Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 40 of 105
Found at i:7575568 original size:59 final size:58
Alignment explanation
Indices: 7575508--7575961 Score: 554
Period size: 59 Copynumber: 7.7 Consensus size: 58
7575498 TTTGTGCAGG
* * * *
7575508 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCC-AAAAAATATTTTTTTGAAACTTTATTTTCAAGA
* * * * *
7575567 AAAATTGATATTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTC-CAAAAA-ATATTTTTTTGAAACTTTATTTTCAAGA
*
7575627 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTTGAAACTTT-ATTTTCAAGA
*
7575686 AAAATTGATACTTTCAAC-TTTTCCAAAAAAATGTTTTTTTTTTGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCC-AAAAAA---TATTTTTTTGAAACTTT-ATTTTCAAGA
* *** * *
7575748 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCC-AAAAAATATTTTTTTGAAACTTTATTTTCAAGA
* * * *
7575806 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTTGAAACTTT-ATTTTCAAGA
* * * *
7575865 AAAATTGATACTTTCAACTTTTCCCAAAAAAT-CTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTTGAAACTTTATTTTCAAGA
*
7575922 AAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTT
7575962 TTATTTTTAT
Statistics
Matches: 342, Mismatches: 43, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
57 38 0.11
58 83 0.24
59 121 0.35
60 44 0.13
62 56 0.16
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTTCCAAAAAATATTTTTTTGAAACTTTATTTTCAAGA
Found at i:7575708 original size:58 final size:59
Alignment explanation
Indices: 7575508--7575961 Score: 566
Period size: 58 Copynumber: 7.7 Consensus size: 59
7575498 TTTGTGCAGG
* * * * *
7575508 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTTGAAACTTTATTTTCAAGA
* * * *
7575567 AAAATTGATATTTTCAAC-TTTTCCTCAAAAATTTATTTTTTTGAAATTTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCACAAAAA--TATTTTTTTGAAACTTTATTTTCAAGA
7575627 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTTGAAACTTT-ATTTTCAAGA
* *
7575686 AAAATTGATACTTTCAAC-TTTTCCAAAAAAATGTTTTTTTTTTGAAACTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTTCCACAAAAA---TATTTTTTTGAAACTTT-ATTTTCAAGA
* *** * *
7575748 AAAATTGATACTTTCAAC-TTTTCCTCAAAAACCCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTTGAAACTTTATTTTCAAGA
* * *
7575806 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTCTTTGGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTTGAAACTTT-ATTTTCAAGA
* *
7575865 AAAATTGATACTTTCAAC-TTTTCC-CAAAAA-ATCTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATAT-TTTTTTGAAACTTTATTTTCAAGA
7575922 AAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTT
7575962 TTATTTTTAT
Statistics
Matches: 348, Mismatches: 34, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
57 28 0.08
58 118 0.34
59 96 0.28
60 44 0.13
61 6 0.02
62 56 0.16
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTTCCACAAAAATATTTTTTTGAAACTTTATTTTCAAGA
Found at i:7575812 original size:179 final size:176
Alignment explanation
Indices: 7575508--7575961 Score: 655
Period size: 179 Copynumber: 2.6 Consensus size: 176
7575498 TTTGTGCAGG
* * * * *
7575508 AAAATTGATACTTTCAACTTTTTCCAAAAAAATATTCTTTTGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAAC-TTTTCCAAAAAAATTTTTTTTTGAAACTTTATTTTCAAGAAAAATT
* * * *
7575573 GATATTTTCAACTTTTCCTCAAAAATTTATTTTTTTGAAATTTTATTTTTAAGAAAAATTGATAC
65 GATACTTTCAACTTTTCCTCAAAAA-TCACTTTTTTGAAAATTTATTTTTAAGAAAAATTGATAC
* *
7575638 TTTCAACTTTTTCCCAAAAATATTTTTTTGAAACTTTGATTTTCAAGA
129 TTTCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGA
7575686 AAAATTGATACTTTCAACTTTTCCAAAAAAATGTTTTTTTTTTGAAACTTTGATTTTCAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCAAAAAAA---TTTTTTTTTGAAACTTT-ATTTTCAAGAAAA
*
7575751 ATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
62 ATTGATACTTTCAACTTTTCCTCAAAAATCACTTTTTTGAAAATTTATTTTTAAGAAAAATTGAT
*
7575815 ACTTTCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGG
127 ACTTTCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGA
* * * *
7575865 AAAATTGATACTTTCAACTTTTCCCAAAAAA-TCTTTTTTGAAAATTTATTTTTAAGAAAAATTG
1 AAAATTGATACTTTCAACTTTTCCAAAAAAATTTTTTTTTGAAACTTTATTTTCAAGAAAAATTG
*
7575929 ATACTTTCAACTTTTTCC-CAAAAAT-ATTTTTTT
66 ATACTTTCAAC-TTTTCCTCAAAAATCACTTTTTT
7575962 TTATTTTTAT
Statistics
Matches: 251, Mismatches: 19, Indels: 16
0.88 0.07 0.06
Matches are distributed among these distances:
174 39 0.16
175 20 0.08
177 13 0.05
178 18 0.07
179 109 0.43
180 15 0.06
181 37 0.15
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (176 bp):
AAAATTGATACTTTCAACTTTTCCAAAAAAATTTTTTTTTGAAACTTTATTTTCAAGAAAAATTG
ATACTTTCAACTTTTCCTCAAAAATCACTTTTTTGAAAATTTATTTTTAAGAAAAATTGATACTT
TCAACTTTTTCCCAAAAATATTCTTTGGAAACTTTGATTTTCAAGA
Found at i:7576023 original size:17 final size:16
Alignment explanation
Indices: 7575984--7576041 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
7575974 AAAAAAATAG
*
7575984 AATAATAATAAAAAAA
1 AATAAAAATAAAAAAA
* *
7576000 AAGAAAAGTAAAACAAA
1 AATAAAAATAAAA-AAA
7576017 AATAAAAATAAAATAAA
1 AATAAAAATAAAA-AAA
*
7576034 GATAAAAA
1 AATAAAAA
7576042 GAATATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 10 0.29
17 24 0.71
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AATAAAAATAAAAAAA
Found at i:7576038 original size:11 final size:11
Alignment explanation
Indices: 7575976--7576040 Score: 62
Period size: 11 Copynumber: 5.9 Consensus size: 11
7575966 TTTTATTTAA
*
7575976 AAAAATAGAAT
1 AAAAATAAAAT
*
7575987 AATAATAAAA-
1 AAAAATAAAAT
*
7575997 AAAAAGAAAAGT
1 AAAAATAAAA-T
7576009 AAAACA-AAAAT
1 AAAA-ATAAAAT
7576020 AAAAATAAAAT
1 AAAAATAAAAT
*
7576031 AAAGATAAAA
1 AAAAATAAAA
7576041 AGAATATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
10 9 0.20
11 27 0.60
12 8 0.18
13 1 0.02
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:7576093 original size:12 final size:12
Alignment explanation
Indices: 7576064--7576098 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
7576054 AACCTAATCT
7576064 AATAAATAAAAAA
1 AATAAAT-AAAAA
*
7576077 AATAAATAAACA
1 AATAAATAAAAA
7576089 AATAAATAAA
1 AATAAATAAA
7576099 TTCAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 14 0.67
13 7 0.33
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAAATAAAAA
Found at i:7576661 original size:24 final size:24
Alignment explanation
Indices: 7576616--7576664 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7576606 AATCTGGAAA
*
7576616 TTTTCCAAAAATTTCCAGAAAAAT
1 TTTTCCAAAAATCTCCAGAAAAAT
*
7576640 TTTTGCCAAAAATCTCTA-AAAAAT
1 TTTT-CCAAAAATCTCCAGAAAAAT
7576664 T
1 T
7576665 ATTTTCGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (24 bp):
TTTTCCAAAAATCTCCAGAAAAAT
Found at i:7576662 original size:25 final size:24
Alignment explanation
Indices: 7576616--7576662 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
7576606 AATCTGGAAA
* *
7576616 TTTTCCAAAAATTTCCAGAAAAAT
1 TTTTCCAAAAATCTCCAAAAAAAT
*
7576640 TTTTGCCAAAAATCTCTAAAAAA
1 TTTT-CCAAAAATCTCCAAAAAA
7576663 TTATTTTCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 4 0.21
25 15 0.79
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (24 bp):
TTTTCCAAAAATCTCCAAAAAAAT
Found at i:7577049 original size:25 final size:24
Alignment explanation
Indices: 7576986--7577093 Score: 93
Period size: 24 Copynumber: 4.7 Consensus size: 24
7576976 AAAATTTAAT
* *
7576986 AGATAATTAGAAAAATAATA-ATA
1 AGATAAATAAAAAAATAATATATA
* *
7577009 AGATAAAT-CAACAATAATATTATA
1 AGATAAATAAAAAAATAATA-TATA
7577033 AGATAAATAAAAAAATAATA-AT-
1 AGATAAATAAAAAAATAATATATA
* * *
7577055 A-ATAGATAAATAAAT-ATATAATT
1 AGATAAATAAAAAAATAATAT-ATA
7577078 AGATAAATAAAAAAAT
1 AGATAAATAAAAAAAT
7577094 GAAAAAGAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.04
21 12 0.17
22 12 0.17
23 10 0.14
24 23 0.33
25 9 0.13
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.27
Consensus pattern (24 bp):
AGATAAATAAAAAAATAATATATA
Found at i:7577069 original size:4 final size:4
Alignment explanation
Indices: 7577030--7577170 Score: 55
Period size: 4 Copynumber: 35.8 Consensus size: 4
7577020 CAATAATATT
* * *
7577030 ATAA GATAA ATAA AAAA AT-A AT-A AT-A ATAG ATAA ATAA ATAT ATAA
1 ATAA -ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
* * * * * **
7577076 TTAG ATAA ATAA AAAA ATGAA AAAGA AGAA A-AA ATAA AGGA A-AA ATAA
1 ATAA ATAA ATAA ATAA AT-AA ATA-A ATAA ATAA ATAA ATAA ATAA ATAA
* * *
7577124 A-ATA A-AA ATAT ATAT ATTA ATAA ATAGTA AT-A ATAA ATAA ATAA ATA
1 ATA-A ATAA ATAA ATAA ATAA ATAA ATA--A ATAA ATAA ATAA ATAA ATA
7577171 CATAGGATAT
Statistics
Matches: 105, Mismatches: 21, Indels: 21
0.71 0.14 0.14
Matches are distributed among these distances:
3 20 0.19
4 72 0.69
5 10 0.10
6 3 0.03
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:7577082 original size:20 final size:18
Alignment explanation
Indices: 7576982--7577088 Score: 64
Period size: 19 Copynumber: 5.8 Consensus size: 18
7576972 AAAAAAAATT
* *
7576982 TAATAGATAATTAGAAAAA
1 TAATAGATAAATA-AATAA
7577001 TAATA-ATAAGATAAATCAA
1 TAATAGATAA-ATAAAT-AA
* *
7577020 CAATA-ATATTATAAGATAAA
1 TAATAGATA-AATAA-AT-AA
7577040 TAA-A-A-AAAT-AATAA
1 TAATAGATAAATAAATAA
7577054 TAATAGATAAATAAATATA
1 TAATAGATAAATAAATA-A
7577073 TAATTAGATAAATAAA
1 TAA-TAGATAAATAAA
7577089 AAAATGAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
14 5 0.07
15 3 0.04
16 2 0.03
17 6 0.08
18 11 0.15
19 26 0.37
20 18 0.25
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (18 bp):
TAATAGATAAATAAATAA
Found at i:7577084 original size:45 final size:46
Alignment explanation
Indices: 7576951--7577093 Score: 141
Period size: 45 Copynumber: 3.1 Consensus size: 46
7576941 CAACCTTTTC
* * * * * * *
7576951 AAAATAAAAATCAGATAAAATAAAAAAAATTTAA-TAGATAATTAGA
1 AAAATAATAATAAGAT-AAATAACAATAATATAATTAGATAAATAAA
* *
7576997 AAAATAATAATAAGATAAATCAACAATAATATTATAAGATAAATAAA
1 AAAATAATAATAAGATAAAT-AACAATAATATAATTAGATAAATAAA
7577044 AAAATAATAATAATAGATAAAT-A-AAT-ATATAATTAGATAAATAAA
1 AAAATAATAAT-A-AGATAAATAACAATAATATAATTAGATAAATAAA
7577089 AAAAT
1 AAAAT
7577094 GAAAAAGAAG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
45 26 0.32
46 26 0.32
47 21 0.26
48 1 0.01
49 8 0.10
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (46 bp):
AAAATAATAATAAGATAAATAACAATAATATAATTAGATAAATAAA
Found at i:7577130 original size:21 final size:20
Alignment explanation
Indices: 7577082--7577131 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
7577072 ATAATTAGAT
*
7577082 AAATAAAAAAATGAAAAAGA
1 AAATAAAAAAAGGAAAAAGA
*
7577102 AGAA-AAAATAAAGGAAAAATA
1 A-AATAAAA-AAAGGAAAAAGA
7577123 AAATAAAAA
1 AAATAAAAA
7577132 TATATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAATAAAAAAAGGAAAAAGA
Found at i:7577170 original size:25 final size:25
Alignment explanation
Indices: 7576999--7577175 Score: 73
Period size: 25 Copynumber: 7.0 Consensus size: 25
7576989 TAATTAGAAA
* * *
7576999 AATAAT-AATAAGATAAATCAACAAT
1 AATAATAAATAA-ATAAATAAATAGT
* *
7577024 AATATTATAAGATAAATAAAAAAATAAT
1 AATA--ATAA-ATAAATAAATAAATAGT
*
7577052 AATAATAGATAAATAAAT--ATA-T
1 AATAATAAATAAATAAATAAATAGT
* *
7577074 AATTAGATAAATAAAAAAATGAAAAAG-
1 AA-TA-ATAAATAAATAAAT-AAATAGT
* * ** *
7577101 AAGAAAAAATAAAGGAA-AAATA-A
1 AATAATAAATAAATAAATAAATAGT
7577124 AATAA-AAATATATATATTAATAAATAGT
1 AATAATAAATA-A-ATA--AATAAATAGT
*
7577152 AATAATAAATAAATAAATACATAG
1 AATAATAAATAAATAAATAAATAG
7577176 GATATAAAGG
Statistics
Matches: 116, Mismatches: 18, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
22 8 0.07
23 14 0.12
24 13 0.11
25 31 0.27
26 6 0.05
27 14 0.12
28 21 0.18
29 9 0.08
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (25 bp):
AATAATAAATAAATAAATAAATAGT
Found at i:7585843 original size:42 final size:43
Alignment explanation
Indices: 7585781--7585861 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
7585771 ACAGAACTAA
*
7585781 GATGTATTTATGCTTGGATTTATATATCTATTTCTAATTCATG
1 GATGTATTTATGCTTGGATTTAGATATCTATTTCTAATTCATG
*
7585824 GATGT-TTTATGCCTT-GATTTAGATATGTATTTCTAATT
1 GATGTATTTATG-CTTGGATTTAGATATCTATTTCTAATT
7585862 TAGTGATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.25, C:0.09, G:0.15, T:0.52
Consensus pattern (43 bp):
GATGTATTTATGCTTGGATTTAGATATCTATTTCTAATTCATG
Found at i:7586543 original size:25 final size:25
Alignment explanation
Indices: 7586515--7586570 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
7586505 TTTTTATGAC
* *
7586515 AAAT-TAATTTCAATTTATTATATAA
1 AAATATAATTTCAA-TAATTACATAA
*
7586540 AAATGATATTTTCAATAATTACATAA
1 AAAT-ATAATTTCAATAATTACATAA
7586566 AAATA
1 AAATA
7586571 ATACTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 5 0.19
26 13 0.50
27 8 0.31
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (25 bp):
AAATATAATTTCAATAATTACATAA
Found at i:7586697 original size:21 final size:21
Alignment explanation
Indices: 7586659--7586698 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7586649 ACTAAATTTC
*
7586659 AAATATAAAATTATAAATAAT
1 AAATATAAAATTAAAAATAAT
7586680 AAATAATAAAA-TAAAAATA
1 AAAT-ATAAAATTAAAAATA
7586699 TAATTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATATAAAATTAAAAATAAT
Found at i:7587552 original size:20 final size:23
Alignment explanation
Indices: 7587504--7587553 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
7587494 AGTAAATGCT
*
7587504 TTAATTAGTTTTATTAAATTATTA
1 TTAATTAGTTTTATTAAA-TATGA
7587528 TTAATTA-TTTT-TTAAA-ATGA
1 TTAATTAGTTTTATTAAATATGA
7587548 TTAATT
1 TTAATT
7587554 TATTATTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 9 0.36
22 5 0.20
23 4 0.16
24 7 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (23 bp):
TTAATTAGTTTTATTAAATATGA
Found at i:7594767 original size:25 final size:26
Alignment explanation
Indices: 7594705--7594768 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
7594695 AGCGCTTGAG
7594705 GTTTGCTGTAATTAAAATCCAAAGAT
1 GTTTGCTGTAATTAAAATCCAAAGAT
* * *
7594731 GTTTGCTCTAATTAAAATCCGATGAT
1 GTTTGCTGTAATTAAAATCCAAAGAT
7594757 -TTTGCTGTAATT
1 GTTTGCTGTAATT
7594769 CACGCTCAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.32
26 23 0.68
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (26 bp):
GTTTGCTGTAATTAAAATCCAAAGAT
Found at i:7605628 original size:13 final size:13
Alignment explanation
Indices: 7605610--7605634 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7605600 AAAAAAGTTG
7605610 AAATAATGAAAAT
1 AAATAATGAAAAT
7605623 AAATAATGAAAA
1 AAATAATGAAAA
7605635 ATATGACTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (13 bp):
AAATAATGAAAAT
Found at i:7606928 original size:24 final size:24
Alignment explanation
Indices: 7606893--7606943 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
7606883 TTCTTTTAAA
7606893 AATAATTAAATAA-AATAATTATTT
1 AATAATTAAATAATAA-AATTATTT
*
7606917 AATATATT-AATAATAAAATTTTTT
1 AATA-ATTAAATAATAAAATTATTT
7606941 AAT
1 AAT
7606944 TTTACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 19 0.79
25 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
AATAATTAAATAATAAAATTATTT
Found at i:7607373 original size:13 final size:12
Alignment explanation
Indices: 7607343--7607381 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
7607333 ATAGATTTGG
7607343 ATTTTTATTAAA
1 ATTTTTATTAAA
7607355 ATTTTTATTAAA
1 ATTTTTATTAAA
*
7607367 CTATTTTTATGAAA
1 --ATTTTTATTAAA
7607381 A
1 A
7607382 AATTTCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
12 13 0.54
14 11 0.46
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (12 bp):
ATTTTTATTAAA
Found at i:7609644 original size:65 final size:65
Alignment explanation
Indices: 7609474--7609793 Score: 196
Period size: 63 Copynumber: 5.0 Consensus size: 65
7609464 AATTTATTGA
* * * * * *
7609474 GGATTATTGAAAGTATTTTTTG-TCACAAACACCTTCAATAAT-TCCTTCAAACTCAAAAAATTT
1 GGATTATTGAAGGTATTTTTTGATAAAAAATACCTTCAATAATCT-CTTCTAA---AAAAATTTT
*
7609537 ATCAA
62 AT-AT
** * * ** **
7609542 GGGCTATTGAAGGCA-TTTTTGACAAAAAATATTTTCAATAATCTCTTC-AATACAATTTTTTAT
1 GGATTATTGAAGGTATTTTTTGATAAAAAATACCTTCAATAATCTCTTCTAA-A-AAAATTTTAT
7609605 AT
64 AT
* * * *
7609607 GTATTATTGAAGGTATTTTTTG-TAAAAAATACCTTCAAAAATC-CCTCTAAAAAAATTTTGTAT
1 GGATTATTGAAGGTATTTTTTGATAAAAAATACCTTCAATAATCTCTTCTAAAAAAATTTTATAT
* * * * * * *
7609670 GGATTATTAAAGGTATTTTTTGCT-ATATACACCTTCAATAATCTC-TCAAAAAAAATTTTGTAT
1 GGATTATTGAAGGTATTTTTTGATAAAAAATACCTTCAATAATCTCTTCTAAAAAAATTTTATAT
* ** * *
7609733 GGATTATTAAAGACGT-TTTTTT-ACCAAAAATGCCTTCAATAATC-C-TCTAAAAAATTTTTAT
1 GGATTATTGAAG--GTATTTTTTGATAAAAAATACCTTCAATAATCTCTTCTAAAAAAATTTTAT
7609794 GAGGAATTAC
Statistics
Matches: 199, Mismatches: 43, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
63 87 0.44
64 27 0.14
65 34 0.17
66 13 0.07
67 8 0.04
68 29 0.15
69 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (65 bp):
GGATTATTGAAGGTATTTTTTGATAAAAAATACCTTCAATAATCTCTTCTAAAAAAATTTTATAT
Found at i:7609691 original size:63 final size:62
Alignment explanation
Indices: 7609599--7609794 Score: 211
Period size: 63 Copynumber: 3.1 Consensus size: 62
7609589 CAATACAATT
* * * *
7609599 TTTTATATGTATTATTGAAGGTATTTTTTGTAAAAAATACCTTCAAAAATCCCTCTAAAAAAA
1 TTTTGTATGGATTATTAAAGGTATTTTTTGT-AAAAATACCTTCAATAATCCCTCTAAAAAAA
* * * * *
7609662 TTTTGTATGGATTATTAAAGGTATTTTTTGCTATATACACCTTCAATAATCTCTCAAAAAAAA
1 TTTTGTATGGATTATTAAAGGTATTTTTTG-TAAAAATACCTTCAATAATCCCTCTAAAAAAA
** *
7609725 TTTTGTATGGATTATTAAAGACGT-TTTTTTACCAAAAATGCCTTCAATAAT-CCTCT-AAAAAA
1 TTTTGTATGGATTATTAAAG--GTATTTTTT-GTAAAAATACCTTCAATAATCCCTCTAAAAAAA
7609787 TTTT-TATG
1 TTTTGTATG
7609795 AGGAATTACT
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
61 4 0.04
62 10 0.09
63 75 0.67
64 21 0.19
65 2 0.02
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.41
Consensus pattern (62 bp):
TTTTGTATGGATTATTAAAGGTATTTTTTGTAAAAATACCTTCAATAATCCCTCTAAAAAAA
Found at i:7609773 original size:64 final size:61
Alignment explanation
Indices: 7609599--7609841 Score: 204
Period size: 63 Copynumber: 3.9 Consensus size: 61
7609589 CAATACAATT
* * * *** *
7609599 TTTTATATGTATTATTGAAGGTATTTTTTGTAAAAAATACCTTCAAAAATCCCTCTAAAAAAA
1 TTTTGTATGGATTATTAAAGGTATTTTTTACCAAAAATACCTTCAATAAT-CCTC-AAAAAAA
* * * * *
7609662 TTTTGTATGGATTATTAAAGGTATTTTTTGCTATATACACCTTCAATAATCTCTCAAAAAAAA
1 TTTTGTATGGATTATTAAAGGTATTTTTTACCAAAAATACCTTCAATAATC-CTC-AAAAAAA
* *
7609725 TTTTGTATGGATTATTAAAGACGT-TTTTTTACCAAAAATGCCTTCAATAATCCTCTAAAAAA
1 TTTTGTATGGATTATTAAAG--GTATTTTTTACCAAAAATACCTTCAATAATCCTCAAAAAAA
* ** * *
7609787 TTTT-TATGAGGAATTACTAAAGG-CGTTTTTAGCCAAAAACACATTCAATAATCCT
1 TTTTGTAT--GG-ATTATTAAAGGTATTTTTTA-CCAAAAATACCTTCAATAATCCT
7609842 TCATATACTT
Statistics
Matches: 150, Mismatches: 22, Indels: 16
0.80 0.12 0.09
Matches are distributed among these distances:
61 3 0.02
62 18 0.12
63 96 0.64
64 31 0.21
65 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (61 bp):
TTTTGTATGGATTATTAAAGGTATTTTTTACCAAAAATACCTTCAATAATCCTCAAAAAAA
Found at i:7612799 original size:14 final size:14
Alignment explanation
Indices: 7612761--7612802 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
7612751 TTTTTAAATC
*
7612761 ATTAAT-TAATAAA
1 ATTAATATATTAAA
7612774 ATATAATAATATTAAA
1 AT-TAAT-ATATTAAA
7612790 ATTAATATATTAA
1 ATTAATATATTAA
7612803 TATATATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.08
14 11 0.44
15 4 0.16
16 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATTAATATATTAAA
Found at i:7619788 original size:19 final size:18
Alignment explanation
Indices: 7619760--7619798 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
7619750 ATCTAATCAT
*
7619760 ATGATATTTTATATTTAA
1 ATGATATTTTATATATAA
*
7619778 ATGAGTATTTTTTATATAA
1 ATGA-TATTTTATATATAA
7619797 AT
1 AT
7619799 ATTAAGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATGATATTTTATATATAA
Found at i:7620785 original size:20 final size:21
Alignment explanation
Indices: 7620756--7620800 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
7620746 ACTATTAGCA
7620756 AATAATGTCAATGATTATATC
1 AATAATGTCAATGATTATATC
7620777 AATAA-GTCAATGATTATATC
1 AATAATGTCAATGATTATATC
7620797 AATA
1 AATA
7620801 TTTTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (21 bp):
AATAATGTCAATGATTATATC
Found at i:7622599 original size:16 final size:16
Alignment explanation
Indices: 7622578--7622634 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
7622568 TGTGAATATT
7622578 TTTAGGGTTTTTCATG
1 TTTAGGGTTTTTCATG
*
7622594 TTTAGGGTTCTTGTTTAATTTG
1 TTTAGGG---TT-TTTCA--TG
7622616 TTTAGGGTTTTTCATG
1 TTTAGGGTTTTTCATG
7622632 TTT
1 TTT
7622635 GAAAATTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 12 0.36
18 4 0.12
19 4 0.12
20 4 0.12
22 9 0.27
ACGTcount: A:0.12, C:0.05, G:0.23, T:0.60
Consensus pattern (16 bp):
TTTAGGGTTTTTCATG
Found at i:7627876 original size:19 final size:19
Alignment explanation
Indices: 7627845--7627892 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
7627835 GAGTCATTTG
*
7627845 AAGTGTA-AAAACTTTATA
1 AAGTGTACAAAACTTTACA
7627863 AAGTGTACAAAACTTTACA
1 AAGTGTACAAAACTTTACA
*
7627882 AAGTGCACAAA
1 AAGTGTACAAA
7627893 GCTTGTTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (19 bp):
AAGTGTACAAAACTTTACA
Found at i:7628013 original size:20 final size:20
Alignment explanation
Indices: 7627980--7628028 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
7627970 GAAAGTGTTA
*
7627980 TACAAACTTGTAGTCATTTC
1 TACAAACTTATAGTCATTTC
* *
7628000 TACGAACTTATAGTTATTTC
1 TACAAACTTATAGTCATTTC
7628020 TACAAACTT
1 TACAAACTT
7628029 GTTACAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (20 bp):
TACAAACTTATAGTCATTTC
Found at i:7628254 original size:16 final size:16
Alignment explanation
Indices: 7628233--7628263 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7628223 TACACAAAAC
*
7628233 ATGTAAGTTTAGAAAT
1 ATGTAACTTTAGAAAT
7628249 ATGTAACTTTAGAAA
1 ATGTAACTTTAGAAA
7628264 CAAACTTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.35
Consensus pattern (16 bp):
ATGTAACTTTAGAAAT
Found at i:7629988 original size:109 final size:105
Alignment explanation
Indices: 7629822--7630035 Score: 311
Period size: 109 Copynumber: 2.0 Consensus size: 105
7629812 TCAAATTAAA
*
7629822 TATTTTACTATAATTTAAGAATTATTTATAACATTAACTTAAAAAAAATAACAAAACAATAATTT
1 TATTTTACTATAATTTAAGAATTATTCATAACATTAACTTAAAAAAAATAACAAAACAATAATTT
* * *
7629887 CATTTTTCTTTTATAAGAAATTGTTAATGTTATAAATAGTTTT
66 CA--TTT-TTTTATAAGAAATGGTTAATATTATAAATAATTTT
** * * *
7629930 TATTTTACTATAATTTTAAGAATTATTCATAATGTTGACTTTAAAAAAATAATAAAACAATAATT
1 TATTTTACTATAA-TTTAAGAATTATTCATAACATTAACTTAAAAAAAATAACAAAACAATAATT
7629995 TCATTTTTTTATAAGAAATGGTTAATATTATAAATAATTTT
65 TCATTTTTTTATAAGAAATGGTTAATATTATAAATAATTTT
7630036 AAATTATAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
106 32 0.33
107 3 0.03
108 13 0.14
109 48 0.50
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (105 bp):
TATTTTACTATAATTTAAGAATTATTCATAACATTAACTTAAAAAAAATAACAAAACAATAATTT
CATTTTTTTATAAGAAATGGTTAATATTATAAATAATTTT
Found at i:7630216 original size:29 final size:28
Alignment explanation
Indices: 7630175--7630230 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
7630165 TATTATATTA
* *
7630175 ATTAATAAATTTATAAA-TTAATTATCAT
1 ATTAAAAAATTTA-AAATTTAAATATCAT
7630203 ATTAAAAAATTTTAAAATTTAAATATCA
1 ATTAAAAAA-TTTAAAATTTAAATATCA
7630231 CATAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTAAAAAATTTAAAATTTAAATATCAT
Found at i:7631084 original size:23 final size:24
Alignment explanation
Indices: 7631038--7631084 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
7631028 TAATTATAGA
*
7631038 TATTAAAATTAAAATTTATTAAAT
1 TATTAAAATTAAAATTTATAAAAT
7631062 TATT-AAATTAAAAATTTA-AAAAT
1 TATTAAAATT-AAAATTTATAAAAT
7631085 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TATTAAAATTAAAATTTATAAAAT
Found at i:7632201 original size:2 final size:2
Alignment explanation
Indices: 7632194--7632225 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7632184 ATAACTTCTT
7632194 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7632226 CTTTTTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7635205 original size:9 final size:9
Alignment explanation
Indices: 7635191--7635220 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
7635181 CAATGCTTTT
7635191 GCAACAGCA
1 GCAACAGCA
*
7635200 GCAACAACA
1 GCAACAGCA
7635209 GCAACAGCA
1 GCAACAGCA
7635218 GCA
1 GCA
7635221 GCAGTTCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.33, G:0.20, T:0.00
Consensus pattern (9 bp):
GCAACAGCA
Found at i:7635978 original size:16 final size:15
Alignment explanation
Indices: 7635945--7635983 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7635935 TCAGGCTCAT
7635945 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
**
7635960 AAAAAAGAAAAAAGGG
1 AAAAAA-AAAAAAAAG
7635976 AAAAAAAA
1 AAAAAAAA
7635984 CACTATCAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:7641114 original size:2 final size:2
Alignment explanation
Indices: 7641109--7641133 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7641099 GTGTGTGTAT
7641109 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
7641134 TATATATACA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:7641304 original size:2 final size:2
Alignment explanation
Indices: 7641299--7641327 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7641289 TCTCTCTCTC
7641299 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7641328 GTTTTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7644196 original size:17 final size:17
Alignment explanation
Indices: 7644167--7644216 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
7644157 TTATAAATAG
7644167 TTATGACTTTTTATATAA
1 TTATGA-TTTTTATATAA
7644185 TTATGATTTTTATA-AA
1 TTATGATTTTTATATAA
* *
7644201 TAATAATTATTTATAT
1 TTATGATT-TTTATAT
7644217 TTAAATAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.29
17 14 0.50
18 6 0.21
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TTATGATTTTTATATAA
Found at i:7644845 original size:35 final size:35
Alignment explanation
Indices: 7644806--7644879 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
7644796 TTATTAGTGT
*
7644806 TTAACAAATATATAACAAAAACTTGTTTTTACCTA
1 TTAACAAACATATAACAAAAACTTGTTTTTACCTA
7644841 TTAACAAACATATAACAAAAACTTGTTTTTACCTA
1 TTAACAAACATATAACAAAAACTTGTTTTTACCTA
7644876 TTAA
1 TTAA
7644880 ACTTTGTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (35 bp):
TTAACAAACATATAACAAAAACTTGTTTTTACCTA
Found at i:7646133 original size:40 final size:40
Alignment explanation
Indices: 7646089--7646167 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
7646079 TTATAATGAT
7646089 AGATTTTAGTGTAAATCATATGTCAAATGTTATTACGAAA
1 AGATTTTAGTGTAAATCATATGTCAAATGTTATTACGAAA
7646129 AGATTTTAGTGTAAATCATATGTCAAATGTTATTACGAA
1 AGATTTTAGTGTAAATCATATGTCAAATGTTATTACGAA
7646168 TTTTCCATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (40 bp):
AGATTTTAGTGTAAATCATATGTCAAATGTTATTACGAAA
Found at i:7651370 original size:2 final size:2
Alignment explanation
Indices: 7651363--7651392 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7651353 CATGTTGCGA
*
7651363 TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
7651393 AATCATTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:7657195 original size:15 final size:15
Alignment explanation
Indices: 7657175--7657209 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
7657165 TCAATTAACA
7657175 AAAAACTAAAAAAAT
1 AAAAACTAAAAAAAT
7657190 AAAAACTAAAAAAAT
1 AAAAACTAAAAAAAT
7657205 AAAAA
1 AAAAA
7657210 TATTAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAAACTAAAAAAAT
Found at i:7663809 original size:8 final size:9
Alignment explanation
Indices: 7663778--7663809 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
7663768 ATTATTTTTA
7663778 TATTTAAAT
1 TATTTAAAT
7663787 TATTTAAAT
1 TATTTAAAT
7663796 TATTTAAA-
1 TATTTAAAT
7663804 TATTTA
1 TATTTA
7663810 TATCAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTTAAAT
Found at i:7666146 original size:15 final size:14
Alignment explanation
Indices: 7666119--7666145 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7666109 TTTACAAATT
7666119 AAAAATAAATTTTG
1 AAAAATAAATTTTG
7666133 AAAAATAAATTTT
1 AAAAATAAATTTT
7666146 TATTTTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (14 bp):
AAAAATAAATTTTG
Found at i:7668529 original size:101 final size:97
Alignment explanation
Indices: 7668358--7668551 Score: 244
Period size: 101 Copynumber: 2.0 Consensus size: 97
7668348 TCTACCCTGT
** *
7668358 AAGCATTCAGCAATTCGTCAGGTAGTCCTGTTTTTTAAGTAATGTTCATTTTCGTTATCTTGTCA
1 AAGCATTCAGCAATTCGTCAGGTAGTCCTGTTTTTTAAGTAATGTTCATCATCATTATCTTGTCA
** *
7668423 ATGTAGGTGTAATGGGATTTTAGAATGTAAGC
66 ATGTAGGCCTAATGGGAGTTTAGAATGTAAGC
* * * * *
7668455 AAGCATTCAGTAATTTGTCAGGTAGTCCGAGTCTTTTTTTTAGTAATGTTCGTCATCATTATCTT
1 AAGCATTCAGCAATTCGTCAGGTAGTCC---T-GTTTTTTAAGTAATGTTCATCATCATTATCTT
*
7668520 GTCAATGTAGGCCTAATTGGAGTTTAGAATGT
62 GTCAATGTAGGCCTAATGGGAGTTTAGAATGT
7668552 TTTCAGTTTC
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
97 26 0.32
100 1 0.01
101 54 0.67
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (97 bp):
AAGCATTCAGCAATTCGTCAGGTAGTCCTGTTTTTTAAGTAATGTTCATCATCATTATCTTGTCA
ATGTAGGCCTAATGGGAGTTTAGAATGTAAGC
Found at i:7675909 original size:3 final size:3
Alignment explanation
Indices: 7675901--7675926 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7675891 TTATCTTTAA
7675901 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
7675927 AATGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7676202 original size:21 final size:21
Alignment explanation
Indices: 7676146--7676229 Score: 80
Period size: 21 Copynumber: 4.0 Consensus size: 21
7676136 TGATAATTTT
* *
7676146 TTTTTATAAAATTTTGGTAACC
1 TTTTAATATAATTTTGGTAA-C
* *
7676168 TCTTAATGTAATTTTGGTAAC
1 TTTTAATATAATTTTGGTAAC
* *
7676189 TTTTCATATAATTTTAGTAA-
1 TTTTAATATAATTTTGGTAAC
*
7676209 TTTATAATATATTTTTGGTAA
1 TTT-TAATATAATTTTGGTAA
7676230 TAATTGAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
20 3 0.06
21 31 0.62
22 16 0.32
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.52
Consensus pattern (21 bp):
TTTTAATATAATTTTGGTAAC
Found at i:7676543 original size:22 final size:22
Alignment explanation
Indices: 7676518--7676566 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
7676508 TGTTATGTTG
* * *
7676518 TCAATTATATACTATTAAATTA
1 TCAATGATATACAATTAAATCA
*
7676540 TCAATGATTTACAATTAAATCA
1 TCAATGATATACAATTAAATCA
7676562 TCAAT
1 TCAAT
7676567 AATTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (22 bp):
TCAATGATATACAATTAAATCA
Found at i:7676593 original size:22 final size:22
Alignment explanation
Indices: 7676567--7676646 Score: 110
Period size: 22 Copynumber: 3.7 Consensus size: 22
7676557 AATCATCAAT
*
7676567 AATTATTATTAATTTACTACTA
1 AATTATTAATAATTTACTACTA
*
7676589 AATTATTATTAATTTACTACTA
1 AATTATTAATAATTTACTACTA
* *
7676611 ATTTATGAATAA-TTA-TACTA
1 AATTATTAATAATTTACTACTA
7676631 AATTATTAATAATTTA
1 AATTATTAATAATTTA
7676647 TTTTTAATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.29
21 6 0.12
22 31 0.60
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (22 bp):
AATTATTAATAATTTACTACTA
Found at i:7676614 original size:11 final size:11
Alignment explanation
Indices: 7676576--7676615 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
7676566 TAATTATTAT
7676576 TAATTTACTAC
1 TAATTTACTAC
* * *
7676587 TAAATTATTAT
1 TAATTTACTAC
7676598 TAATTTACTAC
1 TAATTTACTAC
7676609 TAATTTA
1 TAATTTA
7676616 TGAATAATTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTACTAC
Found at i:7676631 original size:20 final size:20
Alignment explanation
Indices: 7676584--7676644 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
7676574 ATTAATTTAC
* *
7676584 TACTAAATTATTATTAATTTA
1 TACTAAATTATGAATAA-TTA
*
7676605 CTACTAATTTATGAATAATTA
1 -TACTAAATTATGAATAATTA
*
7676626 TACTAAATTATTAATAATT
1 TACTAAATTATGAATAATT
7676645 TATTTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 17 0.50
21 3 0.09
22 14 0.41
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
TACTAAATTATGAATAATTA
Found at i:7676763 original size:22 final size:22
Alignment explanation
Indices: 7676738--7677050 Score: 144
Period size: 22 Copynumber: 14.2 Consensus size: 22
7676728 TGTTTAACTA
7676738 ATTTACTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* * * * *
7676760 ATTTACAACTAAATCATTAATG
1 ATTTACTATTAAATTATCATTG
* *
7676782 ATTTATTACTATTAAATTATCAATA
1 A--T-TTACTATTAAATTATCATTG
* * * *
7676807 ATTTATTACTAAATTATTAATG
1 ATTTACTATTAAATTATCATTG
* * * *
7676829 ATTTATTAATATATTATTA-TG
1 ATTTACTATTAAATTATCATTG
* *
7676850 CATTTACTACT--ATTATAACATTT
1 -ATTTACTATTAAATTAT--CATTG
* *
7676873 ATTTACTATTTAATTTTCAATT-
1 ATTTACTATTAAATTATC-ATTG
* * * *
7676895 ATTTAGTGTAAAATTATCACAT-
1 ATTTACTATTAAATTATCA-TTG
*
7676917 ATTTA-TATTAAATTATC-TATA
1 ATTTACTATTAAATTATCAT-TG
* * *
7676938 ATTTACTGTCAATTTATCATTG
1 ATTTACTATTAAATTATCATTG
* *
7676960 ATTTA-TATTAATTTATTC-TTC
1 ATTTACTATTAAATTA-TCATTG
*
7676981 ATTTACTATTAAATTATTATTG
1 ATTTACTATTAAATTATCATTG
* *
7677003 ATTAATTATTAAATTATCGA-TG
1 ATTTACTATTAAATTATC-ATTG
* *
7677025 ATTTATTATTAAGTTAT-ATTG
1 ATTTACTATTAAATTATCATTG
7677046 ATTTA
1 ATTTA
7677051 TTTTTAAGTT
Statistics
Matches: 225, Mismatches: 46, Indels: 41
0.72 0.15 0.13
Matches are distributed among these distances:
20 7 0.03
21 41 0.18
22 149 0.66
23 7 0.03
24 5 0.02
25 16 0.07
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTG
Found at i:7676790 original size:25 final size:24
Alignment explanation
Indices: 7676762--7676836 Score: 82
Period size: 25 Copynumber: 3.1 Consensus size: 24
7676752 TATCATTGAT
*
7676762 TTACAACTAAATCATTAATGATTTA
1 TTAC-ACTAAATTATTAATGATTTA
* * *
7676787 TTACTATTAAATTATCAATAATTTA
1 TTAC-ACTAAATTATTAATGATTTA
7676812 TT--ACTAAATTATTAATGATTTA
1 TTACACTAAATTATTAATGATTTA
7676834 TTA
1 TTA
7676837 ATATATTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 19 0.46
25 22 0.54
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.47
Consensus pattern (24 bp):
TTACACTAAATTATTAATGATTTA
Found at i:7676811 original size:47 final size:47
Alignment explanation
Indices: 7676740--7676836 Score: 149
Period size: 47 Copynumber: 2.1 Consensus size: 47
7676730 TTTAACTAAT
* *
7676740 TTACTATTAAATTATCATTGATTTACAACTAAATCATTAATGATTTA
1 TTACTATTAAATTATCAATAATTTACAACTAAATCATTAATGATTTA
** *
7676787 TTACTATTAAATTATCAATAATTTATTACTAAATTATTAATGATTTA
1 TTACTATTAAATTATCAATAATTTACAACTAAATCATTAATGATTTA
7676834 TTA
1 TTA
7676837 ATATATTATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
TTACTATTAAATTATCAATAATTTACAACTAAATCATTAATGATTTA
Found at i:7676823 original size:11 final size:11
Alignment explanation
Indices: 7676794--7676847 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
7676784 TTATTACTAT
*
7676794 TAAATTATCAA
1 TAAATTATTAA
* *
7676805 TAATTTATTAC
1 TAAATTATTAA
7676816 TAAATTATTAA
1 TAAATTATTAA
* *
7676827 TGATTTATTAA
1 TAAATTATTAA
*
7676838 TATATTATTA
1 TAAATTATTA
7676848 TGCATTTACT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (11 bp):
TAAATTATTAA
Found at i:7676954 original size:32 final size:30
Alignment explanation
Indices: 7676917--7676997 Score: 74
Period size: 32 Copynumber: 2.5 Consensus size: 30
7676907 ATTATCACAT
*
7676917 ATTTATATTAAATTATCTATAATTTA-CTGTC
1 ATTTATATTAAATTATAT-TAATTTATCT-TC
* *
7676948 AATTTATCATTGATTTATATTAATTTATTCTTC
1 -ATTTAT-ATTAAATTATATTAATTTA-TCTTC
7676981 ATTTACTATTAAATTAT
1 ATTTA-TATTAAATTAT
7676998 TATTGATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
32 26 0.65
33 12 0.30
34 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (30 bp):
ATTTATATTAAATTATATTAATTTATCTTC
Found at i:7677020 original size:65 final size:64
Alignment explanation
Indices: 7676951--7677133 Score: 152
Period size: 65 Copynumber: 2.8 Consensus size: 64
7676941 TACTGTCAAT
* * * * *
7676951 TTATCATTGATTTATATTAATTTATTCTTCATTTACTATTAAATTATTATTGATTAATTATTAAA
1 TTATCATTGATTTATATTAAGTTA-TATTCATTTACTATTAAATTATTAATGATTAACTACTAAA
* * * * *
7677016 TTATCGA-TGATTTATTATTAAGTTATATTGATTTATTTTTAAGTTTTTAATGATTAACTACTAA
1 TTATC-ATTGATTTA-TATTAAGTTATATTCATTTACTATTAAATTATTAATGATTAACTACTAA
7677080 A
64 A
* * * * * * *
7677081 TTATTATTAATTTATAACTAAGTTATTTATGACTTACTATTAAGTTTATTAAT
1 TTATCATTGATTTAT-ATTAAGTTATAT-TCATTTACTATTAA-ATTATTAAT
7677134 TAATTACTAT
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
64 2 0.02
65 63 0.68
66 21 0.23
67 7 0.08
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.54
Consensus pattern (64 bp):
TTATCATTGATTTATATTAAGTTATATTCATTTACTATTAAATTATTAATGATTAACTACTAAA
Found at i:7677069 original size:43 final size:44
Alignment explanation
Indices: 7676744--7677088 Score: 130
Period size: 43 Copynumber: 7.8 Consensus size: 44
7676734 ACTAATTTAC
* * * * * *
7676744 TATTAAATTATCATTGATTTACAACTAAATCATTAATGATTTATTAC
1 TATTAAATTATCAATGATTTACTATTAAATTATTATTGA-TTA--AT
* * * * *
7676791 TATTAAATTATCAATAATTTATTACTAAATTATTAATGATTTAT
1 TATTAAATTATCAATGATTTACTATTAAATTATTATTGATTAAT
* * * * * * * *
7676835 TAATATATTAT-TATGCATTTACTACT--ATTATAACATTTATTTAC
1 TATTAAATTATCAATG-ATTTACTATTAAATTAT--TATTGATTAAT
* * * * * * * * *
7676879 TATTTAATTTTCAATTATTTAGTGTAAAATTATCACAT-ATTTA-
1 TATTAAATTATCAATGATTTACTATTAAATTATTA-TTGATTAAT
* * * * * * *
7676922 TATTAAATTATCTATAATTTACTGTCAATTTATCATTGATTTA-
1 TATTAAATTATCAATGATTTACTATTAAATTATTATTGATTAAT
* * *
7676965 TATTAATTTATTC-TTCATTTACTATTAAATTATTATTGATTAAT
1 TATTAAATTA-TCAATGATTTACTATTAAATTATTATTGATTAAT
* * * *
7677009 TATTAAATTATCGATGATTTATTATTAAGTTA-TATTGATTTAT
1 TATTAAATTATCAATGATTTACTATTAAATTATTATTGATTAAT
* * * * * *
7677052 TTTTAAGTTTTTAATGATTAACTACTAAATTATTATT
1 TATTAAATTATCAATGATTTACTATTAAATTATTATT
7677089 AATTTATAAC
Statistics
Matches: 228, Mismatches: 58, Indels: 27
0.73 0.19 0.09
Matches are distributed among these distances:
42 6 0.03
43 102 0.45
44 76 0.33
45 3 0.01
46 7 0.03
47 34 0.15
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (44 bp):
TATTAAATTATCAATGATTTACTATTAAATTATTATTGATTAAT
Found at i:7677129 original size:23 final size:22
Alignment explanation
Indices: 7676983--7677146 Score: 68
Period size: 22 Copynumber: 7.5 Consensus size: 22
7676973 TATTCTTCAT
* *
7676983 TTACTATTAAATTATTATTG-A
1 TTACTATTAAGTTATTAATGAA
* * ** *
7677004 TTAATTATTAAATTATCGATGAT
1 TT-ACTATTAAGTTATTAATGAA
* * *
7677027 TTATTATTAAGTTA-TATTGAT
1 TTACTATTAAGTTATTAATGAA
* * *
7677048 TTATTTTTAAGTTTTTAATG-A
1 TTACTATTAAGTTATTAATGAA
* * *
7677069 TTAACTACTAAATTATT-ATTAA
1 TT-ACTATTAAGTTATTAATGAA
* * *
7677091 TTTA-TAACTAAGTTATTTATGAC
1 -TTACT-ATTAAGTTATTAATGAA
*
7677114 TTACTATTAAGTTTATTAATTAA
1 TTACTATTAAG-TTATTAATGAA
7677137 TTACTATTAA
1 TTACTATTAA
7677147 ACTGAAATTT
Statistics
Matches: 107, Mismatches: 26, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
21 23 0.21
22 58 0.54
23 26 0.24
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (22 bp):
TTACTATTAAGTTATTAATGAA
Found at i:7677239 original size:22 final size:21
Alignment explanation
Indices: 7677155--7677239 Score: 53
Period size: 22 Copynumber: 3.9 Consensus size: 21
7677145 AAACTGAAAT
* * *
7677155 TTATTTTTTATTAAGTTATTA
1 TTATTTATTACTAAGCTATTA
* * *
7677176 TTAATTTATTACCAAGTTATCAA
1 TT-ATTTATTACTAAGCTAT-TA
* *
7677199 TTATTAATTACTAAACTATTA
1 TTATTTATTACTAAGCTATTA
* *
7677220 CTTATTTTTTATTAAGCTAT
1 -TTATTTATTACTAAGCTAT
7677240 CCTTAATTTA
Statistics
Matches: 48, Mismatches: 13, Indels: 5
0.73 0.20 0.08
Matches are distributed among these distances:
21 3 0.06
22 42 0.88
23 3 0.06
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (21 bp):
TTATTTATTACTAAGCTATTA
Found at i:7677563 original size:22 final size:22
Alignment explanation
Indices: 7677491--7677739 Score: 142
Period size: 22 Copynumber: 11.3 Consensus size: 22
7677481 TATAAAAAAA
* * *
7677491 TTATCAATGATTGACAATTAAG
1 TTATCAATAATTTACTATTAAG
* * * *
7677513 TTATCATTAATTAACCACTATA-
1 TTATCAATAATTTACTATTA-AG
*
7677535 TTGTCAATAATTTACTATTAAG
1 TTATCAATAATTTACTATTAAG
* * ** *
7677557 TTATCAATGATTTATTAACAAA
1 TTATCAATAATTTACTATTAAG
* *
7677579 TTATCTATAATTTACTATTAAC
1 TTATCAATAATTTACTATTAAG
* * *
7677601 TTATGAATGATTTACCATTAAG
1 TTATCAATAATTTACTATTAAG
* * * *
7677623 TTATGAATGATTTATTATTAAA
1 TTATCAATAATTTACTATTAAG
* ** *
7677645 ATATTGATAATTTACTACTAAG
1 TTATCAATAATTTACTATTAAG
** * *
7677667 TTATTGATAATTTATTATAAAG
1 TTATCAATAATTTACTATTAAG
* *
7677689 TTAT-AACTGATTTACTATTAAT
1 TTATCAA-TAATTTACTATTAAG
** *
7677711 TTATCAATTAATTTGTTATAAAG
1 TTATCAA-TAATTTACTATTAAG
7677734 TTATCA
1 TTATCA
7677740 TTGATTAACT
Statistics
Matches: 171, Mismatches: 52, Indels: 7
0.74 0.23 0.03
Matches are distributed among these distances:
21 2 0.01
22 150 0.88
23 19 0.11
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (22 bp):
TTATCAATAATTTACTATTAAG
Found at i:7677655 original size:66 final size:65
Alignment explanation
Indices: 7677541--7677709 Score: 189
Period size: 66 Copynumber: 2.6 Consensus size: 65
7677531 TATATTGTCA
** * *
7677541 ATAATTTACTATTAAGTTATCAATGATTTATTAACAAATTATCTATAATTTACTATTAACTTA-T
1 ATAATTTACTATTAAGTTAT-AATGATTTATTATTAAAATATCTATAATTTACTACTAACTTATT
7677605 G
65 G
* * *
7677606 AATGATTTACCATTAAGTTATGAATGATTTATTATTAAAATAT-TGATAATTTACTACTAAGTTA
1 -ATAATTTACTATTAAGTTAT-AATGATTTATTATTAAAATATCT-ATAATTTACTACTAACTTA
7677670 TTG
63 TTG
* * *
7677673 ATAATTTATTATAAAGTTATAACTGATTTACTATTAA
1 ATAATTTACTATTAAGTTATAA-TGATTTATTATTAA
7677710 TTTATCAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
65 3 0.03
66 82 0.94
67 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (65 bp):
ATAATTTACTATTAAGTTATAATGATTTATTATTAAAATATCTATAATTTACTACTAACTTATTG
Found at i:7677737 original size:23 final size:23
Alignment explanation
Indices: 7677674--7677739 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
7677664 AAGTTATTGA
7677674 TAATTTATTATAAAGTTAT-AAC
1 TAATTTATTATAAAGTTATCAAC
* * * * *
7677696 TGATTTACTATTAATTTATCAAT
1 TAATTTATTATAAAGTTATCAAC
*
7677719 TAATTTGTTATAAAGTTATCA
1 TAATTTATTATAAAGTTATCA
7677740 TTGATTAACT
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (23 bp):
TAATTTATTATAAAGTTATCAAC
Found at i:7677798 original size:22 final size:22
Alignment explanation
Indices: 7677750--7677799 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
7677740 TTGATTAACT
* * **
7677750 AATTTACTATTAAATTATTATT
1 AATTTACAACTAAATTATTAGC
*
7677772 GATTTACAACTAAATTATTAGC
1 AATTTACAACTAAATTATTAGC
7677794 AATTTA
1 AATTTA
7677800 TTATCACATT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
AATTTACAACTAAATTATTAGC
Found at i:7677840 original size:19 final size:19
Alignment explanation
Indices: 7677816--7677856 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
7677806 CATTGTTTGT
* * *
7677816 AATTTAGTATTAAGTTATC
1 AATTTACTACTAAATTATC
7677835 AATTTACTACTAAATTATC
1 AATTTACTACTAAATTATC
7677854 AAT
1 AAT
7677857 AATTCACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (19 bp):
AATTTACTACTAAATTATC
Found at i:7677865 original size:22 final size:22
Alignment explanation
Indices: 7677835--7677878 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7677825 TTAAGTTATC
* *
7677835 AATTTACTACTAAATTATCAAT
1 AATTCACTACTAAATCATCAAT
*
7677857 AATTCACTATTAAATCATCAAT
1 AATTCACTACTAAATCATCAAT
7677879 GATCTACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCACTACTAAATCATCAAT
Found at i:7677887 original size:22 final size:21
Alignment explanation
Indices: 7677838--7677889 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
7677828 AGTTATCAAT
* *
7677838 TTACTACTAAATTATCAATAA
1 TTACTATTAAATCATCAATAA
*
7677859 TTCACTATTAAATCATCAATGA
1 TT-ACTATTAAATCATCAATAA
7677881 TCTACTATT
1 T-TACTATT
7677890 GAATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.40
Consensus pattern (21 bp):
TTACTATTAAATCATCAATAA
Found at i:7680279 original size:14 final size:14
Alignment explanation
Indices: 7680260--7680289 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7680250 GGTTATGGAC
7680260 TAGGAAGATATATT
1 TAGGAAGATATATT
7680274 TAGGAAGATATATT
1 TAGGAAGATATATT
7680288 TA
1 TA
7680290 TATATTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (14 bp):
TAGGAAGATATATT
Found at i:7682281 original size:4 final size:4
Alignment explanation
Indices: 7682274--7682304 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
7682264 TATATATATA
*
7682274 TATG TATG TATC TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
7682305 TAGACTCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:7687354 original size:22 final size:22
Alignment explanation
Indices: 7687315--7687460 Score: 106
Period size: 22 Copynumber: 6.5 Consensus size: 22
7687305 ATGATACCCG
* *
7687315 AAGGTTTCAAAAAG-ATACTCG
1 AAGGTTTTAAAAAGAATACTCA
* *
7687336 GAGGTTTTGAAAAGAATACTCA
1 AAGGTTTTAAAAAGAATACTCA
*
7687358 AATGTTTTAAAAATG-ATA-TCCA
1 AAGGTTTTAAAAA-GAATACT-CA
7687380 AAGGTTTTCAAAAAGAGATACTCA
1 AAGGTTTT-AAAAAGA-ATACTCA
*
7687404 AAGGTTTTGAAAAGAATAC-CTA
1 AAGGTTTTAAAAAGAATACTC-A
* *
7687426 AATGATTTTAAAACAG-ATACTTGA
1 AA-GGTTTTAAAA-AGAATAC-TCA
7687450 AA-GTTTTAAAA
1 AAGGTTTTAAAA
7687461 TGAGACCTAG
Statistics
Matches: 100, Mismatches: 13, Indels: 23
0.74 0.10 0.17
Matches are distributed among these distances:
21 13 0.13
22 44 0.44
23 24 0.24
24 18 0.18
25 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (22 bp):
AAGGTTTTAAAAAGAATACTCA
Found at i:7687365 original size:68 final size:68
Alignment explanation
Indices: 7687305--7687438 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 68
7687295 TTTGAAAAGG
* **
7687305 ATGATACCCGAAGG-TTTC-AAAA-AGATACTCGGAGGTTTTGAAAAGAATA-CTCAAATGTTTT
1 ATGATACCCAAAGGTTTTCAAAAAGAGATACTCAAAGGTTTTGAAAAGAATACCT-AAATGTTTT
7687366 AAAA
65 AAAA
*
7687370 ATGATATCCAAAGGTTTTCAAAAAGAGATACTCAAAGGTTTTGAAAAGAATACCTAAATGATTTT
1 ATGATACCCAAAGGTTTTCAAAAAGAGATACTCAAAGGTTTTGAAAAGAATACCTAAATG-TTTT
7687435 AAAA
65 AAAA
7687439 CAGATACTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
65 12 0.20
66 4 0.07
67 4 0.07
68 30 0.50
69 10 0.17
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.28
Consensus pattern (68 bp):
ATGATACCCAAAGGTTTTCAAAAAGAGATACTCAAAGGTTTTGAAAAGAATACCTAAATGTTTTA
AAA
Found at i:7693450 original size:6 final size:6
Alignment explanation
Indices: 7693439--7693468 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
7693429 AATCATTCAC
7693439 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
7693469 GGTCACTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:7701239 original size:42 final size:42
Alignment explanation
Indices: 7701180--7701260 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
7701170 TAACGTAAAA
* *
7701180 TTATTTAAGGTGTTTCTTCAACCCAAACGCCATAAATGACGG
1 TTATTTAAAGTATTTCTTCAACCCAAACGCCATAAATGACGG
* * *
7701222 TTATTTAAAGTATTTCTTCAACCTAAATGCCTTAAATGA
1 TTATTTAAAGTATTTCTTCAACCCAAACGCCATAAATGA
7701261 TTGATTATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (42 bp):
TTATTTAAAGTATTTCTTCAACCCAAACGCCATAAATGACGG
Found at i:7703048 original size:19 final size:21
Alignment explanation
Indices: 7703024--7703076 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
7703014 ACTTCTCTAC
*
7703024 TAAATAACAAAAATG-A-AAT
1 TAAATAAAAAAAATGAAGAAT
7703043 TAAATAAAAATAAATGAAGAAT
1 TAAATAAAAA-AAATGAAGAAT
*
7703065 TAAATAATAAAA
1 TAAATAAAAAAA
7703077 TTAATAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 9 0.31
20 5 0.17
21 3 0.10
22 12 0.41
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (21 bp):
TAAATAAAAAAAATGAAGAAT
Found at i:7704200 original size:37 final size:38
Alignment explanation
Indices: 7704159--7704235 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
7704149 TTTATCCTTA
*
7704159 TTATTTTGCCACCAATA-AATG-TCATAACCATATTCAT
1 TTATTTCGCCACCAATACAA-GCTCATAACCATATTCAT
*
7704196 TTATTTCGCCATCAATACAAGCTCATAACCATATTCAT
1 TTATTTCGCCACCAATACAAGCTCATAACCATATTCAT
7704234 TT
1 TT
7704236 CCTTGCAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 16 0.44
38 20 0.56
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (38 bp):
TTATTTCGCCACCAATACAAGCTCATAACCATATTCAT
Found at i:7704791 original size:50 final size:50
Alignment explanation
Indices: 7704706--7704803 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
7704696 TACGTTTTAA
* * *
7704706 TTTTTTTTGCCCATACCGATGGTTAACGCCTGTCAGTATAGACTTGTAAT
1 TTTTTTTTACCCATACCGATGCTTAACGCCCGTCAGTATAGACTTGTAAT
* * *
7704756 TTTTTTTTACCTATACTGATGCTT-ACAGCCCGTCAGTATAGATTTGTA
1 TTTTTTTTACCCATACCGATGCTTAAC-GCCCGTCAGTATAGACTTGTA
7704804 TGTTTTAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.42
Consensus pattern (50 bp):
TTTTTTTTACCCATACCGATGCTTAACGCCCGTCAGTATAGACTTGTAAT
Found at i:7704886 original size:55 final size:55
Alignment explanation
Indices: 7704757--7704886 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 55
7704747 ACTTGTAATT
* * * **
7704757 TTTTTTTACCTATACTGATGCTTACAGCCCGTCAGTATAGATTTGTATGTTTTAA
1 TTTTTTTACCTATACTGATGCTAACAGCCCGTCAATATAGACTCATATGTTTTAA
* * *
7704812 TTTTCTTACTTACACTGATGACTAAC-GCCCGTCAATATAGACTCATATGTTTTAA
1 TTTTTTTACCTATACTGATG-CTAACAGCCCGTCAATATAGACTCATATGTTTTAA
*
7704867 TTTTTTTACCTATATTGATG
1 TTTTTTTACCTATACTGATG
7704887 GTTAATGTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
55 58 0.94
56 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (55 bp):
TTTTTTTACCTATACTGATGCTAACAGCCCGTCAATATAGACTCATATGTTTTAA
Found at i:7705025 original size:55 final size:55
Alignment explanation
Indices: 7704966--7705084 Score: 139
Period size: 55 Copynumber: 2.2 Consensus size: 55
7704956 ATTTATATTT
** * *
7704966 TTTAATTTTCTTACCTATACTGATAGTTAAAGACTATCAGTATAAAATTGTATGA
1 TTTAATTTTCTTACCTATACCAATAGTTAAAGACTATCAGTATAAAACTATATGA
* * * * * * *
7705021 TTTAAATTTCTTACTTATACCAATAGTTAGAGATTGTCAGTATAAACCTATATGT
1 TTTAATTTTCTTACCTATACCAATAGTTAAAGACTATCAGTATAAAACTATATGA
7705076 TTTAATTTT
1 TTTAATTTT
7705085 TTATTATATT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (55 bp):
TTTAATTTTCTTACCTATACCAATAGTTAAAGACTATCAGTATAAAACTATATGA
Found at i:7705025 original size:159 final size:160
Alignment explanation
Indices: 7704679--7705041 Score: 363
Period size: 159 Copynumber: 2.3 Consensus size: 160
7704669 CGGTTAACAC
* * * *
7704679 CTATCAGTATAGACTTGTACGTTTTAATTTTTTTTGCCCATACCGATGGTTAACGCCTGTCAGTA
1 CTATCAGTATAGACTTGTATGTTTTAA-TTTTTTTACCTATACCGATGGTTAACGCCTATCAGTA
* * * *
7704744 TAGACTTGTAATTTTTTTTTACCTATACTGATGCTTACAGCCCGTCAGTATAGATTTGTATGTTT
65 TAAACTTATAATTTTTTTTTACCTATACCGATGCTTACAGCCCGTCAGTATAGATTTATATGTTT
* * *
7704809 TAATTTTCTTACTTACACTGATGACTAACGC
130 TAATTTTCTTACCTACACTGATGACTAAAGA
** * ** ** * **
7704840 CCGTCAATATAGACTCATATGTTTTAATTTTTTTACCTATATTGATGGTTAATGTTTATCAGTAT
1 CTATCAGTATAGACTTGTATGTTTTAATTTTTTTACCTATACCGATGGTTAACGCCTATCAGTAT
* * * * * *
7704905 AAACTTATAA-TTTTTTTTACCTATACCGATGCTTAGTA-TCTGTTATTATAGATTTATATTTTT
66 AAACTTATAATTTTTTTTTACCTATACCGATGCTTA-CAGCCCGTCAGTATAGATTTATATGTTT
* *
7704968 TAATTTTCTTACCTATACTGAT-AGTTAAAGA
130 TAATTTTCTTACCTACACTGATGA-CTAAAGA
* * * * * *
7704999 CTATCAGTATAAAATTGTATGATTTAAATTTCTTACTTATACC
1 CTATCAGTATAGACTTGTATGTTTTAATTTTTTTACCTATACC
7705042 AATAGTTAGA
Statistics
Matches: 158, Mismatches: 42, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
158 1 0.01
159 97 0.61
160 39 0.25
161 21 0.13
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (160 bp):
CTATCAGTATAGACTTGTATGTTTTAATTTTTTTACCTATACCGATGGTTAACGCCTATCAGTAT
AAACTTATAATTTTTTTTTACCTATACCGATGCTTACAGCCCGTCAGTATAGATTTATATGTTTT
AATTTTCTTACCTACACTGATGACTAAAGA
Found at i:7707997 original size:16 final size:16
Alignment explanation
Indices: 7707976--7708036 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 16
7707966 ATTAACATTT
7707976 ATATATAATATAAACA
1 ATATATAATATAAACA
* *
7707992 ATATATAAACAATAAAAAA
1 ATATAT-AA-TAT-AAACA
*
7708011 TTATATATAATGTAAACA
1 --ATATATAATATAAACA
7708029 ATATATAA
1 ATATATAA
7708037 ACAATTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
16 14 0.40
17 2 0.06
18 6 0.17
19 5 0.14
20 2 0.06
21 6 0.17
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (16 bp):
ATATATAATATAAACA
Found at i:7707998 original size:18 final size:18
Alignment explanation
Indices: 7707975--7708035 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 18
7707965 AATTAACATT
7707975 TATATATAATATAAACAA
1 TATATATAATATAAACAA
* *
7707993 TATATA-AACAATAAAAAA
1 TATATATAA-TATAAACAA
*
7708011 TTATATATAATGTAAACAA
1 -TATATATAATATAAACAA
7708030 TATATA
1 TATATA
7708036 AACAATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 2 0.06
18 19 0.54
19 12 0.34
20 2 0.06
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.33
Consensus pattern (18 bp):
TATATATAATATAAACAA
Found at i:7708037 original size:30 final size:31
Alignment explanation
Indices: 7708003--7708068 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 31
7707993 TATATAAACA
*
7708003 ATAAAAAATTATATATAATGTAAACAA-TAT
1 ATAAAAAATTATATATAATCTAAACAATTAT
* *
7708033 ATAAACAATTATTTATAATCTAAACAATTAT
1 ATAAAAAATTATATATAATCTAAACAATTAT
7708064 ATAAA
1 ATAAA
7708069 CCTTATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (31 bp):
ATAAAAAATTATATATAATCTAAACAATTAT
Found at i:7715938 original size:18 final size:18
Alignment explanation
Indices: 7715892--7715939 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7715882 AACAATTTTT
7715892 AAAATTTAAAATTTTAAA
1 AAAATTTAAAATTTTAAA
** *
7715910 AAAATAAAAAATTTCT-TA
1 AAAATTTAAAATTT-TAAA
7715928 AAAATTTAAAAT
1 AAAATTTAAAAT
7715940 ATTTTTATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 23 0.96
19 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTTAAAATTTTAAA
Found at i:7716084 original size:21 final size:20
Alignment explanation
Indices: 7716031--7716086 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 20
7716021 TAAATTTTAA
7716031 ATTTTATATGAATTTATAGATT
1 ATTTTAT-T-AATTTATAGATT
7716053 ATTTGTA-TAATTTAATA-ATT
1 ATTT-TATTAATTT-ATAGATT
7716073 GATTTTATTAATTT
1 -ATTTTATTAATTT
7716087 CAATTACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
20 10 0.33
21 14 0.47
22 4 0.13
23 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTATTAATTTATAGATT
Found at i:7717184 original size:29 final size:28
Alignment explanation
Indices: 7717128--7717215 Score: 88
Period size: 29 Copynumber: 3.1 Consensus size: 28
7717118 CTTTTGAATT
* * *
7717128 TTTTTTATT-TTTTTAAATCAATAATTA
1 TTTTTTATTATATTTAAATAAATTATTA
*
7717155 TATTTTTATTATATTTAAATAAATTCTTA
1 T-TTTTTATTATATTTAAATAAATTATTA
* * *
7717184 TTTTTGATTTATATCTAAATAAATTATGA
1 TTTTTTA-TTATATTTAAATAAATTATTA
7717213 TTT
1 TTT
7717216 CAAAAGAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 1 0.02
28 13 0.26
29 36 0.72
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.59
Consensus pattern (28 bp):
TTTTTTATTATATTTAAATAAATTATTA
Found at i:7720592 original size:23 final size:21
Alignment explanation
Indices: 7720551--7720595 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
7720541 TACTTGAATT
*
7720551 TGGCTCGACTTGTTACTTGAG
1 TGGCTCGACTTGTAACTTGAG
7720572 TGGCTCGACTTGTCAAGCTTGAG
1 TGGCTCGACTTGT-AA-CTTGAG
7720595 T
1 T
7720596 ATTCATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 1 0.05
23 7 0.33
ACGTcount: A:0.16, C:0.20, G:0.29, T:0.36
Consensus pattern (21 bp):
TGGCTCGACTTGTAACTTGAG
Found at i:7730473 original size:2 final size:2
Alignment explanation
Indices: 7730466--7730494 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7730456 TCATTTATTG
7730466 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7730495 CCATCGATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7732075 original size:33 final size:32
Alignment explanation
Indices: 7732027--7732089 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
7732017 TCATATTTTG
**
7732027 TTATTTTTGTTTTATTTATTTTTTTAAAAAAAA
1 TTATTTTTGTTTTA-TTATTTAATTAAAAAAAA
7732060 TTATTTTT-TTATTATTATTTAATTAAAAAA
1 TTATTTTTGTT-TTATTATTTAATTAAAAAA
7732090 TAAATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (32 bp):
TTATTTTTGTTTTATTATTTAATTAAAAAAAA
Found at i:7732181 original size:63 final size:63
Alignment explanation
Indices: 7732111--7732233 Score: 210
Period size: 63 Copynumber: 2.0 Consensus size: 63
7732101 AAATATTTTT
* * *
7732111 ATATTTAATATGTTTCTAAATATCGCAGTATTTTGGTGATATTTTAGAAAAATATTCTTAAAA
1 ATATTTAATATATTTCTAAATATCGCAATATTTTGATGATATTTTAGAAAAATATTCTTAAAA
*
7732174 ATATTTAATATATTTCTAAATATTGCAATATTTTGATGATATTTTAGAAAAATATTCTTA
1 ATATTTAATATATTTCTAAATATCGCAATATTTTGATGATATTTTAGAAAAATATTCTTA
7732234 CTTAGAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (63 bp):
ATATTTAATATATTTCTAAATATCGCAATATTTTGATGATATTTTAGAAAAATATTCTTAAAA
Found at i:7734906 original size:17 final size:17
Alignment explanation
Indices: 7734884--7734919 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
7734874 AGTTTTAGTA
7734884 GGAGAGGCCGAATGGAG
1 GGAGAGGCCGAATGGAG
*
7734901 GGAGAGGTCGAATGGAG
1 GGAGAGGCCGAATGGAG
7734918 GG
1 GG
7734920 TCATGGCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.56, T:0.08
Consensus pattern (17 bp):
GGAGAGGCCGAATGGAG
Found at i:7736502 original size:3 final size:3
Alignment explanation
Indices: 7736494--7736537 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7736484 TCCAAATGAC
7736494 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7736538 CATGTGTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7737590 original size:34 final size:39
Alignment explanation
Indices: 7737529--7737601 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 39
7737519 TTTTTTTCCC
*
7737529 CTAGCTTTTTTATTTGTTTTCTGGGTATTTATGGTATTT
1 CTAGCTTTTTTATTTGTTTTCTGGGTATTTATAGTATTT
7737568 CTAGC-TTTTT-TTT-TTTT-T-GGTATTTATAGTATTT
1 CTAGCTTTTTTATTTGTTTTCTGGGTATTTATAGTATTT
7737602 GAATCTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 15 0.45
35 1 0.03
36 4 0.12
37 3 0.09
38 5 0.15
39 5 0.15
ACGTcount: A:0.14, C:0.07, G:0.15, T:0.64
Consensus pattern (39 bp):
CTAGCTTTTTTATTTGTTTTCTGGGTATTTATAGTATTT
Found at i:7737702 original size:18 final size:19
Alignment explanation
Indices: 7737675--7737729 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
7737665 TGTGATTTTA
*
7737675 TTTTTCTTCTTTTAATTTG
1 TTTTTATTCTTTTAATTTG
*
7737694 TTTTT-TTC-TTTAAATTG
1 TTTTTATTCTTTTAATTTG
*
7737711 TTTTTATTGTTTTGAATTT
1 TTTTTATTCTTTT-AATTT
7737730 TTATGCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 13 0.43
18 5 0.17
19 8 0.27
20 4 0.13
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTTATTCTTTTAATTTG
Found at i:7738435 original size:10 final size:10
Alignment explanation
Indices: 7738422--7738451 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
7738412 AATCGAGTTT
7738422 TATATTTTAA
1 TATATTTTAA
7738432 TATATTTTAA
1 TATATTTTAA
7738442 T-TATTTTAA
1 TATATTTTAA
7738451 T
1 T
7738452 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:7738448 original size:9 final size:9
Alignment explanation
Indices: 7738424--7738453 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
7738414 TCGAGTTTTA
7738424 TATTTTAAT
1 TATTTTAAT
7738433 ATATTTTAAT
1 -TATTTTAAT
7738443 TATTTTAAT
1 TATTTTAAT
7738452 TA
1 TA
7738454 ATAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:7740972 original size:16 final size:18
Alignment explanation
Indices: 7740935--7740974 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
7740925 ATTTATTTTA
7740935 TAATAAAATATAATTAAAT
1 TAAT-AAATATAATTAAAT
7740954 TAATAAATAT-ATT-AAT
1 TAATAAATATAATTAAAT
7740970 TAATA
1 TAATA
7740975 GATAAATTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.38
17 3 0.14
18 6 0.29
19 4 0.19
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATAAATATAATTAAAT
Found at i:7744729 original size:4 final size:4
Alignment explanation
Indices: 7744722--7744793 Score: 117
Period size: 4 Copynumber: 18.0 Consensus size: 4
7744712 ATTCTCTTCA
* * *
7744722 GTAT GTAT ATAT ATAT ATAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
7744770 GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT
7744794 AAGGTACTGC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 66 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:7754059 original size:22 final size:22
Alignment explanation
Indices: 7754008--7754059 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
7753998 TAATTTTAAA
* *
7754008 AATTAATAAATTAAATTTGAATG
1 AATTAA-AAATTAAACTTAAATG
*
7754031 -ATATAAAGATTAAACTTAAATG
1 AAT-TAAAAATTAAACTTAAATG
7754053 AATTAAA
1 AATTAAA
7754060 CTTTAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.35
Consensus pattern (22 bp):
AATTAAAAATTAAACTTAAATG
Found at i:7755956 original size:30 final size:33
Alignment explanation
Indices: 7755911--7755989 Score: 94
Period size: 35 Copynumber: 2.5 Consensus size: 33
7755901 AATCTTTATG
*
7755911 TAATAAAAA-GAAATA-TCTA-TATAT-AAAAT
1 TAATAAAAAGGAAATATTATATTATATGAAAAT
7755940 TAATAAAAAGGAAATATTTATATTTATATGAAAAT
1 TAATAAAAAGGAAATA-TTATA-TTATATGAAAAT
*
7755975 TAGTAAAAAGGAAAT
1 TAATAAAAAGGAAAT
7755990 TAAAATCATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 9 0.21
30 6 0.14
32 3 0.07
34 5 0.12
35 19 0.45
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (33 bp):
TAATAAAAAGGAAATATTATATTATATGAAAAT
Found at i:7756048 original size:27 final size:29
Alignment explanation
Indices: 7755998--7756067 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
7755988 ATTAAAATCA
7755998 TTTTTA-TATATTTTATATGAATGTA-AATT
1 TTTTTATTA-ATTTTATAT-AATGTACAATT
*
7756027 TTTTTATTAATTTTATAT-ATGTACATTT
1 TTTTTATTAATTTTATATAATGTACAATT
7756055 TCTTTTATTAATT
1 T-TTTTATTAATT
7756068 ATTTTCGATC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 5 0.14
28 4 0.11
29 26 0.70
30 2 0.05
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (29 bp):
TTTTTATTAATTTTATATAATGTACAATT
Found at i:7756129 original size:16 final size:15
Alignment explanation
Indices: 7756096--7756146 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 15
7756086 ATAATTAATC
7756096 ATTTTTATTAACATTTT
1 ATTTTTATT-A-ATTTT
7756113 ACTTTTTATTAATTTT
1 A-TTTTTATTAATTTT
*
7756129 ATGTATTATTAATTTT
1 AT-TTTTATTAATTTT
7756145 AT
1 AT
7756147 AATTATTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 1 0.03
16 20 0.65
17 2 0.06
18 8 0.26
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (15 bp):
ATTTTTATTAATTTT
Found at i:7756153 original size:15 final size:16
Alignment explanation
Indices: 7756118--7756153 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7756108 ATTTTACTTT
*
7756118 TTATTAATTTTATGTA
1 TTATTAATTTTATGAA
7756134 TTATTAATTTTAT-AA
1 TTATTAATTTTATGAA
7756149 TTATT
1 TTATT
7756154 TTGAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (16 bp):
TTATTAATTTTATGAA
Found at i:7757126 original size:21 final size:21
Alignment explanation
Indices: 7757102--7757141 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7757092 CTCTTTCCAC
7757102 ATCTCTCTCA-TGTTCCCTTCT
1 ATCT-TCTCACTGTTCCCTTCT
*
7757123 ATCTTCTCACTTTTCCCTT
1 ATCTTCTCACTGTTCCCTT
7757142 TCCTTCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.38, G:0.03, T:0.50
Consensus pattern (21 bp):
ATCTTCTCACTGTTCCCTTCT
Found at i:7764753 original size:21 final size:22
Alignment explanation
Indices: 7764716--7764763 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
7764706 TTTTTGCTAT
7764716 AAAA-AGATTTATATAAAAATA
1 AAAATAGATTTATATAAAAATA
* *
7764737 AAAATAGATTTAT-TAAAATTT
1 AAAATAGATTTATATAAAAATA
7764758 AAAATA
1 AAAATA
7764764 AATAAGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATAGATTTATATAAAAATA
Found at i:7766647 original size:16 final size:18
Alignment explanation
Indices: 7766621--7766653 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7766611 TTGTAATATT
7766621 TATTGTTTCATG-GTAAG
1 TATTGTTTCATGAGTAAG
7766638 TATT-TTTCATGAGTAA
1 TATTGTTTCATGAGTAA
7766654 AAGTTTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (18 bp):
TATTGTTTCATGAGTAAG
Found at i:7777018 original size:42 final size:43
Alignment explanation
Indices: 7776961--7777045 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 43
7776951 TTTAGCAATC
* *
7776961 AAATTCTATTTTTAATGTGTTTGATTATCATTAATTTATTTCA
1 AAATTCCATTTTTAATGTGTTTGATTATCACTAATTTATTTCA
7777004 AAATTCCA-TTTTAATGTGTTTGATTATCACTAATTTATTTCA
1 AAATTCCATTTTTAATGTGTTTGATTATCACTAATTTATTTCA
7777046 TTATGCAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 33 0.82
43 7 0.17
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (43 bp):
AAATTCCATTTTTAATGTGTTTGATTATCACTAATTTATTTCA
Found at i:7782728 original size:28 final size:28
Alignment explanation
Indices: 7782671--7782731 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
7782661 AATTAATGAA
* * * *
7782671 TTTATAATTTAAATATTATATTAAAAAT
1 TTTAAAATTTAAATATCAAATGAAAAAT
*
7782699 TTTAAAATTTAAATATCAAATGAAATAT
1 TTTAAAATTTAAATATCAAATGAAAAAT
7782727 TTTAA
1 TTTAA
7782732 TATAATTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TTTAAAATTTAAATATCAAATGAAAAAT
Found at i:7784999 original size:95 final size:94
Alignment explanation
Indices: 7784844--7785118 Score: 283
Period size: 95 Copynumber: 2.9 Consensus size: 94
7784834 TTATTTATAA
** * *
7784844 ATTTATCTTA-AAAAATCGTTAAATCTTTTAATAATTT-ATAAGATTTAACTCTAAGATTTAAAT
1 ATTT-TCTTACAAAAATCAATAAATCTTTCAATAATTTGATAAGATTTAATTC-AAGATTTAAAT
* *
7784907 CTTCCAATAGTTTAGT-AGTATTGAAAGTTTT
64 CTTCCAATAGTTTAATAAG-ATTGAAAATTTT
* *
7784938 ATTTT-TTCACAAAACTCAATAAATCTTTCAATAATTTGATAAGATTTAATTCAGATATTTAAAT
1 ATTTTCTT-ACAAAAATCAATAAATCTTTCAATAATTTGATAAGATTTAATTCA-AGATTTAAAT
*
7785002 TTTCTC-ATAGTTTAATAAGATTGAAAATTTT
64 CTTC-CAATAGTTTAATAAGATTGAAAATTTT
* * * * *
7785033 ATTTTCCTTATAAAAATCATTAAAT-TTTCTAATAGTTTGACAAGATTTAATTTAAGATTTAAAT
1 ATTTT-CTTACAAAAATCAATAAATCTTTC-AATAATTTGATAAGATTTAATTCAAGATTTAAAT
* **
7785097 CTTCTAATAGTTTGGTAAGATT
64 CTTCCAATAGTTTAATAAGATT
7785119 TATTCAAGAT
Statistics
Matches: 151, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
92 2 0.01
93 2 0.01
94 28 0.19
95 80 0.53
96 37 0.25
97 2 0.01
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.45
Consensus pattern (94 bp):
ATTTTCTTACAAAAATCAATAAATCTTTCAATAATTTGATAAGATTTAATTCAAGATTTAAATCT
TCCAATAGTTTAATAAGATTGAAAATTTT
Found at i:7785106 original size:39 final size:38
Alignment explanation
Indices: 7785052--7785128 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 38
7785042 ATAAAAATCA
* *
7785052 TTAAATTTTCTAATAGTTTGACAAGATTTAATTTAAGAT
1 TTAAATCTTCTAATAGTTTGACAAGATTT-ATTCAAGAT
**
7785091 TTAAATCTTCTAATAGTTTGGTAAGATTTATTCAAGAT
1 TTAAATCTTCTAATAGTTTGACAAGATTTATTCAAGAT
7785129 ACTTTTAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
38 8 0.24
39 26 0.76
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (38 bp):
TTAAATCTTCTAATAGTTTGACAAGATTTATTCAAGAT
Found at i:7785312 original size:13 final size:13
Alignment explanation
Indices: 7785294--7785318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7785284 AATTTAAATA
7785294 AAATAAATTAAAC
1 AAATAAATTAAAC
7785307 AAATAAATTAAA
1 AAATAAATTAAA
7785319 ATTAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATTAAAC
Found at i:7785322 original size:19 final size:18
Alignment explanation
Indices: 7785289--7785330 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
7785279 ACTAGAATTT
*
7785289 AAATAAAATAAATTAAAC
1 AAATAAAATAAATTAAAA
*
7785307 AAATAAATTAAAATTAAAA
1 AAATAAAAT-AAATTAAAA
7785326 AAATA
1 AAATA
7785331 CAAAATTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAATAAATTAAAA
Found at i:7786702 original size:41 final size:41
Alignment explanation
Indices: 7786657--7786785 Score: 143
Period size: 45 Copynumber: 3.1 Consensus size: 41
7786647 TTAAGGGTTT
* * *
7786657 TTTTAACACAAATGCTCACAACTTAAAAAAAAAAAAGGCTC
1 TTTTAACACGAAGGCACACAACTTAAAAAAAAAAAAGGCTC
*
7786698 TTTTAACACGAAGGCACACAACTTTTAAAAAAAAAACAATGGCTT
1 TTTTAACACGAAGGCACACAAC--TTAAAAAAAAAA-AA-GGCTC
* * **
7786743 TTTTAACATGAAGGCACACAACTT-TAAAAATTAAAGGCTC
1 TTTTAACACGAAGGCACACAACTTAAAAAAAAAAAAGGCTC
7786783 TTT
1 TTT
7786786 CAAAGTGAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
40 7 0.09
41 21 0.28
42 6 0.08
43 14 0.19
44 2 0.03
45 25 0.33
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (41 bp):
TTTTAACACGAAGGCACACAACTTAAAAAAAAAAAAGGCTC
Found at i:7786747 original size:45 final size:42
Alignment explanation
Indices: 7786655--7786772 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 42
7786645 AATTAAGGGT
* * *
7786655 TTTTTTAACACAAATGCTCACAAC-TTAAAAAAAAAAAAGGC
1 TTTTTTAACACGAAGGCACACAACTTTAAAAAAAAAAAAGGC
*
7786696 TCTTTTAACACGAAGGCACACAACTTTTAAAAAAAAAACAATGGC
1 TTTTTTAACACGAAGGCACACAAC-TTTAAAAAAAAAA-AA-GGC
*
7786741 TTTTTTAACATGAAGGCACACAACTTTAAAAA
1 TTTTTTAACACGAAGGCACACAACTTTAAAAA
7786773 TTAAAGGCTC
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
41 20 0.30
43 12 0.18
44 10 0.15
45 25 0.37
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.25
Consensus pattern (42 bp):
TTTTTTAACACGAAGGCACACAACTTTAAAAAAAAAAAAGGC
Found at i:7788974 original size:95 final size:98
Alignment explanation
Indices: 7788875--7789086 Score: 249
Period size: 99 Copynumber: 2.2 Consensus size: 98
7788865 TTTGAGATTA
7788875 AAATCCTTC-AATAGTTTGA-TAGAATTGAAAATTTTA-T-TTTTTCATAA-AACTTATTAAATC
1 AAATCCTTCAAATAGTTTGAGTAGAATTGAAAATTTTATTATTTTTCATAATAA-TTATTAAATC
7788935 TTCCAATAATTTGATAAAATTTAAATCAAAGATGT
65 TTCCAATAATTTGATAAAATTTAAATCAAA-ATGT
* * *
7788970 AAATCC-TCTAATAATTT-AGTAGAATTGAAAATTTTATTTTATTTTTTATAATAATTATTAAAT
1 AAATCCTTCAAATAGTTTGAGTAGAATTGAAAATTTTA--TTATTTTTCATAATAATTATTAAAT
* * * * * *
7789033 CTTTCAATAGTTTGATAAGATTTAATTTAAAATTT
64 CTTCCAATAATTTGATAAAATTTAAATCAAAATGT
*
7789068 AAATCCTCCAAATAGTTTG
1 AAATCCTTCAAATAGTTTG
7789087 GTAAGATTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
94 3 0.03
95 30 0.31
98 10 0.10
99 52 0.54
100 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (98 bp):
AAATCCTTCAAATAGTTTGAGTAGAATTGAAAATTTTATTATTTTTCATAATAATTATTAAATCT
TCCAATAATTTGATAAAATTTAAATCAAAATGT
Found at i:7789267 original size:15 final size:14
Alignment explanation
Indices: 7789235--7789298 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 14
7789225 AATATTTTTC
*
7789235 AAAA-AAATCAATT
1 AAAATAAATAAATT
7789248 AAAATAAATAAAATT
1 AAAATAAAT-AAATT
*
7789263 TAAATCAAATAAATT
1 AAAAT-AAATAAATT
7789278 AAAATAAA-AAA-T
1 AAAATAAATAAATT
7789290 AAAA-AAATA
1 AAAATAAATA
7789299 CTAAAGAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
11 3 0.07
12 6 0.14
13 7 0.16
14 7 0.16
15 17 0.39
16 4 0.09
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAAATAAATAAATT
Found at i:7789297 original size:25 final size:28
Alignment explanation
Indices: 7789235--7789298 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
7789225 AATATTTTTC
*
7789235 AAAAAAATCAATTAAAATAAATAAAATTT
1 AAAAAAATAAATTAAAATAAATAAAA-TT
*
7789264 AAATCAAATAAATTAAAAT-AA-AAAA-T
1 AAA-AAAATAAATTAAAATAAATAAAATT
7789290 AAAAAAATA
1 AAAAAAATA
7789299 CTAAAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 5 0.16
26 4 0.13
28 4 0.13
29 5 0.16
30 13 0.42
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (28 bp):
AAAAAAATAAATTAAAATAAATAAAATT
Found at i:7795599 original size:16 final size:16
Alignment explanation
Indices: 7795541--7795598 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
7795531 GATTCAATTT
*
7795541 AATTTAAAATCAAATC
1 AATTTAAATTCAAATC
* *
7795557 AATTTAAATACGAATC
1 AATTTAAATTCAAATC
* *
7795573 AATTTAAATTTAAATT
1 AATTTAAATTCAAATC
7795589 AATTTAAATT
1 AATTTAAATT
7795599 TGAATCGAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTAAATTCAAATC
Done.