATAAAAA
*
9313362 TT
65 TA
* * * * *
9313364 AAAGATTCGCAA-TTGAAAAATTCAAGGATTTGCAACT-AAATGTTAGAGATTCT
1 AAAGATTCACAATTTGAAAATTTCAAAGATTCGCAACTGAAAT-TTAGAAATTCT
9313417 TATCTAAATA
Statistics
Matches: 153, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
64 4 0.03
65 51 0.33
66 60 0.39
67 20 0.13
68 18 0.12
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (66 bp):
AAAGATTCACAATTTGAAAATTTCAAAGATTCGCAACTGAAATTTAGAAATTCTCATATAAAAAT
A
Found at i:9313348 original size:21 final size:21
Alignment explanation
Indices: 9313314--9313370 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
9313304 TTCACATTTG
9313314 AAAATTTTAAAGATTTGT-AACT
1 AAAA-TTTAAAGATTT-TCAACT
* *
9313336 AAAATTTAGAGATTTTCATCT
1 AAAATTTAAAGATTTTCAACT
9313357 AAAATTTAAAGATT
1 AAAATTTAAAGATT
9313371 CGCAATTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 26 0.84
22 4 0.13
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAATTTAAAGATTTTCAACT
Found at i:9313369 original size:65 final size:64
Alignment explanation
Indices: 9313160--9313459 Score: 210
Period size: 66 Copynumber: 4.5 Consensus size: 64
9313150 AACAAACTTG
* * * * * * * * * *
9313160 AATTTAAAGATTTACAATTTGAAAATTTCAAATATTCGCGACTGAATTTTAAAAAATTCTCATAT
1 AATTCAAAGATTCAC-ATTTGAAAATTTCAAAGATTTGCAACT-AAATTT-AGAGATTTTCATCT
9313225 AAA
63 -AA
* * * * * ** *
9313228 AATTAAAAAATTCACAATTTGAAAA-TTCAAAGATTCGCAAATGAAATTTAGAAATACTCATTTA
1 AATTCAAAGATTCAC-ATTTGAAAATTTCAAAGATTTGCAACT-AAATTTAGAGATTTTCATCT-
9313292 AA
63 AA
* * *
9313294 AATACAAAGATTCACATTTGAAAATTTTAAAGATTTGTAACTAAAATTTAGAGATTTTCATCTAA
1 AATTCAAAGATTCACATTTGAAAATTTCAAAGATTTGCAACT-AAATTTAGAGATTTTCATCTAA
* * * * *
9313359 AATTTAAAGATTCGCAATTGAAAAATTCAAGGATTTGCAACTAAATGTTAGAGATTCTT-ATCTA
1 AATTCAAAGATTCACATTTGAAAATTTCAAAGATTTGCAACTAAAT-TTAGAGATT-TTCATCTA
9313423 A
64 A
***
9313424 ATATTCAAAGATTTGTATTT-AAAATTTTCAAAGATT
1 A-ATTCAAAGATTCACATTTGAAAA-TTTCAAAGATT
9313460 CACATTTAAA
Statistics
Matches: 191, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
64 4 0.02
65 65 0.34
66 80 0.42
67 20 0.10
68 22 0.12
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (64 bp):
AATTCAAAGATTCACATTTGAAAATTTCAAAGATTTGCAACTAAATTTAGAGATTTTCATCTAA
Found at i:9313453 original size:23 final size:23
Alignment explanation
Indices: 9313422--9313513 Score: 73
Period size: 23 Copynumber: 4.1 Consensus size: 23
9313412 ATTCTTATCT
* ***
9313422 AAATATTCAAAGATTTGTATTTA
1 AAATTTTCAAAGATTCACATTTA
9313445 AAATTTTCAAAGATTCACATTTA
1 AAATTTTCAAAGATTCACATTTA
* *
9313468 AAA-TTT-AAATATTTACATTTGA
1 AAATTTTCAAAGATTCACATTT-A
* * *
9313490 AAATTTT-AGAGTTTCGCATTTA
1 AAATTTTCAAAGATTCACATTTA
9313512 AA
1 AA
9313514 GAATACAAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
21 12 0.21
22 10 0.18
23 34 0.61
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (23 bp):
AAATTTTCAAAGATTCACATTTA
Found at i:9313610 original size:23 final size:23
Alignment explanation
Indices: 9313535--9313616 Score: 85
Period size: 23 Copynumber: 3.6 Consensus size: 23
9313525 ATTCTTGTCG
*
9313535 AAGGCTTTGAAAAT-AATACTCA
1 AAGGTTTTGAAAATGAATACTCA
* * *
9313557 AAGGTTTTAAAAATGAAAACCCA
1 AAGGTTTTGAAAATGAATACTCA
* * *
9313580 GAGATTTTGAAAATGATTACTCA
1 AAGGTTTTGAAAATGAATACTCA
*
9313603 AAGGTTTTTAAAAT
1 AAGGTTTTGAAAAT
9313617 AATTACCTAG
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
22 12 0.26
23 34 0.74
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (23 bp):
AAGGTTTTGAAAATGAATACTCA
Done.