Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 29 of 402
Found at i:6431340 original size:87 final size:87
Alignment explanation
Indices: 6431204--6431406 Score: 286
Period size: 87 Copynumber: 2.3 Consensus size: 87
6431194 AGTTTTTTAG
* * * *
6431204 CCTCTGATTAGAGGAGCTTTGTTTT-ATTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTA
1 CCTCTTATTAGAGGAGCTTTGTTTTGTTTTTCAAAGGCGTTGAGCCTCTGATTAGAGGAGCCTTA
6431268 TTCA-TTTTCAAAGTCGTTGAA
66 TTCATTTTTCAAAGTCGTTGAA
* *
6431289 CCTCTTATTAGAGAAGCTTTATTTATGTTTTTCAAAGGCGTTGAGCCTCTGATTAGAGGAGCCTT
1 CCTCTTATTAGAGGAGCTTTGTTT-TGTTTTTCAAAGGCGTTGAGCCTCTGATTAGAGGAGCCTT
* *
6431354 ATTTATTTTTCAAAGTCGTTGAG
65 ATTCATTTTTCAAAGTCGTTGAA
6431377 CCT-TTAATTAGAGGAGCTTTGTTTTTGTTT
1 CCTCTT-ATTAGAGGAGCTTTG-TTTTGTTT
6431407 ATAATCGTTG
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
85 21 0.20
86 1 0.01
87 41 0.40
88 37 0.36
89 3 0.03
ACGTcount: A:0.23, C:0.14, G:0.21, T:0.42
Consensus pattern (87 bp):
CCTCTTATTAGAGGAGCTTTGTTTTGTTTTTCAAAGGCGTTGAGCCTCTGATTAGAGGAGCCTTA
TTCATTTTTCAAAGTCGTTGAA
Found at i:6431635 original size:7 final size:7
Alignment explanation
Indices: 6431621--6431672 Score: 56
Period size: 7 Copynumber: 7.6 Consensus size: 7
6431611 CCATTTTGTG
6431621 TTTT-TA
1 TTTTATA
6431627 TTTTATA
1 TTTTATA
6431634 TTTTATA
1 TTTTATA
6431641 TTTT-TA
1 TTTTATA
6431647 TTTT-TA
1 TTTTATA
*
6431653 TTTCATA
1 TTTTATA
6431660 TTATATATA
1 TT-T-TATA
6431669 TTTT
1 TTTT
6431673 TCTCTTTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
6 15 0.38
7 18 0.45
8 2 0.05
9 5 0.12
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTATA
Found at i:6431648 original size:6 final size:6
Alignment explanation
Indices: 6431621--6431655 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
6431611 CCATTTTGTG
6431621 TTTTTA TTTTATA TTTTATA TTTTTA TTTTTA TTT
1 TTTTTA TTTT-TA TTTT-TA TTTTTA TTTTTA TTT
6431656 CATATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 15 0.54
7 13 0.46
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:6431651 original size:26 final size:26
Alignment explanation
Indices: 6431621--6431709 Score: 81
Period size: 26 Copynumber: 3.3 Consensus size: 26
6431611 CCATTTTGTG
6431621 TTTTTATTTTATATTTTATATTTTTA
1 TTTTTATTTTATATTTTATATTTTTA
* *
6431647 TTTTTATTTCATATTATATATATTTTTC
1 TTTTTATTTTATATT-T-TATATTTTTA
* * * * *
6431675 TCTTT-CTTTGTATCTTATATATTTA
1 TTTTTATTTTATATTTTATATTTTTA
6431700 TTATTTATTT
1 TT-TTTATTT
6431710 ATTATCACTA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
25 9 0.19
26 18 0.38
27 8 0.17
28 13 0.27
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTTTATTTTATATTTTATATTTTTA
Found at i:6431783 original size:42 final size:43
Alignment explanation
Indices: 6431755--6431836 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 43
6431745 TTTTATGTTA
6431755 ATATATATTTATTATTACTTAACTATTTA-TATATTATTATAT
1 ATATATATTTATTATTACTTAACTATTTATTATATTATTATAT
* *
6431797 ATATATATTTATTATTATTTATCTATTTA-TATATTATTAT
1 ATATATATTTATTATTACTTAACTATTTATTATATTATTAT
6431837 TCATCTATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (43 bp):
ATATATATTTATTATTACTTAACTATTTATTATATTATTATAT
Found at i:6431799 original size:14 final size:14
Alignment explanation
Indices: 6431782--6431869 Score: 60
Period size: 14 Copynumber: 6.2 Consensus size: 14
6431772 CTTAACTATT
6431782 TATATATTATTATA
1 TATATATTATTATA
6431796 TATATA-TATT-TA
1 TATATATTATTATA
*
6431808 T-TATTATTTATCTATT
1 TATA-TA-TTAT-TATA
6431824 TATATATTATTAT-
1 TATATATTATTATA
*
6431837 TCATCTATTATTAT-
1 T-ATATATTATTATA
*
6431851 TATTTATCTACTTATA
1 TATATAT-TA-TTATA
6431867 TAT
1 TAT
6431870 TATAATTTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 18
0.74 0.04 0.22
Matches are distributed among these distances:
11 2 0.03
12 5 0.08
13 10 0.16
14 26 0.43
15 9 0.15
16 7 0.11
17 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TATATATTATTATA
Found at i:6431851 original size:42 final size:42
Alignment explanation
Indices: 6431763--6431942 Score: 155
Period size: 39 Copynumber: 4.5 Consensus size: 42
6431753 TAATATATAT
* * * *
6431763 TTATTATTACTTAACTATTTATATATTATTATATATATA-TA
1 TTATTATTATTTATCTATTTATATATTATTATTTATCTATTA
*
6431804 TTTATTATTATTTATCTATTTATATATTATTATTCATC---TA
1 -TTATTATTATTTATCTATTTATATATTATTATTTATCTATTA
* *
6431844 TTATTATTATTTATCTACTTATATATTATAATTTATCTATT-
1 TTATTATTATTTATCTATTTATATATTATTATTTATCTATTA
* *
6431885 TT-TT-TTATTTACCT-GTTAGTAT-TT-TTATTTATCTAATTA
1 TTATTATTATTTATCTATTTA-TATATTATTATTTATCT-ATTA
* * *
6431924 TTTTTTTTAATTATCTATT
1 TTATTATTATTTATCTATT
6431943 AACATTTTTT
Statistics
Matches: 115, Mismatches: 14, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
37 9 0.08
38 8 0.07
39 48 0.42
40 6 0.05
41 10 0.09
42 34 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (42 bp):
TTATTATTATTTATCTATTTATATATTATTATTTATCTATTA
Found at i:6431877 original size:22 final size:21
Alignment explanation
Indices: 6431764--6431943 Score: 123
Period size: 22 Copynumber: 8.9 Consensus size: 21
6431754 AATATATATT
* *
6431764 TATTATTACTTAACTATTTATA
1 TATTATTATTTATCTA-TTATA
* * *
6431786 TATTATTATATATATA-TATT
1 TATTATTATTTATCTATTATA
6431806 TATTATTATTTATCTATTTATA
1 TATTATTATTTATCTA-TTATA
*
6431828 TATTATTATTCATC---TAT-
1 TATTATTATTTATCTATTATA
6431845 TATTATTATTTATCTACTTATA
1 TATTATTATTTATCTA-TTATA
*
6431867 TATTATAATTTATCTATT-T-
1 TATTATTATTTATCTATTATA
* *
6431886 T-TT-TTATTTACCTGTTAGTA
1 TATTATTATTTATCTATTA-TA
6431906 T-TT-TTATTTATCTAATTAT-
1 TATTATTATTTATCT-ATTATA
* * *
6431925 TTTTTTTAATTATCTATTA
1 TATTATTATTTATCTATTA
6431944 ACATTTTTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
17 23 0.18
18 5 0.04
19 3 0.02
20 37 0.29
21 17 0.13
22 43 0.34
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTATTATTTATCTATTATA
Found at i:6431930 original size:21 final size:21
Alignment explanation
Indices: 6431881--6431940 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
6431871 ATAATTTATC
* *
6431881 TATTTTTTTTATTTACCT-GT
1 TATTTTTTTTATTTATCTAAT
* *
6431901 TAGTATTTTTATTTATCTAAT
1 TATTTTTTTTATTTATCTAAT
*
6431922 TATTTTTTTTAATTATCTA
1 TATTTTTTTTATTTATCTA
6431941 TTAACATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTTTTTTATTTATCTAAT
Found at i:6431943 original size:20 final size:20
Alignment explanation
Indices: 6431881--6431943 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
6431871 ATAATTTATC
* *
6431881 TATTTTTTTTATTTACCTGT
1 TATTTTTTTTATTTATCTAT
* *
6431901 TAGTATTTTTATTTATCTAAT
1 TATTTTTTTTATTTATCT-AT
*
6431922 TATTTTTTTTAATTATCTAT
1 TATTTTTTTTATTTATCTAT
6431942 TA
1 TA
6431944 ACATTTTTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
20 19 0.54
21 16 0.46
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTTTTTTTATTTATCTAT
Found at i:6432746 original size:7 final size:7
Alignment explanation
Indices: 6432734--6432772 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
6432724 GTTTTCAGAT
6432734 TTTTTTA
1 TTTTTTA
6432741 TTTTTTA
1 TTTTTTA
6432748 TTTTTTA
1 TTTTTTA
*
6432755 TTTATATA
1 TTT-TTTA
6432763 TTTATTTA
1 TTT-TTTA
6432771 TT
1 TT
6432773 ATGATTATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 17 0.59
8 12 0.41
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:6432768 original size:4 final size:4
Alignment explanation
Indices: 6432732--6432801 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
6432722 CTGTTTTCAG
* *
6432732 ATTT TTTT ATTT -TTT ATTT -TTT ATTT ATAT ATTT ATTT A-TT ATGATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT--TT
6432779 ATGATT A-TT A-TT ATTT ATTT ATT
1 AT--TT ATTT ATTT ATTT ATTT ATT
6432802 AGATTAGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
3 15 0.27
4 32 0.57
6 9 0.16
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:6432987 original size:17 final size:17
Alignment explanation
Indices: 6432965--6433002 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
6432955 AAGCATCAAT
*
6432965 TTTCCTTGAAAATAAGC
1 TTTCCTTGAAAAGAAGC
6432982 TTTCCTTGAAAAGAAGC
1 TTTCCTTGAAAAGAAGC
6432999 TTTC
1 TTTC
6433003 TAAAAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (17 bp):
TTTCCTTGAAAAGAAGC
Found at i:6433008 original size:76 final size:78
Alignment explanation
Indices: 6432908--6433061 Score: 215
Period size: 76 Copynumber: 2.0 Consensus size: 78
6432898 ATCAATTTTT
* * *
6432908 CTTGAAAATAAGTTTATCTAAAAAAAATATTTTTGA-AGAAAAGTTGAAAGCATCAATTTTCCTT
1 CTTGAAAAGAAGCTTATCTAAAAAAAATATTTTTGAGA-AAAAGTTAAAAGCATCAATTTTCCTT
*
6432972 GAAAATAAGCTTTC
65 AAAAATAAGCTTTC
* *
6432986 CTTGAAAAGAAGCTT-TCT-AAAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTTCTTA
1 CTTGAAAAGAAGCTTATCTAAAAAAAATATTTTTGAGAAAAAGTTAAAAGCATCAATTTTCCTTA
*
6433049 AAAATAAGTTTTC
66 AAAATAAGCTTTC
6433062 GAAAAATAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 51 0.75
77 4 0.06
78 13 0.19
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (78 bp):
CTTGAAAAGAAGCTTATCTAAAAAAAATATTTTTGAGAAAAAGTTAAAAGCATCAATTTTCCTTA
AAAATAAGCTTTC
Found at i:6433636 original size:18 final size:18
Alignment explanation
Indices: 6433613--6433648 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6433603 TTTCAAAATT
6433613 AAAGAAAACAAAAAGATA
1 AAAGAAAACAAAAAGATA
**
6433631 AAAGAAGCCAAAAAGATA
1 AAAGAAAACAAAAAGATA
6433649 CTATTAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.08, G:0.14, T:0.06
Consensus pattern (18 bp):
AAAGAAAACAAAAAGATA
Found at i:6433706 original size:67 final size:68
Alignment explanation
Indices: 6433584--6433712 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 68
6433574 TATGACAATA
*
6433584 ATTATTAGATAAACATTATTTTCAAAATTAAAGAAAACAAAAAGATAAAAGAAG-CCAAAAAGAT
1 ATTAATAGATAAACATTATTTTCAAAATTAAAGAAAACAAAAAGATAAAAGAAGCCCAAAAAGAT
6433648 ACT
66 ACT
* * * ** *
6433651 ATTAATAGATAAATATTATTTTTAAAATTGAAGAAAATGAAAAGGT-AAAGAAAGCCCAAAAA
1 ATTAATAGATAAACATTATTTTCAAAATTAAAGAAAACAAAAAGATAAAAG-AAGCCCAAAAA
6433713 AATCAATTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 4 0.08
67 42 0.79
68 7 0.13
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (68 bp):
ATTAATAGATAAACATTATTTTCAAAATTAAAGAAAACAAAAAGATAAAAGAAGCCCAAAAAGAT
ACT
Found at i:6438294 original size:16 final size:16
Alignment explanation
Indices: 6438273--6438306 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
6438263 CGACGACTAT
6438273 TTCCCATCTTCCATAC
1 TTCCCATCTTCCATAC
*
6438289 TTCCCATCTTCCGTAC
1 TTCCCATCTTCCATAC
6438305 TT
1 TT
6438307 GTGAGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.15, C:0.41, G:0.03, T:0.41
Consensus pattern (16 bp):
TTCCCATCTTCCATAC
Found at i:6456093 original size:27 final size:27
Alignment explanation
Indices: 6456036--6456095 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6456026 AATTAGAATT
* * * *
6456036 AATATATTTTTATTGAAAAAATATGTT
1 AATATATGTTTATTAAAAAAATATCTA
6456063 AATATATGTTTA-TAAAAAAATTATCTA
1 AATATATGTTTATTAAAAAAA-TATCTA
6456090 AATATA
1 AATATA
6456096 CAAGATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (27 bp):
AATATATGTTTATTAAAAAAATATCTA
Found at i:6462769 original size:39 final size:39
Alignment explanation
Indices: 6462721--6462812 Score: 114
Period size: 39 Copynumber: 2.3 Consensus size: 39
6462711 ATCATGCTAA
*
6462721 AATATTCATGTAAATATACTAATTATTATGCAATAATAAT-
1 AATA-TCATGTAAATATACTAATTATCATGCAATAAT-ATC
* * *
6462761 AATATCATGCAAATATATTAATTATCATGCGATAATATC
1 AATATCATGTAAATATACTAATTATCATGCAATAATATC
6462800 AATGATCATGTAA
1 AAT-ATCATGTAA
6462813 GAATATAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
38 2 0.04
39 31 0.69
40 12 0.27
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (39 bp):
AATATCATGTAAATATACTAATTATCATGCAATAATATC
Found at i:6462770 original size:19 final size:20
Alignment explanation
Indices: 6462740--6462797 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
6462730 GTAAATATAC
*
6462740 TAATTATTATGCAATAATAA
1 TAATTATCATGCAATAATAA
*
6462760 TAA-TATCATGCAA-ATATAT
1 TAATTATCATGCAATA-ATAA
*
6462779 TAATTATCATGCGATAATA
1 TAATTATCATGCAATAATA
6462798 TCAATGATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 1 0.03
19 15 0.47
20 15 0.47
21 1 0.03
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.38
Consensus pattern (20 bp):
TAATTATCATGCAATAATAA
Found at i:6462775 original size:20 final size:20
Alignment explanation
Indices: 6462726--6462790 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
6462716 GCTAAAATAT
* *
6462726 TCATGTAAATATACTAATTA
1 TCATGCAAATATAATAATTA
*
6462746 TTATGC-AATAATAATAA-TA
1 TCATGCAAAT-ATAATAATTA
*
6462765 TCATGCAAATATATTAATTA
1 TCATGCAAATATAATAATTA
6462785 TCATGC
1 TCATGC
6462791 GATAATATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 16 0.43
20 21 0.57
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.38
Consensus pattern (20 bp):
TCATGCAAATATAATAATTA
Found at i:6462798 original size:20 final size:19
Alignment explanation
Indices: 6462740--6462809 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
6462730 GTAAATATAC
* *
6462740 TAATTATTATGCAATAATAA
1 TAATTATCATGC-ATAATAT
*
6462760 TAA-TATCATGCAAATATAT
1 TAATTATCATGCATA-ATAT
6462779 TAATTATCATGCGATAATAT
1 TAATTATCATGC-ATAATAT
* *
6462799 CAATGATCATG
1 TAATTATCATG
6462810 TAAGAATATA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.05
19 13 0.32
20 24 0.59
21 2 0.05
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (19 bp):
TAATTATCATGCATAATAT
Found at i:6463034 original size:19 final size:20
Alignment explanation
Indices: 6462984--6463058 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 20
6462974 GCAATTAGAT
*
6462984 ATCATGCAAAT-ATAATATTA
1 ATCATGCAAATAATAA-ATCA
* * * *
6463004 ATTATACGAATAATAACT-A
1 ATCATGCAAATAATAAATCA
6463023 ATCATGCAAATAA-AAATCA
1 ATCATGCAAATAATAAATCA
*
6463042 ATCATGCAAGTAATAAA
1 ATCATGCAAATAATAAA
6463059 AAAATATAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 3 0.07
19 24 0.56
20 12 0.28
21 4 0.09
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (20 bp):
ATCATGCAAATAATAAATCA
Found at i:6463217 original size:27 final size:26
Alignment explanation
Indices: 6463143--6463218 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 26
6463133 TCTCATTCTT
*
6463143 AAAATTAAAATAATAACAATAATAAAAAC
1 AAAA-TAAAATAA-AA-AAAAATAAAAAC
* *
6463172 AAAGA-AAAATAGAACAAAAATAAAATC
1 AAA-ATAAAATA-AAAAAAAATAAAAAC
6463199 AAAATCAAAATAAAAAAAAA
1 AAAAT-AAAATAAAAAAAAA
6463219 AGAAAGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 13 0.33
29 4 0.10
30 1 0.03
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (26 bp):
AAAATAAAATAAAAAAAAATAAAAAC
Found at i:6463613 original size:20 final size:20
Alignment explanation
Indices: 6463588--6463656 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
6463578 AACTTTTGTT
6463588 AAAAAATTCAACAAAAACCC
1 AAAAAATTCAACAAAAACCC
*
6463608 AAAAAACTC--CTAAAAA-CC
1 AAAAAATTCAAC-AAAAACCC
* *
6463626 AAAATATTCAATC-TAAACCC
1 AAAAAATTCAA-CAAAAACCC
*
6463646 AAAAAAATCAA
1 AAAAAATTCAA
6463657 AATTTTCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
18 10 0.26
19 8 0.21
20 19 0.50
21 1 0.03
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAAATTCAACAAAAACCC
Found at i:6464298 original size:21 final size:21
Alignment explanation
Indices: 6464265--6464314 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
6464255 ATCTACAAGA
*
6464265 TTTTGTTTGGTTTTCTGATTTT
1 TTTTCTTTGGTTTTCT-ATTTT
*
6464287 TTTTCTTT-GTTTTCTTTTTT
1 TTTTCTTTGGTTTTCTATTTT
6464307 TTTTCTTT
1 TTTTCTTT
6464315 TTTGGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 12 0.46
21 7 0.27
22 7 0.27
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.80
Consensus pattern (21 bp):
TTTTCTTTGGTTTTCTATTTT
Found at i:6464358 original size:6 final size:6
Alignment explanation
Indices: 6464338--6464442 Score: 70
Period size: 6 Copynumber: 17.5 Consensus size: 6
6464328 ACTTTGACCA
* ** * * * *
6464338 AAAATT -AAATC AAAATT AAAAAAC AAAATC AAAGTT AAAAATC AAAATC
1 AAAATT AAAATT AAAATT -AAAATT AAAATT AAAATT -AAAATT AAAATT
* * * *
6464387 AAAATT AAAATT AAAATT AAAATT AATACT AAAATC AAAA-T AAAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
6464434 CAAATT AAA
1 AAAATT AAA
6464443 TTTTTTGGGC
Statistics
Matches: 76, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
5 8 0.11
6 60 0.79
7 8 0.11
ACGTcount: A:0.68, C:0.08, G:0.01, T:0.24
Consensus pattern (6 bp):
AAAATT
Found at i:6464366 original size:19 final size:19
Alignment explanation
Indices: 6464344--6464396 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
6464334 ACCAAAAATT
6464344 AAATCAAAATTAAAAAACA
1 AAATCAAAATTAAAAAACA
* *
6464363 AAATCAAAGTTAAAAATCA
1 AAATCAAAATTAAAAAACA
6464382 AAATCAAAATTAAAA
1 AAATCAAAATTAAAA
6464397 TTAAAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (19 bp):
AAATCAAAATTAAAAAACA
Found at i:6464397 original size:18 final size:18
Alignment explanation
Indices: 6464344--6464437 Score: 100
Period size: 18 Copynumber: 5.1 Consensus size: 18
6464334 ACCAAAAATT
*
6464344 AAATCAAAATTAAAAAACA
1 AAATCAAAATT-AAAATCA
*
6464363 AAATCAAAGTTAAAAATCA
1 AAATCAAAATT-AAAATCA
*
6464382 AAATCAAAATTAAAATTA
1 AAATCAAAATTAAAATCA
* *
6464400 AAATTAAAATTAATA-CTA
1 AAATCAAAATTAAAATC-A
*
6464418 AAATCAAAATAAAAATCA
1 AAATCAAAATTAAAATCA
6464436 AA
1 AA
6464438 TTAAATTTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
18 35 0.56
19 28 0.44
ACGTcount: A:0.68, C:0.09, G:0.01, T:0.22
Consensus pattern (18 bp):
AAATCAAAATTAAAATCA
Found at i:6464908 original size:6 final size:6
Alignment explanation
Indices: 6464883--6464936 Score: 58
Period size: 7 Copynumber: 8.7 Consensus size: 6
6464873 GATAAGCCCA
6464883 TTTTA- TTTTA- TTTTATT TTTTAT TTTGTAT TTTGTAT TTTGTAT TTTTAT
1 TTTTAT TTTTAT TTTTA-T TTTTAT TTT-TAT TTT-TAT TTT-TAT TTTTAT
6464933 TTTT
1 TTTT
6464937 TGTATATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.22
6 11 0.24
7 25 0.54
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:6464915 original size:14 final size:14
Alignment explanation
Indices: 6464888--6464951 Score: 69
Period size: 14 Copynumber: 4.5 Consensus size: 14
6464878 GCCCATTTTA
6464888 TTTTA-TTT-TATT
1 TTTTATTTTGTATT
6464900 TTTTATTTTGTATT
1 TTTTATTTTGTATT
*
6464914 TTGTATTTTGTATT
1 TTTTATTTTGTATT
*
6464928 TTTATTTTTTGTATAT
1 TTT-TATTTTGTAT-T
6464944 TATTTATT
1 T-TTTATT
6464952 ATTACTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
12 5 0.12
13 3 0.07
14 19 0.44
15 9 0.21
16 5 0.12
17 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTTATTTTGTATT
Found at i:6464922 original size:21 final size:20
Alignment explanation
Indices: 6464888--6464935 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
6464878 GCCCATTTTA
*
6464888 TTTTA-TTT-TATTTTTTAT
1 TTTTATTTTGTATTTTGTAT
6464906 TTTGTATTTTGTATTTTGTAT
1 TTT-TATTTTGTATTTTGTAT
6464927 TTTTATTTT
1 TTTTATTTT
6464936 TTGTATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 9 0.35
21 12 0.46
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (20 bp):
TTTTATTTTGTATTTTGTAT
Found at i:6465046 original size:14 final size:14
Alignment explanation
Indices: 6464941--6465053 Score: 57
Period size: 14 Copynumber: 7.6 Consensus size: 14
6464931 ATTTTTTGTA
6464941 TATTATTTAT-TAT
1 TATTATTTATCTAT
* *
6464954 TACTATTATTATTTAT
1 TATTA-T-TTATCTAT
* * *
6464970 TAATATATATTTAT
1 TATTATTTATCTAT
**
6464984 TATTATTTATCCGT
1 TATTATTTATCTAT
* *
6464998 TAATATATATACTTTAT
1 T-AT-TATTTA-TCTAT
6465015 TATTATTTATCAATTAT
1 TATTATTTATC---TAT
6465032 TATTATTTATCTAT
1 TATTATTTATCTAT
*
6465046 TAATATTT
1 TATTATTT
6465054 TTTATTTATC
Statistics
Matches: 76, Mismatches: 15, Indels: 17
0.70 0.14 0.16
Matches are distributed among these distances:
13 4 0.05
14 29 0.38
15 12 0.16
16 14 0.18
17 17 0.22
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (14 bp):
TATTATTTATCTAT
Found at i:6465047 original size:31 final size:31
Alignment explanation
Indices: 6464939--6465053 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 31
6464929 TTATTTTTTG
* * *
6464939 TATATTATTTATTATTACTATTATTATTTATTAA
1 TATA-TATTTATTATTA-T-TTATCAATTATTAT
** *
6464973 TATATATTTATTATTATTTATCCGTTAATA-
1 TATATATTTATTATTATTTATCAATTATTAT
6465003 TATATACTTTATTATTATTTATCAATTATTAT
1 TATATA-TTTATTATTATTTATCAATTATTAT
* * *
6465035 TATTTATCTATTAATATTT
1 TATATATTTATTATTATTT
6465054 TTTATTTATC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
30 6 0.09
31 41 0.59
32 6 0.09
33 12 0.17
34 4 0.06
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (31 bp):
TATATATTTATTATTATTTATCAATTATTAT
Found at i:6465058 original size:21 final size:22
Alignment explanation
Indices: 6465034--6465094 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
6465024 TCAATTATTA
6465034 TTATTTATCTATTAATATT-TT
1 TTATTTATCTATTAATATTCTT
*
6465055 TTATTTATCTAATT-ATTTTCTT
1 TTATTTATCT-ATTAATATTCTT
*
6465077 TTAGTTATCTATTAATAT
1 TTATTTATCTATTAATAT
6465095 ATTATCTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (22 bp):
TTATTTATCTATTAATATTCTT
Found at i:6465073 original size:17 final size:18
Alignment explanation
Indices: 6465011--6465071 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
6465001 TATATATACT
6465011 TTATTATTATTTATC-AA
1 TTATTATTATTTATCTAA
6465028 TTATTATTATTTATCTATTA
1 TTATTATTATTTATCTA--A
* *
6465048 ATATTTTTTATTTATCTAA
1 TTA-TTATTATTTATCTAA
6465067 TTATT
1 TTATT
6465072 TTCTTTTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.41
18 3 0.08
19 3 0.08
20 3 0.08
21 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTATTATTTATCTAA
Found at i:6465085 original size:91 final size:90
Alignment explanation
Indices: 6464941--6465112 Score: 217
Period size: 91 Copynumber: 1.9 Consensus size: 90
6464931 ATTTTTTGTA
* * *
6464941 TATTATTTATTATTACTATTATTATTTATTAATATATATTTATTATTATTTATCCGTTAATATA-
1 TATTATTTATTATTAATATTATTATTTATTAATATATATTTATTATTAGTTATCCATTAATATAT
6465005 TATACTTTATTATTATTTATCAATTAT
66 TAT-CTTTATT-TTATTTATCAATTAT
* * *
6465032 TATTATTTATCTATTAATATTTTTTATTTATCTAAT-TAT-TTTCTT-TTAGTTATCTATTAATA
1 TATTATTTAT-TATTAATA-TTATTATTTAT-TAATATATATTTATTATTAGTTATCCATTAATA
6465094 TATTATCTTTATTTTATTT
63 TATTATCTTTATTTTATTT
6465113 TTTCTTTCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
90 6 0.08
91 33 0.46
92 15 0.21
93 13 0.18
94 4 0.06
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (90 bp):
TATTATTTATTATTAATATTATTATTTATTAATATATATTTATTATTAGTTATCCATTAATATAT
TATCTTTATTTTATTTATCAATTAT
Found at i:6465105 original size:43 final size:42
Alignment explanation
Indices: 6465038--6465119 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
6465028 TTATTATTAT
* *
6465038 TTATCTATTAATATTTTTTATTTATCTAATTATTTTCTTTTAG
1 TTATCTATTAATATATTATATTTATCTAATT-TTTTCTTTTAG
* * *
6465081 TTATCTATTAATATATTATCTTTATTTTATTTTTTCTTT
1 TTATCTATTAATATATTATATTTATCTAATTTTTTCTTT
6465120 CTTTCTTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 8 0.24
43 26 0.76
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.67
Consensus pattern (42 bp):
TTATCTATTAATATATTATATTTATCTAATTTTTTCTTTTAG
Found at i:6465951 original size:16 final size:17
Alignment explanation
Indices: 6465926--6465961 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6465916 TTTTTTTCAT
*
6465926 TTATTTTTATTTATT-A
1 TTATTATTATTTATTGA
6465942 TTATTATTATTTATTGA
1 TTATTATTATTTATTGA
6465959 TTA
1 TTA
6465962 GATTAGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTATTATTTATTGA
Found at i:6466074 original size:58 final size:56
Alignment explanation
Indices: 6466011--6466180 Score: 223
Period size: 60 Copynumber: 2.9 Consensus size: 56
6466001 TCATTTTTTT
***
6466011 ATTTTCTTTAAATAAAAATTCTAAAAAAAATATTTTTGAGGAAAAGTTGAAACTATCA
1 ATTTTCTTTAAATAAGTTTTCT--AAAAAATATTTTTGAGGAAAAGTTGAAACTATCA
* *
6466069 ATTTTCCTTGAAAATAAGTTTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCA
1 ATTTT-CTT-TAAATAAG--TTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAACTATCA
6466129 ATTTTCTTTGAAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAA
1 ATTTTCTTT--AAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAA
6466181 GTAAATAAGT
Statistics
Matches: 100, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
58 39 0.39
59 6 0.06
60 51 0.51
62 4 0.04
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.39
Consensus pattern (56 bp):
ATTTTCTTTAAATAAGTTTTCTAAAAAATATTTTTGAGGAAAAGTTGAAACTATCA
Found at i:6466193 original size:43 final size:43
Alignment explanation
Indices: 6466140--6466226 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 43
6466130 TTTTCTTTGA
6466140 AAATAAGTTTTCTAAAAAATATTTTTGAGG-AAAAGTTGAAAGT
1 AAATAAGTTTTCTAAAAAATATTTTTG-GGAAAAAGTTGAAAGT
6466183 AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGT
1 AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGT
6466226 A
1 A
6466227 TCAAATTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 2 0.05
43 41 0.95
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.34
Consensus pattern (43 bp):
AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGT
Found at i:6466195 original size:60 final size:59
Alignment explanation
Indices: 6466035--6466183 Score: 264
Period size: 60 Copynumber: 2.5 Consensus size: 59
6466025 AAAATTCTAA
* *
6466035 AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG-TTTTTCT
6466095 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAG-TTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
6466153 AAAAAATATTTTTGAGGAAAAGTTGAAAGTA
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTA
6466184 AATAAGTTTT
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
58 37 0.43
60 50 0.57
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (59 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTTCT
Found at i:6466201 original size:101 final size:103
Alignment explanation
Indices: 6466080--6466283 Score: 301
Period size: 101 Copynumber: 2.0 Consensus size: 103
6466070 TTTTCCTTGA
6466080 AAATAAGTTTTTTCTAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATC-AATTTTCTTTGAAAA
1 AAATAAG-TTTTTCTAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAAATTTT-TTTGAAAA
*
6466143 TAAGTTTTCTAAAA-A-ATATTTTTGAGGAAAAGTTGAAAGT
63 TAA-TTTCCTAAAAGAGATATTTTTGAGGAAAAGTTGAAAGT
6466183 AAATAAG-TTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAATTTTTTTGAAAATAA
1 AAATAAGTTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAATTTTTTTGAAAATAA
* *
6466247 TTTCCTAAAAGAGGTTTTTTTTGAGGAAAAGTTGAAA
66 TTTCCTAAAAGA-GATATTTTTGAGGAAAAGTTGAAA
6466284 TTATCAATTT
Statistics
Matches: 93, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
100 11 0.12
101 48 0.52
102 6 0.06
103 28 0.30
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.38
Consensus pattern (103 bp):
AAATAAGTTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAATTTTTTTGAAAATAA
TTTCCTAAAAGAGATATTTTTGAGGAAAAGTTGAAAGT
Found at i:6466216 original size:58 final size:57
Alignment explanation
Indices: 6466035--6466208 Score: 219
Period size: 60 Copynumber: 3.0 Consensus size: 57
6466025 AAAATTCTAA
*
6466035 AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATAAGT-TTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTT-AAAA-AA-TATTTTTCT
** *
6466095 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAAT-ATTTTTCT
6466153 AAAAAATATTTTTGAGGAAAAGTTGAAAGTAAAT-AAGTTTTC-TAAAAAATATTTTT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGT--ATCAA-TTTTCTTAAAAAATATTTTT
6466209 GGGAAAAAGT
Statistics
Matches: 102, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 43 0.42
59 11 0.11
60 45 0.44
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (57 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTAAAAAATATTTTTCT
Found at i:6466246 original size:58 final size:58
Alignment explanation
Indices: 6466183--6466355 Score: 151
Period size: 58 Copynumber: 2.9 Consensus size: 58
6466173 AGTTGAAAGT
*
6466183 AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAAATTTTT-TTGA
1 AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATC-AATTTTTCTCGA
* * * *
6466241 AAATAA-TTTCCTAAAAGAGGTTTTTTTTGAGG-AAAAGTTGAAATTATCAATTTTTCCTCGA
1 AAATAAGTTTTCTAAAA-A--ATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTT-CTCGA
* * * *
6466302 AATTAAAG-TTTC-AGAAAAACA-ATTTGGGAAAAAGTTGAAAGTATCGATTTTTCT
1 AAAT-AAGTTTTCTA-AAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCT
6466356 TGTACAAAAG
Statistics
Matches: 92, Mismatches: 13, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
57 13 0.14
58 32 0.35
59 7 0.08
60 22 0.24
61 10 0.11
62 8 0.09
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (58 bp):
AAATAAGTTTTCTAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTCGA
Found at i:6466337 original size:161 final size:159
Alignment explanation
Indices: 6466035--6466344 Score: 373
Period size: 161 Copynumber: 1.9 Consensus size: 159
6466025 AAAATTCTAA
*
6466035 AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATAAGTTTTTTCTAAAAA
1 AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATAA--TTTTCCTAAAAA
* * * *
6466100 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAGTTTTCTAAAAAATATTTT
64 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGTTTTCTAAAAAACATATT
6466165 TGAGGAAAAGTTGAAAGTAAATAAGTTTTCT
129 TGAGGAAAAGTTGAAAGTAAATAAGTTTTCT
* *
6466196 AAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAAATTTT-TTTGAAAATAA-TTTCCTAAAAG
1 AAAAAATATTTTTGAGG-AAAAGTTGAAACTATC-AATTTTCCTTGAAAATAATTTTCCTAAAA-
* * * *
6466258 AGGTTTTTTTTGAGGAAAAGTTGAAATTATCAATTTTTCCTCGAAATTAAAG-TTTC-AGAAAAA
63 A--ATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTCGAAAAT-AAGTTTTCTA-AAAAA
6466321 CA-ATTTG-GGAAAAAGTTGAAAGTA
123 CATATTTGAGG-AAAAGTTGAAAGTA
6466345 TCGATTTTTC
Statistics
Matches: 129, Mismatches: 11, Indels: 18
0.82 0.07 0.11
Matches are distributed among these distances:
158 9 0.07
159 1 0.01
160 4 0.03
161 85 0.66
162 27 0.21
163 3 0.02
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.37
Consensus pattern (159 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATAATTTTCCTAAAAAAT
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAGTTTTCTAAAAAACATATTTG
AGGAAAAGTTGAAAGTAAATAAGTTTTCT
Found at i:6466448 original size:21 final size:21
Alignment explanation
Indices: 6466409--6466450 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6466399 TAAAGCTAAA
*
6466409 TTATTTTTTTATTTCTTTTTT
1 TTATTTTTTTAATTCTTTTTT
6466430 TTATTTTTTTGAATT-TTTTTT
1 TTATTTTTTT-AATTCTTTTTT
6466451 AATGTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (21 bp):
TTATTTTTTTAATTCTTTTTT
Found at i:6475293 original size:740 final size:738
Alignment explanation
Indices: 6473788--6476092 Score: 3342
Period size: 733 Copynumber: 3.1 Consensus size: 738
6473778 ACGTTATGAC
* * * *
6473788 AAGACCAATCGAATTATGGTCACAAAAGTCTCGCATGATAAAGTTTCATATGGCTTATCAATTTT
1 AAGAGCAATCGAATTTTGGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAATTTT
* *
6473853 TTCTTTATTTTTCTATGATTTAAAAT-AAATAAAAATGATATCTTATCTCAATCTAAAATCACAC
66 TTCTCTATTTTTCTATGATTTAAAATAAAAT-AAAATGATATCTTATCTCAATTTAAAATCACAC
6473917 --TATTTTAATTTAAAATTATACAAACTTATTTTATCTTAA-TAAAATCAGATTGGGATAAACTT
130 AATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTAAAATCAGATTGGGATAAACTT
*
6473979 CATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATA-AAATTTTTGTTAGATC
195 CATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATATATATTTTTGTTAGATC
* * *
6474043 AAAATTTTCATTAATAAAAAATGAGATAAACTCAAAGCTTACAAACATAACCTCATTACATCACC
260 AAAATTTTCATTAATAAAAGATGAGATAAACTCACAGCTTACAAACATAATCTCATTACATCACC
* *
6474108 TTCTAAGTCCCAGATAAATAAAGATATGCCTAATAACCTTAAGCACAGAGCTCACTAGCATCATA
325 TTCTAAGTCCCAGATAAATAAAGATATGCCTAATAACGTTAAGCGCAGAGCTCACTAGCATCATA
* * * *
6474173 TAG-AAACCACCCCCCTTTAATGCTGCTATCCTAACGCACAACTCCATTACCGCTAAGCCATGAA
390 TAGAAAACCA-CCCCCTTTAATGCTGTTATCCTAACGCATAACTACATTACCGCCAAGCCATGAA
* * * * * *
6474237 AAATTCCTCCCTATCAACACCTACCTTGGCATGTACATCAACCATCCC-ATTTTATTCCATCGAC
454 AAATTCCT-CCTGTCAACACCTGCCTTGGCAAGTGCATCAACCA-CCCTATTTTATTCCCTTGAC
* * * *
6474301 ACATTAGACCAGTTTACAGTACTAATATTCTTGATTAACCAATCGATTTTGAAGCATAAGTTTCA
517 ACATTAGACCAGTTTACAGTACCAATATTCTTGATTAACTAATCAATTTCGAAGCATAAGTTTCA
* * *
6474366 CACCTTTCATGGTCAACCTGCCCCATTTTTACACCAATTCACAGCCACCATAAAATCATATTCAA
582 CACCTTCCATGGTAAACCTGCCCCATTTTTACACCAATTCACAGCCACCATAGAATCATATTCAA
* *
6474431 TAATGAGTTCAGTACTCTT-AGCCTTTTCGTATTCAATTATTGAATATATATGATTTCTTCTAAC
647 TAATGAATTCAGTACT-TTCAGCCTTCT-GTATTCAATTATTGAATATATATGATTTCTTCTAAC
* *
6474495 TTTTAAT-ATTTTCATTTTTATAGGAAAT
710 TTTTAGTAATTTTCGTTTTTATAGGAAAT
* *
6474523 AAGAGCAA-CTGAATTTTGGTCACAAAAGTCTCGCATGATAAAATTTCATGTGGTTTATTAATTT
1 AAGAGCAATC-GAATTTTGGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAATTT
*
6474587 TTTGCTCTATTTTTCTATGATTTAAAATAAAATAAAATGATTTCTTATCTCAATTTAAAATCACA
65 TTT-CTCTATTTTTCTATGATTTAAAATAAAATAAAATGATATCTTATCTCAATTTAAAATCACA
*
6474652 CAATATTTTAATTTAAAATTATGCAAACTTATTTTATCTTAATTAAAAATCAGATTGGGATAAAC
129 CAATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATT-AAAATCAGATTGGGATAAAC
*
6474717 TTCATCTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATATATATTTTTGTTAGA
193 TTCATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATATATATTTTTGTTAGA
* *
6474782 CCAAAATTTTCATTAATAAAAGATGAGATAAACTCACAGCTTAAAAACATAATCTCATTACATCA
258 TCAAAATTTTCATTAATAAAAGATGAGATAAACTCACAGCTTACAAACATAATCTCATTACATCA
* *
6474847 CCTTCTAAGTCCCAGATATATAAAGATATGCCTAATAACGTTAAGCGCAAAGCTCACTAGCATCA
323 CCTTCTAAGTCCCAGATAAATAAAGATATGCCTAATAACGTTAAGCGCAGAGCTCACTAGCATCA
* * * * * *
6474912 TATAGAAAACCAACCCCTATTAATGTTGTTATCCTAACACATAATTGCATTACCGCCAAACCATG
388 TATAGAAAACCACCCCCT-TTAATGCTGTTATCCTAACGCATAACTACATTACCGCCAAGCCATG
* ** * *
6474977 CAAAATTATTCTCTGTCAACACCTGCCTTGGCAAGTGCATCAGCCACCCTGTTTTATTCCCTTGA
452 AAAAATTCCTC-CTGTCAACACCTGCCTTGGCAAGTGCATCAACCACCCTATTTTATTCCCTTGA
* *
6475042 CACATTAGACCAGTTTACAGTACCAATATTCTTGATTAAATAATCAATTTCGAAGCAT-GGTTTC
516 CACATTAGACCAGTTTACAGTACCAATATTCTTGATTAACTAATCAATTTCGAAGCATAAGTTTC
** ** * * * *
6475106 ATGCCTTCCATGGTTGA-CTACCCCATTTCTACACCGATTCATAGCCACCATAGAATCATATTCA
581 ACACCTTCCATGGTAAACCTGCCCCATTTTTACACCAATTCACAGCCACCATAGAATCATATTCA
* * *
6475170 ATAATGAATTCAGTACTTTCAACCATTCTATATTCAATTATTGAATATATATGATTTCTTCT-AT
646 ATAATGAATTCAGTACTTTCAGCC-TTCTGTATTCAATTATTGAATATATATGATTTCTTCTAAC
*
6475234 TTTTAGTAATTTT-GTTTTTATAGCAAAGT
710 TTTTAGTAATTTTCGTTTTTATAGGAAA-T
* * *
6475263 AAGAGCAATCAAATTTTAGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAAATTT
1 AAGAGCAATCGAATTTTGGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAATTTT
* * *
6475328 TCCTCTATTTTTCTATGATTTAAAATAAAAGAAAA-GCATATCTTATCTTAATTTAAAATCACAC
66 TTCTCTATTTTTCTATGATTTAAAATAAAATAAAATG-ATATCTTATCTCAATTTAAAATCACAC
* *
6475392 AATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATT-TAA--A-A-TGGGATAGACTT
130 AATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTAAAATCAGATTGGGATAAACTT
* * *
6475452 CATTTTTTGTAAATTTAAAGTTTTTAAAAATTGAATAATTATTAAATATATATTTTTGGTAGATC
195 CATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATATATATTTTTGTTAGATC
* * * *
6475517 AAAATTTTCATTAATATAAGATGAGATAAACGCACAGCTTACAGACATAATCTCATCACATCACC
260 AAAATTTTCATTAATAAAAGATGAGATAAACTCACAGCTTACAAACATAATCTCATTACATCACC
6475582 TTCTAAGTCCCAGATAAATAAAGATATGCCTAATAACGTTAAGCGCAGAGCTCACTAGCATCATA
325 TTCTAAGTCCCAGATAAATAAAGATATGCCTAATAACGTTAAGCGCAGAGCTCACTAGCATCATA
* * * *
6475647 TAGAAAGCCACCCCCTTTAATACTGTTATCCTAATGCATAACTACATTACCACCAAGCCATGAAA
390 TAGAAAACCACCCCCTTTAATGCTGTTATCCTAACGCATAACTACATTACCGCCAAGCCATGAAA
* * ** **
6475712 AATTCCTCCTTGTCAACAACTGCTTTGGCAAGTGCATCAACCA-TTTCATTTTATTTTCTTGACA
455 AATTCCTCC-TGTCAACACCTGCCTTGGCAAGTGCATCAACCACCCT-ATTTTATTCCCTTGACA
*
6475776 CATTAGACCAGTTTACAGTACCAATAATCTTGATTAACTAATCAATTTCGAAGCATAAGTTTCAC
518 CATTAGACCAGTTTACAGTACCAATATTCTTGATTAACTAATCAATTTCGAAGCATAAGTTTCAC
* *
6475841 ACCTTCCATGGTAAACCTGCCTCATTTTTACACCAATTCACAGCCATCATAGAATCATATTCAAT
583 ACCTTCCATGGTAAACCTGCCCCATTTTTACACCAATTCACAGCCACCATAGAATCATATTCAAT
* *
6475906 AAT-AAGTTCAGTACTCTCAGCCTTTCCGTATTCAATTATTGAATATATATGATTTCTTCTAACT
648 AATGAA-TTCAGTACTTTCAGCC-TTCTGTATTCAATTATTGAATATATATGATTTCTTCTAACT
6475970 TTTAG-AATTTTCGTTTTTATAGGAAAT
711 TTTAGTAATTTTCGTTTTTATAGGAAAT
* * * *
6475997 AAGAGCAATTGAATTTTGGTCACAAAAGTCTCGCATTATAAAGTTTCATGTGATTTATCAAATTT
1 AAGAGCAATCGAATTTTGGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAATTTT
* * *
6476062 ATCATCTTTTTTTCTATAATTTAAAATAAAA
66 TTC-TCTATTTTTCTATGATTTAAAATAAAA
6476093 GGATATCTTA
Statistics
Matches: 1405, Mismatches: 139, Indels: 52
0.88 0.09 0.03
Matches are distributed among these distances:
731 2 0.00
732 144 0.10
733 228 0.16
734 165 0.12
735 105 0.07
736 54 0.04
737 6 0.00
738 39 0.03
739 121 0.09
740 227 0.16
741 169 0.12
742 145 0.10
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (738 bp):
AAGAGCAATCGAATTTTGGTCACAAAAGTCTCGCATGATAAAGTTTCATGTGGTTTATCAATTTT
TTCTCTATTTTTCTATGATTTAAAATAAAATAAAATGATATCTTATCTCAATTTAAAATCACACA
ATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTAAAATCAGATTGGGATAAACTTC
ATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATTGAATATATATTTTTGTTAGATCA
AAATTTTCATTAATAAAAGATGAGATAAACTCACAGCTTACAAACATAATCTCATTACATCACCT
TCTAAGTCCCAGATAAATAAAGATATGCCTAATAACGTTAAGCGCAGAGCTCACTAGCATCATAT
AGAAAACCACCCCCTTTAATGCTGTTATCCTAACGCATAACTACATTACCGCCAAGCCATGAAAA
ATTCCTCCTGTCAACACCTGCCTTGGCAAGTGCATCAACCACCCTATTTTATTCCCTTGACACAT
TAGACCAGTTTACAGTACCAATATTCTTGATTAACTAATCAATTTCGAAGCATAAGTTTCACACC
TTCCATGGTAAACCTGCCCCATTTTTACACCAATTCACAGCCACCATAGAATCATATTCAATAAT
GAATTCAGTACTTTCAGCCTTCTGTATTCAATTATTGAATATATATGATTTCTTCTAACTTTTAG
TAATTTTCGTTTTTATAGGAAAT
Found at i:6476631 original size:2 final size:2
Alignment explanation
Indices: 6476624--6476648 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6476614 CAATTATTGA
6476624 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6476649 CTTTCTTTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6477241 original size:118 final size:118
Alignment explanation
Indices: 6477033--6477270 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 118
6477023 TCTAAGATAA
6477033 ATAAAGATATGCCTAATAACGTTAAGTGTAATGCTCAATAGCATCATGTAGAAAACCACCCCTCT
1 ATAAAGATATGCCTAATAACGTTAAGTGTAATGCTCAATAGCATCATGTAGAAAACCACCCCTCT
6477098 TTAATGTTATTATCCTAATGCACAATTACATTACCGCCAAGCCATGAAAAATT
66 TTAATGTTATTATCCTAATGCACAATTACATTACCGCCAAGCCATGAAAAATT
6477151 ATAAAGATATGCCTAATAACGTTAAGTGTAATGCTCAATAGCATCATGTAGAAAACCACCCCTCT
1 ATAAAGATATGCCTAATAACGTTAAGTGTAATGCTCAATAGCATCATGTAGAAAACCACCCCTCT
*
6477216 TTAATGTTGTTATCCTAATGCACAATTACATTACCGCCAAGCCATGAAAAATT
66 TTAATGTTATTATCCTAATGCACAATTACATTACCGCCAAGCCATGAAAAATT
6477269 AT
1 AT
6477271 TGCCTGTCAA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (118 bp):
ATAAAGATATGCCTAATAACGTTAAGTGTAATGCTCAATAGCATCATGTAGAAAACCACCCCTCT
TTAATGTTATTATCCTAATGCACAATTACATTACCGCCAAGCCATGAAAAATT
Found at i:6478760 original size:28 final size:29
Alignment explanation
Indices: 6478667--6478761 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 29
6478657 GATTTCGATT
* * * *
6478667 GGTTTGGAGGATTTAAGGTTTTGATTTTAG
1 GGTTT-GAGGATTCAGGGTTTTGATCTTAA
*
6478697 GGTTTAGAGGATTTAGGGTTTTGATCTTAA
1 GGTTT-GAGGATTCAGGGTTTTGATCTTAA
**
6478727 AATTTGAGG-TTCAGGGTTTTGATCTTAA
1 GGTTTGAGGATTCAGGGTTTTGATCTTAA
6478755 GGTTTGA
1 GGTTTGA
6478762 AGTGTTTGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 23 0.41
29 4 0.07
30 29 0.52
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.44
Consensus pattern (29 bp):
GGTTTGAGGATTCAGGGTTTTGATCTTAA
Found at i:6479224 original size:3 final size:3
Alignment explanation
Indices: 6479209--6479246 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6479199 GTGTCATCGC
*
6479209 TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6479247 ATGCTTATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6479343 original size:9 final size:9
Alignment explanation
Indices: 6479306--6479369 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 9
6479296 AGCAATAATG
6479306 AAAT-AAAA
1 AAATAAAAA
* *
6479314 AAATACATA
1 AAATAAAAA
* *
6479323 ATATATAAA
1 AAATAAAAA
6479332 AAATAAAAA
1 AAATAAAAA
6479341 AAATAAAAA
1 AAATAAAAA
6479350 AAA-AGAAAA
1 AAATA-AAAA
6479359 GAAA-AAAAA
1 -AAATAAAAA
6479368 AA
1 AA
6479370 CCTGAACCGG
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
8 7 0.15
9 35 0.76
10 4 0.09
ACGTcount: A:0.83, C:0.02, G:0.03, T:0.12
Consensus pattern (9 bp):
AAATAAAAA
Found at i:6479346 original size:16 final size:15
Alignment explanation
Indices: 6479327--6479369 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
6479317 TACATAATAT
6479327 ATAAAAAATAAAAAAA
1 ATAAAAAA-AAAAAAA
*
6479343 ATAAAAAAAAAGAAA
1 ATAAAAAAAAAAAAA
*
6479358 AGAAAAAAAAAA
1 ATAAAAAAAAAA
6479370 CCTGAACCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.88, C:0.00, G:0.05, T:0.07
Consensus pattern (15 bp):
ATAAAAAAAAAAAAA
Found at i:6480395 original size:24 final size:23
Alignment explanation
Indices: 6480349--6480395 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6480339 TCTTTTGTTG
* **
6480349 TTTTTTTTTATTTTATTTTATCA
1 TTTTTTTTAATTTTATTAAATCA
6480372 TTTTTTTTAATTTTAATTAAATCA
1 TTTTTTTTAATTTT-ATTAAATCA
6480396 ATATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTTTTTAATTTTATTAAATCA
Found at i:6480405 original size:3 final size:3
Alignment explanation
Indices: 6480397--6480425 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6480387 ATTAAATCAA
6480397 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6480426 AACAATAATT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6481902 original size:741 final size:739
Alignment explanation
Indices: 6480470--6482080 Score: 2370
Period size: 741 Copynumber: 2.2 Consensus size: 739
6480460 CCGGTGTCTG
*
6480470 CAGTACTCTTAGCCTTT-TCATATTCAATTATTAAATATATATGATTTCTTCTAACTTTTAGTAT
1 CAGTACTCTTAGCCTTTCT-GTATTCAATTATTAAATATATATGATTTCTTCTAACTTTTAGTAT
*
6480534 TTTTGTTTTTATAGGAAATAAGAGCAATCAAATTTTAGTCACAAAAGTCT-TGCATGACAAAGTT
65 TTTTGTTTTTATAGGAAATAAGAGCAATCAAATTTTAGTCACAAAAGTCTCT-CATGATAAAGTT
* **** * * *
6480598 TCATGTGGTTTATCAATCTTTTTCCTTTATTTTTCTATGATTTACAATAAAAGAAAAATATATCT
129 TCATGTGATTTATCAAAAAATTTCCTCTATTTTTCTATGATTTAAAATAAAAGAAAAAGATATCT
*
6480663 TATCTCAATTTAAAATCACACAATATTTTAATTTAAAATTATACAAGCTTATTTTATCTTAATTT
194 TATCTCAATTTAAAATCACACAATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTT
* * **
6480728 AAAATCATTGGGATAAACTTCATTTTTTTAATTTTAAAATCTTTAAAAATTGAATAATTATTGAA
259 AAAATCATTCGGATAAACTTCATTTTTTTAAATTTAAAATCTTTAAAAATTGAATAATTATCAAA
* * ** * * *
6480793 TATATATTTTTGTTAGATCAAAATTTTCATTAATAAAAGATGAGATAAAGTCATAGGTTACAAAC
324 TATATATTTTTATTAAATCAAAATTTTCATTAATAAAAGAAAAGATAAACTCACAGCTTACAAAC
* * * * *
6480858 ATAATCTCATTACATCACCTTCTAAGTCCCAGATAATTAAAGATAAGCCTAATAACGTTAATCGT
389 ATAATCTCATTACATCACCTTCGAAGTCCCAGAAAAATAAAGATAAGCCTAATAACGTTAAGCGC
*
6480923 AGAGCTCACTAACATCACATAAAAAACCACCCCCCTTTGATGCTATTATCCTAACACACAACTAC
454 AGAGCTCACTAACATCACATAAAAAACCACCCCCCTTTGAGGCTATTATCCTAACACACAACTAC
*
6480988 ATTACGGTCAAGCCATGAAAAATTCCTCCCTATCAACAACTGCCTTAGCAAGTCATCAACCATCC
519 ATTACGGCCAAGCCATGAAAAATTCCTCCCTATCAACAACTGCCTTAGCAAGTCATCAACCATCC
* * *
6481053 CATTTTATTCCCTTAACACATTAGATCAGTTTACAATACCAATATTCTTGATTAACCAATTAATT
584 CATTTTATTCCCTTAACACATCAGACCAGTTTACAATACCAATATTCTTGATTAACCAATCAATT
*
6481118 TCGAAGCATAAGTTTCACACCTTCCATGGTCAACCTGCCCCATTTTTACACCAATTCACAGCCAC
649 TCGAAGCATAAGTTTCACACCTTCCATGGTCAACCTACCCCATTTTTACACCAATTCACAGCCAC
6481183 CATAGAATCATATTCAATAATCAGTT
714 CATAGAATCATATTCAATAATCAGTT
* * * *
6481209 TAGTACTCTCAGCCTTTCTGTATTCAATTATTAAAAATATATGATTTCTTCTATCTTTTAGTATT
1 CAGTACTCTTAGCCTTTCTGTATTCAATTATTAAATATATATGATTTCTTCTAACTTTTAGTATT
* * *
6481274 TTTGTTTTTATAAGAAATAAGAACAATCAAATTTTGGTCACAAAAGTCTCTCATGATAAAGTTTC
66 TTTGTTTTTATAGGAAATAAGAGCAATCAAATTTTAGTCACAAAAGTCTCTCATGATAAAGTTTC
6481339 ATGTGATTTAT-AAAAAATTTCCTCTATTTTTCTATGATTTAAAATAAAAGAAAAAGATATCTTA
131 ATGTGATTTATCAAAAAATTTCCTCTATTTTTCTATGATTTAAAATAAAAGAAAAAGATATCTTA
*
6481403 TCTCAATTTAAAATCACATAATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTTCA
196 TCTCAATTTAAAATCACACAATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTT-A
* * *
6481468 AATTAGATTCGGATAAACTTCATTTTTTGTAAATTTAAAATTTTTAAAAATTGAATAATTATCAA
260 AAAT-CATTCGGATAAACTTCATTTTTT-TAAATTTAAAATCTTTAAAAATTGAATAATTATCAA
6481533 ATATATATTTTTATTAAATCAAAATTTTCATTAAT-AAAGAAAAGATAAACTCACAGCTTACAAA
323 ATATATATTTTTATTAAATCAAAATTTTCATTAATAAAAGAAAAGATAAACTCACAGCTTACAAA
* ** * * *
6481597 CATAATCTCGTTACATCACCTTCGAAGTCCCCTAAAAATAAAGATATGCCTATTAATGTTAAGCG
388 CATAATCTCATTACATCACCTTCGAAGTCCCAGAAAAATAAAGATAAGCCTAATAACGTTAAGCG
* * * * * * *
6481662 CAGAGCTCATTAGCATCATATAGAAAGCCACCCCCCCTTTGAGGCTGTTATCCTAACGCACAACT
453 CAGAGCTCACTAACATCACATAAAAAACCA-CCCCCCTTTGAGGCTATTATCCTAACACACAACT
* * * **
6481727 ACATTATC-GCCAAGCCAT-AAAAATTCCTCCCTGTCAACACCTGCCTTGGCAAGTGCATCAGTC
517 ACATTA-CGGCCAAGCCATGAAAAATTCCTCCCTATCAACAACTGCCTTAGCAAGT-CATCAACC
* * * *
6481790 ATCCCATTTTATTCTCTTGACACATCAGACCGGTTTACAGTACCAATATTCTTGATTAACCAATC
580 ATCCCATTTTATTCCCTTAACACATCAGACCAGTTTACAATACCAATATTCTTGATTAACCAATC
** * * * *
6481855 GTTTTCGAAGCATAAGTTTCACACCTTCTATGGTCGACCTACCCCATTTTTACACCAGTTCATAG
645 AATTTCGAAGCATAAGTTTCACACCTTCCATGGTCAACCTACCCCATTTTTACACCAATTCACAG
*
6481920 CCACCATAGAATCATATTCAATAATGAGTT
710 CCACCATAGAATCATATTCAATAATCAGTT
* * * *
6481950 CAGCACTCTTAGTCTTTCTGTATTCAATTATTGAATACATATGATTTCTTCTAACTTTTAGTATT
1 CAGTACTCTTAGCCTTTCTGTATTCAATTATTAAATATATATGATTTCTTCTAACTTTTAGTATT
** * * *
6482015 TTCATTTTTATAGGAAATAAGAGCAATCAGATTTTAGTCACAAAAGTATCGCATGATAAAGTTTC
66 TTTGTTTTTATAGGAAATAAGAGCAATCAAATTTTAGTCACAAAAGTCTCTCATGATAAAGTTTC
6482080 A
131 A
6482081 AAGTCAAAAT
Statistics
Matches: 775, Mismatches: 89, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
738 107 0.14
739 131 0.17
740 159 0.21
741 377 0.49
742 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (739 bp):
CAGTACTCTTAGCCTTTCTGTATTCAATTATTAAATATATATGATTTCTTCTAACTTTTAGTATT
TTTGTTTTTATAGGAAATAAGAGCAATCAAATTTTAGTCACAAAAGTCTCTCATGATAAAGTTTC
ATGTGATTTATCAAAAAATTTCCTCTATTTTTCTATGATTTAAAATAAAAGAAAAAGATATCTTA
TCTCAATTTAAAATCACACAATATTTTAATTTAAAATTATACAAACTTATTTTATCTTAATTTAA
AATCATTCGGATAAACTTCATTTTTTTAAATTTAAAATCTTTAAAAATTGAATAATTATCAAATA
TATATTTTTATTAAATCAAAATTTTCATTAATAAAAGAAAAGATAAACTCACAGCTTACAAACAT
AATCTCATTACATCACCTTCGAAGTCCCAGAAAAATAAAGATAAGCCTAATAACGTTAAGCGCAG
AGCTCACTAACATCACATAAAAAACCACCCCCCTTTGAGGCTATTATCCTAACACACAACTACAT
TACGGCCAAGCCATGAAAAATTCCTCCCTATCAACAACTGCCTTAGCAAGTCATCAACCATCCCA
TTTTATTCCCTTAACACATCAGACCAGTTTACAATACCAATATTCTTGATTAACCAATCAATTTC
GAAGCATAAGTTTCACACCTTCCATGGTCAACCTACCCCATTTTTACACCAATTCACAGCCACCA
TAGAATCATATTCAATAATCAGTT
Found at i:6484868 original size:44 final size:42
Alignment explanation
Indices: 6484817--6484984 Score: 176
Period size: 44 Copynumber: 3.9 Consensus size: 42
6484807 AGAAATGAGC
* *
6484817 TCCTCTATAGAAAGGCTAAACAACTTTAAAATTGAAAAATTGGC
1 TCCTCTATACAAAGGCTAAACAACTTT-AAATT-AAAAATTGGA
* * * * *
6484861 GCTTCTATATAATGGCTAAACAATTTTAAAATTAAGAAA-TGGAA
1 TCCTCTATACAAAGGCTAAACAACTTT-AAATTAA-AAATTGG-A
* * *
6484905 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAGAATAGGT
1 TCCTCTATACAAAGGCTAAACAACTTTAAATTAAA-AATTGGA
*
6484948 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAAA
1 TCCTCTATACAAAGGCTAAACAACTTTAAATTAAAAA
6484985 ATAGACTTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
42 3 0.03
43 49 0.46
44 54 0.51
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (42 bp):
TCCTCTATACAAAGGCTAAACAACTTTAAATTAAAAATTGGA
Found at i:6484952 original size:43 final size:43
Alignment explanation
Indices: 6484817--6485023 Score: 190
Period size: 43 Copynumber: 4.8 Consensus size: 43
6484807 AGAAATGAGC
* * * *
6484817 TCCTCTATAGAAAGGCTAAACAACTTTAAAATTGAAA-AATTGGC
1 TCCTCTATACAGAGGCTAAACAACTTT-AAATT-AAAGAATAGGT
* * * * *
6484861 GCTTCTATATA-ATGGCTAAACAATTTTAAAATT-AAGAA-ATGGAA
1 TCCTCTATACAGA-GGCTAAACAACTTT-AAATTAAAGAATA-GG-T
6484905 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAGAATAGGT
1 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAGAATAGGT
* *
6484948 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAAAATAGACT
1 TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAGAATAG-GT
* * *
6484992 TTCT-TATATAGAGGCTAAACAATTTTAAATTA
1 TCCTCTATACAGAGGCTAAACAACTTTAAATTA
6485024 GAATCCTCTA
Statistics
Matches: 139, Mismatches: 16, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 76 0.55
44 59 0.42
45 2 0.01
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (43 bp):
TCCTCTATACAGAGGCTAAACAACTTTAAATTAAAGAATAGGT
Found at i:6496774 original size:27 final size:27
Alignment explanation
Indices: 6496730--6496831 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 27
6496720 TTTTTCTTTT
* * *
6496730 ATAAAAAATATACTTAAAATAATAGATAA
1 ATAAAAAATA-A-GTAAAATAAAAGAAAA
*
6496759 ATAAAAAATAAGTAAAATAAAATAAAA
1 ATAAAAAATAAGTAAAATAAAAGAAAA
* * *
6496786 ATATAAAATAAGAGAAAAAATAAAAGAGAA
1 ATAAAAAAT-A-AG-TAAAATAAAAGAAAA
*
6496816 A-AAAAAATAAATAAAA
1 ATAAAAAATAAGTAAAA
6496832 AAATACAAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
26 4 0.07
27 21 0.36
28 3 0.05
29 18 0.31
30 13 0.22
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.19
Consensus pattern (27 bp):
ATAAAAAATAAGTAAAATAAAAGAAAA
Found at i:6496782 original size:29 final size:29
Alignment explanation
Indices: 6496745--6496836 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
6496735 AAATATACTT
6496745 AAAATAATAGATAAATAAAAAATAAGTAAA
1 AAAATAATAGA-AAATAAAAAATAAGTAAA
* *
6496775 ATAA-AATA-AAAATATAAAATAAG-AGAA
1 AAAATAATAGAAAATAAAAAATAAGTA-AA
* *
6496802 AAAATAAAAGAGAAA-AAAAAATAAATAAA
1 AAAATAATAGA-AAATAAAAAATAAGTAAA
6496831 AAAATA
1 AAAATA
6496837 CAAAGAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
26 1 0.02
27 18 0.35
28 4 0.08
29 21 0.41
30 7 0.14
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (29 bp):
AAAATAATAGAAAATAAAAAATAAGTAAA
Found at i:6510260 original size:10 final size:9
Alignment explanation
Indices: 6510245--6510274 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6510235 TCTTTAAAAA
6510245 TTTTATTGAT
1 TTTTATT-AT
6510255 TTTTATTAT
1 TTTTATTAT
6510264 TTTTATTAT
1 TTTTATTAT
6510273 TT
1 TT
6510275 AAAACTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTAT
Found at i:6510475 original size:19 final size:18
Alignment explanation
Indices: 6510451--6510500 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
6510441 TTTCTCATTT
*
6510451 TTTATTACTTTATTTGTAA
1 TTTATTACTTTATTT-AAA
* *
6510470 TTTATTAGTTAATTTAAA
1 TTTATTACTTTATTTAAA
*
6510488 TTTATTATTTTAT
1 TTTATTACTTTAT
6510501 AACAAAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
TTTATTACTTTATTTAAA
Found at i:6510878 original size:22 final size:21
Alignment explanation
Indices: 6510850--6510896 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
6510840 AATAACAAAA
6510850 TTTAAAATAA-CAAAAATAATAT
1 TTTAAAA-AATCAAAAATAA-AT
6510872 TTTAAAAAATTCAAAAATAAAT
1 TTTAAAAAA-TCAAAAATAAAT
6510894 TTT
1 TTT
6510897 TTACCTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (21 bp):
TTTAAAAAATCAAAAATAAAT
Found at i:6510880 original size:24 final size:22
Alignment explanation
Indices: 6510853--6510896 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
6510843 AACAAAATTT
6510853 AAAATAACAAAAATAATATTTTAA
1 AAAAT-ACAAAAATAA-ATTTTAA
*
6510877 AAAATTCAAAAATAAATTTT
1 AAAATACAAAAATAAATTTT
6510897 TTACCTAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 9 0.47
24 5 0.26
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATACAAAAATAAATTTTAA
Found at i:6511840 original size:10 final size:10
Alignment explanation
Indices: 6511816--6511864 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
6511806 GGGTGTAGGG
6511816 GGTGAACAGAA
1 GGTGAACA-AA
6511827 -GTGAACAAA
1 GGTGAACAAA
*
6511836 GGTG-ACAAGG
1 GGTGAACAA-A
6511846 GGTGAACAAA
1 GGTGAACAAA
6511856 GGTGAACAA
1 GGTGAACAA
6511865 GGGGTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 6 0.18
10 23 0.70
11 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.35, T:0.10
Consensus pattern (10 bp):
GGTGAACAAA
Found at i:6511850 original size:20 final size:21
Alignment explanation
Indices: 6511827--6511870 Score: 81
Period size: 20 Copynumber: 2.1 Consensus size: 21
6511817 GTGAACAGAA
6511827 GTGAACAAAGGTG-ACAAGGG
1 GTGAACAAAGGTGAACAAGGG
6511847 GTGAACAAAGGTGAACAAGGG
1 GTGAACAAAGGTGAACAAGGG
6511868 GTG
1 GTG
6511871 GCAGTAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.39, C:0.09, G:0.41, T:0.11
Consensus pattern (21 bp):
GTGAACAAAGGTGAACAAGGG
Found at i:6511952 original size:25 final size:24
Alignment explanation
Indices: 6511909--6511966 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
6511899 CCGTCAACCC
* *
6511909 TTTTGTTTTTTTAACTTTTTATTTT
1 TTTTG-TTTTTGAACTTTTTATATT
*
6511934 TCTTTGTTTTTGAATTTTTTATATT
1 T-TTTGTTTTTGAACTTTTTATATT
6511959 TTTTGTTT
1 TTTTGTTT
6511967 AATTAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 7 0.24
25 18 0.62
26 4 0.14
ACGTcount: A:0.12, C:0.03, G:0.07, T:0.78
Consensus pattern (24 bp):
TTTTGTTTTTGAACTTTTTATATT
Found at i:6511974 original size:25 final size:23
Alignment explanation
Indices: 6511916--6511966 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
6511906 CCCTTTTGTT
* *
6511916 TTTTTAACTTTTTATTTTTCTTTG
1 TTTTTAATTTTTTATATTT-TTTG
6511940 TTTTTGAATTTTTTATATTTTTTG
1 TTTTT-AATTTTTTATATTTTTTG
6511964 TTT
1 TTT
6511967 AATTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.14, C:0.04, G:0.06, T:0.76
Consensus pattern (23 bp):
TTTTTAATTTTTTATATTTTTTG
Found at i:6512469 original size:3 final size:3
Alignment explanation
Indices: 6512461--6512507 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
6512451 CCATTTAGTT
*
6512461 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6512508 GTTTAATGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6513746 original size:64 final size:64
Alignment explanation
Indices: 6513664--6513903 Score: 186
Period size: 64 Copynumber: 3.8 Consensus size: 64
6513654 ATAGAAAAAA
* * * *
6513664 TTTA-GAATGGATTCTTAAAGGCGTTTTTAGCCTAAAACGCCTTTAATAATCCACTCAATAATTT
1 TTTATGAA-GGATTATTAAAGGCGTTTTTGGCCAAAAACGCCTTCAATAATCCACTCAATAATTT
* * ** * *
6513728 TTTATGAAGGATTATTAAAGGTAGTTTTGGGTAAAAAAATGCCTTCAATAATCCA-TCCAAAAAT
1 TTTATGAAGGATTATTAAAGG-CGTTTTTGG-CCAAAAACGCCTTCAATAATCCACT-CAATAAT
6513792 TT
63 TT
*** * * * * * *
6513794 GGAAT--A-GATTCTTGAAGGCATTTTTGGCCCAAAGCGCCTTCAATAATCCACTCAATAAATT
1 TTTATGAAGGATTATTAAAGGCGTTTTTGGCCAAAAACGCCTTCAATAATCCACTCAATAATTT
* ** *
6513855 TTTATGAAGGATTATTGAAGGCAG-TTTTGGTAAAAAATGCCTTCAATAA
1 TTTATGAAGGATTATTAAAGGC-GTTTTTGGCCAAAAACGCCTTCAATAA
6513904 GATTTTGTTA
Statistics
Matches: 132, Mismatches: 35, Indels: 18
0.71 0.19 0.10
Matches are distributed among these distances:
61 27 0.20
62 7 0.05
63 11 0.08
64 49 0.37
65 10 0.08
66 28 0.21
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (64 bp):
TTTATGAAGGATTATTAAAGGCGTTTTTGGCCAAAAACGCCTTCAATAATCCACTCAATAATTT
Found at i:6513765 original size:127 final size:126
Alignment explanation
Indices: 6513658--6513903 Score: 368
Period size: 127 Copynumber: 2.0 Consensus size: 126
6513648 TAATTTATAG
* * * *
6513658 AAAAAATTTAGAATGGATTCTTAAAGGCGTTTTTAGCCTAAAACGCCTTTAATAATCCACTCAAT
1 AAAAAATTTAGAATAGATTCTTAAAGGCATTTTTAGCCCAAAACGCCTTCAATAATCCACTCAAT
* *
6513723 AATTTTTTATGAAGGATTATTAAAGGTAGTTTTGGGTAAAAAAATGCCTTCAATAATCCATC
66 AAATTTTTATGAAGGATTATTAAAGGCAGTTTT-GGTAAAAAAATGCCTTCAATAATCCATC
* * * * *
6513785 CAAAAATTTGGAATAGATTCTTGAAGGCATTTTTGGCCCAAAGCGCCTTCAATAATCCACTCAAT
1 AAAAAATTTAGAATAGATTCTTAAAGGCATTTTTAGCCCAAAACGCCTTCAATAATCCACTCAAT
*
6513850 AAATTTTTATGAAGGATTATTGAAGGCAGTTTTGGT-AAAAAATGCCTTCAATAA
66 AAATTTTTATGAAGGATTATTAAAGGCAGTTTTGGTAAAAAAATGCCTTCAATAA
6513904 GATTTTGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
125 18 0.17
126 3 0.03
127 86 0.80
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.33
Consensus pattern (126 bp):
AAAAAATTTAGAATAGATTCTTAAAGGCATTTTTAGCCCAAAACGCCTTCAATAATCCACTCAAT
AAATTTTTATGAAGGATTATTAAAGGCAGTTTTGGTAAAAAAATGCCTTCAATAATCCATC
Found at i:6514029 original size:35 final size:35
Alignment explanation
Indices: 6513990--6514061 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
6513980 ACTATATATG
* ** *
6513990 TGAAGTCAATTGTAGGTTTATGGTTGGAAAACATT
1 TGAAGTCAATTATAGGTTTATGCCTAGAAAACATT
*
6514025 TGAAGTCAGTTATAGGTTTATGCCTAGAAAACATT
1 TGAAGTCAATTATAGGTTTATGCCTAGAAAACATT
6514060 TG
1 TG
6514062 GTTTATATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (35 bp):
TGAAGTCAATTATAGGTTTATGCCTAGAAAACATT
Found at i:6517230 original size:12 final size:12
Alignment explanation
Indices: 6517211--6517288 Score: 84
Period size: 12 Copynumber: 6.3 Consensus size: 12
6517201 GTTCAGAAAT
6517211 ACCATTCAGCAA
1 ACCATTCAGCAA
* *
6517223 ATCATTCAGAAA
1 ACCATTCAGCAA
*
6517235 CACCATTTAGCAA
1 -ACCATTCAGCAA
**
6517248 ACCATTCAAAAA
1 ACCATTCAGCAA
6517260 CACCATTCAGCAA
1 -ACCATTCAGCAA
*
6517273 ACTATTCAGCAA
1 ACCATTCAGCAA
6517285 ACCA
1 ACCA
6517289 ATATCATATA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 33 0.63
13 19 0.37
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:6517230 original size:25 final size:24
Alignment explanation
Indices: 6517202--6517286 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 24
6517192 CAGCAATGTG
*
6517202 TTCAGAAATACCATTCAGCAAATCA
1 TTCAGAAACACCATTCAGCAAA-CA
*
6517227 TTCAGAAACACCATTTAGCAAACCA
1 TTCAGAAACACCATTCAGCAAA-CA
*
6517252 TTCAAAAACACCATTCAGCAAACTA
1 TTCAGAAACACCATTCAGCAAAC-A
6517277 TTCAGCAAAC
1 TTCAG-AAAC
6517287 CAATATCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 1 0.02
25 47 0.90
26 4 0.08
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.21
Consensus pattern (24 bp):
TTCAGAAACACCATTCAGCAAACA
Found at i:6517266 original size:13 final size:13
Alignment explanation
Indices: 6517202--6517274 Score: 69
Period size: 13 Copynumber: 5.7 Consensus size: 13
6517192 CAGCAATGTG
*
6517202 TTCAGAAATACCA
1 TTCAGAAACACCA
* *
6517215 TTCAGCAA-ATCA
1 TTCAGAAACACCA
6517227 TTCAGAAACACCA
1 TTCAGAAACACCA
* *
6517240 TTTAGCAA-ACCA
1 TTCAGAAACACCA
*
6517252 TTCAAAAACACCA
1 TTCAGAAACACCA
6517265 TTCAGCAAAC
1 TTCAG-AAAC
6517275 TATTCAGCAA
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
12 19 0.40
13 24 0.51
14 4 0.09
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.21
Consensus pattern (13 bp):
TTCAGAAACACCA
Found at i:6518114 original size:62 final size:62
Alignment explanation
Indices: 6517850--6518122 Score: 198
Period size: 62 Copynumber: 4.4 Consensus size: 62
6517840 ATTAAAGGTG
* * * *
6517850 TTTTTTTTAGAAAATGCCTTCAAT-AATCTTGTTC-AAAAATAAT-AAGAGGATTATTGAAGGCA
1 TTTTTTGTAAAAAATGCCTTCAATAAAT-TTTTTCAAAAAAT-TTGAA-AGGATTATTGAAGGCA
* * * * *
6517912 TTTTAT-AAAAAAATACCTCCAATAAATTTTTT-AAAAATTTTTGAAAAGGAGATTATTGAAGGC
1 TTTTTTGTAAAAAATGCCTTCAATAAATTTTTTCAAAAA-ATTTG-AAA-G-GATTATTGAAGGC
*
6517975 C
62 A
* * * * * * * * *
6517976 TTTTTAGTCAAAAATACCTT-AAAAAATCTCTTCATTAAAATTTCAAAGGATTATTGAAGGCG
1 TTTTTTGTAAAAAATGCCTTCAATAAATTTTTTCA-AAAAATTTGAAAGGATTATTGAAGGCA
* * * * *
6518038 TATTATGCAAAAAATGCCTTCAATAAATTTTTTCAAAAAATTTGAATGGATTATTGAAGGTA
1 TTTTTTGTAAAAAATGCCTTCAATAAATTTTTTCAAAAAATTTGAAAGGATTATTGAAGGCA
*
6518100 TTTTTTGTAGAAAATCGCCTTCA
1 TTTTTTGTAAAAAAT-GCCTTCA
6518123 CTAATAGTCC
Statistics
Matches: 160, Mismatches: 39, Indels: 23
0.72 0.18 0.10
Matches are distributed among these distances:
61 22 0.14
62 70 0.44
63 22 0.14
64 29 0.18
65 14 0.09
66 3 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (62 bp):
TTTTTTGTAAAAAATGCCTTCAATAAATTTTTTCAAAAAATTTGAAAGGATTATTGAAGGCA
Found at i:6518179 original size:65 final size:62
Alignment explanation
Indices: 6518023--6518203 Score: 166
Period size: 65 Copynumber: 2.9 Consensus size: 62
6518013 AAATTTCAAA
* *** * *
6518023 GGATTATTGAAGGCGTATTATGCAAAAAATGCCTTCAATAAATTTTTTCAAAAAATTTGAAT
1 GGATTATTGAAGGTGTATTATGCAAAAAATGCCTTCAATAAATCCCTTCAAAAAATTAGAAG
* * * * * * * *
6518085 GGATTATTGAAGGTATTTTTTGTAGAAAATCGCCTTCACTAATAGTCCCTTGATAAAAA-TAGAG
1 GGATTATTGAAGGTGTATTATGCAAAAAAT-GCCTTCAATAA-A-TCCCTTCA-AAAAATTAGAA
6518149 G
62 G
* * *
6518150 GGATTATTGAAGGTGTATTATGCAAAAAATGCTTTCAATAAATTCCTTTAAAAA
1 GGATTATTGAAGGTGTATTATGCAAAAAATGCCTTCAATAAATCCCTTCAAAAA
6518204 TTTTGAAAAA
Statistics
Matches: 92, Mismatches: 23, Indels: 9
0.74 0.19 0.07
Matches are distributed among these distances:
61 4 0.04
62 30 0.33
63 11 0.12
64 10 0.11
65 32 0.35
66 5 0.05
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (62 bp):
GGATTATTGAAGGTGTATTATGCAAAAAATGCCTTCAATAAATCCCTTCAAAAAATTAGAAG
Found at i:6518691 original size:502 final size:502
Alignment explanation
Indices: 6518150--6519133 Score: 1333
Period size: 502 Copynumber: 2.0 Consensus size: 502
6518140 AAAATAGAGG
** * * *
6518150 GGATTATTGAAGGTGTATTATGCAAAAAATGCTTTCAATAAATTCCTTTAA-AAATTTTGAA-AA
1 GGATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTCAAGAAA-TTT-AAGAA
* * * * *
6518213 AATTAGTGAAGGCGTTTGTAGTAAAAAAT-TCTTTCAATAATCCTCTTAAAATTTTACTATGAGA
64 AATTAGCGAAGGCATTTGTAGT-AAAAATCCCTTT-AATAATCCCCTTAAAATTTTACTACGAGA
* * *
6518277 TTATTGAAGGTATTTTTTACTAAAAGATGCC-TCTAATAATCTAAAACAATTTTTAAAAGAAAAT
127 TTATTGAAGGCATTTCTTACTAAAAGATGCCTTC-AATAATCTAAAAAAATTTTTAAAAGAAAAT
* ** *
6518341 TATTGAAGGCATTTTTTTTAAAAAAATGCCTTTAATAATCAAGTCTATTTTTTCAATACCTTGTT
191 TATTAAAGGCATTTTTTTTAAAAAAACACCTTTAATAATCAAGTCTATTTTTTCAATACCTTATT
* * * *
6518406 TATTAGAGGCGTTTTATGCCAAAAACACCTTTAATAA-TCCTGGGCAAAAACATTA-TGAGGATT
256 TATTAGAGGCATTTTATGCCAAAAACACCTTTAA-AATTCCAGGCCAAAAACATTACCGA-GATT
* *
6518469 ATTAAAAGAATTTTATAAAAAAA-TACCTCCAATAA-TTTCTTTTAAAAATTTTGAAGATGAGAT
319 ACTAAAAGAATTTTATAAAAAAACT-CCTACAATAATTTTC-TTTAAAAATTTTGAAGATGAGAT
** * * *
6518532 TATTAAAAGTGT-TTTTAGTAAAAAACGCCTTCACAAATCAT-TTCGTTAGAATAT-AAGAGGAT
382 TATTAAAAGCATCTTTTAGTAAAAAACACCTTCAAAAATCATCTT-GTTAAAATATAAAG-GGAT
*
6518594 TATAGAAAGCGTATTATACAAAAAATACCTTCAATAAATTCTTTTAAAAAAATTGAAT
445 TATAGAAAGCGTATTATACAAAAAAAACCTTCAATAAATTCTTTTAAAAAAATTGAAT
**
6518652 GGATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTCAAGAAATTTAAGGGAA
1 GGATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTCAAGAAATTTAAGAAAA
*
6518717 TTAGCGAAGGCATTTGTAGTCAAAATCGCCTTTAATAATCCCCTTAAAATTTTACTACGAGATTA
66 TTAGCGAAGGCATTTGTAGTAAAAATC-CCTTTAATAATCCCCTTAAAATTTTACTACGAGATTA
6518782 TTGAAGGCATTTCTTACTAAAAGATGCCTTCAATAATCTAAAAAAATTTTTAAAAGAAAATTATT
130 TTGAAGGCATTTCTTACTAAAAGATGCCTTCAATAATCTAAAAAAATTTTTAAAAGAAAATTATT
* * * ** *
6518847 AAAGGTATTTTTTTTTAGAAAACACCTTTAATAATCCGGTCTATTTTTTCAATGCCTTATTTATT
195 AAAGGCATTTTTTTTAAAAAAACACCTTTAATAATCAAGTCTATTTTTTCAATACCTTATTTATT
* *
6518912 GGAGGCATTTTATGCTAAAAACACCTTTAAAATTCCAGGCCAAAAACATTACCGAGATTACTAAA
260 AGAGGCATTTTATGCCAAAAACACCTTTAAAATTCCAGGCCAAAAACATTACCGAGATTACTAAA
* * * *
6518977 GGCATTTTATAAAAAAACTCCTATAATAATTTTCTTTAAAAATTTTGAAGATGAGATTATTAAAG
325 AGAATTTTATAAAAAAACTCCTACAATAATTTTCTTTAAAAATTTTGAAGATGAGATTATTAAAA
* * * * *
6519042 GCATCTTTTAGTCAAAAACACCTTCAAAAATCATCTTGTTAAAATTTAAAGGGATTATTGAAGGT
390 GCATCTTTTAGTAAAAAACACCTTCAAAAATCATCTTGTTAAAATATAAAGGGATTATAGAAAGC
*
6519107 GTATTATGCAAAAAAAACCTTCAATAA
455 GTATTATACAAAAAAAACCTTCAATAA
6519134 CTAAGCTATT
Statistics
Matches: 420, Mismatches: 50, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
501 9 0.02
502 320 0.76
503 86 0.20
504 5 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (502 bp):
GGATTATTGAAGGCATATTATGCAAAAAATACCTTCAATAAATTCCTTCAAGAAATTTAAGAAAA
TTAGCGAAGGCATTTGTAGTAAAAATCCCTTTAATAATCCCCTTAAAATTTTACTACGAGATTAT
TGAAGGCATTTCTTACTAAAAGATGCCTTCAATAATCTAAAAAAATTTTTAAAAGAAAATTATTA
AAGGCATTTTTTTTAAAAAAACACCTTTAATAATCAAGTCTATTTTTTCAATACCTTATTTATTA
GAGGCATTTTATGCCAAAAACACCTTTAAAATTCCAGGCCAAAAACATTACCGAGATTACTAAAA
GAATTTTATAAAAAAACTCCTACAATAATTTTCTTTAAAAATTTTGAAGATGAGATTATTAAAAG
CATCTTTTAGTAAAAAACACCTTCAAAAATCATCTTGTTAAAATATAAAGGGATTATAGAAAGCG
TATTATACAAAAAAAACCTTCAATAAATTCTTTTAAAAAAATTGAAT
Found at i:6518726 original size:62 final size:62
Alignment explanation
Indices: 6518605--6518729 Score: 162
Period size: 62 Copynumber: 2.0 Consensus size: 62
6518595 ATAGAAAGCG
* * **
6518605 TATTATACAAAAAATACCTTCAATAAATTCTTTTAAAAAAATTGAATGGATTATTGAAGGCA
1 TATTATACAAAAAATACCTTCAATAAATTCTCTTAAAAAAATTGAAGGGATTAGCGAAGGCA
* * * *
6518667 TATTATGCAAAAAATACCTTCAATAAATTC-CTTCAAGAAATTTAAGGGAATTAGCGAAGGCA
1 TATTATACAAAAAATACCTTCAATAAATTCTCTTAAAAAAATTGAAGGG-ATTAGCGAAGGCA
6518729 T
1 T
6518730 TTGTAGTCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
61 13 0.24
62 41 0.76
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (62 bp):
TATTATACAAAAAATACCTTCAATAAATTCTCTTAAAAAAATTGAAGGGATTAGCGAAGGCA
Found at i:6525445 original size:162 final size:162
Alignment explanation
Indices: 6525239--6525554 Score: 458
Period size: 162 Copynumber: 2.0 Consensus size: 162
6525229 AATGAATGAA
* *
6525239 CTTTTTGTGTCGTTAAAAAGTAAAAATGCAAATTAATAGTTATTGTTCTATTTTAATAGTTTTGA
1 CTTTTTGTGTCGTTAAAAAGTAAAAATACAAATTAATAGTTATTGTTCTATTTTAATAGTTTGGA
* * *
6525304 TAGTTTCAATACATGATATGAAACTTATCCAAAGTT-TTGAACTTAGTTTCCACGGTTTATATGT
66 TAGCTTCAATACATAATATGAAACTTATCCAAA-TTATTGAACTTAGTTTCCACGGTTGATATGT
*
6525368 ATGAAAAAGTTATTGTTTACGTCTATTTAGGAC
130 ATGAAAAAGTTATCGTTTACGTCTATTTAGGAC
* * *
6525401 CTTTTTGTG-CAGTTAATAGGTAAAAATACAAAATT-ATTGTTATTGTTCTATTTTAATAGTTTG
1 CTTTTTGTGTC-GTTAAAAAGTAAAAATAC-AAATTAATAGTTATTGTTCTATTTTAATAGTTTG
* * * *
6525464 GATAGCTTCAATACATAATATTAAACTTATCCGAATTATTGAACTTAGTTTCTATGGTTGATATG
64 GATAGCTTCAATACATAATATGAAACTTATCCAAATTATTGAACTTAGTTTCCACGGTTGATATG
*
6525529 TGTGAAAAAGTTATCGTTTACGTCTA
129 TATGAAAAAGTTATCGTTTACGTCTA
6525555 GTTGGGACTA
Statistics
Matches: 137, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
161 3 0.02
162 129 0.94
163 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.43
Consensus pattern (162 bp):
CTTTTTGTGTCGTTAAAAAGTAAAAATACAAATTAATAGTTATTGTTCTATTTTAATAGTTTGGA
TAGCTTCAATACATAATATGAAACTTATCCAAATTATTGAACTTAGTTTCCACGGTTGATATGTA
TGAAAAAGTTATCGTTTACGTCTATTTAGGAC
Found at i:6525632 original size:18 final size:19
Alignment explanation
Indices: 6525592--6525634 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
6525582 CAAAAATACA
*
6525592 AATTAAACTTGTCCATGAT
1 AATTAAACTTGTCCATAAT
6525611 -ATTAAACTTGTCCA-AAT
1 AATTAAACTTGTCCATAAT
6525628 AATTAAA
1 AATTAAA
6525635 TTTGGTTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (19 bp):
AATTAAACTTGTCCATAAT
Found at i:6538418 original size:19 final size:18
Alignment explanation
Indices: 6538394--6538443 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6538384 TTCCTCATTT
*
6538394 TTTATTACTTTATTTTTAA
1 TTTATTACTTTATTTCT-A
* *
6538413 TTTATTAGTTAATTTCTA
1 TTTATTACTTTATTTCTA
*
6538431 TTTATTATTTTAT
1 TTTATTACTTTAT
6538444 AACAAAAAGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATTACTTTATTTCTA
Found at i:6539737 original size:10 final size:10
Alignment explanation
Indices: 6539722--6539784 Score: 72
Period size: 10 Copynumber: 6.2 Consensus size: 10
6539712 GGATGTAGGG
6539722 GGTGAACAGA
1 GGTGAACAGA
*
6539732 GGTGAACAAA
1 GGTGAACAGA
* *
6539742 GCTGAACAGGG
1 GGTGAACA-GA
*
6539753 GGTGGACAGA
1 GGTGAACAGA
6539763 GGTGAACAGA
1 GGTGAACAGA
*
6539773 GATGAACAGA
1 GGTGAACAGA
6539783 GG
1 GG
6539785 GTGGCAGTCG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
10 36 0.86
11 6 0.14
ACGTcount: A:0.38, C:0.11, G:0.41, T:0.10
Consensus pattern (10 bp):
GGTGAACAGA
Found at i:6539753 original size:31 final size:31
Alignment explanation
Indices: 6539718--6539787 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
6539708 GAGTGGATGT
*
6539718 AGGGGGTGAACAGAGGTGAACAAAGCTGAAC
1 AGGGGGTGAACAGAGGTGAACAAAGATGAAC
* *
6539749 AGGGGGTGGACAGAGGTGAACAGAGATGAAC
1 AGGGGGTGAACAGAGGTGAACAAAGATGAAC
*
6539780 AGAGGGTG
1 AGGGGGTG
6539788 GCAGTCGTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.44, T:0.10
Consensus pattern (31 bp):
AGGGGGTGAACAGAGGTGAACAAAGATGAAC
Found at i:6539768 original size:21 final size:21
Alignment explanation
Indices: 6539722--6539780 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
6539712 GGATGTAGGG
6539722 GGTGAACA-GAGGTGAACAAA
1 GGTGAACAGGAGGTGAACAAA
* * * *
6539742 GCTGAACAGGGGGTGGACAGA
1 GGTGAACAGGAGGTGAACAAA
*
6539763 GGTGAACA-GAGATGAACA
1 GGTGAACAGGAGGTGAACA
6539781 GAGGGTGGCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.39, C:0.12, G:0.39, T:0.10
Consensus pattern (21 bp):
GGTGAACAGGAGGTGAACAAA
Found at i:6539839 original size:8 final size:8
Alignment explanation
Indices: 6539826--6539912 Score: 83
Period size: 8 Copynumber: 11.0 Consensus size: 8
6539816 CCACCAACCC
6539826 TTTTATTT
1 TTTTATTT
6539834 TTTTA-TT
1 TTTTATTT
6539841 TTTTATTT
1 TTTTATTT
6539849 TTTTA-TT
1 TTTTATTT
6539856 TTTTATTT
1 TTTTATTT
*
6539864 TTTTATCGT
1 TTTTAT-TT
*
6539873 TTGT-TTT
1 TTTTATTT
* *
6539880 TCTT-TGT
1 TTTTATTT
6539887 TTTTATATT
1 TTTTAT-TT
6539896 TTTTATATT
1 TTTTAT-TT
6539905 TTTTATTT
1 TTTTATTT
6539913 AATTAATAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 10
0.79 0.10 0.12
Matches are distributed among these distances:
7 22 0.33
8 24 0.36
9 20 0.30
ACGTcount: A:0.13, C:0.02, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTATTT
Found at i:6539846 original size:15 final size:15
Alignment explanation
Indices: 6539826--6539912 Score: 104
Period size: 15 Copynumber: 5.5 Consensus size: 15
6539816 CCACCAACCC
6539826 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
6539841 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
6539856 TTTTATTTTTTTATCGT
1 TTTTATTTTTTTAT--T
* *
6539873 TTGTT-TTTCTTTGTT
1 TT-TTATTTTTTTATT
6539888 TTTATATTTTTTATATT
1 TTT-TATTTTTT-TATT
6539905 TTTTATTT
1 TTTTATTT
6539913 AATTAATAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
14 1 0.02
15 33 0.53
16 10 0.16
17 16 0.26
18 2 0.03
ACGTcount: A:0.13, C:0.02, G:0.03, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:6540414 original size:3 final size:3
Alignment explanation
Indices: 6540406--6540436 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
6540396 CCATTTAGGT
*
6540406 ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6540437 CAACAACAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6541719 original size:64 final size:61
Alignment explanation
Indices: 6541639--6541849 Score: 176
Period size: 63 Copynumber: 3.3 Consensus size: 61
6541629 AATTGGAACA
* * *
6541639 GATTCTTAAAGGCATTTTTGGCCGAAAGTACCTTCAATAATCCACTCCATAAATTTTTATGAGG
1 GATTATTAAAGGCATTTTTGGCC-AAAATACCTTCAATAATCCACTCAATAAATTTTTAT-A-G
** * **
6541703 GATTATTAAAGGCA-TTTTGGTAAAAAAAATACCTTCAATAATCCA-TGCAAAAAATTTGGAATA
1 GATTATTAAAGGCATTTTTGG---CCAAAATACCTTCAATAATCCACT-CAATAAATTT-TTATA
6541766 -
61 G
* * * *
6541766 GATTCTTAAAGGCGTTTTTGGCCCAAACACCTTCAATAATCCACTCAATAAATTTTTATAAAG
1 GATTATTAAAGGCATTTTTGGCCAAAATACCTTCAATAATCCACTCAATAAATTTTTAT--AG
* *
6541829 GATTATTGAAGGTAATTTTTG
1 GATTATTAAAGG-CATTTTTG
6541850 TTAAAAAACA
Statistics
Matches: 115, Mismatches: 21, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
60 2 0.02
61 27 0.23
62 2 0.02
63 28 0.24
64 26 0.23
65 28 0.24
66 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (61 bp):
GATTATTAAAGGCATTTTTGGCCAAAATACCTTCAATAATCCACTCAATAAATTTTTATAG
Found at i:6541832 original size:126 final size:127
Alignment explanation
Indices: 6541600--6541840 Score: 349
Period size: 127 Copynumber: 1.9 Consensus size: 127
6541590 TTTTTGATAG
** *
6541600 AAAAAGACCTTCAATAATTTATAAAAAAAAATTGGAACAGATTCTTAAAGGCATTTTTGGCCGAA
1 AAAAAGACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCATTTTTGGCCCAA
* * * *
6541665 AGTACCTTCAATAATCCACTCCATAAATTTTTATGAGGGATTATTAAAGGCATTTTGGTAAA
66 AGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGGCATTTTGGTAAA
* ** * * *
6541727 AAAAATACCTTCAATAATCCATGCAAAAAATTTGGAATAGATTCTTAAAGGCGTTTTTGGCCCAA
1 AAAAAGACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCATTTTTGGCCCAA
*
6541792 A-CACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTGAAGG
66 AGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGG
6541841 TAATTTTTGT
Statistics
Matches: 100, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
126 43 0.43
127 57 0.57
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (127 bp):
AAAAAGACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCATTTTTGGCCCAA
AGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGGCATTTTGGTAAA
Found at i:6541857 original size:126 final size:126
Alignment explanation
Indices: 6541589--6541869 Score: 348
Period size: 127 Copynumber: 2.2 Consensus size: 126
6541579 TATTGAAAGC
* * **
6541589 ATTTTTGATAGAAAAAGACCTTCAATAATTTATAAAAAAAAATTGGAACAGATTCTTAAAGGCAT
1 ATTTTTGTTA-AAAAACACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCAT
* * * * * *
6541654 TTTTGGCCGAAAGTACCTTCAATAATCCACTCCATAAATTTTTATGAGGGATTATTAAAGGC
65 TTTTGGCCCAAAGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGGA
* * * ** * * *
6541716 ATTTTGGTAAAAAAAATACCTTCAATAATCCATGCAAAAAATTTGGAATAGATTCTTAAAGGCGT
1 ATTTTTGT-TAAAAAACACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCAT
*
6541781 TTTTGGCCCAAA-CACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTGAAGGTA
65 TTTTGGCCCAAAGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGG-A
*
6541843 ATTTTTGTTAAAAAACACCTTTAATAA
1 ATTTTTGTTAAAAAACACCTTCAATAA
6541870 CATTTTGTTA
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
126 59 0.45
127 70 0.54
128 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (126 bp):
ATTTTTGTTAAAAAACACCTTCAATAATCCATAAAAAAAAATTGGAACAGATTCTTAAAGGCATT
TTTGGCCCAAAGCACCTTCAATAATCCACTCAATAAATTTTTATAAAGGATTATTAAAGGA
Found at i:6545168 original size:12 final size:12
Alignment explanation
Indices: 6545151--6545253 Score: 55
Period size: 12 Copynumber: 8.1 Consensus size: 12
6545141 GTTCAAAAAC
6545151 ACCATTCAGCAA
1 ACCATTCAGCAA
*
6545163 ACCATTCA-AAA
1 ACCATTCAGCAA
*
6545174 ACATCATTCAGGAA
1 AC--CATTCAGCAA
* **
6545188 ACTATTCAAAAA
1 ACCATTCAGCAA
** *
6545200 TATTATTTAGCAA
1 -ACCATTCAGCAA
6545213 ACCATTCAGCAA
1 ACCATTCAGCAA
*
6545225 ACCAATATCATACAA
1 ACC-AT-TCA-GCAA
6545240 TACCATTCAGCAA
1 -ACCATTCAGCAA
6545253 A
1 A
6545254 ACAATATCAT
Statistics
Matches: 69, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
11 4 0.06
12 28 0.41
13 19 0.28
14 10 0.14
15 5 0.07
16 3 0.04
ACGTcount: A:0.47, C:0.24, G:0.06, T:0.23
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:6545170 original size:25 final size:25
Alignment explanation
Indices: 6545142--6545220 Score: 104
Period size: 25 Copynumber: 3.2 Consensus size: 25
6545132 CAGCAATATG
*
6545142 TTCAAAAACACCATTCAGCAAACCA
1 TTCAAAAACATCATTCAGCAAACCA
* *
6545167 TTCAAAAACATCATTCAGGAAACTA
1 TTCAAAAACATCATTCAGCAAACCA
* * *
6545192 TTCAAAAATATTATTTAGCAAACCA
1 TTCAAAAACATCATTCAGCAAACCA
6545217 TTCA
1 TTCA
6545221 GCAAACCAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 46 1.00
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (25 bp):
TTCAAAAACATCATTCAGCAAACCA
Found at i:6545202 original size:62 final size:62
Alignment explanation
Indices: 6545107--6545228 Score: 138
Period size: 62 Copynumber: 2.0 Consensus size: 62
6545097 TATCATACTA
* ** *
6545107 CAAAAACACCATTCAGTAAACCAATCAGCAATA-TGTTCAAAAACACCATTCAGCAAACCATT
1 CAAAAACACCATTCAGGAAACCAATCAAAAATATTATTCAAAAA-ACCATTCAGCAAACCATT
* * * * **
6545169 CAAAAACATCATTCAGGAAACTATTCAAAAATATTATTTAGCAAACCATTCAGCAAACCA
1 CAAAAACACCATTCAGGAAACCAATCAAAAATATTATTCAAAAAACCATTCAGCAAACCA
6545229 ATATCATACA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
62 43 0.88
63 6 0.12
ACGTcount: A:0.48, C:0.25, G:0.07, T:0.21
Consensus pattern (62 bp):
CAAAAACACCATTCAGGAAACCAATCAAAAATATTATTCAAAAAACCATTCAGCAAACCATT
Found at i:6545244 original size:28 final size:28
Alignment explanation
Indices: 6545213--6545284 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
6545203 TATTTAGCAA
6545213 ACCATTCAGCAAACCAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
*
6545241 ACCATTCAGCAAAACAATATCATACAAT
1 ACCATTCAGCAAACCAATATCATACAAT
*
6545269 ACCATTCAACAAACCA
1 ACCATTCAGCAAACCA
6545285 CAATATTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.19
Consensus pattern (28 bp):
ACCATTCAGCAAACCAATATCATACAAT
Found at i:6548102 original size:31 final size:32
Alignment explanation
Indices: 6548067--6548131 Score: 114
Period size: 31 Copynumber: 2.0 Consensus size: 32
6548057 CTTACGATAA
6548067 AACTAACATTAATAAC-ATATATATTTATTTC
1 AACTAACATTAATAACAATATATATTTATTTC
6548098 AACTAACATTAATAACATATATATATTTATTTC
1 AACTAACATTAATAACA-ATATATATTTATTTC
6548131 A
1 A
6548132 CTATTATAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 16 0.50
33 16 0.50
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (32 bp):
AACTAACATTAATAACAATATATATTTATTTC
Found at i:6550304 original size:160 final size:160
Alignment explanation
Indices: 6550096--6550453 Score: 454
Period size: 160 Copynumber: 2.2 Consensus size: 160
6550086 GAATGAATGA
* * *
6550096 ACTTTTTATGCCATTAAAAGGTAAAAATGC-AAATTAATAGTTATTGTTCTATTTTAATAATTTT
1 ACTTTTT-TGCCATT-AAAGGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAATTTG
* *
6550160 GATAGTTTCAATACATGATATTAAACTTATCCAAA-GTATTGAACTTAGTTTCCACGGTTGATAT
64 GATAGCTTCAATACATGATATTAAACTTATCCAAATG-ATTGAACTTAGTTTCCACAGTTGATAT
* *
6550224 ACATGAAAAAGTTATTGTTTACATCTATTTAGG
128 ACATGAAAAAGTTATCGTTTACATCTAGTTAGG
* * * *
6550257 ACTTTTTGTGCCGTTAAAGGTAAAAATACAAAATT-GTTGTTATTGTTCTATTTTAACAGTTTGG
1 ACTTTTT-TGCCATTAAAGGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAATTTGG
* * * **
6550321 ATAGCTTCAATAGATGATATTAAACTTATCCAAATGATTGAACTTGGTTTCTACAGTTGATATGT
65 ATAGCTTCAATACATGATATTAAACTTATCCAAATGATTGAACTTAGTTTCCACAGTTGATATAC
* *
6550386 ATGAAAAATTTATCGTTTACGTCTAGTTAGG
130 ATGAAAAAGTTATCGTTTACATCTAGTTAGG
* *
6550417 ACTATTTTTGCCTTTTAAAGGCAAAAATAC-AAATTAA
1 ACT-TTTTTGCC-ATTAAAGGTAAAAATACAAAATTAA
6550454 ACTTTTGGAT
Statistics
Matches: 170, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
160 132 0.78
161 38 0.22
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (160 bp):
ACTTTTTTGCCATTAAAGGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAATTTGGA
TAGCTTCAATACATGATATTAAACTTATCCAAATGATTGAACTTAGTTTCCACAGTTGATATACA
TGAAAAAGTTATCGTTTACATCTAGTTAGG
Found at i:6551239 original size:20 final size:20
Alignment explanation
Indices: 6551214--6551252 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6551204 GTTGCAAACG
6551214 ATGCAACAACGTTTCCAACT
1 ATGCAACAACGTTTCCAACT
6551234 ATGCAACAACGTTTCCAAC
1 ATGCAACAACGTTTCCAAC
6551253 AAATAGAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.23
Consensus pattern (20 bp):
ATGCAACAACGTTTCCAACT
Found at i:6554711 original size:24 final size:24
Alignment explanation
Indices: 6554679--6554779 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 24
6554669 TATAAAGCCA
6554679 TAATAGAGCAACAATA-CTAATGACT
1 TAAT-GAGCAACAATAGC-AATGACT
*
6554704 TGATGAG---CAATAGCAATGACT
1 TAATGAGCAACAATAGCAATGACT
**
6554725 TAATGAGCAAC-A-A-CAACAACT
1 TAATGAGCAACAATAGCAATGACT
*
6554746 TAATGAG---CAATAGCAATGGCT
1 TAATGAGCAACAATAGCAATGACT
6554767 TAATGAGCAACAA
1 TAATGAGCAACAA
6554780 CAACAGCTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 21
0.68 0.08 0.24
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 1 0.02
21 43 0.73
22 2 0.03
23 1 0.02
24 7 0.12
25 3 0.05
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.21
Consensus pattern (24 bp):
TAATGAGCAACAATAGCAATGACT
Found at i:6554721 original size:21 final size:21
Alignment explanation
Indices: 6554697--6554776 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 21
6554687 CAACAATACT
*
6554697 AATGACTTGATGAGCAATAGC
1 AATGACTTAATGAGCAATAGC
* *
6554718 AATGACTTAATGAGCAACAAC
1 AATGACTTAATGAGCAATAGC
**
6554739 AACAACTTAATGAGCAATAGC
1 AATGACTTAATGAGCAATAGC
*
6554760 AATGGCTTAATGAGCAA
1 AATGACTTAATGAGCAA
6554777 CAACAACAGC
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (21 bp):
AATGACTTAATGAGCAATAGC
Found at i:6554756 original size:42 final size:42
Alignment explanation
Indices: 6554701--6554784 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
6554691 AATACTAATG
*
6554701 ACTTGATGAGCAATAGCAATGACTTAATGAGCAACAACAACA
1 ACTTAATGAGCAATAGCAATGACTTAATGAGCAACAACAACA
*
6554743 ACTTAATGAGCAATAGCAATGGCTTAATGAGCAACAACAACA
1 ACTTAATGAGCAATAGCAATGACTTAATGAGCAACAACAACA
6554785 GCTTGCAGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.19, G:0.17, T:0.19
Consensus pattern (42 bp):
ACTTAATGAGCAATAGCAATGACTTAATGAGCAACAACAACA
Found at i:6554788 original size:21 final size:21
Alignment explanation
Indices: 6554723--6554788 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
6554713 ATAGCAATGA
*
6554723 CTTAATGAGCAACAACAACAA
1 CTTAATGAGCAACAACAACAG
* * **
6554744 CTTAATGAGCAATAGCAATGG
1 CTTAATGAGCAACAACAACAG
6554765 CTTAATGAGCAACAACAACAG
1 CTTAATGAGCAACAACAACAG
6554786 CTT
1 CTT
6554789 GCAGCATTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (21 bp):
CTTAATGAGCAACAACAACAG
Found at i:6562587 original size:14 final size:14
Alignment explanation
Indices: 6562557--6562600 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
6562547 AAAATTTTAT
*
6562557 AAATATTTTTACTAA
1 AAATATTTAT-CTAA
6562572 AAATATTTATCTAA
1 AAATATTTATCTAA
*
6562586 AAATATATATC-AA
1 AAATATTTATCTAA
6562599 AA
1 AA
6562601 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 4 0.15
14 14 0.52
15 9 0.33
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATATTTATCTAA
Found at i:6562681 original size:11 final size:12
Alignment explanation
Indices: 6562653--6562694 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
6562643 TAATCTATCT
*
6562653 ATTTTTATTTTG
1 ATTTTAATTTTG
6562665 ATTTTAATTTTG
1 ATTTTAATTTTG
*
6562677 A-TTTAATTAT-
1 ATTTTAATTTTG
6562687 ATTTTAAT
1 ATTTTAAT
6562695 AAAATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 1 0.04
11 14 0.52
12 12 0.44
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (12 bp):
ATTTTAATTTTG
Found at i:6562734 original size:25 final size:26
Alignment explanation
Indices: 6562689--6562737 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
6562679 TTAATTATAT
*
6562689 TTTAATAAAATTTTTTATAAATTTCA
1 TTTAATAAAATTTTATATAAATTTCA
*
6562715 TTTAA-AAAATTTTATCTAAATTT
1 TTTAATAAAATTTTATATAAATTT
6562738 TTTTCGAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTAATAAAATTTTATATAAATTTCA
Found at i:6565704 original size:51 final size:51
Alignment explanation
Indices: 6565639--6565765 Score: 143
Period size: 52 Copynumber: 2.5 Consensus size: 51
6565629 TTCAATCATA
* **
6565639 ATTGA-AGAATTTTTTAAATTTAATATCAAAATCAATTGGCATTAAAAATGAT
1 ATTGAGAG-ATTTTTTAGATTTAATATCAAAATCAATTCACATT-AAAATGAT
* * *
6565691 ATAT-AGAGATTTTTTGGATTTAATTTCAGAATCAATTCACATTAAAATGAT
1 AT-TGAGAGATTTTTTAGATTTAATATCAAAATCAATTCACATTAAAATGAT
6565742 ATTGAGAGA-TTTTTAGGATTTAAT
1 ATTGAGAGATTTTTTA-GATTTAAT
6565766 TTCATAATTA
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
50 6 0.09
51 23 0.36
52 32 0.50
53 3 0.05
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.41
Consensus pattern (51 bp):
ATTGAGAGATTTTTTAGATTTAATATCAAAATCAATTCACATTAAAATGAT
Found at i:6565725 original size:52 final size:51
Alignment explanation
Indices: 6565639--6565769 Score: 158
Period size: 51 Copynumber: 2.5 Consensus size: 51
6565629 TTCAATCATA
** * **
6565639 ATTGA-AGAATTTTTTAAATTTAATATCAAAATCAATTGGCATTAAAAATGAT
1 ATTGAGAG-ATTTTTTGGATTTAATTTCAAAATCAATTCACATT-AAAATGAT
*
6565691 ATAT-AGAGATTTTTTGGATTTAATTTCAGAATCAATTCACATTAAAATGAT
1 AT-TGAGAGATTTTTTGGATTTAATTTCAAAATCAATTCACATTAAAATGAT
*
6565742 ATTGAGAGATTTTTAGGATTTAATTTCA
1 ATTGAGAGATTTTTTGGATTTAATTTCA
6565770 TAATTAAATC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
50 1 0.01
51 33 0.48
52 32 0.46
53 3 0.04
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.41
Consensus pattern (51 bp):
ATTGAGAGATTTTTTGGATTTAATTTCAAAATCAATTCACATTAAAATGAT
Found at i:6565766 original size:51 final size:52
Alignment explanation
Indices: 6565656--6565769 Score: 160
Period size: 51 Copynumber: 2.2 Consensus size: 52
6565646 AATTTTTTAA
* ** *
6565656 ATTTAATATCAAAATCAATTGGCATTAAAAATGATATATAGAGATTTTTTGG
1 ATTTAATTTCAAAATCAATTCACATTAAAAATGATATATAGAGATTTTTAGG
*
6565708 ATTTAATTTCAGAATCAATTCACATT-AAAATGATAT-TGAGAGATTTTTAGG
1 ATTTAATTTCAAAATCAATTCACATTAAAAATGATATAT-AGAGATTTTTAGG
6565759 ATTTAATTTCA
1 ATTTAATTTCA
6565770 TAATTAAATC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
50 1 0.02
51 33 0.59
52 22 0.39
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (52 bp):
ATTTAATTTCAAAATCAATTCACATTAAAAATGATATATAGAGATTTTTAGG
Found at i:6566313 original size:18 final size:17
Alignment explanation
Indices: 6566287--6566329 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6566277 TAGGTTTTTC
6566287 TTTTTTTTTT-ATCTTA
1 TTTTTTTTTTGATCTTA
*
6566303 TTTTTTGTTTTGATTTTA
1 TTTTTT-TTTTGATCTTA
6566321 TTTTATTTT
1 TTTT-TTTT
6566330 ATTTTAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 11 0.48
19 2 0.09
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.81
Consensus pattern (17 bp):
TTTTTTTTTTGATCTTA
Found at i:6566313 original size:23 final size:23
Alignment explanation
Indices: 6566281--6566329 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6566271 CGATTGTAGG
**
6566281 TTTTTCTTTTTTTTTTATCTTAT
1 TTTTTCTTTTGATTTTATCTTAT
* *
6566304 TTTTTGTTTTGATTTTATTTTAT
1 TTTTTCTTTTGATTTTATCTTAT
6566327 TTT
1 TTT
6566330 ATTTTAAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTTGATTTTATCTTAT
Found at i:6566370 original size:22 final size:22
Alignment explanation
Indices: 6566340--6566382 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
6566330 ATTTTAAGAT
*
6566340 TTTTTATCTTTA-CTTATTATTA
1 TTTTCATCTTTATCTT-TTATTA
6566362 TTTTCATCTTTATCTTTTATT
1 TTTTCATCTTTATCTTTTATT
6566383 TTTGATGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTCATCTTTATCTTTTATTA
Found at i:6570558 original size:17 final size:16
Alignment explanation
Indices: 6570527--6570573 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
6570517 AAAAAGGTGT
* *
6570527 GCAAAAAAATGAAAAAT
1 GCAAAAAAA-AAAAAAA
6570544 G-AAAAAGAAAAAAAAA
1 GCAAAAA-AAAAAAAAA
6570560 GCAAAAAAAAAAAA
1 GCAAAAAAAAAAAA
6570574 GAAGAGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.81, C:0.04, G:0.11, T:0.04
Consensus pattern (16 bp):
GCAAAAAAAAAAAAAA
Found at i:6571819 original size:86 final size:85
Alignment explanation
Indices: 6571627--6571895 Score: 324
Period size: 86 Copynumber: 3.1 Consensus size: 85
6571617 AAATTTGAAA
* * * ** *
6571627 TCTTACGAATCTGAAAGTCCTTGCGAACCTAAATTCTTTACGAATCTAGAACCT-TTGTGAACTT
1 TCTTACGAATCTGAAAGTCCTTGTGAACCTAAAATCTTTACGAATCTAGAACCTCTCGAAAACTG
* * *
6571691 ATAATCTTACAGATTTTTCAT
66 A-AATCTTGCAAATCTTTCAT
* * * *
6571712 TCTTACGAATCTAAAAGTCCTTGTGAACCTAAAATCTTTGCAAATCTAAAACCTCTACGAAAACT
1 TCTTACGAATCTGAAAGTCCTTGTGAACCTAAAATCTTTACGAATCTAGAACCTCT-CGAAAACT
*
6571777 GAAATCTTGTAAATCTTTCAT
65 GAAATCTTGCAAATCTTTCAT
* * * **
6571798 TTTTACGAATTTGAAAGTCCTTGTGAACCTAAAAGCTTTACGAATCTAGAACCTCTGCGAAAGTT
1 TCTTACGAATCTGAAAGTCCTTGTGAACCTAAAATCTTTACGAATCTAGAACCTCT-CGAAAACT
6571863 GAAATCTTGCAAATCTTTCAT
65 GAAATCTTGCAAATCTTTCAT
*
6571884 TCTTACAAATCT
1 TCTTACGAATCT
6571896 AAAAACCTTT
Statistics
Matches: 154, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
85 48 0.31
86 100 0.65
87 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (85 bp):
TCTTACGAATCTGAAAGTCCTTGTGAACCTAAAATCTTTACGAATCTAGAACCTCTCGAAAACTG
AAATCTTGCAAATCTTTCAT
Found at i:6572926 original size:19 final size:18
Alignment explanation
Indices: 6572902--6572963 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 18
6572892 TCGTAGGTTT
6572902 TTTTTTTTATTTCATCTTA
1 TTTTTTTTATTTCAT-TTA
*
6572921 TTTTTTTTATTTTATTT-
1 TTTTTTTTATTTCATTTA
*
6572938 TTCTATTTTATTTTCATTTTA
1 TT-TTTTTTA-TTTCA-TTTA
6572959 TTTTT
1 TTTTT
6572964 AGATTTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 2 0.06
18 8 0.23
19 18 0.51
20 5 0.14
21 2 0.06
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTTTATTTCATTTA
Found at i:6572939 original size:6 final size:6
Alignment explanation
Indices: 6572924--6573016 Score: 55
Period size: 6 Copynumber: 14.8 Consensus size: 6
6572914 CATCTTATTT
* *
6572924 TTTTTA -TTTTA TTTTTC TATTTTA TTTTCA -TTTTA TTTTTAGA TTTTTTA
1 TTTTTA TTTTTA TTTTTA T-TTTTA TTTTTA TTTTTA TTTTT--A -TTTTTA
* * * * *
6572974 TCTTTA CTTGTTA TTATTA TTTTCA TCTTTA TATTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA T-TTTTA TTTTT
6573017 GTTGATTTTC
Statistics
Matches: 66, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
5 9 0.14
6 36 0.55
7 15 0.23
8 1 0.02
9 5 0.08
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTTTA
Found at i:6572944 original size:13 final size:13
Alignment explanation
Indices: 6572922--6572963 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
6572912 TTCATCTTAT
*
6572922 TTTTTTTATTTTA
1 TTTTTCTATTTTA
6572935 TTTTTCTATTTTA
1 TTTTTCTATTTTA
6572948 -TTTTC-ATTTTA
1 TTTTTCTATTTTA
6572959 TTTTT
1 TTTTT
6572964 AGATTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.22
12 9 0.33
13 12 0.44
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTATTTTA
Found at i:6572956 original size:11 final size:11
Alignment explanation
Indices: 6572920--6572962 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
6572910 ATTTCATCTT
6572920 ATTTT-TTTT-
1 ATTTTATTTTC
6572929 ATTTTATTTTTC
1 ATTTTA-TTTTC
6572941 TATTTTATTTTC
1 -ATTTTATTTTC
6572953 ATTTTATTTT
1 ATTTTATTTT
6572963 TAGATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 5 0.17
11 14 0.47
12 5 0.17
13 6 0.20
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:6572962 original size:24 final size:22
Alignment explanation
Indices: 6572899--6572972 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 22
6572889 CAATCGTAGG
*
6572899 TTTTTTT-TTTTATTTCATCTTAT
1 TTTTTTTATTTTATTT-TTC-TAT
6572922 TTTTTTTATTTTATTTTTCTAT
1 TTTTTTTATTTTATTTTTCTAT
**
6572944 TTTATTTTCATTTTATTTTTAGAT
1 TTT-TTTT-ATTTTATTTTTCTAT
6572968 TTTTT
1 TTTTT
6572973 ATCTTTACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 6 0.13
23 15 0.33
24 24 0.53
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTTTTTATTTTATTTTTCTAT
Found at i:6573001 original size:25 final size:24
Alignment explanation
Indices: 6572941--6573005 Score: 68
Period size: 22 Copynumber: 2.9 Consensus size: 24
6572931 TTTATTTTTC
*
6572941 TATT-TTATTTTCAT-TTTATTTT
1 TATTATTATTTTCATCTTTATTGT
*
6572963 TA-GATT-TTTT-ATCTTTACTTGT
1 TATTATTATTTTCATCTTTA-TTGT
6572985 TATTATTATTTTCATCTTTAT
1 TATTATTATTTTCATCTTTAT
6573006 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
20 2 0.06
21 8 0.24
22 9 0.26
23 3 0.09
24 5 0.15
25 7 0.21
ACGTcount: A:0.20, C:0.08, G:0.03, T:0.69
Consensus pattern (24 bp):
TATTATTATTTTCATCTTTATTGT
Done.