Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 59 of 91
Found at i:9788756 original size:17 final size:17
Alignment explanation
Indices: 9788659--9788759 Score: 50
Period size: 17 Copynumber: 5.9 Consensus size: 17
9788649 ATAAATATAT
9788659 TAATAGATAAAAAATA-
1 TAATAGATAAAAAATAG
*
9788675 -ATTAGATAAATAAA-AG
1 TAATAGATAAA-AAATAG
* * *
9788691 AAATAGATAAATAATAA
1 TAATAGATAAAAAATAG
*
9788708 TAATA-A-AAAATAAAAG
1 TAATAGATAAAA-AATAG
* * *
9788724 CAGATAAATAATAAAAATAT
1 TA-ATAGAT-A-AAAAATAG
9788744 TAATAGATAAAAAATA
1 TAATAGATAAAAAATA
9788760 AAAATAAAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 19
0.66 0.14 0.20
Matches are distributed among these distances:
15 13 0.21
16 10 0.16
17 24 0.39
18 2 0.03
19 5 0.08
20 5 0.08
21 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.07, T:0.24
Consensus pattern (17 bp):
TAATAGATAAAAAATAG
Found at i:9788765 original size:17 final size:17
Alignment explanation
Indices: 9788660--9788742 Score: 54
Period size: 17 Copynumber: 5.2 Consensus size: 17
9788650 TAAATATATT
9788660 AATAGATAAAAAAT--A
1 AATAGATAAAAAATAAA
* *
9788675 ATTAGATAAATAAA-AGA
1 AATAGATAAA-AAATAAA
*
9788692 AATAGAT---AAATAAT
1 AATAGATAAAAAATAAA
9788706 AATA-ATAAAAAATAAA
1 AATAGATAAAAAATAAA
** *
9788722 AGCAGATAAATAATAAA
1 AATAGATAAAAAATAAA
9788739 AATA
1 AATA
9788743 TTAATAGATA
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 9 0.18
16 11 0.22
17 20 0.40
ACGTcount: A:0.70, C:0.01, G:0.07, T:0.22
Consensus pattern (17 bp):
AATAGATAAAAAATAAA
Found at i:9788771 original size:23 final size:23
Alignment explanation
Indices: 9788713--9788771 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
9788703 AATAATAATA
** *
9788713 AAAAATAAAAGCAGATAAATAAT
1 AAAAATAAAAATAGATAAAAAAT
**
9788736 AAAAATATTAATAGATAAAAAAT
1 AAAAATAAAAATAGATAAAAAAT
9788759 AAAAATAAAAATA
1 AAAAATAAAAATA
9788772 AAAATATATA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAAATAAAAATAGATAAAAAAT
Found at i:9788772 original size:85 final size:86
Alignment explanation
Indices: 9788649--9788810 Score: 215
Period size: 85 Copynumber: 1.9 Consensus size: 86
9788639 TAAAAAAAAG
* ** *
9788649 ATAAATATATTAATAGATAAAAAATAATTAGATAAATAAAAGA-A-ATAGA-TAAATAAT-AATA
1 ATAAAAATATTAATAGATAAAAAATAAAAAGAAAAATAAAA-ATATATAGATTAAATAATGAA-A
9788710 ATAAAAAATAAAAGCAGATAAATA
64 AT-AAAAATAAAAGCAGATAAATA
* *
9788734 ATAAAAATATTAATAGATAAAAAATAAAAATAAAAATAAAAATATATATATTAAATAATGAAAAT
1 ATAAAAATATTAATAGATAAAAAATAAAAAGAAAAATAAAAATATATAGATTAAATAATGAAAAT
9788799 AAAAATAAAAGC
66 AAAAATAAAAGC
9788811 TCATTGGGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
84 1 0.01
85 37 0.55
86 16 0.24
87 11 0.16
88 2 0.03
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.25
Consensus pattern (86 bp):
ATAAAAATATTAATAGATAAAAAATAAAAAGAAAAATAAAAATATATAGATTAAATAATGAAAAT
AAAAATAAAAGCAGATAAATA
Found at i:9788803 original size:6 final size:6
Alignment explanation
Indices: 9788753--9788808 Score: 58
Period size: 6 Copynumber: 8.7 Consensus size: 6
9788743 TTAATAGATA
* *
9788753 AAAAAT AAAAAT AAAAAT AAAAAT ATATATATT AAATAAT GAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT A-A-A-AAT AAA-AAT AAAAAT AAAAAT
9788805 AAAA
1 AAAA
9788809 GCTCATTGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
6 31 0.72
7 7 0.16
8 2 0.05
9 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:9789388 original size:16 final size:17
Alignment explanation
Indices: 9789367--9789399 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9789357 AATTGATAAA
*
9789367 AATCATTAA-CAAATAT
1 AATCATAAATCAAATAT
9789383 AATCATAAATCAAATAT
1 AATCATAAATCAAATAT
9789400 CCATAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
AATCATAAATCAAATAT
Found at i:9789652 original size:26 final size:25
Alignment explanation
Indices: 9789599--9789657 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
9789589 ACAGATAAAT
9789599 TAAA-AATAATAATAGATAAATAGA
1 TAAATAATAATAATAGATAAATAGA
* * *
9789623 TAAATAATAATAAATATATAACTAGG
1 TAAATAATAAT-AATAGATAAATAGA
9789649 TAAATAATA
1 TAAATAATA
9789658 TATATAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 4 0.13
25 6 0.20
26 20 0.67
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.29
Consensus pattern (25 bp):
TAAATAATAATAATAGATAAATAGA
Found at i:9789746 original size:15 final size:15
Alignment explanation
Indices: 9789715--9789757 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
9789705 ATATATATAT
9789715 TAATAAAT-AGT-AA
1 TAATAAATAAGTAAA
9789728 TAATAAATAAGTAAA
1 TAATAAATAAGTAAA
*
9789743 TAATAAATACGTAAA
1 TAATAAATAAGTAAA
9789758 AGATAAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 8 0.30
14 3 0.11
15 16 0.59
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (15 bp):
TAATAAATAAGTAAA
Found at i:9789763 original size:15 final size:13
Alignment explanation
Indices: 9789716--9789764 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 13
9789706 TATATATATT
*
9789716 AATAAATAGTAAT
1 AATAAATAGTAAA
9789729 AATAAATAAGTAAA
1 AATAAAT-AGTAAA
9789743 TAATAAATACGTAAA
1 -AATAAATA-GTAAA
9789758 AGATAAA
1 A-ATAAA
9789765 GAAAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 17 0.55
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.24
Consensus pattern (13 bp):
AATAAATAGTAAA
Found at i:9789793 original size:18 final size:18
Alignment explanation
Indices: 9789770--9789811 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
9789760 ATAAAGAAAA
* *
9789770 AAAATATATATATAATAT
1 AAAATAAATATAAAATAT
9789788 AAAATAAATATAAAATAT
1 AAAATAAATATAAAATAT
9789806 AAAATA
1 AAAATA
9789812 CAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAAATATAAAATAT
Found at i:9789823 original size:23 final size:23
Alignment explanation
Indices: 9789744--9789824 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
9789734 ATAAGTAAAT
*
9789744 AATAAATACGTAAAAGATAAAGA-AA
1 AATAAATA--TAAAATATAAA-ATAA
* *
9789769 AA-AAATAT-ATATATAATATAA
1 AATAAATATAAAATATAAAATAA
*
9789790 AATAAATATAAAATATAAAATAC
1 AATAAATATAAAATATAAAATAA
9789813 AA-AAATAATAAA
1 AATAAAT-ATAAA
9789825 GAAAAACAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 1 0.02
21 10 0.22
22 11 0.24
23 17 0.37
24 5 0.11
25 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (23 bp):
AATAAATATAAAATATAAAATAA
Found at i:9790164 original size:47 final size:47
Alignment explanation
Indices: 9790012--9790369 Score: 418
Period size: 47 Copynumber: 7.9 Consensus size: 47
9790002 TTTGATCAAG
*
9790012 GCTCCTCTAAGCAGAGGCTCAACGACTTT--AAAA-AACATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAA-ATAAACAAT
* *
9790057 GCTCCTCTAATCAAAGGCTCAACGACTTT-GAAAATGAATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* **
9790103 GCTCCTCTAGTCAGAGGCTCAACGACTTTAAAAAATAAATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* * * *
9790150 GCTCATCTATTCAGAGGCTCAATGACTTTGGAAAACAAATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* *
9790197 GCTCCTCTAATCAGAGGCTCAACAACTTTGGAAGATAAATAAACAAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* * *
9790244 GCTCCTCTAATTAGAGGCTCAACGATTTTGGAAAATAAAT--A-AAG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* *
9790288 GCCCCTCTAATCAGAGGCTTAACGACTTTGG--AA-AAAT--A-AAT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
* * * *
9790329 GGCTCATCTAATTAGAGGCTCAACAACTTTGAAAAATAAAT
1 -GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAAT
9790370 TACTCCTTGA
Statistics
Matches: 271, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
41 7 0.03
42 27 0.10
44 31 0.11
45 32 0.12
46 40 0.15
47 134 0.49
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (47 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATAAACAAT
Found at i:9801930 original size:59 final size:58
Alignment explanation
Indices: 9801831--9802158 Score: 338
Period size: 59 Copynumber: 5.5 Consensus size: 58
9801821 TTGTACAAAA
* ** *
9801831 GAAAATTGATACTTTTAACTTTTTC-CTAAAATATTTTTTTTTGAAATTTTAATTTCGAC
1 GAAAATTGATACTTTCAACTTTTTCTC-AAAA-AAATTTTTTTGAAATTTTAATTTCGAG
* * * * *
9801890 AAAAATTGATACTTTCAACTCTTTCTCAAAAAAACCTTTTTTGAGAA-TTTATTTTTGAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAA-TTTTTTTGA-AATTTTAATTTCGAG
* * * * * **
9801949 GAAAATTGATACTTTTAACTTTTCCTCAAAAAAACATTTTTTGAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAA-TTTTTTTGAAATTTTAATTTCGAG
* *
9802008 GAAAATTGATACTTTCAACTTTTTCCCAAAAATA-TTTTTTGAAAATTTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAATTTTTTTG-AAA-TTTTAATTTCGAG
* * *
9802067 AAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTTTAATTTCGAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAAAATTTTTTT-G-AAA-TTTTAATTTCGAG
* *
9802128 GAAAATTGATATTTTCAACTTTTCCTCAAAA
1 GAAAATTGATACTTTCAACTTTTTCTCAAAA
9802159 CCTCTTTTTT
Statistics
Matches: 230, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
57 7 0.03
58 6 0.03
59 163 0.71
60 9 0.04
61 45 0.20
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (58 bp):
GAAAATTGATACTTTCAACTTTTTCTCAAAAAAATTTTTTTGAAATTTTAATTTCGAG
Found at i:9801993 original size:118 final size:115
Alignment explanation
Indices: 9801831--9802158 Score: 374
Period size: 118 Copynumber: 2.8 Consensus size: 115
9801821 TTGTACAAAA
** **
9801831 GAAAATTGATACTTTTAACTTTTTCCT-AAAATATTTTTTTTTGAAATTTTAATTTCGACAAAAA
1 GAAAATTGATACTTTTAAC-TTTTCCTCAAAA-AAATTTTTTTGAAATTTTAATTTCGAGGAAAA
*
9801895 TTGATACTTTCAACTCTTTCTCAAAAAAACCTTTTTTGAGAATTTATT-TTT-GAG
64 TTGATACTTTCAACT-TTTCTCAAAAAAA--TTTTTTGAAAATTT-TTATTTCGAG
* * * **
9801949 GAAAATTGATACTTTTAACTTTTCCTCAAAAAAACATTTTTTGAAAATTTATTTTTAAGGAAAAT
1 GAAAATTGATACTTTTAACTTTTCCTCAAAAAAA-TTTTTTTGAAATTTTAATTTCGAGGAAAAT
* *
9802014 TGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTTTAATTTCGAG
65 TGATACTTTCAAC-TTTTCTCAAAAAAATTTTTTGAAAATTTTT-ATTTCGAG
* * *
9802067 AAAAATTGATACTTTTAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTTTAATTTCGAGGAAA
1 GAAAATTGATACTTTTAACTTTTCCTCAAAAAAATTTTTTT-G-AAA-TTTTAATTTCGAGGAAA
*
9802132 ATTGATATTTTCAACTTTTCCTCAAAA
63 ATTGATACTTTCAACTTTT-CTCAAAA
9802159 CCTCTTTTTT
Statistics
Matches: 178, Mismatches: 22, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
115 2 0.01
116 13 0.07
117 17 0.10
118 105 0.59
119 8 0.04
120 33 0.19
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (115 bp):
GAAAATTGATACTTTTAACTTTTCCTCAAAAAAATTTTTTTGAAATTTTAATTTCGAGGAAAATT
GATACTTTCAACTTTTCTCAAAAAAATTTTTTGAAAATTTTTATTTCGAG
Found at i:9802015 original size:177 final size:178
Alignment explanation
Indices: 9801831--9802231 Score: 488
Period size: 177 Copynumber: 2.2 Consensus size: 178
9801821 TTGTACAAAA
* * *
9801831 GAAAATTGATACTTTTAACTTTTTCCTAAAATATTTTTTTTTG-AAA-TTTTAATTTCGACAAAA
1 GAAAATTGATACTTTCAACTTTTTCCCAAAA-A-TATTTTTTGAAAATTTTTAATTTCGACAAAA
* * *
9801894 ATTGATACTTTCAACTCTTTCTCAAAAAAACCTTTTTT-GAGAA-TTTATTTTTGAGGAAAATTG
64 ATTGATACTTTCAACTCTTTCTCAAAAAAA-CTTTTTTAGAAAACTTTAATTTCGAGGAAAATTG
9801957 ATACTTTT-AACTTTTCCTCAAAAAAACATTTTTTGAAAATTTATTTTTAAG
128 ATA-TTTTCAACTTTTCCTCAAAAAAACATTTTTTGAAAATTTATTTTTAAG
*
9802008 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTTTAATTTCGAGAAAAAT
1 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTTTAATTTCGACAAAAAT
* * * *
9802073 TGATACTTTTAACTTTTTCTCAAAAATATTTTTTTAGAAAACTTTTAATTTCGAGGAAAATTGAT
66 TGATACTTTCAACTCTTTCTCAAAAAAACTTTTTTAGAAAAC-TTTAATTTCGAGGAAAATTGAT
*** * *
9802138 ATTTTCAACTTTTCCTCAAAACCTCTTTTTTTTTTTTTGAAAATTTATTCTTAAG
130 ATTTTCAACTTTTCCTCAAAAAAAC------ATTTTTTGAAAATTTATTTTTAAG
* * * *
9802193 AAAAATTGATATTTTCAACTTTTTCTCAAAAATAATTTT
1 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
9802232 AATTTTTTAA
Statistics
Matches: 192, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
175 8 0.04
176 10 0.05
177 76 0.40
178 4 0.02
179 37 0.19
185 57 0.30
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.46
Consensus pattern (178 bp):
GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTGAAAATTTTTAATTTCGACAAAAAT
TGATACTTTCAACTCTTTCTCAAAAAAACTTTTTTAGAAAACTTTAATTTCGAGGAAAATTGATA
TTTTCAACTTTTCCTCAAAAAAACATTTTTTGAAAATTTATTTTTAAG
Found at i:9802175 original size:118 final size:116
Alignment explanation
Indices: 9801832--9802231 Score: 334
Period size: 118 Copynumber: 3.3 Consensus size: 116
9801822 TGTACAAAAG
* ** **
9801832 AAAATTGATACTTTTAACTTTTTC-CTAAAATATTTTTTTTTG-AAATTTTAATTTCGACAAAAA
1 AAAATTGATACTTTTAACTTTTTCTCAAAAATA-CATTTTTTGAAAATTTTAATTTCGAGGAAAA
* * * * *
9801895 TTGATACTTTCAACTCTTT-CTCAAAAAAACCTTTTTTGAGA-ATTTATTTTTGAGG
65 TTGATACTTTCAACT-TTTCCTC---AAAACCTTTTTTTA-ATTTTTAATTTCGAGA
* * * **
9801950 AAAATTGATACTTTTAACTTTTCCTCAAAAAAACATTTTTTGAAAA-TTTATTTTTAAGGAAAAT
1 AAAATTGATACTTTTAACTTTTTCTCAAAAATACATTTTTTGAAAATTTTAATTTCGAGGAAAAT
*
9802014 TGATACTTTCAACTTTTTCC-CAAAA-ATATTTTTTGAAAATTTTTAATTTCGAGA
66 TGATACTTTCAAC-TTTTCCTCAAAACCT-TTTTTT---AATTTTTAATTTCGAGA
*
9802068 AAAATTGATACTTTTAACTTTTTCTCAAAAATA-TTTTTTTAGAAAACTTTTAATTTCGAGGAAA
1 AAAATTGATACTTTTAACTTTTTCTCAAAAATACATTTTTT-GAAAA-TTTTAATTTCGAGGAAA
* ** *
9802132 ATTGATATTTTCAACTTTTCCTCAAAACCTCTTTTTTTTTTTTTGAAAATTTATTCTTAAGA
64 ATTGATACTTTCAACTTTTCCTCAAAACCT-TTTTTTAATTTTT---AA--T-TTC--GAGA
9802194 AAAATTGATA-TTTTCAACTTTTTCTCAAAAATA-ATTTT
1 AAAATTGATACTTTT-AACTTTTTCTCAAAAATACATTTT
9802232 AATTTTTTAA
Statistics
Matches: 230, Mismatches: 29, Indels: 38
0.77 0.10 0.13
Matches are distributed among these distances:
114 1 0.00
115 9 0.04
117 7 0.03
118 112 0.49
119 17 0.07
120 32 0.14
121 9 0.04
123 1 0.00
124 3 0.01
125 4 0.02
126 35 0.15
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.47
Consensus pattern (116 bp):
AAAATTGATACTTTTAACTTTTTCTCAAAAATACATTTTTTGAAAATTTTAATTTCGAGGAAAAT
TGATACTTTCAACTTTTCCTCAAAACCTTTTTTTAATTTTTAATTTCGAGA
Found at i:9802261 original size:13 final size:12
Alignment explanation
Indices: 9802243--9802307 Score: 64
Period size: 13 Copynumber: 5.3 Consensus size: 12
9802233 ATTTTTTAAA
9802243 AAAATAAAATAAT
1 AAAATAAAA-AAT
*
9802256 AAAATAAAATGGAT
1 AAAATAAAA--AAT
9802270 AAAAT-AAAAAT
1 AAAATAAAAAAT
9802281 AAAGATAAAAAAT
1 AAA-ATAAAAAAT
9802294 -AAAT-AAAAAT
1 AAAATAAAAAAT
9802304 AAAA
1 AAAA
9802308 ATATTAAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
10 6 0.13
11 10 0.22
12 4 0.09
13 18 0.40
14 7 0.16
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:9802281 original size:6 final size:6
Alignment explanation
Indices: 9802270--9802310 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
9802260 TAAAATGGAT
* *
9802270 AAAATA AAAATA AAGATA AAAA-A TAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
9802311 TTAAACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9802287 original size:17 final size:17
Alignment explanation
Indices: 9802240--9802308 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
9802230 TTAATTTTTT
9802240 AAAA-AAATAAA-ATAA
1 AAAATAAATAAAGATAA
**
9802255 TAAAATAAA-ATGGATAA
1 -AAAATAAATAAAGATAA
9802272 AATAA-AAATAAAGATAA
1 AA-AATAAATAAAGATAA
*
9802289 AAAATAAATAAAAATAA
1 AAAATAAATAAAGATAA
9802306 AAA
1 AAA
9802309 TATTAAACAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 12 0.28
17 31 0.72
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (17 bp):
AAAATAAATAAAGATAA
Found at i:9803028 original size:14 final size:16
Alignment explanation
Indices: 9803004--9803035 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9802994 TCTCAACCAG
9803004 TATCTCCTTTTT-TTT
1 TATCTCCTTTTTCTTT
9803019 TATC-CCTTTTTCTTT
1 TATCTCCTTTTTCTTT
9803034 TA
1 TA
9803036 ATCCGTGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.09, C:0.22, G:0.00, T:0.69
Consensus pattern (16 bp):
TATCTCCTTTTTCTTT
Found at i:9803213 original size:18 final size:18
Alignment explanation
Indices: 9803163--9803215 Score: 65
Period size: 17 Copynumber: 2.9 Consensus size: 18
9803153 TCTTCAGTCG
*
9803163 AAAAAAAAAAAG-AAATC
1 AAAAAAATAAAGAAAATC
9803180 AAAAAAATAAAGAAAATC
1 AAAAAAATAAAGAAAATC
9803198 AAATAATAATAAA-AAAAT
1 AAA-AA-AATAAAGAAAAT
9803216 ATTAACAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 11 0.34
18 8 0.25
19 7 0.22
20 6 0.19
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAAAAATAAAGAAAATC
Found at i:9803242 original size:38 final size:41
Alignment explanation
Indices: 9803198--9803275 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 41
9803188 AAAGAAAATC
*
9803198 AAATAAT-AATAAA-AAAATATTAACAGAT-AATTAAATGA
1 AAATAATAAATAAACAAAAGATTAACAGATAAATTAAATGA
*
9803236 AAATAATCAAATAAACCAAGAGATTAACAGATAAATTAAA
1 AAATAAT-AAATAAA-CAAAAGATTAACAGATAAATTAAA
9803276 AATAATAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 7 0.21
40 6 0.18
42 13 0.39
43 7 0.21
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.23
Consensus pattern (41 bp):
AAATAATAAATAAACAAAAGATTAACAGATAAATTAAATGA
Found at i:9803285 original size:21 final size:20
Alignment explanation
Indices: 9803260--9803341 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 20
9803250 ACCAAGAGAT
9803260 TAACAGATAAATTAAAAATAA
1 TAACAGATAAA-TAAAAATAA
*
9803281 TAACAGATAAATTATAACAT-A
1 TAACAGATAAA-TA-AAAATAA
*
9803302 TAAATAGATAAATAATAAATATA
1 T-AACAGATAAATAA-AAATA-A
*
9803325 TAACTAGGTAAATAAAA
1 TAAC-AGATAAATAAAA
9803342 TATATATATA
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 21 0.42
22 17 0.34
23 11 0.22
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.27
Consensus pattern (20 bp):
TAACAGATAAATAAAAATAA
Found at i:9803292 original size:14 final size:14
Alignment explanation
Indices: 9803275--9803339 Score: 51
Period size: 14 Copynumber: 4.4 Consensus size: 14
9803265 GATAAATTAA
9803275 AAATAATAACAGAT
1 AAATAATAACAGAT
* *
9803289 AAATTATAACATAT
1 AAATAATAACAGAT
*
9803303 AAATAGATAA-ATAAT
1 AAATA-ATAACA-GAT
*
9803318 AAATATATAACTAGGT
1 AAATA-ATAAC-AGAT
9803334 AAATAA
1 AAATAA
9803340 AATATATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
14 17 0.43
15 16 0.40
16 6 0.15
17 1 0.03
ACGTcount: A:0.62, C:0.05, G:0.06, T:0.28
Consensus pattern (14 bp):
AAATAATAACAGAT
Found at i:9803336 original size:23 final size:23
Alignment explanation
Indices: 9803299--9803349 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
9803289 AAATTATAAC
9803299 ATATAAATAGATAAATAATAA-AT
1 ATATAAATAGATAAATAA-AATAT
* *
9803322 ATATAACTAGGTAAATAAAATAT
1 ATATAAATAGATAAATAAAATAT
9803345 ATATA
1 ATATA
9803350 TAAATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
ATATAAATAGATAAATAAAATAT
Found at i:9803433 original size:7 final size:7
Alignment explanation
Indices: 9803410--9803451 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
9803400 ATATATATAT
9803410 TAATAAA
1 TAATAAA
*
9803417 TAGT-AA
1 TAATAAA
9803423 TAATAAA
1 TAATAAA
9803430 TAATAAA
1 TAATAAA
9803437 TAATAAA
1 TAATAAA
9803444 TAAATAAA
1 T-AATAAA
9803452 AGATAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
TAATAAA
Found at i:9803491 original size:7 final size:7
Alignment explanation
Indices: 9803479--9803524 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
9803469 ATATATATAG
9803479 AAAATAT
1 AAAATAT
9803486 -AAA-AT
1 AAAATAT
9803491 AAAATAT
1 AAAATAT
9803498 AAAATAT
1 AAAATAT
*
9803505 AAAATACG
1 AAAATA-T
9803513 AAAATAAT
1 AAAAT-AT
9803521 AAAA
1 AAAA
9803525 AAAAGTGGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 2 0.06
6 6 0.18
7 15 0.45
8 9 0.27
9 1 0.03
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (7 bp):
AAAATAT
Found at i:9803496 original size:12 final size:12
Alignment explanation
Indices: 9803479--9803503 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9803469 ATATATATAG
9803479 AAAATATAAAAT
1 AAAATATAAAAT
9803491 AAAATATAAAAT
1 AAAATATAAAAT
9803503 A
1 A
9803504 TAAAATACGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATATAAAAT
Found at i:9810112 original size:21 final size:23
Alignment explanation
Indices: 9810086--9810127 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
9810076 TTTTTTTATA
9810086 AAAAAATCATAA-T-TTAAAAAT
1 AAAAAATCATAACTGTTAAAAAT
*
9810107 AAAAAATTATAACTGTTAAAA
1 AAAAAATCATAACTGTTAAAA
9810128 TTTAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (23 bp):
AAAAAATCATAACTGTTAAAAAT
Found at i:9811689 original size:16 final size:18
Alignment explanation
Indices: 9811659--9811694 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
9811649 TACAGTAACA
9811659 AAATTTATAT-AAAAATT
1 AAATTTATATAAAAAATT
9811676 AAATTTAT-TAAAAAATT
1 AAATTTATATAAAAAATT
9811693 AA
1 AA
9811695 TATATTTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 1 0.06
17 17 0.94
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTTATATAAAAAATT
Found at i:9812888 original size:20 final size:20
Alignment explanation
Indices: 9812863--9812919 Score: 53
Period size: 22 Copynumber: 2.8 Consensus size: 20
9812853 AACGCGGTTT
9812863 ATATATGAATTATAACAAAA
1 ATATATGAATTATAACAAAA
* *
9812883 ATATATTTCATATT-TAACAAAT
1 ATATA--TGA-ATTATAACAAAA
*
9812905 GTATATGAATTATAA
1 ATATATGAATTATAA
9812920 TATGTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
19 3 0.10
20 10 0.34
22 13 0.45
23 3 0.10
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATATGAATTATAACAAAA
Found at i:9821322 original size:2 final size:2
Alignment explanation
Indices: 9821317--9821353 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
9821307 GGTCGAAGGC
9821317 TA TA TA TA TA TA TA TA T- TA TA TA TA TA -A TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9821354 AATTTTAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9822220 original size:182 final size:182
Alignment explanation
Indices: 9821913--9822277 Score: 730
Period size: 182 Copynumber: 2.0 Consensus size: 182
9821903 TTTATCTTAG
9821913 TTGGGGTTTTGGGGAAAGGAGAGTCGGTCGCAAGTTTCAAGGGCTTGGCGTCAAGTCAGGGGTTC
1 TTGGGGTTTTGGGGAAAGGAGAGTCGGTCGCAAGTTTCAAGGGCTTGGCGTCAAGTCAGGGGTTC
9821978 ACGTTTTGTGGTCTTGGCTGGCTGGGCCGAGCACTAGCAGGCAAATGTTACGATTCACATCGTAA
66 ACGTTTTGTGGTCTTGGCTGGCTGGGCCGAGCACTAGCAGGCAAATGTTACGATTCACATCGTAA
9822043 GGAAATATATTCTCCCTTTTAAGCTTCATAAAAATTAATTTTTTAAAAGATA
131 GGAAATATATTCTCCCTTTTAAGCTTCATAAAAATTAATTTTTTAAAAGATA
9822095 TTGGGGTTTTGGGGAAAGGAGAGTCGGTCGCAAGTTTCAAGGGCTTGGCGTCAAGTCAGGGGTTC
1 TTGGGGTTTTGGGGAAAGGAGAGTCGGTCGCAAGTTTCAAGGGCTTGGCGTCAAGTCAGGGGTTC
9822160 ACGTTTTGTGGTCTTGGCTGGCTGGGCCGAGCACTAGCAGGCAAATGTTACGATTCACATCGTAA
66 ACGTTTTGTGGTCTTGGCTGGCTGGGCCGAGCACTAGCAGGCAAATGTTACGATTCACATCGTAA
9822225 GGAAATATATTCTCCCTTTTAAGCTTCATAAAAATTAATTTTTTAAAAGATA
131 GGAAATATATTCTCCCTTTTAAGCTTCATAAAAATTAATTTTTTAAAAGATA
9822277 T
1 T
9822278 CTTTTAAAAA
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 183 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (182 bp):
TTGGGGTTTTGGGGAAAGGAGAGTCGGTCGCAAGTTTCAAGGGCTTGGCGTCAAGTCAGGGGTTC
ACGTTTTGTGGTCTTGGCTGGCTGGGCCGAGCACTAGCAGGCAAATGTTACGATTCACATCGTAA
GGAAATATATTCTCCCTTTTAAGCTTCATAAAAATTAATTTTTTAAAAGATA
Found at i:9822495 original size:42 final size:41
Alignment explanation
Indices: 9822401--9822497 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 41
9822391 TTAATATAAC
* *
9822401 TATTAAAATATTAAAAATTATTTATTATTAAACTATATTAA
1 TATTAAAATATTAAAAATAATTTATTATTAAAATATATTAA
* * *
9822442 AATTATTAATATTGAAGAATAATTATATT-TTAATAATAT-TTAA
1 TATTA-AAATATT-AAAAATAATT-TATTATTAA-AATATATTAA
9822485 TATTAAAATATTA
1 TATTAAAATATTA
9822498 TATAAATATA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
41 5 0.11
42 12 0.27
43 20 0.44
44 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (41 bp):
TATTAAAATATTAAAAATAATTTATTATTAAAATATATTAA
Found at i:9822633 original size:17 final size:17
Alignment explanation
Indices: 9822613--9822645 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9822603 TATTAAAATT
9822613 TATTAAAATATTTATAC
1 TATTAAAATATTTATAC
9822630 TATTAAAATATTTATA
1 TATTAAAATATTTATA
9822646 TTTTATATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTAAAATATTTATAC
Found at i:9822636 original size:50 final size:56
Alignment explanation
Indices: 9822533--9822654 Score: 141
Period size: 53 Copynumber: 2.2 Consensus size: 56
9822523 AAAATTATTG
* *
9822533 ATTATTTTTATATTAATATTTCAAAATATTTAAAATAGTATTAATATTCTTAAAAT
1 ATTATTTTTATATTAATATTTCAAAATATTTAAAATAGTATTAATACTATTAAAAT
*
9822589 ATTA-TTTTA-ATTAATA-TT-AAAATTTATTAAAATA-T-TT-ATACTATTAAAAT
1 ATTATTTTTATATTAATATTTCAAAATAT-TTAAAATAGTATTAATACTATTAAAAT
9822639 ATTTATATTTTATATT
1 A-TTAT-TTTTATATT
9822655 GAAAGTATCT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
50 12 0.21
51 5 0.09
52 7 0.12
53 15 0.26
54 10 0.17
55 5 0.09
56 4 0.07
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (56 bp):
ATTATTTTTATATTAATATTTCAAAATATTTAAAATAGTATTAATACTATTAAAAT
Found at i:9825516 original size:3 final size:3
Alignment explanation
Indices: 9825508--9825540 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
9825498 GCCAGAAAAG
*
9825508 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9825541 TGAAACTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9827196 original size:31 final size:30
Alignment explanation
Indices: 9827149--9827207 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
9827139 ATTTTTAAAA
*
9827149 AATTTATTCATTAATGAGATAACATCATCT
1 AATTTATTAATTAATGAGATAACATCATCT
*
9827179 AATTTATTTAATTAATGAGATGACATCAT
1 AATTTA-TTAATTAATGAGATAACATCAT
9827208 TCCATTCACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (30 bp):
AATTTATTAATTAATGAGATAACATCATCT
Found at i:9831269 original size:2 final size:2
Alignment explanation
Indices: 9831262--9831289 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9831252 TATCATTTTA
9831262 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9831290 CAATATGTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9831828 original size:17 final size:17
Alignment explanation
Indices: 9831806--9831856 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
9831796 ATTTTTAATA
*
9831806 TTAAAATATAAAAAATT
1 TTAAAATATAAAAAAAT
9831823 TTAAAATATAAAAAAAAT
1 TTAAAATAT-AAAAAAAT
9831841 TT-AAATATTAAAAAAA
1 TTAAAATA-TAAAAAAA
9831857 ACATAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAATATAAAAAAAT
Found at i:9831839 original size:19 final size:18
Alignment explanation
Indices: 9831806--9831857 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
9831796 ATTTTTAATA
*
9831806 TTAAAATAT-AAAAAATT
1 TTAAAATATAAAAAAAAT
9831823 TTAAAATATAAAAAAAAT
1 TTAAAATATAAAAAAAAT
9831841 TT-AAATATTAAAAAAAA
1 TTAAAATA-TAAAAAAAA
9831858 CATAAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
17 14 0.44
18 18 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAATATAAAAAAAAT
Found at i:9831863 original size:18 final size:18
Alignment explanation
Indices: 9831826--9831870 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
9831816 AAAAATTTTA
**
9831826 AAATA-TAAAAAAAATTT
1 AAATATTAAAAAAAACAT
9831843 AAATATTAAAAAAAACAT
1 AAATATTAAAAAAAACAT
9831861 AAAT-TTAAAA
1 AAATATTAAAA
9831871 CATTAGCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATATTAAAAAAAACAT
Found at i:9834390 original size:18 final size:18
Alignment explanation
Indices: 9834367--9834401 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9834357 GCTTTGCGTA
*
9834367 GCAGATGGATGACTGTAC
1 GCAGATGGAAGACTGTAC
9834385 GCAGATGGAAGACTGTA
1 GCAGATGGAAGACTGTA
9834402 ATTCTTACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.20
Consensus pattern (18 bp):
GCAGATGGAAGACTGTAC
Found at i:9839128 original size:2 final size:2
Alignment explanation
Indices: 9839109--9839153 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
9839099 CTCCTCTTTA
* *
9839109 AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9839151 AT A
1 AT A
9839154 AACTAACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9839709 original size:2 final size:2
Alignment explanation
Indices: 9839702--9839731 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9839692 CATATTTTGA
9839702 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9839732 GTAAATTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9842513 original size:2 final size:2
Alignment explanation
Indices: 9842501--9842539 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
9842491 ATAACACTCA
*
9842501 AT AT A- AT AT AT AT AT AT AT AT AA AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9842540 AATCACACAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:9845588 original size:24 final size:24
Alignment explanation
Indices: 9845559--9845607 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
9845549 ACCAGTGCTC
*
9845559 TTCTGTTCCTTTACCTAGTAGACT
1 TTCTGTTCCTTCACCTAGTAGACT
9845583 TTCTGTTCCTTCACCTAGTAGACT
1 TTCTGTTCCTTCACCTAGTAGACT
9845607 T
1 T
9845608 CCTATCACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.27, G:0.12, T:0.45
Consensus pattern (24 bp):
TTCTGTTCCTTCACCTAGTAGACT
Found at i:9851996 original size:16 final size:17
Alignment explanation
Indices: 9851970--9852002 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9851960 CGTTTCCACC
9851970 TCTTCTTCTTTTTTTTT
1 TCTTCTTCTTTTTTTTT
9851987 TCTT-TTCTTTTTTTTT
1 TCTTCTTCTTTTTTTTT
9852003 CCTAGAGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TCTTCTTCTTTTTTTTT
Found at i:9853732 original size:28 final size:26
Alignment explanation
Indices: 9853700--9853761 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 26
9853690 AATGTCTTAA
9853700 TTAAAAATAAAAATATAATAGTATTT
1 TTAAAAATAAAAATATAATAGTATTT
9853726 TT----ATAAAAATATAATAGTATTTT
1 TTAAAAATAAAAATATAATAGTA-TTT
9853749 TATAAAAATAAAA
1 T-TAAAAATAAAA
9853762 TTTTTTTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 17 0.57
23 4 0.13
24 1 0.03
26 2 0.07
28 6 0.20
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
TTAAAAATAAAAATATAATAGTATTT
Found at i:9853734 original size:22 final size:22
Alignment explanation
Indices: 9853706--9853758 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
9853696 TTAATTAAAA
9853706 ATAAAAATATAATAGTATTTTT
1 ATAAAAATATAATAGTATTTTT
9853728 ATAAAAATATAATAGTATTTTT
1 ATAAAAATATAATAGTATTTTT
9853750 ATAAAAATA
1 ATAAAAATA
9853759 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
ATAAAAATATAATAGTATTTTT
Found at i:9854434 original size:4 final size:4
Alignment explanation
Indices: 9854425--9854449 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9854415 TATTGATGAG
9854425 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
9854450 TTAGGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:9854474 original size:16 final size:17
Alignment explanation
Indices: 9854455--9854487 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
9854445 AATAATTAGG
9854455 TAAAAAATTTT-GAAAA
1 TAAAAAATTTTGGAAAA
9854471 TAAAAAATTTTGGAAAA
1 TAAAAAATTTTGGAAAA
9854488 GCATGACCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (17 bp):
TAAAAAATTTTGGAAAA
Found at i:9855177 original size:77 final size:78
Alignment explanation
Indices: 9855096--9855282 Score: 247
Period size: 78 Copynumber: 2.4 Consensus size: 78
9855086 ATTTTTTTGG
*
9855096 CAAATAAAATAATTTCATACTT-AAAAAATTAAAATATGTAAGACAATATAAGAAATATGAAAAA
1 CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
9855160 -AGTATATATTTAA
66 GA-TATATATTTAA
* * * *
9855173 CAAATAAGATAATTTCATACTTAAAAAAATTAAAATATGTAACATAATATAATAAATGTGAAAAA
1 CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
9855238 GTATATATATTTAA
66 G-ATATATATTTAA
*
9855252 CAAATATATAATAAATTT-A-AATTAAAAAAAT
1 CAAATA-A-AAT-AATTTCATACTTAAAAAAAT
9855283 AAATTTAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
77 21 0.22
78 38 0.39
79 17 0.18
80 13 0.13
81 3 0.03
82 5 0.05
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (78 bp):
CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
GATATATATTTAA
Found at i:9859103 original size:19 final size:19
Alignment explanation
Indices: 9859058--9859110 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
9859048 GCTGACACAG
* *
9859058 TTTATGCTAAACTTAAATCT
1 TTTA-GCTAAAATTTAATCT
*
9859078 TTT-GCTAAAATTTAATTT
1 TTTAGCTAAAATTTAATCT
9859096 TTTAGCT-AAATTTAA
1 TTTAGCTAAAATTTAA
9859111 GCAGTGGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 23 0.79
19 3 0.10
20 3 0.10
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (19 bp):
TTTAGCTAAAATTTAATCT
Found at i:9861365 original size:52 final size:52
Alignment explanation
Indices: 9861224--9861369 Score: 175
Period size: 52 Copynumber: 2.8 Consensus size: 52
9861214 AAATTTGCCC
* * ** *
9861224 ATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTATAAGTCAAACTTGCCT
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
* * * *
9861276 ATTAAGAATCCCTTTCCTTTTAAAATTCTTCTCTTGCAAGTTAAACTTATCT
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
** * *
9861328 ATTAAGAATCTTTTTTCTCTTAGAATTCTTCTTTTGCAAGTC
1 ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTC
9861370 TTCTTGTCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.43
Consensus pattern (52 bp):
ATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCTTGCAAGTCAAACTTACCT
Found at i:9861423 original size:11 final size:11
Alignment explanation
Indices: 9861394--9861424 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
9861384 GCAATATCTG
*
9861394 ACAAATCCCAA
1 ACAAATCTCAA
9861405 ACAAATCTCAA
1 ACAAATCTCAA
9861416 ACAAATCTC
1 ACAAATCTC
9861425 TTATGGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:9864708 original size:15 final size:16
Alignment explanation
Indices: 9864692--9864745 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
9864682 GGATTTTGTA
9864692 CTTTTTTCTTTTCTA-
1 CTTTTTTCTTTTCTAG
9864707 CTTTATGTT-TTTTCTTGAG
1 CTTT-T-TTCTTTTC-T-AG
9864726 C-TTTTTCTTTTCTAG
1 CTTTTTTCTTTTCTAG
9864741 CTTTT
1 CTTTT
9864746 ATGGTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 13
0.71 0.00 0.29
Matches are distributed among these distances:
15 7 0.22
16 12 0.38
17 9 0.28
18 3 0.09
19 1 0.03
ACGTcount: A:0.07, C:0.17, G:0.07, T:0.69
Consensus pattern (16 bp):
CTTTTTTCTTTTCTAG
Found at i:9866228 original size:2 final size:2
Alignment explanation
Indices: 9866221--9866263 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
9866211 GTATACATGT
*
9866221 AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
9866263 A
1 A
9866264 TATATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9867094 original size:22 final size:22
Alignment explanation
Indices: 9867069--9867142 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
9867059 TCACTGTAAG
*
9867069 TTATTAATGATTGACTATTAAA
1 TTATTAATGATTAACTATTAAA
* * *
9867091 TTATATCAATAATTTATTATTAAA
1 TTAT-T-AATGATTAACTATTAAA
* * *
9867115 TTATCAATGATTAACTGTTAAG
1 TTATTAATGATTAACTATTAAA
9867137 TTATTA
1 TTATTA
9867143 TTGAGTTGCT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
22 21 0.52
23 1 0.03
24 18 0.45
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
TTATTAATGATTAACTATTAAA
Found at i:9867245 original size:25 final size:25
Alignment explanation
Indices: 9867217--9867272 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
9867207 CATTAATTCA
*
9867217 TTATTATCACTAATTCACAATTAAG
1 TTATTATAACTAATTCACAATTAAG
* * * **
9867242 TTATAATAACTGATTTAGTATTAAG
1 TTATTATAACTAATTCACAATTAAG
9867267 TTATTA
1 TTATTA
9867273 ATAATTTATG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (25 bp):
TTATTATAACTAATTCACAATTAAG
Found at i:9867299 original size:22 final size:22
Alignment explanation
Indices: 9867274--9867325 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
9867264 AAGTTATTAA
* *
9867274 TAATTTATGACTAAGTTAACAC
1 TAATTTATCACTAAATTAACAC
* * *
9867296 TAATTTGTCACTAAATTATCAT
1 TAATTTATCACTAAATTAACAC
9867318 TAATTTAT
1 TAATTTAT
9867326 TGTTATCACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (22 bp):
TAATTTATCACTAAATTAACAC
Found at i:9867307 original size:11 final size:11
Alignment explanation
Indices: 9867274--9867325 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
9867264 AAGTTATTAA
*
9867274 TAATTTATGAC
1 TAATTTATCAC
* *
9867285 TAAGTTAACAC
1 TAATTTATCAC
*
9867296 TAATTTGTCAC
1 TAATTTATCAC
* *
9867307 TAAATTATCAT
1 TAATTTATCAC
9867318 TAATTTAT
1 TAATTTAT
9867326 TGTTATCACT
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (11 bp):
TAATTTATCAC
Found at i:9868276 original size:22 final size:22
Alignment explanation
Indices: 9868248--9868343 Score: 86
Period size: 22 Copynumber: 4.4 Consensus size: 22
9868238 GTATAAAAAA
*
9868248 ACTATTAAATTATCAATAATTT
1 ACTATTAAATTATAAATAATTT
* * * *
9868270 ATTATTAATTTATGAATGATTT
1 ACTATTAAATTATAAATAATTT
* *
9868292 A-TCACTAAGTTATAAATAATTT
1 ACT-ATTAAATTATAAATAATTT
* * *
9868314 ACTACTAAATTATTAATGATTT
1 ACTATTAAATTATAAATAATTT
9868336 ACTATTAA
1 ACTATTAA
9868344 GATATTGATA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
21 1 0.02
22 58 0.97
23 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (22 bp):
ACTATTAAATTATAAATAATTT
Found at i:9868349 original size:22 final size:21
Alignment explanation
Indices: 9868248--9868364 Score: 56
Period size: 22 Copynumber: 5.3 Consensus size: 21
9868238 GTATAAAAAA
*
9868248 ACTATTAAATTATCAATAATTT
1 ACTATTAAA-TATTAATAATTT
* * * *
9868270 ATTATTAATTTATGAATGATTT
1 ACTATTAA-ATATTAATAATTT
* * *
9868292 A-TCACTAAGTTATAAATAATTT
1 ACT-ATTAA-ATATTAATAATTT
* *
9868314 ACTACTAAATTATTAATGATTT
1 ACTATTAAA-TATTAATAATTT
* *
9868336 ACTATTAAGATATTGATAAATT
1 ACTATTAA-ATATTAATAATTT
*
9868358 ATTATTA
1 ACTATTA
9868365 GGTTATCACT
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
21 1 0.01
22 71 0.96
23 2 0.03
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (21 bp):
ACTATTAAATATTAATAATTT
Found at i:9868875 original size:22 final size:22
Alignment explanation
Indices: 9868850--9868964 Score: 83
Period size: 22 Copynumber: 5.2 Consensus size: 22
9868840 ATCTTTTCAT
*
9868850 TGATTTATTATTAAATTATGAA
1 TGATTTATTACTAAATTATGAA
* * *
9868872 TGATTTATTATTTAATTAT-ACT
1 TGATTTATTACTAAATTATGA-A
* * * *
9868894 TGATCTACTACTAAGTTA-AACA
1 TGATTTATTACTAAATTATGA-A
* *
9868916 TGATTTATCACTCAATTATGAA
1 TGATTTATTACTAAATTATGAA
*
9868938 TGATTTACTACTAAATTATTG-A
1 TGATTTATTACTAAATTA-TGAA
9868960 TGATT
1 TGATT
9868965 ACAGTTATTA
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.01
22 68 0.94
23 3 0.04
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
TGATTTATTACTAAATTATGAA
Found at i:9869118 original size:22 final size:22
Alignment explanation
Indices: 9869093--9869261 Score: 116
Period size: 22 Copynumber: 7.7 Consensus size: 22
9869083 TGTTCTTAGC
*
9869093 AATTTACTACTAAGTTATCATT
1 AATTTACTACTAAGTTATTATT
* *
9869115 AATTTACTACTAAATTATTAAT
1 AATTTACTACTAAGTTATTATT
9869137 AATTTACTACTATA-TTATTATGT
1 AATTTACTACTA-AGTTATTAT-T
* * *
9869160 -ATTTATTATTATA-TTATCATT
1 AATTTACTACTA-AGTTATTATT
* * * *
9869181 GATTTACTAGTAAGTTTTTAAT
1 AATTTACTACTAAGTTATTATT
*
9869203 -ATTTAACTACTAAGTTATTTTT
1 AATTT-ACTACTAAGTTATTATT
* *
9869225 TA-TTATTACTAAGTTATT-TAT
1 AATTTACTACTAAGTTATTAT-T
* *
9869246 AAGTTACTATTAAGTT
1 AATTTACTACTAAGTT
9869262 TATCAATTAA
Statistics
Matches: 119, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.01
21 21 0.18
22 94 0.79
23 3 0.03
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.51
Consensus pattern (22 bp):
AATTTACTACTAAGTTATTATT
Found at i:9869164 original size:66 final size:66
Alignment explanation
Indices: 9869094--9869241 Score: 169
Period size: 66 Copynumber: 2.3 Consensus size: 66
9869084 GTTCTTAGCA
*
9869094 ATTTACTACTAAGTTATCATTAATTTACTACTAAATTATTAATAATTT-ACTACTATA-TTATTA
1 ATTTATTACTAAGTTATCATTAATTTACTACTAAATTATTAAT-ATTTAACTACTA-AGTTATTA
9869157 TGT
64 TGT
* * * * * *
9869160 ATTTATTATTATA-TTATCATTGATTTACTAGTAAGTTTTTAATATTTAACTACTAAGTTATTTT
1 ATTTATTACTA-AGTTATCATTAATTTACTACTAAATTATTAATATTTAACTACTAAGTTATTAT
*
9869224 TT
65 GT
9869226 A-TTATTACTAAGTTAT
1 ATTTATTACTAAGTTAT
9869242 TTATAAGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
64 1 0.01
65 17 0.25
66 50 0.72
67 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (66 bp):
ATTTATTACTAAGTTATCATTAATTTACTACTAAATTATTAATATTTAACTACTAAGTTATTATG
T
Found at i:9870526 original size:75 final size:76
Alignment explanation
Indices: 9870438--9870592 Score: 231
Period size: 77 Copynumber: 2.0 Consensus size: 76
9870428 CACTGACAAG
** *
9870438 AAAGAATAAAAATATGACAGAC-AACAAAAAAATTTTATAAAATTAATGGTCTTATGACTGCATA
1 AAAGAATAAAAATATGACAGACAAACAAAAAAATCATATAAAATTAATGGTCTTATGACTACATA
*
9870502 AATAATGTACA
66 AATAATCTACA
* *
9870513 AAAGAATAAAAATATGATAGACAAAACAAAAAAATCATATAAAATTAATGGTCTTGTGACTACAT
1 AAAGAATAAAAATATGACAGAC-AAACAAAAAAATCATATAAAATTAATGGTCTTATGACTACAT
*
9870578 AAATTATCTACA
65 AAATAATCTACA
9870590 AAA
1 AAA
9870593 AAACAATGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
75 21 0.30
77 50 0.70
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (76 bp):
AAAGAATAAAAATATGACAGACAAACAAAAAAATCATATAAAATTAATGGTCTTATGACTACATA
AATAATCTACA
Found at i:9871489 original size:3 final size:3
Alignment explanation
Indices: 9871481--9871520 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9871471 TCAACAATTA
9871481 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9871521 GGGTCGGACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9871915 original size:17 final size:17
Alignment explanation
Indices: 9871893--9871941 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
9871883 CAAGGCTTTC
*
9871893 AGATTTATAAGAATTAA
1 AGATTTACAAGAATTAA
*
9871910 AGATTTGCAAGAATTAA
1 AGATTTACAAGAATTAA
* *
9871927 ATATTCACAAGAATT
1 AGATTTACAAGAATT
9871942 TTAGCTTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.33
Consensus pattern (17 bp):
AGATTTACAAGAATTAA
Found at i:9871985 original size:16 final size:16
Alignment explanation
Indices: 9871952--9872005 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
9871942 TTAGCTTTAC
9871952 AAAATTT-GATTC-TAA
1 AAAATTTAGATTCAT-A
9871967 AAAATTTAGATTCATA
1 AAAATTTAGATTCATA
* *
9871983 AAAACTTAGATTCACA
1 AAAATTTAGATTCATA
9871999 AAAATTT
1 AAAATTT
9872006 CAATTTCGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.21
16 26 0.76
17 1 0.03
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (16 bp):
AAAATTTAGATTCATA
Found at i:9872119 original size:17 final size:17
Alignment explanation
Indices: 9872092--9872140 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
9872082 GAATTTTTAA
*
9872092 ATTCGTAAGAATTAAAG
1 ATTCATAAGAATTAAAG
* *
9872109 ATTTATAAGAATT-CAG
1 ATTCATAAGAATTAAAG
*
9872125 ATTCACAAGAATTAAA
1 ATTCATAAGAATTAAA
9872141 TTTTGTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (17 bp):
ATTCATAAGAATTAAAG
Found at i:9872202 original size:73 final size:73
Alignment explanation
Indices: 9872115--9872267 Score: 243
Period size: 73 Copynumber: 2.1 Consensus size: 73
9872105 AAAGATTTAT
* * * * *
9872115 AAGAATTCAGATTCACAAGAATTAAATTTTGTATTTGAGAAATTCACATCCAAAGTTTAATTTAG
1 AAGAACTCAAATTCACAAGAACTAAATTTCGCATTTGAGAAATTCACATCCAAAGTTTAATTTAG
*
9872180 AGATTCGC
66 AGATTCAC
*
9872188 AAGAACTCAAATTCACAAGAACTCAATTTCGCATTTGAGAAATTCACATCCAAAGTTTAATTTAG
1 AAGAACTCAAATTCACAAGAACTAAATTTCGCATTTGAGAAATTCACATCCAAAGTTTAATTTAG
9872253 AGATTCAC
66 AGATTCAC
9872261 AAGAACT
1 AAGAACT
9872268 TGATTCGCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (73 bp):
AAGAACTCAAATTCACAAGAACTAAATTTCGCATTTGAGAAATTCACATCCAAAGTTTAATTTAG
AGATTCAC
Found at i:9872206 original size:16 final size:16
Alignment explanation
Indices: 9872182--9872213 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9872172 TAATTTAGAG
*
9872182 ATTCGCAAGAACTCAA
1 ATTCACAAGAACTCAA
9872198 ATTCACAAGAACTCAA
1 ATTCACAAGAACTCAA
9872214 TTTCGCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.19
Consensus pattern (16 bp):
ATTCACAAGAACTCAA
Found at i:9872762 original size:21 final size:22
Alignment explanation
Indices: 9872715--9872766 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 22
9872705 ATTCTTATTC
9872715 AAAGATTCTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAA--TCTT
9872739 AAAGATTCTCATTTAAAA-CTT
1 AAAGATTCTCATTTAAAATCTT
9872760 AAAGATT
1 AAAGATT
9872767 TTCTTCATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.36
24 18 0.64
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (22 bp):
AAAGATTCTCATTTAAAATCTT
Found at i:9873899 original size:9 final size:9
Alignment explanation
Indices: 9873887--9873920 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
9873877 TTTCTCTCTT
9873887 TTTTTTTCA
1 TTTTTTTCA
9873896 TTTTTTTCA
1 TTTTTTTCA
**
9873905 CCTTTTTCA
1 TTTTTTTCA
9873914 TTTTTTT
1 TTTTTTT
9873921 TACTTTTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:9873926 original size:17 final size:18
Alignment explanation
Indices: 9873889--9873930 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9873879 TCTCTCTTTT
9873889 TTTTTCATTTTTTTCACC
1 TTTTTCATTTTTTTCACC
*
9873907 TTTTTCATTTTTTTTA-C
1 TTTTTCATTTTTTTCACC
9873924 TTTTTCA
1 TTTTTCA
9873931 CTTATTCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.12, C:0.17, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTCATTTTTTTCACC
Found at i:9879692 original size:22 final size:22
Alignment explanation
Indices: 9879625--9879693 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
9879615 AGATATTTAC
* *
9879625 ATTTACTATTAAATTATCAATT
1 ATTTACTATTAAGTTATCAATA
* * *
9879647 ATTTATTAATAAGTTATCATTA
1 ATTTACTATTAAGTTATCAATA
*
9879669 ATTTACTATTAAGTTATTAATA
1 ATTTACTATTAAGTTATCAATA
9879691 ATT
1 ATT
9879694 AATAATTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.51
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:9879758 original size:22 final size:21
Alignment explanation
Indices: 9879733--9879802 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
9879723 GTTATTCTTT
*
9879733 ATTTGCTACTATATTATTATGC
1 ATTT-CTATTATATTATTATGC
* *
9879755 ATTTATAATTATATTATAATTG-
1 ATTTCT-ATTATATTATTA-TGC
*
9879777 ATTTACTATTAAATTATTATGC
1 ATTT-CTATTATATTATTATGC
9879799 ATTT
1 ATTT
9879803 ATTATTATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
21 3 0.08
22 32 0.84
23 3 0.08
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.53
Consensus pattern (21 bp):
ATTTCTATTATATTATTATGC
Found at i:9879815 original size:22 final size:22
Alignment explanation
Indices: 9879742--9879815 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
9879732 TATTTGCTAC
*
9879742 TATATTATTATGCATTTATAAT
1 TATATTATTATGCATTTATTAT
* *
9879764 TATATTATAATTG-ATTTACTAT
1 TATATTATTA-TGCATTTATTAT
*
9879786 TAAATTATTATGCATTTATTAT
1 TATATTATTATGCATTTATTAT
*
9879808 TATGTTAT
1 TATATTAT
9879816 CACTTATTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.05
22 38 0.90
23 2 0.05
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (22 bp):
TATATTATTATGCATTTATTAT
Found at i:9879824 original size:22 final size:22
Alignment explanation
Indices: 9879767--9879857 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 22
9879757 TTATAATTAT
* * *
9879767 ATTATAATTGATTTACTATTAA
1 ATTATCATTGATTTATTACTAA
* * *
9879789 ATTATTA-TGCATTTATTATTAT
1 ATTATCATTG-ATTTATTACTAA
* *
9879811 GTTATCACTT-ATTTGTTACTAA
1 ATTATCA-TTGATTTATTACTAA
*
9879833 ATTATCATTGATTTATTAATAA
1 ATTATCATTGATTTATTACTAA
9879855 ATT
1 ATT
9879858 GTTTATGATT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
21 4 0.07
22 49 0.91
24 1 0.02
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTATCATTGATTTATTACTAA
Found at i:9879834 original size:44 final size:43
Alignment explanation
Indices: 9879731--9879850 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 43
9879721 AAGTTATTCT
* *
9879731 TTATTTGCTACTATATTATTATGCATTTATAATTATATTATAA
1 TTATTTGCTACTAAATTATTATGCATTTATTATTATATTATAA
* * * *
9879774 TTGATTTACTATTAAATTATTATGCATTTATTATTATGTTATCAC
1 TT-ATTTGCTACTAAATTATTATGCATTTATTATTATATTAT-AA
* *
9879819 TTATTTGTTACTAAATTATCATTG-ATTTATTA
1 TTATTTGCTACTAAATTATTA-TGCATTTATTA
9879851 ATAAATTGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
43 2 0.03
44 57 0.89
45 5 0.08
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (43 bp):
TTATTTGCTACTAAATTATTATGCATTTATTATTATATTATAA
Found at i:9879837 original size:66 final size:67
Alignment explanation
Indices: 9879767--9879920 Score: 161
Period size: 67 Copynumber: 2.3 Consensus size: 67
9879757 TTATAATTAT
* * * **
9879767 ATTATAATTGATTTACTATTAAATT-ATTATGCATTTATTATT-A-TGTTATCACTTATTTGTTA
1 ATTATAATTGATTTACTATTAAATTGATTATG-ATTTACTATTGAGT-TTATCAATTAATTACTA
9879829 CTAA
64 CTAA
* * * *
9879833 ATTATCATTGATTTATTAATAAATTGTTTATGATTTACTATTGAGTTTATCAATTAATTACTACT
1 ATTATAATTGATTTACTATTAAATTGATTATGATTTACTATTGAGTTTATCAATTAATTACTACT
9879898 AA
66 AA
* * *
9879900 ACTAAAACTGATTTACTATTA
1 ATTATAATTGATTTACTATTA
9879921 TTATTAATTT
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
66 31 0.44
67 38 0.54
68 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.49
Consensus pattern (67 bp):
ATTATAATTGATTTACTATTAAATTGATTATGATTTACTATTGAGTTTATCAATTAATTACTACT
AA
Found at i:9880306 original size:25 final size:22
Alignment explanation
Indices: 9880255--9880296 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9880245 TTTTTCTGAG
*
9880255 TTATTATTGATTTACAACTAAA
1 TTATTAATGATTTACAACTAAA
*
9880277 TTATTAATGATTTATAACTA
1 TTATTAATGATTTACAACTA
9880297 CTATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATTAATGATTTACAACTAAA
Found at i:9885317 original size:19 final size:19
Alignment explanation
Indices: 9885274--9885322 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9885264 ACACAGGTTA
9885274 AGCTAAAATTAAATCTTTT
1 AGCTAAAATTAAATCTTTT
** *
9885293 -GCTAAAATTCCATTTTTT
1 AGCTAAAATTAAATCTTTT
*
9885311 AGCTAAATTTAA
1 AGCTAAAATTAA
9885323 GCAATTGACA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (19 bp):
AGCTAAAATTAAATCTTTT
Found at i:9892473 original size:22 final size:22
Alignment explanation
Indices: 9892448--9892681 Score: 129
Period size: 22 Copynumber: 10.7 Consensus size: 22
9892438 AGATATTTAC
9892448 ATTTATTATTAAATTATCAATT
1 ATTTATTATTAAATTATCAATT
* *
9892470 ATTTATTAATAAGTTATC-ATT
1 ATTTATTATTAAATTATCAATT
* ** * *
9892491 GATTTACTATTATGTTATTAATA
1 -ATTTATTATTAAATTATCAATT
* * *
9892514 ATTAATTATTAAATTATTATTT
1 ATTTATTATTAAATTATCAATT
* *
9892536 ATTT-TTATTAAGTTATTC-CTT
1 ATTTATTATTAAATTA-TCAATT
* * * *
9892557 ATTTGTTATTATATTAT-TATGC
1 ATTTATTATTAAATTATCAAT-T
* *
9892579 ATTTATAATTATATTAT-AATT
1 ATTTATTATTAAATTATCAATT
* * **
9892600 AATTTACTATTAAATTATTAAGC
1 -ATTTATTATTAAATTATCAATT
** *
9892623 ATTTATTATTATGTTATCACTT
1 ATTTATTATTAAATTATCAATT
* *
9892645 ATTTGTTACTAAATTATC-ATT
1 ATTTATTATTAAATTATCAATT
*
9892666 GATTTATTAGTAAATT
1 -ATTTATTATTAAATT
9892682 GTTTATGATT
Statistics
Matches: 159, Mismatches: 44, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
21 23 0.14
22 132 0.83
23 4 0.03
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
ATTTATTATTAAATTATCAATT
Found at i:9892532 original size:11 final size:11
Alignment explanation
Indices: 9892450--9892619 Score: 51
Period size: 11 Copynumber: 15.5 Consensus size: 11
9892440 ATATTTACAT
9892450 TTATTATTAAA
1 TTATTATTAAA
* *
9892461 TTATCAATT-AT
1 TTAT-TATTAAA
* *
9892472 TTATTAATAAG
1 TTATTATTAAA
* * *
9892483 TTATCATTGAT
1 TTATTATTAAA
* **
9892494 TTACTATTATG
1 TTATTATTAAA
*
9892505 TTATTAAT-AA
1 TTATTATTAAA
9892515 TTAATTATTAAA
1 TT-ATTATTAAA
*
9892527 TTATTATT-TA
1 TTATTATTAAA
* *
9892537 TTTTTATTAAG
1 TTATTATTAAA
* *
9892548 TTATTCCTT-AT
1 TTATT-ATTAAA
* *
9892559 TTGTTATTATA
1 TTATTATTAAA
** *
9892570 TTATTATGCAT
1 TTATTATTAAA
* *
9892581 TTATAATTATA
1 TTATTATTAAA
* *
9892592 TTATAATTAAT
1 TTATTATTAAA
*
9892603 TTACTATTAAA
1 TTATTATTAAA
9892614 TTATTA
1 TTATTA
9892620 AGCATTTATT
Statistics
Matches: 106, Mismatches: 46, Indels: 14
0.64 0.28 0.08
Matches are distributed among these distances:
10 14 0.13
11 83 0.78
12 9 0.08
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (11 bp):
TTATTATTAAA
Found at i:9892658 original size:44 final size:44
Alignment explanation
Indices: 9892447--9892674 Score: 178
Period size: 44 Copynumber: 5.2 Consensus size: 44
9892437 AAGATATTTA
** * * *
9892447 CATTTATTATTAAATTATCAATTATTTATTAATAAGTTATCATTG
1 CATTTATTATTATGTTATCAATTATTTATTATTAAATTATTA-TG
* * * * *
9892492 -ATTTACTATTATGTTATTAATAATTAATTATTAAATTATTATT
1 CATTTATTATTATGTTATCAATTATTTATTATTAAATTATTATG
* * * * *
9892535 TATTT-TTATTAAGTTATTC-CTTATTTGTTATTATATTATTATG
1 CATTTATTATTATGTTA-TCAATTATTTATTATTAAATTATTATG
* * * *
9892578 CATTTATAATTATATTAT-AATTAATTTACTATTAAATTATTAAG
1 CATTTATTATTATGTTATCAATT-ATTTATTATTAAATTATTATG
* * * *
9892622 CATTTATTATTATGTTATCACTTATTTGTTACTAAATTATCATTG
1 CATTTATTATTATGTTATCAATTATTTATTATTAAATTATTA-TG
9892667 -ATTTATTA
1 CATTTATTA
9892675 GTAAATTGTT
Statistics
Matches: 140, Mismatches: 36, Indels: 15
0.73 0.19 0.08
Matches are distributed among these distances:
43 35 0.25
44 101 0.72
45 4 0.03
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (44 bp):
CATTTATTATTATGTTATCAATTATTTATTATTAAATTATTATG
Found at i:9892919 original size:66 final size:66
Alignment explanation
Indices: 9892804--9892928 Score: 146
Period size: 66 Copynumber: 1.9 Consensus size: 66
9892794 ATTATCATTT
* * *
9892804 ATTTTCTATTAAGTTATCTTTAATTTAATATTATAGTATTATGTGTTTATAACTATGTTTTAATT
1 ATTTACTATTAAGATATCTTTAATTTAATATTATAGTATTATGTATTTATAACTATGTTTTAATT
9892869 A
66 A
* * * * *
9892870 ATTTACTATTAAGATAT-TTATGATTTATTATTATATTATTA-GATATTTATTATTATGTT
1 ATTTACTATTAAGATATCTT-TAATTTAATATTATAGTATTATG-TATTTATAACTATGTT
9892929 ATCACTGGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 3 0.06
66 46 0.94
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (66 bp):
ATTTACTATTAAGATATCTTTAATTTAATATTATAGTATTATGTATTTATAACTATGTTTTAATT
A
Found at i:9898146 original size:19 final size:19
Alignment explanation
Indices: 9898103--9898151 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
9898093 ACACAGGTTA
9898103 AGCTAAAATTAAATCTTTT
1 AGCTAAAATTAAATCTTTT
** *
9898122 -GCTAAAATTCCATTTTTT
1 AGCTAAAATTAAATCTTTT
*
9898140 AGCTAAATTTAA
1 AGCTAAAATTAA
9898152 GCAATTGACA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (19 bp):
AGCTAAAATTAAATCTTTT
Found at i:9913841 original size:16 final size:16
Alignment explanation
Indices: 9913817--9913850 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9913807 CATTTCCACC
9913817 TCTTCTTCTTCTTTTT
1 TCTTCTTCTTCTTTTT
* *
9913833 TCTTTTTCTTTTTTTT
1 TCTTCTTCTTCTTTTT
9913849 TC
1 TC
9913851 CTAGAGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTCTTCTTCTTTTT
Found at i:9916428 original size:20 final size:19
Alignment explanation
Indices: 9916382--9916429 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
9916372 CGATGATTAT
* *
9916382 AAAATTTTTATTTTTTTCT
1 AAAATATTTATTTTTTTCC
* *
9916401 TAATTATTTATTTTGTTTCC
1 AAAATATTTATTTT-TTTCC
9916421 AAAATATTT
1 AAAATATTT
9916430 GGATTAAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (19 bp):
AAAATATTTATTTTTTTCC
Found at i:9917013 original size:79 final size:80
Alignment explanation
Indices: 9916928--9917092 Score: 269
Period size: 80 Copynumber: 2.1 Consensus size: 80
9916918 ATTTTTTTGG
*
9916928 CAAATAAAATAATTTCATACTT-AAAAAATTAAAATATGTAAGACAATATAAGAAATATGAAAAA
1 CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
9916992 AGTATATATATTTAA
66 AGTATATATATTTAA
* * * *
9917007 CAAATAAGATAATTTCATACTTAAAAAAATTAAAATATGTAACATAATATAATAAATGTGAAAAA
1 CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
*
9917072 ATTATATATATTTAA
66 AGTATATATATTTAA
9917087 CAAATA
1 CAAATA
9917093 TATAATAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
79 21 0.27
80 58 0.73
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (80 bp):
CAAATAAAATAATTTCATACTTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
AGTATATATATTTAA
Found at i:9917106 original size:20 final size:20
Alignment explanation
Indices: 9917053--9917107 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
9917043 ATGTAACATA
*
9917053 ATATAATAAATGTGAAAAAAT
1 ATATAATAAAT-TTAAAAAAT
* *
9917074 -TAT-ATATATTTAACAAAT
1 ATATAATAAATTTAAAAAAT
9917092 ATATAATAAATTTAAA
1 ATATAATAAATTTAAA
9917108 TTTAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 12 0.44
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATAATAAATTTAAAAAAT
Found at i:9917115 original size:80 final size:80
Alignment explanation
Indices: 9916928--9917117 Score: 251
Period size: 80 Copynumber: 2.4 Consensus size: 80
9916918 ATTTTTTTGG
* *
9916928 CAAATAAAATAATTTCATACTT-AAAAAATTAAAATATGTAAGACAATATAAGAAATATGAAAAA
1 CAAATAAAATAATTTCATAATTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
9916992 AGTATATATATTTAA
66 AGTATATATATTTAA
* * * * *
9917007 CAAATAAGATAATTTCATACTTAAAAAAATTAAAATATGTAACATAATATAATAAATGTGAAAAA
1 CAAATAAAATAATTTCATAATTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
*
9917072 ATTATATATATTTAA
66 AGTATATATATTTAA
*
9917087 CAAATATATAATAAATTT-A-AATTTAAAAAAT
1 CAAATA-A-AAT-AATTTCATAATTAAAAAAAT
9917118 AAATTTAAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
79 21 0.21
80 58 0.59
81 11 0.11
82 3 0.03
83 5 0.05
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (80 bp):
CAAATAAAATAATTTCATAATTAAAAAAATTAAAATATGTAACACAATATAAGAAATATGAAAAA
AGTATATATATTTAA
Found at i:9917120 original size:19 final size:20
Alignment explanation
Indices: 9917096--9917133 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
9917086 ACAAATATAT
9917096 AATAAATTT-AAATTTAAAA
1 AATAAATTTAAAATTTAAAA
9917115 AATAAATTTAAAATTTAAA
1 AATAAATTTAAAATTTAAA
9917134 CTCCTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAATTTAAAATTTAAAA
Found at i:9917133 original size:13 final size:13
Alignment explanation
Indices: 9917099--9917133 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
9917089 AATATATAAT
9917099 AAATTTAAATTTA
1 AAATTTAAATTTA
**
9917112 AAAAATAAATTTA
1 AAATTTAAATTTA
9917125 AAATTTAAA
1 AAATTTAAA
9917134 CTCCTAATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AAATTTAAATTTA
Found at i:9920899 original size:18 final size:19
Alignment explanation
Indices: 9920876--9920918 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9920866 CACAGGTTAT
* *
9920876 GCTAAACTT-AAATCTTTC
1 GCTAAAATTCAAATCTTTA
*
9920894 GCTAAAATTCAAATTTTTA
1 GCTAAAATTCAAATCTTTA
9920913 GCTAAA
1 GCTAAA
9920919 TGGACATATC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
GCTAAAATTCAAATCTTTA
Found at i:9921995 original size:20 final size:20
Alignment explanation
Indices: 9921970--9922014 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
9921960 TTGTAATATG
9921970 TAAATAAAAAAAAAAAAATA
1 TAAATAAAAAAAAAAAAATA
* *
9921990 TAAATAAAATAAAAATAATA
1 TAAATAAAAAAAAAAAAATA
9922010 -AAATA
1 TAAATA
9922015 TAGGATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAATAAAAAAAAAAAAATA
Found at i:9923897 original size:1 final size:1
Alignment explanation
Indices: 9923891--9924013 Score: 57
Period size: 1 Copynumber: 123.0 Consensus size: 1
9923881 TATTTTGCTT
* * * * * * * * ** **
9923891 AAAAAAATAAAAAAAATAAAAACACAAAAAACACAAAAAACATAAAAAATGAAAAAAATGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*** * * * * **
9923956 ATTGAAAAAAAAATAAAAAAAATAAAAAAAATAAAAAAATAAAAAAAAGGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9924014 TGAGAAAGGA
Statistics
Matches: 87, Mismatches: 35, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.09
Consensus pattern (1 bp):
A
Found at i:9923905 original size:9 final size:9
Alignment explanation
Indices: 9923891--9924014 Score: 112
Period size: 9 Copynumber: 13.9 Consensus size: 9
9923881 TATTTTGCTT
9923891 AAAAAAATA
1 AAAAAAATA
9923900 AAAAAAAT-
1 AAAAAAATA
* *
9923908 AAAAACACA
1 AAAAAAATA
* *
9923917 AAAAACACA
1 AAAAAAATA
*
9923926 AAAAACAT-
1 AAAAAAATA
*
9923934 -AAAAAATG
1 AAAAAAATA
*
9923942 AAAAAAATG
1 AAAAAAATA
*
9923951 AAAAAATTGAA
1 AAAAAAAT--A
9923962 AAAAAAATA
1 AAAAAAATA
9923971 AAAAAAATA
1 AAAAAAATA
9923980 AAAAAAAT-
1 AAAAAAATA
9923988 AAAAAAATA
1 AAAAAAATA
*
9923997 AAAAAAAGGA
1 AAAAAAA-TA
9924007 AAAAAAAT
1 AAAAAAAT
9924015 GAGAAAGGAA
Statistics
Matches: 99, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
7 6 0.06
8 14 0.14
9 64 0.65
10 8 0.08
11 7 0.07
ACGTcount: A:0.82, C:0.04, G:0.04, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:9923946 original size:18 final size:17
Alignment explanation
Indices: 9923891--9924003 Score: 104
Period size: 17 Copynumber: 6.4 Consensus size: 17
9923881 TATTTTGCTT
9923891 AAAAAAATAAAAAAAATA
1 AAAAAAAT-AAAAAAATA
* * *
9923909 AAAACACA-AAAAACACA
1 AAAA-AAATAAAAAAATA
* *
9923926 AAAAACAT-AAAAAATG
1 AAAAAAATAAAAAAATA
*
9923942 AAAAAAATGAAAAAATTGAA
1 AAAAAAAT-AAAAAAAT--A
9923962 AAAAAAATAAAAAAAATA
1 AAAAAAAT-AAAAAAATA
9923980 AAAAAAATAAAAAAATA
1 AAAAAAATAAAAAAATA
9923997 AAAAAAA
1 AAAAAAA
9924004 GGAAAAAAAA
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
16 15 0.19
17 27 0.35
18 19 0.24
19 2 0.03
20 15 0.19
ACGTcount: A:0.83, C:0.04, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:9926308 original size:48 final size:47
Alignment explanation
Indices: 9926201--9926308 Score: 148
Period size: 48 Copynumber: 2.2 Consensus size: 47
9926191 ATAATAAAAT
*
9926201 AAAATAAAAACAATAATATTACAAAATACGAAATACCAAAAAAATAAA
1 AAAATACAAA-AATAATATTACAAAATACGAAATACCAAAAAAATAAA
9926249 AAAATATCAAAAATAATATTACAAAATACGAAATA-C-AAAAAATACCAA
1 AAAATA-CAAAAATAATATTACAAAATACGAAATACCAAAAAAATA--AA
9926297 AATAATACAAAA
1 AA-AATACAAAA
9926309 TACAAAACAA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
46 8 0.15
47 1 0.02
48 39 0.71
49 7 0.13
ACGTcount: A:0.69, C:0.11, G:0.02, T:0.18
Consensus pattern (47 bp):
AAAATACAAAAATAATATTACAAAATACGAAATACCAAAAAAATAAA
Found at i:9927383 original size:22 final size:23
Alignment explanation
Indices: 9927357--9927399 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9927347 TTTTTTATGC
*
9927357 ATAAATGTTTAAAT-TTATTAGG
1 ATAAATATTTAAATGTTATTAGG
*
9927379 ATAAATATTTAATTGTTATTA
1 ATAAATATTTAAATGTTATTA
9927400 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (23 bp):
ATAAATATTTAAATGTTATTAGG
Found at i:9930843 original size:16 final size:17
Alignment explanation
Indices: 9930822--9930854 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9930812 AAAATAATTC
9930822 ATTATAA-TATTTTTTA
1 ATTATAACTATTTTTTA
*
9930838 ATTATAACTTTTTTTTA
1 ATTATAACTATTTTTTA
9930855 TAAATACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATAACTATTTTTTA
Found at i:9931168 original size:20 final size:19
Alignment explanation
Indices: 9931145--9931184 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
9931135 ATAATAAAAA
*
9931145 TATAAATATAATAATTTTTT
1 TATAAAAATAA-AATTTTTT
9931165 TATAAAAATAAAATTTTTT
1 TATAAAAATAAAATTTTTT
9931184 T
1 T
9931185 CAACTTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATAAAAATAAAATTTTTT
Found at i:9932606 original size:77 final size:78
Alignment explanation
Indices: 9932513--9932670 Score: 246
Period size: 77 Copynumber: 2.0 Consensus size: 78
9932503 TTTTGGCAAG
* *
9932513 TAAGATAATTTGATACTTAAAAAATTAAAATATGTAAGACAATATAATAAATATGAAAAAA-ATA
1 TAAGATAATTTCATACTTAAAAAATTAAAATATGTAACACAATATAATAAATATGAAAAAAGATA
9932577 TATATTTAACAAA
66 TATATTTAACAAA
* * *
9932590 TAAGATAATTTCATACTTAAAAAATTAAAATATGTAACATAATATAATCAATGTGAAAAAAGTAT
1 TAAGATAATTTCATACTTAAAAAATTAAAATATGTAACACAATATAATAAATATGAAAAAAG-AT
*
9932655 ATGTATTTAACAAA
65 ATATATTTAACAAA
9932669 TA
1 TA
9932671 TATAACAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
77 56 0.77
79 17 0.23
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (78 bp):
TAAGATAATTTCATACTTAAAAAATTAAAATATGTAACACAATATAATAAATATGAAAAAAGATA
TATATTTAACAAA
Found at i:9932637 original size:39 final size:39
Alignment explanation
Indices: 9932517--9932637 Score: 113
Period size: 39 Copynumber: 3.1 Consensus size: 39
9932507 GGCAAGTAAG
* * *
9932517 ATAATTTGATACTTAAAAAATTAAAATATGTAAGACAAT
1 ATAATTTAATACTTAAAAAATTAAAATATGTAACATAAT
* * * * * *
9932556 ATAA-TAAATA-TGAAAAAAAT-ATATATTTAACAAATAAG
1 ATAATTTAATACTTAAAAAATTAAAATATGTAAC--ATAAT
*
9932594 ATAATTTCATACTTAAAAAATTAAAATATGTAACATAAT
1 ATAATTTAATACTTAAAAAATTAAAATATGTAACATAAT
9932633 ATAAT
1 ATAAT
9932638 CAATGTGAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 10
0.70 0.18 0.11
Matches are distributed among these distances:
36 8 0.13
37 8 0.13
38 11 0.18
39 17 0.28
40 8 0.13
41 9 0.15
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (39 bp):
ATAATTTAATACTTAAAAAATTAAAATATGTAACATAAT
Found at i:9945160 original size:7 final size:7
Alignment explanation
Indices: 9945148--9945191 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
9945138 TTTAATTTAA
9945148 TTTAATT
1 TTTAATT
9945155 TTTAATT
1 TTTAATT
9945162 TTTAATTT
1 TTTAA-TT
9945170 AATTTAATT
1 --TTTAATT
9945179 TTTAATT
1 TTTAATT
*
9945186 GTTAAT
1 TTTAAT
9945192 CATACTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
7 24 0.73
8 2 0.06
9 2 0.06
10 5 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
TTTAATT
Found at i:9945160 original size:12 final size:12
Alignment explanation
Indices: 9945143--9945185 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
9945133 ATTTTTTTAA
9945143 TTTAATTTAATT
1 TTTAATTTAATT
9945155 TTTAATTT--TT
1 TTTAATTTAATT
9945165 AATTTAATTTAATT
1 --TTTAATTTAATT
9945179 TTTAATT
1 TTTAATT
9945186 GTTAATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.07
12 23 0.85
14 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTAATTTAATT
Found at i:9945168 original size:24 final size:24
Alignment explanation
Indices: 9945136--9945191 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
9945126 ATAATCTATT
9945136 TTTTTAATTTAATTTAATTTTTAA
1 TTTTTAATTTAATTTAATTTTTAA
9945160 TTTTTAATTTAATTTAATTTTTAA
1 TTTTTAATTTAATTTAATTTTTAA
*
9945184 TTGTTAAT
1 TTTTTAAT
9945192 CATACTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
TTTTTAATTTAATTTAATTTTTAA
Found at i:9959661 original size:15 final size:16
Alignment explanation
Indices: 9959643--9959672 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9959633 TCATTACTTG
9959643 CATCATCATC-CTCCT
1 CATCATCATCACTCCT
9959658 CATCATCATCACTCC
1 CATCATCATCACTCC
9959673 AGCTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (16 bp):
CATCATCATCACTCCT
Found at i:9967352 original size:16 final size:18
Alignment explanation
Indices: 9967317--9967353 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
9967307 TTTTTTATAA
*
9967317 ATAAAAAAATCGAAATAT
1 ATAAAAATATCGAAATAT
*
9967335 ATAAAAATATCAAAATAT
1 ATAAAAATATCGAAATAT
9967353 A
1 A
9967354 CAAATTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAAAAATATCGAAATAT
Found at i:9968253 original size:14 final size:14
Alignment explanation
Indices: 9968225--9968411 Score: 79
Period size: 12 Copynumber: 13.9 Consensus size: 14
9968215 AAAATTAGAA
*
9968225 ATATATAA-GTAAT
1 ATATATAATATAAT
9968238 ATATATAATAT-A-
1 ATATATAATATAAT
9968250 ATAT-TAATATAAT
1 ATATATAATATAAT
*
9968263 ATA-A-ATTATAAT
1 ATATATAATATAAT
*
9968275 ATATA-AATTACAAT
1 ATATATAA-TATAAT
9968289 ATATA-AATA-AAT
1 ATATATAATATAAT
*
9968301 A-ACA-AATA-AAT
1 ATATATAATATAAT
*
9968312 ATAGA-AATA-AAT
1 ATATATAATATAAT
9968324 -TAT-TAA-AGT-AT
1 ATATATAATA-TAAT
9968335 AATATATAATATAATT
1 -ATATATAATATAA-T
*
9968351 AATATCAAAATATAA-
1 -ATAT-ATAATATAAT
9968366 ATTATATAATATATAAT
1 A-TATAT-A-ATATAAT
*
9968383 ATATATTATATAAT
1 ATATATAATATAAT
9968397 ACTATAATAATATAA
1 A-TAT-ATAATATAA
9968412 ATTCAATAAT
Statistics
Matches: 140, Mismatches: 11, Indels: 43
0.72 0.06 0.22
Matches are distributed among these distances:
10 1 0.01
11 22 0.16
12 28 0.20
13 19 0.14
14 27 0.19
15 9 0.06
16 25 0.18
17 9 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
ATATATAATATAAT
Found at i:9968257 original size:11 final size:11
Alignment explanation
Indices: 9968234--9968276 Score: 54
Period size: 11 Copynumber: 4.0 Consensus size: 11
9968224 AATATATAAG
9968234 TAATAT-ATA-
1 TAATATAATAT
9968243 TAATATAATAT
1 TAATATAATAT
9968254 TAATATAATAT
1 TAATATAATAT
*
9968265 AAATTATAATAT
1 TAA-TATAATAT
9968277 ATAAATTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 6 0.20
10 3 0.10
11 13 0.43
12 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TAATATAATAT
Found at i:9968279 original size:7 final size:7
Alignment explanation
Indices: 9968224--9968411 Score: 109
Period size: 7 Copynumber: 27.3 Consensus size: 7
9968214 TAAAATTAGA
9968224 AATATAT
1 AATATAT
9968231 AAGTA-AT
1 AA-TATAT
9968238 -ATATAT
1 AATATAT
9968244 AATATAAT
1 AATAT-AT
*
9968252 ATTAATAT
1 AAT-ATAT
9968260 AATATA-
1 AATATAT
9968266 AAT-TAT
1 AATATAT
9968272 AATATAT
1 AATATAT
*
9968279 AA-ATTAC
1 AATA-TAT
9968286 AATATAT
1 AATATAT
9968293 AA-ATA-
1 AATATAT
*
9968298 AATA-AC
1 AATATAT
9968304 AA-ATA-
1 AATATAT
*
9968309 AATATAG
1 AATATAT
9968316 AA-ATA-
1 AATATAT
9968321 AAT-TATT
1 AATATA-T
9968328 AA-AGTAT
1 AATA-TAT
9968335 AATATAT
1 AATATAT
9968342 AATATAATT
1 AATAT-A-T
*
9968351 AATATCAA
1 AATAT-AT
9968359 AATATA-
1 AATATAT
9968365 AATTATAT
1 AA-TATAT
9968373 AATATAT
1 AATATAT
9968380 AATATAT
1 AATATAT
*
9968387 ATTATAT
1 AATATAT
9968394 AATACTAT
1 AATA-TAT
9968402 AATAATAT
1 AAT-ATAT
9968410 AA
1 AA
9968412 ATTCAATAAT
Statistics
Matches: 147, Mismatches: 8, Indels: 51
0.71 0.04 0.25
Matches are distributed among these distances:
5 14 0.10
6 25 0.17
7 65 0.44
8 33 0.22
9 10 0.07
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (7 bp):
AATATAT
Found at i:9968403 original size:38 final size:37
Alignment explanation
Indices: 9968333--9968411 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 37
9968323 TTATTAAAGT
*
9968333 ATAATATATAATATAATTAATATCAAAATATAAATTAT
1 ATAATATATAATATAATTAATATCAAAATAT-AATAAT
*
9968371 ATAATATATAATATATATT-ATAT-AATACTATAATAAT
1 ATAATATATAATATA-ATTAATATCAA-AATATAATAAT
9968408 ATAA
1 ATAA
9968412 ATTCAATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 11 0.30
38 23 0.62
39 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (37 bp):
ATAATATATAATATAATTAATATCAAAATATAATAAT
Found at i:9968880 original size:39 final size:37
Alignment explanation
Indices: 9968784--9968882 Score: 110
Period size: 38 Copynumber: 2.6 Consensus size: 37
9968774 ATTAGCATTA
*
9968784 AAAATTTTTAAAAAATAAAAAATTCTAATAAAACTCT
1 AAAATTTTTAAAAAATTAAAAATTCTAATAAAACTCT
* * * *
9968821 AAAAGTTTTTAAAAAGTTAAAAATATCTAA-AATATTTT
1 AAAA-TTTTTAAAAAATTAAAAAT-TCTAATAAAACTCT
9968859 AAAATTTATTAACAAAATTAAAAA
1 AAAATTT-TTAA-AAAATTAAAAA
9968883 AATGAAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 7 0.13
38 30 0.58
39 15 0.29
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (37 bp):
AAAATTTTTAAAAAATTAAAAATTCTAATAAAACTCT
Found at i:9968900 original size:27 final size:27
Alignment explanation
Indices: 9968870--9968957 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 27
9968860 AAATTTATTA
* *
9968870 ACAAAATTAAAAAAATGAAATATTTTT
1 ACAAAATTAAAAAAATGAAAAAATTTT
* *
9968897 AC-AAATTATAAAAATTAAAAAATTTT
1 ACAAAATTAAAAAAATGAAAAAATTTT
**
9968923 ACGAAAACTT-AAAAAATTCAAAAATTTT
1 AC-AAAA-TTAAAAAAATGAAAAAATTTT
9968951 A-AAAATT
1 ACAAAATT
9968958 TAATGAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
25 2 0.04
26 26 0.50
27 2 0.04
28 20 0.38
29 2 0.04
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
ACAAAATTAAAAAAATGAAAAAATTTT
Found at i:9969102 original size:20 final size:20
Alignment explanation
Indices: 9969058--9969105 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
9969048 AATTAAAAAA
9969058 ATTAAAAAGATCTAAATTTG
1 ATTAAAAAGATCTAAATTTG
*
9969078 TTTAAAAA-ATCTGAAAATTT-
1 ATTAAAAAGATCT--AAATTTG
9969098 ATTAAAAA
1 ATTAAAAA
9969106 CTTCTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 14 0.58
21 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTAAAAAGATCTAAATTTG
Done.