Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, 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: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 51 of 131
Found at i:10512610 original size:26 final size:26
Alignment explanation
Indices: 10512579--10512632 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10512569 TGATTGAATA
10512579 GAATCCAATCCTATGATTCAAGCTTG
1 GAATCCAATCCTATGATTCAAGCTTG
10512605 GAATCCAATCCTATGATTCAAGCTTG
1 GAATCCAATCCTATGATTCAAGCTTG
10512631 GA
1 GA
10512633 TTGGTTCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (26 bp):
GAATCCAATCCTATGATTCAAGCTTG
Found at i:10516059 original size:11 final size:11
Alignment explanation
Indices: 10516045--10516075 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10516035 ATAAAATCAT
10516045 TAGAAAAATGC
1 TAGAAAAATGC
*
10516056 TAGAAATATGC
1 TAGAAAAATGC
10516067 TAGAAAAAT
1 TAGAAAAAT
10516076 TCATGGAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.16, T:0.23
Consensus pattern (11 bp):
TAGAAAAATGC
Found at i:10516625 original size:26 final size:26
Alignment explanation
Indices: 10516595--10516647 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10516585 ATCTCACGCT
*
10516595 AACATGTCCAACATGCCTCACATGCC
1 AACATGTCCAACATGCCACACATGCC
* *
10516621 AACATGTCCAACGTGCCACTCATGCC
1 AACATGTCCAACATGCCACACATGCC
10516647 A
1 A
10516648 TCTATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.38, G:0.13, T:0.19
Consensus pattern (26 bp):
AACATGTCCAACATGCCACACATGCC
Found at i:10516701 original size:56 final size:55
Alignment explanation
Indices: 10516615--10516736 Score: 131
Period size: 56 Copynumber: 2.2 Consensus size: 55
10516605 ACATGCCTCA
** * ** *
10516615 CATGCCAACATGTCCAACGTGCCACTCATGCCATCTATATTTTGTGTT-AAGGTGCT
1 CATGCCAACATGTCCAACACGCCACACATGCCA-CTATATTTTGCATTAAAGCT-CT
* *
10516671 CATGCCAACATG-CTCAACACGCCTCACATGCCACTCTATTTTGCATTAAAGCTCT
1 CATGCCAACATGTC-CAACACGCCACACATGCCACTATATTTTGCATTAAAGCTCT
10516726 CATGCCAACAT
1 CATGCCAACAT
10516737 ACCCAATGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
55 25 0.45
56 31 0.55
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (55 bp):
CATGCCAACATGTCCAACACGCCACACATGCCACTATATTTTGCATTAAAGCTCT
Found at i:10519400 original size:52 final size:51
Alignment explanation
Indices: 10519315--10519470 Score: 213
Period size: 52 Copynumber: 3.0 Consensus size: 51
10519305 ATAACCATAT
* *
10519315 AAACTTGCCCATTAAGAATCCTTCTTCTCTTAGAATTCTTCTCCTGTAAGTC
1 AAACTTGCCTATTAAGAATCCTT-TTCTCTTAGAATTCTTCTCTTGTAAGTC
* * *
10519367 AAACTTGCCTATTAAGAATCCTTTTCCTTTTAGAATCCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAGAATCCTTTT-CTCTTAGAATTCTTCTCTTGTAAGTC
* * *
10519419 AAACTTACCTATTAAGAATCTTTTTTCTCTTAGAATTCTTCTTTTGTAAGTC
1 AAACTTGCCTATTAAGAATC-CTTTTCTCTTAGAATTCTTCTCTTGTAAGTC
10519471 TTCTTGTCCA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.93
53 4 0.04
ACGTcount: A:0.26, C:0.23, G:0.09, T:0.42
Consensus pattern (51 bp):
AAACTTGCCTATTAAGAATCCTTTTCTCTTAGAATTCTTCTCTTGTAAGTC
Found at i:10519513 original size:11 final size:11
Alignment explanation
Indices: 10519497--10519536 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
10519487 AATATCTGAA
10519497 AAATCTCAAAC
1 AAATCTCAAAC
*
10519508 AAATCTCTAAC
1 AAATCTCAAAC
*
10519519 AAATCTTAAAC
1 AAATCTCAAAC
10519530 AAATCTC
1 AAATCTC
10519537 TTATGGGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:10519824 original size:25 final size:25
Alignment explanation
Indices: 10519769--10519824 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10519759 TCTTAAACCA
*
10519769 AGCTCTTCCTATATCTCGAACTGTC
1 AGCTCTTCCCATATCTCGAACTGTC
* *
10519794 AACTCTTCCCATGTCTCGAACCT-TC
1 AGCTCTTCCCATATCTCGAA-CTGTC
10519819 AGCTCT
1 AGCTCT
10519825 GATACCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.34
Consensus pattern (25 bp):
AGCTCTTCCCATATCTCGAACTGTC
Found at i:10520512 original size:52 final size:52
Alignment explanation
Indices: 10520357--10520512 Score: 219
Period size: 52 Copynumber: 3.0 Consensus size: 52
10520347 ATAACCATAT
* *
10520357 AAACTTGCCCATTAAGAATCCT-TCTTCTCTTAGAATTCTTCTCCTGTAAGTC
1 AAACTTGCCTATTAAGAATCCTCT-TTCTCTTAGAATTCTTCTCTTGTAAGTC
* *
10520409 AAACTTGCCTATTAAGAATCC-CTTTCCTTTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTGCCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTCTTGTAAGTC
*
10520461 AAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTC-CTTTGTAAGTC
1 AAACTTGCCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTC-TTGTAAGTC
10520513 TTTTTATCCA
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
51 3 0.03
52 86 0.92
53 4 0.04
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.40
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTCTTGTAAGTC
Found at i:10520547 original size:21 final size:22
Alignment explanation
Indices: 10520523--10520578 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
10520513 TTTTTATCCA
*
10520523 TCAAGTAATATCT-GAA-AAATC
1 TCAAATAA-ATCTCGAACAAATC
*
10520544 TCAAATAAATCTCTAACAAATC
1 TCAAATAAATCTCGAACAAATC
*
10520566 TCAAACAAATCTC
1 TCAAATAAATCTC
10520579 TTATGAGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 9 0.30
22 17 0.57
ACGTcount: A:0.48, C:0.21, G:0.04, T:0.27
Consensus pattern (22 bp):
TCAAATAAATCTCGAACAAATC
Found at i:10520555 original size:11 final size:11
Alignment explanation
Indices: 10520539--10520578 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
10520529 AATATCTGAA
*
10520539 AAATCTCAAAT
1 AAATCTCAAAC
*
10520550 AAATCTCTAAC
1 AAATCTCAAAC
10520561 AAATCTCAAAC
1 AAATCTCAAAC
10520572 AAATCTC
1 AAATCTC
10520579 TTATGAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:10524226 original size:86 final size:86
Alignment explanation
Indices: 10524081--10524254 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
10524071 CCTACTCACT
10524081 TAGCTATTCTCTTAGTGTCTAACTCTCTGGGATTACCAAACCAAAACCAAAACCAAAACATCATA
1 TAGCTATTCTCTTAGTGTCTAACTCTCTGGGATTACCAAACCAAAACCAAAACCAAAACATCATA
10524146 TTTATAAATATGAAACCCTTA
66 TTTATAAATATGAAACCCTTA
10524167 TAGCTATTCTCTTAGTGTCTAACTCTCTGGGATTACCAAACCAAAACCAAAACCAAAACATCATA
1 TAGCTATTCTCTTAGTGTCTAACTCTCTGGGATTACCAAACCAAAACCAAAACCAAAACATCATA
10524232 TTTATAAATATGAAACCCTTA
66 TTTATAAATATGAAACCCTTA
10524253 TA
1 TA
10524255 CCTTTCTAAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (86 bp):
TAGCTATTCTCTTAGTGTCTAACTCTCTGGGATTACCAAACCAAAACCAAAACCAAAACATCATA
TTTATAAATATGAAACCCTTA
Found at i:10529018 original size:16 final size:16
Alignment explanation
Indices: 10528999--10529055 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
10528989 TATTTAATTT
*
10528999 ATATTTTAAAATATTA
1 ATATTTTAATATATTA
* **
10529015 ATATATTAATATAAAA
1 ATATTTTAATATATTA
*
10529031 ATATTTTTAATATTTTA
1 ATA-TTTTAATATATTA
10529048 ATATTTTA
1 ATATTTTA
10529056 TTAATAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTTAATATATTA
Found at i:10529052 original size:8 final size:8
Alignment explanation
Indices: 10528999--10529055 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
10528989 TATTTAATTT
10528999 ATATTTTA
1 ATATTTTA
* *
10529007 AAATATTA
1 ATATTTTA
*
10529015 ATATATTA
1 ATATTTTA
***
10529023 ATATAAAA
1 ATATTTTA
10529031 ATATTTTTA
1 ATA-TTTTA
10529040 ATATTTTA
1 ATATTTTA
10529048 ATATTTTA
1 ATATTTTA
10529056 TTAATAAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
8 35 0.88
9 5 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATATTTTA
Found at i:10536310 original size:7 final size:8
Alignment explanation
Indices: 10536291--10536320 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10536281 ATTAACAGAA
10536291 AAAAAATG
1 AAAAAATG
10536299 AAAAAATG
1 AAAAAATG
*
10536307 AAAAAAAG
1 AAAAAATG
10536315 AAAAAA
1 AAAAAA
10536321 AAGAGAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (8 bp):
AAAAAATG
Found at i:10539717 original size:13 final size:13
Alignment explanation
Indices: 10539699--10539807 Score: 62
Period size: 13 Copynumber: 8.2 Consensus size: 13
10539689 ATCCACTAAA
10539699 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
* *
10539712 AAAAAAATGAATG
1 AAAAAAAAGAAAG
* *
10539725 AATGAGAAAATAAAG
1 AA--AAAAAAGAAAG
*
10539740 AAAAAAAATAAAG
1 AAAAAAAAGAAAG
** * *
10539753 TGCAAAAAACAAAA
1 -AAAAAAAAGAAAG
10539767 ACAAAAAAAGAAA-
1 A-AAAAAAAGAAAG
10539780 AAAAACAAA-AAAG
1 AAAAA-AAAGAAAG
10539793 AAAAAGAAA-AAAG
1 AAAAA-AAAGAAAG
10539806 AA
1 AA
10539808 TGATTGAGTG
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
12 7 0.09
13 41 0.55
14 18 0.24
15 9 0.12
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.06
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Found at i:10539782 original size:23 final size:22
Alignment explanation
Indices: 10539729--10539804 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
10539719 TGAATGAATG
* * *
10539729 AGAAAATAAAGAAAAAAAATAA
1 AGAAAAAAAACAAAAAAAAAAA
**
10539751 AGTGCAAAAAACAAAAACAAAAAA
1 AG-AAAAAAAACAAAAA-AAAAAA
*
10539775 AGAAAAAAAACAAAAAAGAAAA
1 AGAAAAAAAACAAAAAAAAAAA
10539797 AGAAAAAA
1 AGAAAAAA
10539805 GAATGATTGA
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
22 15 0.34
23 22 0.50
24 7 0.16
ACGTcount: A:0.82, C:0.05, G:0.09, T:0.04
Consensus pattern (22 bp):
AGAAAAAAAACAAAAAAAAAAA
Found at i:10539785 original size:17 final size:16
Alignment explanation
Indices: 10539763--10539797 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 16
10539753 TGCAAAAAAC
10539763 AAAAACAAAAAAAGAAA
1 AAAAAC-AAAAAAGAAA
10539780 AAAAACAAAAAAGAAA
1 AAAAACAAAAAAGAAA
10539796 AA
1 AA
10539798 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAACAAAAAAGAAA
Found at i:10542066 original size:33 final size:33
Alignment explanation
Indices: 10541992--10542131 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 33
10541982 TAGCTGACAC
* **
10541992 AGATGAGATTTAAGCCC-ATTTAACTAATACCT
1 AGATAAGATTTAAGCCCAATTTAACTAGCACCT
* * *
10542024 AGATGAGATTTAAACCCAATTTAACTAGCATCT
1 AGATAAGATTTAAGCCCAATTTAACTAGCACCT
* * * **
10542057 AGTTAAGATTTAAGCTCAATTTAGCTAG-TGC-
1 AGATAAGATTTAAGCCCAATTTAACTAGCACCT
* * ** *
10542088 AGATGATATTTAAGCCCAATTTATTTGGCACCT
1 AGATAAGATTTAAGCCCAATTTAACTAGCACCT
*
10542121 AGATGAGATTT
1 AGATAAGATTT
10542132 TTAACCCAGT
Statistics
Matches: 84, Mismatches: 21, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
31 21 0.25
32 18 0.21
33 45 0.54
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (33 bp):
AGATAAGATTTAAGCCCAATTTAACTAGCACCT
Found at i:10542130 original size:64 final size:65
Alignment explanation
Indices: 10541992--10542131 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 65
10541982 TAGCTGACAC
* *
10541992 AGATGAGATTTAAGCCCATTTAACTAATACCTAGATGAGATTTAAACCCAATTTAACTAGCATCT
1 AGATGAGATTTAAGCCAATTTAACTAATACCTAGATGAGATTTAAACCCAATTTAACTAGCACCT
* * * * * * * ** *
10542057 AGTTAAGATTTAAGCTCAATTTAGCTAGT-GC-AGATGATATTTAAGCCCAATTTATTTGGCACC
1 AGATGAGATTTAAGC-CAATTTAACTAATACCTAGATGAGATTTAAACCCAATTTAACTAGCACC
10542120 T
65 T
10542121 AGATGAGATTT
1 AGATGAGATTT
10542132 TTAACCCAGT
Statistics
Matches: 60, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
64 36 0.60
65 14 0.23
66 10 0.17
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (65 bp):
AGATGAGATTTAAGCCAATTTAACTAATACCTAGATGAGATTTAAACCCAATTTAACTAGCACCT
Found at i:10542207 original size:32 final size:31
Alignment explanation
Indices: 10542164--10542250 Score: 111
Period size: 32 Copynumber: 2.8 Consensus size: 31
10542154 AGATGAGATT
*
10542164 TTAAGCCTAGTTTAGTTGACACCCAGATCAG
1 TTAAGCTTAGTTTAGTTGACACCCAGATCAG
* * *
10542195 ATTAAGCTTAGTTTAGCTAACACTCAGATCAG
1 -TTAAGCTTAGTTTAGTTGACACCCAGATCAG
* *
10542227 TTAAGCTTAATTTAGTTGTCACCC
1 TTAAGCTTAGTTTAGTTGACACCC
10542251 TAATTAAGAC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 19 0.41
32 27 0.59
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (31 bp):
TTAAGCTTAGTTTAGTTGACACCCAGATCAG
Found at i:10543009 original size:85 final size:85
Alignment explanation
Indices: 10542832--10543059 Score: 210
Period size: 85 Copynumber: 2.7 Consensus size: 85
10542822 ATATCTCTAG
* * * * ** * *
10542832 GCATAATCACTAAGTCCTGCAGGCAAGATTTGTAAGTTTTCTAAGTTTAATCTATTTTAAATATA
1 GCATAATCTCTAAGTCCTTCAAGTAAGATTCATAAGTCTTCTAAGTTTAATCTATTTTAAATAGA
* ***
10542897 AAGATTTGTAAAACTTTTGA
66 AAGATTTGTAAAACCTCCAA
* * *
10542917 GCGTAATCTCTAAGTCCTTCAAGTAAGATTCATAAGTCTTCTTA-TTTAAATCTATTTTAAGTAG
1 GCATAATCTCTAAGTCCTTCAAGTAAGATTCATAAGTCTTCTAAGTTT-AATCTATTTTAAATAG
* *
10542981 CAAGATTTGTAAGACCTCCAA
65 AAAGATTTGTAAAACCTCCAA
* * * * *
10543002 GCATAATCTTTAAGT-CGTCCAGATAAGATTCATAAGTC-TCTCAAGCTGAATCTATTTT
1 GCATAATCTCTAAGTCCTTCAAG-TAAGATTCATAAGTCTTCT-AAGTTTAATCTATTTT
10543060 CTGTGTTGAG
Statistics
Matches: 115, Mismatches: 24, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
84 11 0.10
85 103 0.90
86 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (85 bp):
GCATAATCTCTAAGTCCTTCAAGTAAGATTCATAAGTCTTCTAAGTTTAATCTATTTTAAATAGA
AAGATTTGTAAAACCTCCAA
Found at i:10543175 original size:50 final size:50
Alignment explanation
Indices: 10543121--10543265 Score: 200
Period size: 50 Copynumber: 2.9 Consensus size: 50
10543111 ATAATATTTT
* *
10543121 AGATGTTTAAAGTTTCAAAGCCTCTATTCATGAGGAGTTTTTCAAAGATG
1 AGATGTTTAAAGTTTCAAAGCCTCTATTCAAGAAGAGTTTTTCAAAGATG
* * * * *
10543171 AGATGTTTAAAGTTTCAAAACCTTTGTTCAAGATGAGATTTTCAAAGATG
1 AGATGTTTAAAGTTTCAAAGCCTCTATTCAAGAAGAGTTTTTCAAAGATG
* * *
10543221 AGAGGTTTAAAGTTTCAAAGCCTCTATTTAGGAAGAGTTTTTCAA
1 AGATGTTTAAAGTTTCAAAGCCTCTATTCAAGAAGAGTTTTTCAA
10543266 GAATGACATT
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (50 bp):
AGATGTTTAAAGTTTCAAAGCCTCTATTCAAGAAGAGTTTTTCAAAGATG
Found at i:10543367 original size:45 final size:45
Alignment explanation
Indices: 10543313--10543440 Score: 177
Period size: 45 Copynumber: 2.8 Consensus size: 45
10543303 TAGGATGAGC
10543313 TTTTTAAGATTAGATTTTTAAAGTTGTCAAGCTTTTGCA-CAAAA
1 TTTTTAAGATTAGATTTTTAAAGTTGTCAAGCTTTTGCACCAAAA
* * * *
10543357 GTTTTTAAGATTAGATTTTTAAAGTTATCGAGCTTTTACACCGAAA
1 -TTTTTAAGATTAGATTTTTAAAGTTGTCAAGCTTTTGCACCAAAA
* *
10543403 TTTTTCAAGATTAGATTTATAAAGTTGTCAAGCCTTTG
1 TTTTT-AAGATTAGATTTTTAAAGTTGTCAAGCTTTTG
10543441 AGTCAAAGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
45 41 0.57
46 31 0.43
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTTTAAGATTAGATTTTTAAAGTTGTCAAGCTTTTGCACCAAAA
Found at i:10543593 original size:25 final size:24
Alignment explanation
Indices: 10543564--10543639 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
10543554 TTATTTTCAA
*
10543564 AAAAATAAAAACAAAAACAAAAAAC
1 AAAAA-AAAAACAAAAAAAAAAAAC
* *
10543589 AAAAAAGCACACAAAAAAATAAAAAC
1 AAAAAA-AAAACAAAAAAA-AAAAAC
*
10543615 AAAAAAACAACAAACAAGAAAAAAA
1 AAAAAAAAAACAAA-AA-AAAAAAA
10543640 ACTTTTGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.02
25 19 0.46
26 19 0.46
27 2 0.05
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (24 bp):
AAAAAAAAAACAAAAAAAAAAAAC
Found at i:10543605 original size:26 final size:24
Alignment explanation
Indices: 10543564--10543639 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 24
10543554 TTATTTTCAA
* *
10543564 AAAAATAAAAACAAAAACAAAAAAC
1 AAAAA-AACAACAAAAAAAAAAAAC
*
10543589 AAAAAAGCACACAAAAAAATAAAAAC
1 AAAAAAACA-ACAAAAAAA-AAAAAC
10543615 AAAAAAACAACAAACAAGAAAAAAA
1 AAAAAAACAACAAA-AA-AAAAAAA
10543640 ACTTTTGAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.05
25 18 0.42
26 21 0.49
27 2 0.05
ACGTcount: A:0.82, C:0.13, G:0.03, T:0.03
Consensus pattern (24 bp):
AAAAAAACAACAAAAAAAAAAAAC
Found at i:10543606 original size:27 final size:25
Alignment explanation
Indices: 10543561--10543641 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 25
10543551 AATTTATTTT
* *
10543561 CAAAAAAATAAAAACAAAAACAAAAAA
1 CAAAAAAACAACAA-AAAAA-AAAAAA
* *
10543588 CAAAAAAGCACACAAAAAAATAAAAA
1 CAAAAAAACA-ACAAAAAAAAAAAAA
10543614 CAAAAAAACAACAAACAAGAAAAAAAA
1 CAAAAAAACAACAAA-AA-AAAAAAAA
10543641 C
1 C
10543642 TTTTGAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
25 5 0.11
26 16 0.36
27 21 0.47
28 3 0.07
ACGTcount: A:0.80, C:0.15, G:0.02, T:0.02
Consensus pattern (25 bp):
CAAAAAAACAACAAAAAAAAAAAAA
Found at i:10546852 original size:16 final size:18
Alignment explanation
Indices: 10546821--10546853 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10546811 AATATTATGG
10546821 AACTAGAAAATATTTCAA
1 AACTAGAAAATATTTCAA
10546839 AACTA-AAAAT-TTTCA
1 AACTAGAAAATATTTCA
10546854 TCTTATTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (18 bp):
AACTAGAAAATATTTCAA
Found at i:10549313 original size:2 final size:2
Alignment explanation
Indices: 10549306--10549336 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10549296 ATCATAGCTT
*
10549306 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10549337 TTCTGCATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10550102 original size:3 final size:3
Alignment explanation
Indices: 10550094--10550127 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10550084 TAATCAAATA
10550094 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10550128 TGATGTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:10550714 original size:17 final size:15
Alignment explanation
Indices: 10550691--10550732 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
10550681 ATTAAAGTAA
*
10550691 TATAAAAAATTAAGGT
1 TATAAAAAATTAA-AT
10550707 TAATAAAAAATTAAAT
1 T-ATAAAAAATTAAAT
10550723 TATAAAAAAT
1 TATAAAAAAT
10550733 AATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 9 0.38
16 3 0.12
17 12 0.50
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (15 bp):
TATAAAAAATTAAAT
Found at i:10553515 original size:64 final size:62
Alignment explanation
Indices: 10553446--10553821 Score: 264
Period size: 64 Copynumber: 6.0 Consensus size: 62
10553436 GTGTTTCTGA
* * **
10553446 CCAAAAATGCATTGAATAATCCCTTCAATAAATTTTTATAAGGGATTATTGAAGGCGTTTTTAG
1 CCAAAAACGCATTCAATAATCCCTTC-ATAAATTTTT-TAAGGGATTATTGAAGGTATTTTTAG
* * * * * **
10553510 CCAAAAATGCCTTCGATAATCCTTTTAATAAATTTTTATGAA-AAATTATTGAAGGTATTTTTAG
1 CCAAAAACGCATTCAATAATCC-CTTCATAAATTTTT-T-AAGGGATTATTGAAGGTATTTTTAG
* * * * * *
10553574 TCAAAAA-ACATTCAATAATCCCTTC-TAAATTTTGTTAAGGGGATCATTGAATGTGTTTTTGG
1 CCAAAAACGCATTCAATAATCCCTTCATAAATTTT-TTAA-GGGATTATTGAAGGTATTTTTAG
* * * ** *
10553636 CAAAAAAACGCTTTCAATAATCTCTTC-CCAATTTTTT-AGGAGATTATTGATGGTATTTTTAG
1 C-CAAAAACGCATTCAATAATCCCTTCATAAATTTTTTAAGG-GATTATTGAAGGTATTTTTAG
* ** *
10553698 CCAAAAACGTC-TTCAATAATCCCTT-TTAAATTTTTTAAAGGGATTATTGAAAATGTTTTTAG
1 CCAAAAACG-CATTCAATAATCCCTTCATAAATTTTTT-AAGGGATTATTGAAGGTATTTTTAG
* * * * * * *
10553760 TCAAAAACACTTTTAATAAT-CCTCTCAATAAATTTTTATACGGGATTAGTGAAGGCATTTTT
1 CCAAAAACGCATTCAATAATCCCT-TC-ATAAATTTTT-TAAGGGATTATTGAAGGTATTTTT
10553822 TGCGATCTCT
Statistics
Matches: 244, Mismatches: 51, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
60 2 0.01
61 43 0.18
62 71 0.29
63 21 0.09
64 102 0.42
65 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (62 bp):
CCAAAAACGCATTCAATAATCCCTTCATAAATTTTTTAAGGGATTATTGAAGGTATTTTTAG
Found at i:10553640 original size:61 final size:61
Alignment explanation
Indices: 10553554--10553781 Score: 203
Period size: 62 Copynumber: 3.7 Consensus size: 61
10553544 TTTATGAAAA
* * *
10553554 ATTATTGAAGGTATTTTTAGTCAAAAAACATTCAATAATCCCTTCTAAATTTTGTTAAGGGG
1 ATTATTGAATGTATTTTTAGGCAAAAAACTTTCAATAATCCCTTCTAAATTTT-TTAAGGGG
* * * ** *
10553616 ATCATTGAATGTGTTTTT-GGCAAAAAAACGCTTTCAATAATCTCTTCCCAATTTTTT-AGGAG
1 ATTATTGAATGTATTTTTAGGC-AAAAAA--CTTTCAATAATCCCTTCTAAATTTTTTAAGGGG
* * *
10553678 ATTATTG-ATGGTATTTTTA-GCCAAAAACGTCTTCAATAATCCCTTTTAAATTTTTTAAAGGG
1 ATTATTGAAT-GTATTTTTAGGCAAAAAAC-T-TTCAATAATCCCTTCTAAATTTTTTAAGGGG
** * * *
10553740 ATTATTGAAAATGTTTTTAGTCAAAAACACTTTTAATAATCC
1 ATTATTGAATGTATTTTTAGGCAAAAA-ACTTTCAATAATCC
10553782 TCTCAATAAA
Statistics
Matches: 131, Mismatches: 24, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
59 1 0.01
60 1 0.01
61 30 0.23
62 67 0.51
63 9 0.07
64 23 0.18
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (61 bp):
ATTATTGAATGTATTTTTAGGCAAAAAACTTTCAATAATCCCTTCTAAATTTTTTAAGGGG
Found at i:10553796 original size:124 final size:125
Alignment explanation
Indices: 10553455--10553798 Score: 333
Period size: 124 Copynumber: 2.7 Consensus size: 125
10553445 ACCAAAAATG
* * * *
10553455 CATTGAATAATCCCTTCAATAAA-TTTTTATAAGGGATTATTGAAGGCGTTTTTAGCCAAAAATG
1 CATTCAATAATCCCTT--ATAAATTTTTTA-AAGGGATTATTGAAAGTGTTTTTAGCCAAAAACG
* * * *
10553519 CCTTCGATAATCCTTTTAATAAATTTTTATGAAAAATTATTGAAGGTATTTTTAGTCAAAAAA
63 CTTTCAATAATCCTCTCAATAAATTTTTATGAAAAATTATTGAAGGTATTTTTAGTCAAAAAA
* * * * * *
10553582 CATTCAATAATCCCTTCTAAATTTTGTTAAGGGGATCATTGAATGTGTTTTTGGCAAAAAAACGC
1 CATTCAATAATCCCTTATAAATTTT-TTAAAGGGATTATTGAAAGTGTTTTTAGC-CAAAAACGC
* * * * *
10553647 TTTCAATAATCTCTTCCCAAT---TTTTTA-G-GAGATTATTGATGGTATTTTTAG-CCAAAAA
64 TTTCAATAATC-C-TCTCAATAAATTTTTATGAAAAATTATTGAAGGTATTTTTAGTCAAAAAA
* * * * *
10553705 CGTCTTCAATAATCCCTTTTAAATTTTTTAAAGGGATTATTGAAAATGTTTTTAGTCAAAAACAC
1 C--ATTCAATAATCCCTTATAAATTTTTTAAAGGGATTATTGAAAGTGTTTTTAGCCAAAAACGC
*
10553770 TTTTAATAATCCTCTCAATAAATTTTTAT
64 TTTCAATAATCCTCTCAATAAATTTTTAT
10553799 ACGGGATTAG
Statistics
Matches: 176, Mismatches: 30, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
121 6 0.03
122 1 0.01
123 24 0.14
124 49 0.28
125 27 0.15
126 30 0.17
127 34 0.19
128 1 0.01
129 4 0.02
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (125 bp):
CATTCAATAATCCCTTATAAATTTTTTAAAGGGATTATTGAAAGTGTTTTTAGCCAAAAACGCTT
TCAATAATCCTCTCAATAAATTTTTATGAAAAATTATTGAAGGTATTTTTAGTCAAAAAA
Found at i:10553941 original size:65 final size:64
Alignment explanation
Indices: 10553835--10554022 Score: 179
Period size: 64 Copynumber: 2.9 Consensus size: 64
10553825 GATCTCTTCT
* * * *
10553835 AAATTTTTATAAAGGGATTATTGATA-GCGTTTTTT-ACCAAAAATACCTTCAATAATCCC-CTC
1 AAATTTTT-TAAATGGATTATT-AAAGGAGTTTTTTGA-CAAAAATGCCTTCAATAATCCCTCTC
10553897 AACA
63 --CA
** * *
10553901 AAATTTTTTATTTGGATTATT-AAGGAGTTTTTTTGACAAAAGTGCCTTTAATAATCCCTCTCCA
1 AAATTTTTTAAATGGATTATTAAAGGAG-TTTTTTGACAAAAATGCCTTCAATAATCCCTCTCCA
* * *
10553965 AAATTTTTTAAATGGATTATTAAAGGCGTTTTTAGTC-AAAATCGCCTTCAATAATCCC
1 AAATTTTTTAAATGGATTATTAAAGGAGTTTTTTGACAAAAAT-GCCTTCAATAATCCC
10554023 ATTCAATTTT
Statistics
Matches: 101, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
63 5 0.05
64 44 0.44
65 40 0.40
66 12 0.12
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (64 bp):
AAATTTTTTAAATGGATTATTAAAGGAGTTTTTTGACAAAAATGCCTTCAATAATCCCTCTCCA
Found at i:10554323 original size:64 final size:62
Alignment explanation
Indices: 10554233--10554352 Score: 179
Period size: 64 Copynumber: 1.9 Consensus size: 62
10554223 TTTTTGTACG
* * *
10554233 GATTATTAAAGGCGTTTTTTGTCAAAAATACCTTCAATAATCTCTCTTCAAATTTTTTTGAATA
1 GATTATTAAAGGCGTTTTTTGTCAAAAACACATTCAATAATC-CTATTC-AATTTTTTTGAATA
10554297 GATTATTGAAA-GCGTTTTTTGTCAAAAACACATTCAATAATCCTATTCAATTTTTT
1 GATTATT-AAAGGCGTTTTTTGTCAAAAACACATTCAATAATCCTATTCAATTTTTT
10554353 GTAAGCCAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
62 8 0.15
63 5 0.10
64 36 0.69
65 3 0.06
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (62 bp):
GATTATTAAAGGCGTTTTTTGTCAAAAACACATTCAATAATCCTATTCAATTTTTTTGAATA
Found at i:10554525 original size:319 final size:318
Alignment explanation
Indices: 10553914--10554546 Score: 795
Period size: 319 Copynumber: 2.0 Consensus size: 318
10553904 TTTTTTATTT
* * * *
10553914 GGATTATTAAGGAGTTTTTTTGACAAAAGTGCCTTTAATAATCCCTCTCCAAAATTTTTTAAATG
1 GGATTATTAAGGAGTTTTTTTGACAAAAATACCTTCAATAATCCCTCTCCAAAATTTTTTAAATA
* * * *
10553979 GATTATTAAAGGCGTTTTTAGTCAAAATCGCCTTCAATAATCCCATTCAATTTTTGCAAGTCAAT
66 GATTATTAAAGGCGTTTTTAGTCAAAAACACATTCAATAATCCCATTCAATTTTTGCAAGCCAAT
* * * * ** *
10554044 AGTTTTTTTGTTTTGAGCCTATACTGATGGTTACGTTAATAACCATTAGTATATAACATATTTAT
131 AATTTTTTTATTTTGAGCCTATACTGATGATTACGTTAATAACCATCAACATATAAAATATTTAT
* * * * * *
10554109 ACTAATAGATAGTCATATACCATTAGAAAAAGTTTATTTACACCAATAGTTAAATAAAGTATTGG
196 ACTAATAGATAATCATACACCATCAGAAAAAATTTATTTACACCAACAGTTAAATAAAGTATTAG
*
10554174 TATAAGTATAGTGTATTATGACGATATTAAAAAACTATCAGTAAAAATATTTTTGTAC
261 TATAAGTATAGTATATTATGACGATATTAAAAAACTATCAGTAAAAATATTTTTGTAC
* * * * * *
10554232 GGATTATTAAAGGCG-TTTTTTGTCAAAAATACCTTCAATAATCTCTCTTCAAATTTTTTTGAAT
1 GGATTATT-AAGGAGTTTTTTTGACAAAAATACCTTCAATAATCCCTCTCCAAAATTTTTTAAAT
* * *
10554296 AGATTATTGAAA-GCGTTTTTTGTCAAAAACACATTCAATAATCCTATTCAATTTTTTGTAAGCC
65 AGATTATT-AAAGGCGTTTTTAGTCAAAAACACATTCAATAATCCCATTCAA-TTTTTGCAAGCC
** *
10554360 AATAATTTTTTTATTTTTTGCCTATACTGATGATTACGTTAATAACCGTCAACATATAAAATATT
128 AATAATTTTTTTATTTTGAGCCTATACTGATGATTACGTTAATAACCATCAACATATAAAATATT
* * * * * * *
10554425 TATACTGATGGATAATCATACACCGTCAGAAAAAAATTTATTTATACCAACGGTTAAATAAATTG
193 TATACTAATAGATAATCATACACCATCAG-AAAAAATTTATTTACACCAACAGTTAAATAAAGTA
* * * * *
10554490 TTAGTATAAGTATGGTATATTCTGA-GGTATTAAAAATCTATCAGTAAAAATCTTTTT
257 TTAGTATAAGTATAGTATATTATGACGATATTAAAAAACTATCAGTAAAAATATTTTT
10554547 TATTGACGAA
Statistics
Matches: 265, Mismatches: 46, Indels: 7
0.83 0.14 0.02
Matches are distributed among these distances:
318 90 0.34
319 125 0.47
320 50 0.19
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (318 bp):
GGATTATTAAGGAGTTTTTTTGACAAAAATACCTTCAATAATCCCTCTCCAAAATTTTTTAAATA
GATTATTAAAGGCGTTTTTAGTCAAAAACACATTCAATAATCCCATTCAATTTTTGCAAGCCAAT
AATTTTTTTATTTTGAGCCTATACTGATGATTACGTTAATAACCATCAACATATAAAATATTTAT
ACTAATAGATAATCATACACCATCAGAAAAAATTTATTTACACCAACAGTTAAATAAAGTATTAG
TATAAGTATAGTATATTATGACGATATTAAAAAACTATCAGTAAAAATATTTTTGTAC
Found at i:10556241 original size:2 final size:2
Alignment explanation
Indices: 10556192--10556221 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10556182 CAGGAAGGTC
*
10556192 AT AT AT AT AT AC 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
10556222 CAAAGAAGGA
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:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10556331 original size:22 final size:21
Alignment explanation
Indices: 10556295--10556336 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
10556285 TAAGAGTAAA
*
10556295 AATATTATTTTAATTTTAATT
1 AATAATATTTTAATTTTAATT
10556316 AATAATATATTTAATTTTAAT
1 AATAATAT-TTTAATTTTAAT
10556337 ATAACAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATAATATTTTAATTTTAATT
Found at i:10557145 original size:15 final size:15
Alignment explanation
Indices: 10557127--10557168 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
10557117 TGAACTAAAA
*
10557127 TAATATTTTTAAATT
1 TAATAATTTTAAATT
10557142 TAATAATTTT-AATT
1 TAATAATTTTAAATT
*
10557156 TAAGAATTTTAAA
1 TAATAATTTTAAA
10557169 AAATATAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TAATAATTTTAAATT
Found at i:10560915 original size:23 final size:21
Alignment explanation
Indices: 10560885--10560927 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10560875 TAAAAAGTTT
10560885 TTCAAAATTATATATTTTTTAAA
1 TTCAAAA-TATAT-TTTTTTAAA
*
10560908 TTCAAAATATGTTTTTTTAA
1 TTCAAAATATATTTTTTTAA
10560928 CAGTGGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (21 bp):
TTCAAAATATATTTTTTTAAA
Found at i:10562353 original size:24 final size:26
Alignment explanation
Indices: 10562321--10562369 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
10562311 ATACTTGTTG
10562321 AAATAAATTT-AAA-AAAAATAAAAA
1 AAATAAATTTAAAATAAAAATAAAAA
*
10562345 AAATTAATTTAAAATAAAAATAAAA
1 AAATAAATTTAAAATAAAAATAAAA
10562370 CATATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 3 0.14
26 10 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATAAATTTAAAATAAAAATAAAAA
Found at i:10569938 original size:59 final size:59
Alignment explanation
Indices: 10569845--10570004 Score: 266
Period size: 59 Copynumber: 2.7 Consensus size: 59
10569835 ATTTCATATC
*
10569845 AAATCTAAATAAAGATAAGTCAACCAACAAACATCCAGATTACATTGGAATATATATTTG
1 AAATCTAAATAAAGATAA-TCAACCAACAAACATCCAGATTACATAGGAATATATATTTG
*
10569905 AAATCTAAATAAAGATTATCAACCAACAAACATCCAGATTACATAGGAATATATATTTG
1 AAATCTAAATAAAGATAATCAACCAACAAACATCCAGATTACATAGGAATATATATTTG
* * *
10569964 AAATCTAAATAAAGATAATCAACCAATAAGCATCTAGATTA
1 AAATCTAAATAAAGATAATCAACCAACAAACATCCAGATTA
10570005 AATAACCAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 77 0.82
60 17 0.18
ACGTcount: A:0.50, C:0.15, G:0.09, T:0.26
Consensus pattern (59 bp):
AAATCTAAATAAAGATAATCAACCAACAAACATCCAGATTACATAGGAATATATATTTG
Found at i:10580658 original size:14 final size:14
Alignment explanation
Indices: 10580641--10580673 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
10580631 TTATAAGATT
10580641 TAAAAGATAAAATA
1 TAAAAGATAAAATA
10580655 TAAAAGATAAAATA
1 TAAAAGATAAAATA
10580669 TAAAA
1 TAAAA
10580674 AAAAGGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (14 bp):
TAAAAGATAAAATA
Found at i:10585415 original size:30 final size:30
Alignment explanation
Indices: 10585346--10585405 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10585336 AGCATTACAT
10585346 AGAAATAAATGGAGAATAAATTATTTTCAA
1 AGAAATAAATGGAGAATAAATTATTTTCAA
10585376 AGAAATAAATGGAGAATAAATTATTTTCAA
1 AGAAATAAATGGAGAATAAATTATTTTCAA
10585406 TATATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.30
Consensus pattern (30 bp):
AGAAATAAATGGAGAATAAATTATTTTCAA
Found at i:10587399 original size:24 final size:25
Alignment explanation
Indices: 10587372--10587421 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
10587362 TATTAAAGAA
10587372 TCATAAAC-TATT-AAAATTATTATT
1 TCATAAACTTATTCAAAATT-TTATT
* *
10587396 TCATTAACTTGTTCAAAATTTTATT
1 TCATAAACTTATTCAAAATTTTATT
10587421 T
1 T
10587422 TTTTTTAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 9 0.41
26 6 0.27
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (25 bp):
TCATAAACTTATTCAAAATTTTATT
Found at i:10587565 original size:15 final size:16
Alignment explanation
Indices: 10587539--10587571 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
10587529 GAAATAATAT
10587539 TTTTTAGTGTTATTTA
1 TTTTTAGTGTTATTTA
10587555 TTTTTAG-GTTATTTA
1 TTTTTAGTGTTATTTA
10587570 TT
1 TT
10587572 AGTAGTTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTTTTAGTGTTATTTA
Found at i:10589592 original size:13 final size:12
Alignment explanation
Indices: 10589567--10589602 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
10589557 TTTGGTGTTC
10589567 TTGGAGAATTTTT
1 TTGGA-AATTTTT
10589580 TTGGAAATCTTTT
1 TTGGAAAT-TTTT
10589593 TTGGAAATTT
1 TTGGAAATTT
10589603 CTAGATTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (12 bp):
TTGGAAATTTTT
Found at i:10590054 original size:24 final size:24
Alignment explanation
Indices: 10590027--10590072 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10590017 GGTAAATTTT
* *
10590027 ATTTTCTTTATTTATTTGATTTAG
1 ATTTTATTTATTTAATTGATTTAG
*
10590051 ATTTTATTTTTTTAATTGATTT
1 ATTTTATTTATTTAATTGATTT
10590073 TTTTAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.70
Consensus pattern (24 bp):
ATTTTATTTATTTAATTGATTTAG
Found at i:10602025 original size:50 final size:49
Alignment explanation
Indices: 10601883--10602052 Score: 153
Period size: 50 Copynumber: 3.4 Consensus size: 49
10601873 AAATTAGTTA
* * * * *
10601883 TTTAAAGTTGTTGAGCCTCTATTTAAAGGAGTCCATTTCTAAATTTAGAT
1 TTTAAAGTTGTTAAGCCTCTATTTAAGGGAGT-CATTTCTTAATTAAAAT
* * * * * * *
10601933 TTTAACGTTGTTAAGTCTTTGTTT-AGAGAAGCTCATTTCTTAATTCATAT
1 TTTAAAGTTGTTAAGCCTCTATTTAAG-GGAG-TCATTTCTTAATTAAAAT
* *
10601983 TTTAAAGTTGTTGAGCCTCTATTTAAGGGAGTCAATTCCTTAATTTAAAAT
1 TTTAAAGTTGTTAAGCCTCTATTTAAGGGAGTC-ATTTCTTAA-TTAAAAT
*
10602034 TTTAAAGTTATTAAGCCTC
1 TTTAAAGTTGTTAAGCCTC
10602053 CGCTTAGAAG
Statistics
Matches: 94, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
49 3 0.03
50 66 0.70
51 25 0.27
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (49 bp):
TTTAAAGTTGTTAAGCCTCTATTTAAGGGAGTCATTTCTTAATTAAAAT
Found at i:10602170 original size:44 final size:44
Alignment explanation
Indices: 10602130--10602354 Score: 262
Period size: 44 Copynumber: 5.2 Consensus size: 44
10602120 TGTGCCTTTG
* * * * *
10602130 TTTAAAGGAATTTTTTAAAATTTTTCTAAAGTTACATGCCTCTG
1 TTTAAAGGAGTTCTTTAAAATTTTTCCAAAGTTGCATGCCTCTA
*
10602174 TTTAAAGGAGTTCTTTAATATTTTT-CAAAGTTGCATGCCTCTA
1 TTTAAAGGAGTTCTTTAAAATTTTTCCAAAGTTGCATGCCTCTA
* * *
10602217 TTTAAAGTAGTTTTTTAAAATTTTTCCAAAGTTGCATGCCTCAA
1 TTTAAAGGAGTTCTTTAAAATTTTTCCAAAGTTGCATGCCTCTA
*
10602261 TTTAAAGGAGTTCTTTAAAA---TTCCAAAGTTGTATGCCTCTA
1 TTTAAAGGAGTTCTTTAAAATTTTTCCAAAGTTGCATGCCTCTA
* * * * * *
10602302 TTTAGAGCAGTTCTCT-AAACTTTTCCTAAAGTTACATGCCTTTA
1 TTTAAAGGAGTTCTTTAAAATTTTTCC-AAAGTTGCATGCCTCTA
10602346 TTTAAAGGA
1 TTTAAAGGA
10602355 TCTTTTTAAA
Statistics
Matches: 154, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
40 3 0.02
41 32 0.21
43 41 0.27
44 78 0.51
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (44 bp):
TTTAAAGGAGTTCTTTAAAATTTTTCCAAAGTTGCATGCCTCTA
Found at i:10602221 original size:87 final size:85
Alignment explanation
Indices: 10602130--10602354 Score: 288
Period size: 85 Copynumber: 2.6 Consensus size: 85
10602120 TGTGCCTTTG
* * *
10602130 TTTAAAGGAATTTTTTAAAATTTTTCTAAAGTTACATGCCTCTGTTTAAAGGAGTTCTTTAATAT
1 TTTAAAGCAGTTTTTTAAAATTTTTCTAAAGTTACATGCCTCTATTTAAAGGAGTTCTTTAA-A-
* *
10602195 TTTTCAAAGTTGCATGCCTCTA
64 ATTCCAAAGTTGCATGCCTCTA
* * * *
10602217 TTTAAAGTAGTTTTTTAAAATTTTTCCAAAGTTGCATGCCTCAATTTAAAGGAGTTCTTTAAAAT
1 TTTAAAGCAGTTTTTTAAAATTTTTCTAAAGTTACATGCCTCTATTTAAAGGAGTTCTTTAAAAT
*
10602282 TCCAAAGTTGTATGCCTCTA
66 TCCAAAGTTGCATGCCTCTA
* * * * * *
10602302 TTTAGAGCAGTTCTCTAAACTTTTCCTAAAGTTACATGCCTTTATTTAAAGGA
1 TTTAAAGCAGTTTTTTAAAATTTTTCTAAAGTTACATGCCTCTATTTAAAGGA
10602355 TCTTTTTAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
85 62 0.52
86 1 0.01
87 56 0.47
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (85 bp):
TTTAAAGCAGTTTTTTAAAATTTTTCTAAAGTTACATGCCTCTATTTAAAGGAGTTCTTTAAAAT
TCCAAAGTTGCATGCCTCTA
Found at i:10602839 original size:15 final size:15
Alignment explanation
Indices: 10602802--10602835 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10602792 GAAAGTTATA
10602802 AGAAATCAAATCACT
1 AGAAATCAAATCACT
10602817 AGAAATCAAATCA-T
1 AGAAATCAAATCACT
10602831 AGAAA
1 AGAAA
10602836 ATCATCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (15 bp):
AGAAATCAAATCACT
Found at i:10603600 original size:9 final size:9
Alignment explanation
Indices: 10603559--10603614 Score: 51
Period size: 9 Copynumber: 6.0 Consensus size: 9
10603549 TTAGCAAATT
10603559 TTTTATTT-
1 TTTTATTTA
10603567 TCTTTATTTA
1 T-TTTATTTA
*
10603577 TTTGATTTAGA
1 TTTTATTT--A
10603588 TTTTATTTA
1 TTTTATTTA
*
10603597 TTTTAATTA
1 TTTTATTTA
*
10603606 TTTTTTTTA
1 TTTTATTTA
10603615 AAGAAAAGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
8 1 0.03
9 29 0.74
10 1 0.03
11 8 0.21
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (9 bp):
TTTTATTTA
Found at i:10603608 original size:24 final size:24
Alignment explanation
Indices: 10603563--10603608 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10603553 CAAATTTTTT
* *
10603563 ATTTTCTTTATTTATTTGATTTAG
1 ATTTTATTTATTTAATTGATTTAG
10603587 ATTTTATTTATTTTAATT-ATTT
1 ATTTTATTTA-TTTAATTGATTT
10603609 TTTTTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (24 bp):
ATTTTATTTATTTAATTGATTTAG
Found at i:10603702 original size:3 final size:3
Alignment explanation
Indices: 10603682--10603722 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
10603672 TATCATGAGT
* *
10603682 TTA TTC TTA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10603723 TTACCAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10608127 original size:36 final size:36
Alignment explanation
Indices: 10608086--10608173 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 36
10608076 TATTGCAAAC
10608086 TTGAATGTCTTGCT-AAA-TAGAAGCTCTT-ACAAATCT
1 TTGAATGTCTTG-TGAAACT-GAAGCT-TTCACAAATCT
*
10608122 TTGAATTTCTTGTGAAACTGAAGCTTTCACAAATCT
1 TTGAATGTCTTGTGAAACTGAAGCTTTCACAAATCT
* * *
10608158 CTGAATTTCTAGTGAA
1 TTGAATGTCTTGTGAA
10608174 CTTGAATTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
35 3 0.07
36 42 0.91
37 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (36 bp):
TTGAATGTCTTGTGAAACTGAAGCTTTCACAAATCT
Found at i:10608257 original size:17 final size:18
Alignment explanation
Indices: 10608209--10608260 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
10608199 CCTTGCTAAT
10608209 TTGAAATCTTTGTGAAAC
1 TTGAAATCTTTGTGAAAC
*
10608227 TTGAAA-CTTTTGTGAATC
1 TTGAAATC-TTTGTGAAAC
*
10608245 -TGAAATCTCTGTGAAA
1 TTGAAATCTTTGTGAAA
10608261 TTGGGAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTGAAATCTTTGTGAAAC
Found at i:10608592 original size:17 final size:18
Alignment explanation
Indices: 10608556--10608592 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10608546 TTATGGAACC
*
10608556 TTGTAAATCTTTGCAATT
1 TTGTAAACCTTTGCAATT
10608574 TTGTAAACCTTTG-AATT
1 TTGTAAACCTTTGCAATT
10608591 TT
1 TT
10608593 CAAATTGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.51
Consensus pattern (18 bp):
TTGTAAACCTTTGCAATT
Found at i:10611512 original size:28 final size:28
Alignment explanation
Indices: 10611461--10611547 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
10611451 ATGTTCTATT
10611461 TTTTTATCT-TTTATTTAATT-TTTACATA
1 TTTTTAT-TATTTATTT-ATTATTTACATA
10611489 TTTTTATTATTTATTTATTATTTATC-TA
1 TTTTTATTATTTATTTATTATTTA-CATA
10611517 TTTATT-TTATTT-TATTATTATTTA-AT-
1 TTT-TTATTATTTAT-TTATTATTTACATA
10611543 TTTTT
1 TTTTT
10611548 GGTATGATTT
Statistics
Matches: 53, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
25 2 0.04
26 3 0.06
27 6 0.11
28 39 0.74
29 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.72
Consensus pattern (28 bp):
TTTTTATTATTTATTTATTATTTACATA
Found at i:10611663 original size:20 final size:20
Alignment explanation
Indices: 10611610--10611695 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
10611600 CATTAGTTGC
*
10611610 ATTATTGTATGATA-ATTCAT
1 ATTATTGCATGATATATT-AT
10611630 ATTAATTGCATGATATATTAT
1 ATT-ATTGCATGATATATTAT
*
10611651 ATTATTACATGATATATTAT
1 ATTATTGCATGATATATTAT
* *
10611671 ATTATTGTATGATAT-TTGT
1 ATTATTGCATGATATATTAT
10611690 ATTATT
1 ATTATT
10611696 TACAAGATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.15
20 32 0.54
21 15 0.25
22 3 0.05
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.52
Consensus pattern (20 bp):
ATTATTGCATGATATATTAT
Found at i:10611699 original size:40 final size:41
Alignment explanation
Indices: 10611618--10611707 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
10611608 GCATTATTGT
10611618 ATGATAATTCATATTAATTGCATGATATATTATATTATTAC
1 ATGATAATTCATATTAATTGCATGATATATTATATTATTAC
* *
10611659 ATGATATATT-ATATT-ATTGTATGATAT-TTGTATTATTTAC
1 ATGATA-ATTCATATTAATTGCATGATATATTATATTA-TTAC
*
10611699 AAGATAATT
1 ATGATAATT
10611708 TTTGTAGGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 10 0.23
40 20 0.45
41 11 0.25
42 3 0.07
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (41 bp):
ATGATAATTCATATTAATTGCATGATATATTATATTATTAC
Found at i:10612582 original size:12 final size:12
Alignment explanation
Indices: 10612565--10612662 Score: 90
Period size: 12 Copynumber: 7.8 Consensus size: 12
10612555 CCTTAGAAGA
10612565 AAACCCTAAATG
1 AAACCCTAAATG
10612577 AAACCCTAAATG
1 AAACCCTAAATG
*
10612589 AAACCCTAAACTA
1 AAACCCTAAA-TG
10612602 AAACCCTAGAA-G
1 AAACCCTA-AATG
*
10612614 TAAGCCCTAAAATG
1 -AAACCCT-AAATG
* *
10612628 AAATCCTAACTCG
1 AAACCCTAAAT-G
*
10612641 AAACCTTAAATG
1 AAACCCTAAATG
*
10612653 AAATCCTAAA
1 AAACCCTAAA
10612663 CCCTGACCGA
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
12 34 0.49
13 31 0.45
14 4 0.06
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.18
Consensus pattern (12 bp):
AAACCCTAAATG
Found at i:10612591 original size:25 final size:24
Alignment explanation
Indices: 10612565--10612662 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
10612555 CCTTAGAAGA
10612565 AAACCCTAAATGAAACCCTAAATG
1 AAACCCTAAATGAAACCCTAAATG
*
10612589 AAACCCTAAACTAAAACCCTAGAA-G
1 AAACCCTAAA-TGAAACCCTA-AATG
* * *
10612614 TAAGCCCTAAAATGAAATCCTAACTCG
1 -AAACCCT-AAATGAAACCCTAAAT-G
* *
10612641 AAACCTTAAATGAAATCCTAAA
1 AAACCCTAAATGAAACCCTAAA
10612663 CCCTGACCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
24 10 0.17
25 25 0.42
26 21 0.35
27 4 0.07
ACGTcount: A:0.49, C:0.24, G:0.08, T:0.18
Consensus pattern (24 bp):
AAACCCTAAATGAAACCCTAAATG
Found at i:10619597 original size:23 final size:22
Alignment explanation
Indices: 10619571--10619613 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
10619561 CAATTATACA
* *
10619571 TAGCATTTATCACATATAAATTC
1 TAGCATGTATAACA-ATAAATTC
10619594 TAGCATGTATAACAATAAAT
1 TAGCATGTATAACAATAAAT
10619614 CAATATAGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.35
Consensus pattern (22 bp):
TAGCATGTATAACAATAAATTC
Found at i:10624586 original size:2 final size:2
Alignment explanation
Indices: 10624579--10624619 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
10624569 CAAATTAAAA
10624579 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10624620 TATTTTAGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10626333 original size:17 final size:17
Alignment explanation
Indices: 10626313--10626348 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10626303 TTAAAAGATG
10626313 AAAA-TAAATAAGATTAA
1 AAAACTAAA-AAGATTAA
10626330 AAAACTAAAAAGATTAA
1 AAAACTAAAAAGATTAA
10626347 AA
1 AA
10626349 CGTAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (17 bp):
AAAACTAAAAAGATTAA
Found at i:10627667 original size:3 final size:3
Alignment explanation
Indices: 10627659--10627715 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
10627649 ATTCATTTCA
10627659 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10627707 TAT TAT TAT
1 TAT TAT TAT
10627716 ATGATAAAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10628509 original size:20 final size:19
Alignment explanation
Indices: 10628484--10628526 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
10628474 TAACTCTCGA
*
10628484 TCAAACTCAAGTCAGCTTGG
1 TCAAACTCAAATCAGCTT-G
10628504 TCAAACTCAAATCAGCTTG
1 TCAAACTCAAATCAGCTTG
10628523 TCAA
1 TCAA
10628527 TCCTTGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.26
Consensus pattern (19 bp):
TCAAACTCAAATCAGCTTG
Found at i:10631277 original size:40 final size:40
Alignment explanation
Indices: 10631222--10631301 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
10631212 ATGACTGAAC
10631222 ACTTTGAATGATTTATTATTCAATTCAATTTTGATAACTA
1 ACTTTGAATGATTTATTATTCAATTCAATTTTGATAACTA
10631262 ACTTTGAATGATTTATTATTCAATTCAATTTTGATAACTA
1 ACTTTGAATGATTTATTATTCAATTCAATTTTGATAACTA
10631302 TGTCTAAAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.47
Consensus pattern (40 bp):
ACTTTGAATGATTTATTATTCAATTCAATTTTGATAACTA
Found at i:10631458 original size:23 final size:21
Alignment explanation
Indices: 10631416--10631456 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10631406 AAAGTACAAA
*
10631416 AATTTATATAAAAGAATTTAG
1 AATTTATATAAAAAAATTTAG
10631437 AATTTATATAAAATAAATTT
1 AATTTATATAAAA-AAATTT
10631457 TATATAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AATTTATATAAAAAAATTTAG
Found at i:10632369 original size:17 final size:18
Alignment explanation
Indices: 10632325--10632370 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
10632315 CTTATTAAAT
*
10632325 TATATATTAAATTTTAAC
1 TATATATTAAATATTAAC
10632343 -ATA-ATATAAA-ATTAAC
1 TATATAT-TAAATATTAAC
10632359 TATATATTAAAT
1 TATATATTAAAT
10632371 TACTAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
16 7 0.30
17 14 0.61
18 2 0.09
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
TATATATTAAATATTAAC
Found at i:10632501 original size:131 final size:128
Alignment explanation
Indices: 10632266--10632506 Score: 374
Period size: 131 Copynumber: 1.9 Consensus size: 128
10632256 TTATAATTGT
* * * * *
10632266 TTCATAGAAAGTTGACATGAGGTATTTTATTTTAAAATTACTTTATACCCTTATTAAATTATATA
1 TTCATAAAAAGTTGACATGAGGCATTTTATTTGAAAATTACTTAATACACTTATTAAATTATATA
*
10632331 TTAAATTTTAACATAATATAAAATTAACTATATATTAAATTACTAAAATACCCTTGTCATCGC
66 TTAAATTTTAACATAATATAAAATTAACTACATATTAAATTACTAAAATACCCTTGTCATCGC
* *
10632394 TTCATAAAAATTTGACATGTGGCATTTTATTTGAAAATTACTATAATACACTTATTAAATTATAT
1 TTCATAAAAAGTTGACATGAGGCATTTTATTTGAAAATTACT-TAATACACTTATTAAA-T-TAT
*
10632459 ATATTAAATTTTAACATAATCTAAAATTAACTACATATTAAATTACTA
63 ATATTAAATTTTAACATAATATAAAATTAACTACATATTAAATTACTA
10632507 CTCTCCCATT
Statistics
Matches: 101, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
128 37 0.37
129 14 0.14
130 1 0.01
131 49 0.49
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.41
Consensus pattern (128 bp):
TTCATAAAAAGTTGACATGAGGCATTTTATTTGAAAATTACTTAATACACTTATTAAATTATATA
TTAAATTTTAACATAATATAAAATTAACTACATATTAAATTACTAAAATACCCTTGTCATCGC
Found at i:10634448 original size:247 final size:247
Alignment explanation
Indices: 10634012--10634511 Score: 919
Period size: 247 Copynumber: 2.0 Consensus size: 247
10634002 AGAGGGATAA
10634012 TAGACATCTAGACATATGTCAATAGAAGAAATAGTTATTAGCTTCCTTCACATCATTGCCCATCA
1 TAGACATCTAGACATATGTCAATAGAAGAAATAGTTATTAGCTTCCTTCACATCATTGCCCATCA
* *
10634077 TACAACGAATAGGGTTATGATGCATCAAGTAGCTAGATTTGGAAAGATAATTAGTAAATAATTCC
66 TACAACAAATAGGGTTATAATGCATCAAGTAGCTAGATTTGGAAAGATAATTAGTAAATAATTCC
*
10634142 ATTTTATGTTGAATTATGTTTTAAGACTGCATATGCTATTGTTTAAAAAATCCAAACCGATACTG
131 ATTTTATGTTGAATTATGTTTTAAGACTGCATACGCTATTGTTTAAAAAATCCAAACCGATACTG
*
10634207 AAGAATTCCACAGATAATAGATAAAAATGGTTCAAAGGTTGTTTGGGTACCT
196 AAGAATTCCACAGATAATAGATAAAAATGGTTCAAAGGTTGTTTAGGTACCT
10634259 TAGACATCTAGACATATGTCAATAGAAGAAATAGTTATTAGCTTCCTTCACATCATTGCCCATCA
1 TAGACATCTAGACATATGTCAATAGAAGAAATAGTTATTAGCTTCCTTCACATCATTGCCCATCA
10634324 TACAACAAATAGGGTTATAATGCATCAAGTAGCTAGATTTGGAAAGATAATTAGTAAATAATTCC
66 TACAACAAATAGGGTTATAATGCATCAAGTAGCTAGATTTGGAAAGATAATTAGTAAATAATTCC
*
10634389 ATTTTATGTTGAATTATTTTTTAAGACTGCATACGCTATTGTTTAAAAAATCCAAACCGATACTG
131 ATTTTATGTTGAATTATGTTTTAAGACTGCATACGCTATTGTTTAAAAAATCCAAACCGATACTG
* * * *
10634454 AAGAATTCCATAGATAATAGATAAAGATGGTTTAAAGGTTGTTTAGGTGCCT
196 AAGAATTCCACAGATAATAGATAAAAATGGTTCAAAGGTTGTTTAGGTACCT
10634506 TAGACA
1 TAGACA
10634512 GGATATACAA
Statistics
Matches: 244, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
247 244 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (247 bp):
TAGACATCTAGACATATGTCAATAGAAGAAATAGTTATTAGCTTCCTTCACATCATTGCCCATCA
TACAACAAATAGGGTTATAATGCATCAAGTAGCTAGATTTGGAAAGATAATTAGTAAATAATTCC
ATTTTATGTTGAATTATGTTTTAAGACTGCATACGCTATTGTTTAAAAAATCCAAACCGATACTG
AAGAATTCCACAGATAATAGATAAAAATGGTTCAAAGGTTGTTTAGGTACCT
Found at i:10640147 original size:13 final size:14
Alignment explanation
Indices: 10640129--10640157 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10640119 AAATAATTTA
10640129 AAAATTAAAAA-TT
1 AAAATTAAAAAGTT
10640142 AAAATTAAAAAGTT
1 AAAATTAAAAAGTT
10640156 AA
1 AA
10640158 CTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATTAAAAAGTT
Found at i:10642730 original size:63 final size:63
Alignment explanation
Indices: 10642530--10642843 Score: 276
Period size: 64 Copynumber: 4.9 Consensus size: 63
10642520 TATGGCGTTT
* * * * ** *
10642530 ATATTAATAAACACCTTAATTGATCATATTTTATAAATTATAAAAAACAAATCAATTAAAAC-GT
1 ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTAT--AAAACCTATTAATT--AACGGT
10642594 TC
62 TC
* * ** * *** * *
10642596 ATAATAACAAACACCTTAATTGACCAT-TTTTATAAATTAAAAAATAAGATCAATTAAGGAGTTC
1 ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTATAAAA-CCTATTAATTAACG-GTTC
* * *
10642660 ATATTAACAAACGCTTTAATTGATGATGTTTTAAAAAATAT-AAACCTATTAATTAACGTGTTC
1 ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTATAAAACCTATTAATTAACG-GTTC
* * * *
10642723 ATGTTAACAAACGCCTTAATTGATCACGTTTTATAAATTATAAAACCTGTTAATT-ACGGCTTTC
1 ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTATAAAACCTATTAATTAACGG--TTC
* * *
10642787 ATATTAACAAATGCCTTAATTGATGATCTTTTATAAATTATAAAACCTATCAATTAA
1 ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTATAAAACCTATTAATTAA
10642844 AATTTTTATT
Statistics
Matches: 205, Mismatches: 35, Indels: 17
0.80 0.14 0.07
Matches are distributed among these distances:
62 3 0.01
63 55 0.27
64 100 0.49
65 23 0.11
66 24 0.12
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (63 bp):
ATATTAACAAACGCCTTAATTGATGATGTTTTATAAATTATAAAACCTATTAATTAACGGTTC
Found at i:10643238 original size:61 final size:61
Alignment explanation
Indices: 10643173--10643310 Score: 165
Period size: 61 Copynumber: 2.3 Consensus size: 61
10643163 TATAACTAAT
* * *
10643173 CAAAATTACTATAAT-ACTCATCTTACCATAATTACAAAAATAC-CCTCTTACCATAATT-AGC
1 CAAAATTACTATAATGACT--TCCTACCAGAATTACAAAAATACACATCTTACCATAATTGA-C
* * *
10643234 CAAAATTACTATAATGGCTTCCTATCAGAATTACAAAAATACACATCTTATCATAATTGAC
1 CAAAATTACTATAATGACTTCCTACCAGAATTACAAAAATACACATCTTACCATAATTGAC
*
10643295 TAAAATTACTATAATG
1 CAAAATTACTATAATG
10643311 CTCTTATTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 20 0.30
61 44 0.66
62 3 0.04
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.32
Consensus pattern (61 bp):
CAAAATTACTATAATGACTTCCTACCAGAATTACAAAAATACACATCTTACCATAATTGAC
Found at i:10643490 original size:25 final size:25
Alignment explanation
Indices: 10643436--10643490 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
10643426 AATATTTTTT
*
10643436 AAATAATAAAAAAATTAATAAATAA
1 AAATAATAAAAAAATTAATAAAGAA
* * *
10643461 TAATAATAATAAAATT-TTGAAAGAA
1 AAATAATAAAAAAATTAAT-AAAGAA
10643486 AAATA
1 AAATA
10643491 GTTCACTCCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATAATAAAAAAATTAATAAAGAA
Found at i:10649301 original size:11 final size:11
Alignment explanation
Indices: 10649287--10649318 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
10649277 TTTATTTTTA
10649287 TTTTTTTTCTT
1 TTTTTTTTCTT
*
10649298 TTTTTTCTCTT
1 TTTTTTTTCTT
10649309 TTTTTTTTCT
1 TTTTTTTTCT
10649319 GGCAGCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:10651603 original size:20 final size:18
Alignment explanation
Indices: 10651573--10651619 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 18
10651563 CTTTTTAATT
10651573 TAAAAAAAAACCAAACAAA
1 TAAAAAAAAACCAAA-AAA
10651592 TAAAAAACAAACCAAAAAA
1 TAAAAAA-AAACCAAAAAA
10651611 TGAAAAAAA
1 T-AAAAAAA
10651620 TTTCATATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.79, C:0.13, G:0.02, T:0.06
Consensus pattern (18 bp):
TAAAAAAAAACCAAAAAA
Found at i:10655448 original size:15 final size:16
Alignment explanation
Indices: 10655402--10655448 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
10655392 AAGAAAGAGC
10655402 AAAAGTGAAAAATAAA
1 AAAAGTGAAAAATAAA
*
10655418 AAAA-TAAAAAATAAA
1 AAAAGTGAAAAATAAA
*
10655433 AAAAGGGAAAAA-AAA
1 AAAAGTGAAAAATAAA
10655448 A
1 A
10655449 GATGATTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (16 bp):
AAAAGTGAAAAATAAA
Found at i:10656772 original size:11 final size:11
Alignment explanation
Indices: 10656756--10656784 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10656746 TGGAAGCATT
10656756 AAAGAAAAAAA
1 AAAGAAAAAAA
10656767 AAAGAAAAAAA
1 AAAGAAAAAAA
10656778 AAAGAAA
1 AAAGAAA
10656785 GGAGTAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAA
Found at i:10657036 original size:42 final size:43
Alignment explanation
Indices: 10656945--10657047 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
10656935 TTTAAAGTAT
* *
10656945 TCGGTGATGATATCCAAGTACTAAAGTATAGAATTATATTTTC
1 TCGGTGGTGATATCCAAGTACTAAAGTATAGAATTATAGTTTC
* * * *
10656988 TCGGTGGTGATATTCGAGTATTAAAGTAT-GAATTTTAGTTTC
1 TCGGTGGTGATATCCAAGTACTAAAGTATAGAATTATAGTTTC
*
10657030 TTGGTGGTGATATCCAAG
1 TCGGTGGTGATATCCAAG
10657048 ACATTATCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 26 0.51
43 25 0.49
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (43 bp):
TCGGTGGTGATATCCAAGTACTAAAGTATAGAATTATAGTTTC
Found at i:10657498 original size:167 final size:166
Alignment explanation
Indices: 10657186--10657500 Score: 416
Period size: 167 Copynumber: 1.9 Consensus size: 166
10657176 ATCTTCTCAG
*
10657186 TAGTGATATTCGAGTGCTAAAGCTTGAATTACATTTTCTCGATGGTGATGTTTAAGATCAATTTT
1 TAGTGATATTCGAGTGCTAAAGCTTGAATTACATTTTCTCGATGGTGATATTTAAGATCAATTTT
* * * * *
10657251 CTTTAGCGATAATATATGAAATTATTTGCATCTTTTCGATGGTGATATCCGAGTGTTAAAGCTTG
66 CTTTAGCGACAATATACGAAATTACTTGCATCTTTTCGATGGTGATATCCGAATGCTAAAGCTTG
*
10657316 AATTGTATTTTCTCGATGTCATTTGCATATTCTTAA
131 AATTGCATTTTCTCGATGTCATTTGCATATTCTTAA
* * * * *
10657352 TAGTGATA-TCTGAGTGTTAAAGCTTGAATTGCATTTTTTCGATGGTGATATTTGAGATCATTTT
1 TAGTGATATTC-GAGTGCTAAAGCTTGAATTACATTTTCTCGATGGTGATATTTAAGATCAATTT
* * * * * * * * *
10657416 TCCTTTGGTGGCGATATACGAAGTTACTTGCATTTTTTTGGTGGTGATATCCGAATGCTAAGGCT
65 T-CTTTAGCGACAATATACGAAATTACTTGCATCTTTTCGATGGTGATATCCGAATGCTAAAGCT
10657481 TGAATTGCATTTTCTCGATG
129 TGAATTGCATTTTCTCGATG
10657501 GTGATATTCG
Statistics
Matches: 126, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
165 2 0.02
166 56 0.44
167 68 0.54
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.43
Consensus pattern (166 bp):
TAGTGATATTCGAGTGCTAAAGCTTGAATTACATTTTCTCGATGGTGATATTTAAGATCAATTTT
CTTTAGCGACAATATACGAAATTACTTGCATCTTTTCGATGGTGATATCCGAATGCTAAAGCTTG
AATTGCATTTTCTCGATGTCATTTGCATATTCTTAA
Found at i:10657591 original size:99 final size:99
Alignment explanation
Indices: 10657455--10657740 Score: 322
Period size: 99 Copynumber: 2.9 Consensus size: 99
10657445 GCATTTTTTT
* * * ** * *
10657455 GGTGGTGATATCCGAATGCTAAGGCTTGAATTGCATTTTCTCGATGGTGATATTCGAGTTTTCTT
1 GGTGGTAATATCCGAGTGTTAAAACTTAAATTACATTTTCTCGATGGTGATATTCGAGTTTTCTT
*
10657520 TAGTGGTGATATCCGAAGTCATTTGCATCTCCTC
66 CAGTGGTGATATCCGAAGTCATTTGCATCTCCTC
* * *
10657554 GGTGGTAATATCTGAGTGTTAAAATTTAAATTACATTTTCTCGATAGTGATATTCGAGTTTTCTT
1 GGTGGTAATATCCGAGTGTTAAAACTTAAATTACATTTTCTCGATGGTGATATTCGAGTTTTCTT
* * * *
10657619 CAGTGTTGATATCCGAAATCATTTGCATTTCTTC
66 CAGTGGTGATATCCGAAGTCATTTGCATCTCCTC
* ** * * * * *
10657653 GGTGGTGATATCCGAGTGTTAACGCTTAAAATACAATTTCTTGAAAGGT-ATATTCAAGTTTTCT
1 GGTGGTAATATCCGAGTGTTAAAACTTAAATTACATTTTCTCG-ATGGTGATATTCGAGTTTTCT
* * *
10657717 TCGGTGGCGATATCTGAAGTCATT
65 TCAGTGGTGATATCCGAAGTCATT
10657741 CATATTTTCT
Statistics
Matches: 155, Mismatches: 31, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
99 152 0.98
100 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (99 bp):
GGTGGTAATATCCGAGTGTTAAAACTTAAATTACATTTTCTCGATGGTGATATTCGAGTTTTCTT
CAGTGGTGATATCCGAAGTCATTTGCATCTCCTC
Found at i:10660543 original size:22 final size:22
Alignment explanation
Indices: 10660518--10660563 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10660508 ACAAATTTCG
10660518 ACCAAAATTTAATGAAATAAAA
1 ACCAAAATTTAATGAAATAAAA
*
10660540 ACCAAATTTTAATGAAATAAAA
1 ACCAAAATTTAATGAAATAAAA
10660562 AC
1 AC
10660564 ATACTTAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.61, C:0.11, G:0.04, T:0.24
Consensus pattern (22 bp):
ACCAAAATTTAATGAAATAAAA
Found at i:10664843 original size:11 final size:11
Alignment explanation
Indices: 10664827--10664860 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
10664817 TCTTCGTTAA
10664827 ATTTTAAATAT
1 ATTTTAAATAT
10664838 ATTTTAAA-AT
1 ATTTTAAATAT
10664848 GATTTTAAATAT
1 -ATTTTAAATAT
10664860 A
1 A
10664861 ATAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (11 bp):
ATTTTAAATAT
Found at i:10667748 original size:22 final size:22
Alignment explanation
Indices: 10667720--10667763 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10667710 CTAAATCTTC
*
10667720 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10667742 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10667764 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:10671470 original size:23 final size:25
Alignment explanation
Indices: 10671415--10671472 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
10671405 AAAGGGTTTG
* * *
10671415 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
10671440 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
10671463 GCAATGAAGG
1 GCAATGAAGG
10671473 TTGAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 13 0.43
24 1 0.03
25 16 0.53
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:10671650 original size:22 final size:22
Alignment explanation
Indices: 10671622--10671665 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10671612 CTAAATCTTC
*
10671622 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10671644 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
10671666 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:10671729 original size:2 final size:2
Alignment explanation
Indices: 10671722--10671759 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
10671712 TCCCACATAA
* *
10671722 AT AT AT AT AT AT AT AT AT AT AG AA 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
10671760 TTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10672225 original size:2 final size:2
Alignment explanation
Indices: 10672220--10672265 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
10672210 ATTGACAATA
* * * *
10672220 AT AT AT AA AT AT AT AA AT AT AT AG AA 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
10672262 AT AT
1 AT AT
10672266 TTTTACATAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (2 bp):
AT
Found at i:10672247 original size:18 final size:18
Alignment explanation
Indices: 10672220--10672260 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10672210 ATTGACAATA
*
10672220 ATATATAAATATATAAAT
1 ATATAGAAATATATAAAT
*
10672238 ATATAGAAATATATATAT
1 ATATAGAAATATATAAAT
10672256 ATATA
1 ATATA
10672261 TATATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
ATATAGAAATATATAAAT
Found at i:10672582 original size:4 final size:4
Alignment explanation
Indices: 10672575--10672607 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
10672565 ATATGTATAT
10672575 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG A
10672608 AACAACCACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
ATAG
Found at i:10677522 original size:11 final size:11
Alignment explanation
Indices: 10677506--10677534 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10677496 AATCTCATAA
10677506 GAGATTTGTTT
1 GAGATTTGTTT
10677517 GAGATTTGTTT
1 GAGATTTGTTT
10677528 GAGATTT
1 GAGATTT
10677535 TTCAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:10677648 original size:52 final size:52
Alignment explanation
Indices: 10677561--10677717 Score: 208
Period size: 52 Copynumber: 3.0 Consensus size: 52
10677551 TGGACAAGAA
* * *
10677561 GACTTGCAAAAAAAGAATTCTAAGA-GAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAG-GGATTCTTAATAGGCAAGTTT
* *
10677613 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGGGATTCTTAATAGGCAAATTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
** * * *
10677665 GACTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
10677717 G
1 G
10677718 TATGGTTATA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 87 0.95
53 5 0.05
ACGTcount: A:0.40, C:0.08, G:0.25, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGGAAAGGGATTCTTAATAGGCAAGTTT
Found at i:10688946 original size:18 final size:17
Alignment explanation
Indices: 10688917--10688985 Score: 68
Period size: 17 Copynumber: 4.0 Consensus size: 17
10688907 TTTTTGAAAC
10688917 TTTTATAAAATTTTCTATA
1 TTTTA-AAAATTTT-TATA
* * *
10688936 TTTTGAAAATTTATATT
1 TTTTAAAAATTTTTATA
10688953 TTTTAAAAATTTTT-TA
1 TTTTAAAAATTTTTATA
* *
10688969 TTTTTAAAATGTTTATA
1 TTTTAAAAATTTTTATA
10688986 AATTTAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
16 13 0.32
17 17 0.41
18 7 0.17
19 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (17 bp):
TTTTAAAAATTTTTATA
Found at i:10690631 original size:105 final size:106
Alignment explanation
Indices: 10690498--10690826 Score: 306
Period size: 106 Copynumber: 3.1 Consensus size: 106
10690488 AAAAATTACT
* ** * *
10690498 TAATATTAGACAAGCATGATATTTTGGTAATTATAAATGTAATATTTGA-ATAATTATGAAAACA
1 TAATATTAAACAAATATGATATTTTGGTAATTATAAATGCAATATTTGATA-AATTATCAAAACA
* * ** * * *
10690562 TGATATTTAACAAGCACGATGTTTTT-GTTTTCTAAACATTG
65 TGATATTTAACAAACACAACATTTTTACTTTTATAAACACTG
* ** *
10690603 TATTATTAAACAAATATGATATTTTGGTAATTATAAATGCCGTATTTGATAAATTATCAAAACTT
1 TAATATTAAACAAATATGATATTTTGGTAATTATAAATGCAATATTTGATAAATTATCAAAACAT
* *
10690668 TATATTTAACAAATACAACATTTTTACTTTTATAAACACTG
66 GATATTTAACAAACACAACATTTTTACTTTTATAAACACTG
* * ** * * *
10690709 TAATATTAAACAAATATGACATTTTGGTCATTATAAACACATTTTTTGA-CAATTCATCAAAACA
1 TAATATTAAACAAATATGATATTTTGGTAATTATAAATGCAATATTTGATAAATT-ATCAAAACA
* * ** ** ** *
10690773 TTATATTTAACAAGCATGACATTTTTTGTTTTATAAATGC-C
65 TGATATTTAACAAACACAACATTTTTACTTTTATAAACACTG
10690814 TAATATTAAACAA
1 TAATATTAAACAA
10690827 GCGCGATGTT
Statistics
Matches: 184, Mismatches: 37, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
105 90 0.49
106 94 0.51
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (106 bp):
TAATATTAAACAAATATGATATTTTGGTAATTATAAATGCAATATTTGATAAATTATCAAAACAT
GATATTTAACAAACACAACATTTTTACTTTTATAAACACTG
Found at i:10690795 original size:106 final size:106
Alignment explanation
Indices: 10690498--10690973 Score: 392
Period size: 105 Copynumber: 4.5 Consensus size: 106
10690488 AAAAATTACT
* ** * ** * *
10690498 TAATATTAGACAAGCATGATATTTTGGTAATTATAAATGTAATATTTGAATAATT-ATGAAAACA
1 TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATATTTG-ACAATTCATCAAAACA
* * *
10690562 TGATATTTAACAAGCACG--ATGTTTTTGTTTTCTAAACATTG
65 TTATATTTAACAAGCACGACAT-TTTTTGTTTTATAAACACTG
* * * ** * *
10690603 TATTATTAAACAAATATGATATTTTGGTAATTATAAATGCCGTATTTGATAAATT-ATCAAAACT
1 TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATATTTGA-CAATTCATCAAAACA
** * **
10690667 TTATATTTAACAAATACAACATTTTTACTTTTATAAACACTG
65 TTATATTTAACAAGCACGACATTTTTTGTTTTATAAACACTG
* * * *
10690709 TAATATTAAACAAATATGACATTTTGGTCATTATAAACACATTTTTTGACAATTCATCAAAACAT
1 TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATATTTGACAATTCATCAAAACAT
* ** *
10690774 TATATTTAACAAGCATGACATTTTTTGTTTTATAAATGC-C
66 TATATTTAACAAGCACGACATTTTTTGTTTTATAAACACTG
**** * * * **
10690814 TAATATTAAACAAGCGCGATGTTTTGATCATTATAAATTCAA-ACTTTGACAATTCATCAAAATG
1 TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATA-TTTGACAATTCATCAAAACA
* * *
10690878 TTATGTTTAACAAGTACGAC-TTTTTTGTTTTATAAATA-TCG
65 TTATATTTAACAAGCACGACATTTTTTGTTTTATAAACACT-G
** ** * * * *
10690919 TAATATTAAACATGTACAATGTTTTGGCCATTATAAATGCAATCTTTGACAATTC
1 TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATATTTGACAATTC
10690974 TTTATATACC
Statistics
Matches: 300, Mismatches: 63, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
104 18 0.06
105 183 0.61
106 97 0.32
107 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (106 bp):
TAATATTAAACAAATATGATATTTTGGTCATTATAAATACAATATTTGACAATTCATCAAAACAT
TATATTTAACAAGCACGACATTTTTTGTTTTATAAACACTG
Found at i:10694899 original size:13 final size:13
Alignment explanation
Indices: 10694856--10694900 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
10694846 ATGTAGATCG
*
10694856 TAAAAATCAGACCC
1 TAAAAAT-AAACCC
10694870 TAAAAATAAACCTC
1 TAAAAATAAACC-C
*
10694884 TAAAAATTAACCC
1 TAAAAATAAACCC
10694897 TAAA
1 TAAA
10694901 TTTTACAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (13 bp):
TAAAAATAAACCC
Found at i:10695472 original size:17 final size:17
Alignment explanation
Indices: 10695452--10695487 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10695442 ACTTTGTTAT
*
10695452 TAGTATAACAAGCAAGA
1 TAGTATAACAAGAAAGA
*
10695469 TAGTATAACTAGAAAGA
1 TAGTATAACAAGAAAGA
10695486 TA
1 TA
10695488 AACTATTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.17, T:0.22
Consensus pattern (17 bp):
TAGTATAACAAGAAAGA
Found at i:10700885 original size:84 final size:83
Alignment explanation
Indices: 10700722--10700888 Score: 298
Period size: 84 Copynumber: 2.0 Consensus size: 83
10700712 AGATTAGGCT
*
10700722 TGGGATGTGAAGTAAAAGATGTACGAGATGATAGAAGAAAAAAATGGTGAGAAATATGCCAATGG
1 TGGGATGTAAAGTAAAAGATGTACGAGATGATAGAAGAAAAAAATGGTGAGAAATATGCCAATGG
*
10700787 TTGTTCCTCATTTGTATG
66 TTGTTCCTAATTTGTATG
*
10700805 TGGGATGTAAAGTAAAAGGTGTACGAGATGATAGAAGAAAAAAAATGGTGAGAAATATGCCAATG
1 TGGGATGTAAAGTAAAAGATGTACGAGATGATAGAAG-AAAAAAATGGTGAGAAATATGCCAATG
10700870 GTTGTTCCTAATTTGTATG
65 GTTGTTCCTAATTTGTATG
10700889 AAATATTTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 35 0.44
84 45 0.56
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (83 bp):
TGGGATGTAAAGTAAAAGATGTACGAGATGATAGAAGAAAAAAATGGTGAGAAATATGCCAATGG
TTGTTCCTAATTTGTATG
Found at i:10705084 original size:66 final size:67
Alignment explanation
Indices: 10705008--10705133 Score: 173
Period size: 66 Copynumber: 1.9 Consensus size: 67
10704998 TTGATCCTGA
* * * *
10705008 TCACTCAATTTTGATCTCAATTTAATCTAGAT-TATTTTATTTTTCTAACTCATGGTTTGTTCTC
1 TCACTCAATTTTGATCTCAACTTAATCTAGATCAATTTTACTTTTCTAACTCACGGTTTGTTCTC
10705072 AG
66 AG
* * **
10705074 TCACTCAATTTTGATCTTAGCTTGGTCTAGATCAATTTTACTTTTCTAACTCACGGTTTG
1 TCACTCAATTTTGATCTCAACTTAATCTAGATCAATTTTACTTTTCTAACTCACGGTTTG
10705134 ATCCAGGTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
66 27 0.53
67 24 0.47
ACGTcount: A:0.23, C:0.18, G:0.11, T:0.48
Consensus pattern (67 bp):
TCACTCAATTTTGATCTCAACTTAATCTAGATCAATTTTACTTTTCTAACTCACGGTTTGTTCTC
AG
Found at i:10705158 original size:67 final size:66
Alignment explanation
Indices: 10705033--10705158 Score: 157
Period size: 67 Copynumber: 1.9 Consensus size: 66
10705023 CTCAATTTAA
* * * * *
10705033 TCTAGATTATTTTATTTTTCTAACTCATGGTTTGTTCTCAGTCACTCAATTTTGATCTTAGCTTG
1 TCTAGATAATTTTACTTTTCTAACTCACGGTTTGATCTCAGTCACTCAATTTTAATCTTAGCTTG
10705098 G
66 G
*
10705099 TCTAGATCAATTTTACTTTTCTAACTCACGGTTTGATC-CAGGT-AGCTCAGTTTTAATCTT
1 TCTAGAT-AATTTTACTTTTCTAACTCACGGTTTGATCTCA-GTCA-CTCAATTTTAATCTT
10705159 GACTGGATCC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
66 10 0.20
67 41 0.80
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.47
Consensus pattern (66 bp):
TCTAGATAATTTTACTTTTCTAACTCACGGTTTGATCTCAGTCACTCAATTTTAATCTTAGCTTG
G
Found at i:10705173 original size:67 final size:67
Alignment explanation
Indices: 10705041--10705179 Score: 151
Period size: 67 Copynumber: 2.1 Consensus size: 67
10705031 AATCTAGATT
* * * * *
10705041 ATTTTATTTTTCTAACTCATGGTTTGTTCTCAGTCACTCAATTTTGATCTTAGCTTGGTCTAGAT
1 ATTTTACTTTTCTAACTCACGGTTTGATCTCAGTCACTCAATTTTAATCTTAGCTTGGTCCAGAT
10705106 CA
66 CA
*
10705108 ATTTTACTTTTCTAACTCACGGTTTGATC-CAGGT-AGCTCAGTTTTAATCTT-GAC-TGGATCC
1 ATTTTACTTTTCTAACTCACGGTTTGATCTCA-GTCA-CTCAATTTTAATCTTAG-CTTGG-TCC
10705169 AGATCA
62 AGATCA
*
10705175 TTTTT
1 ATTTT
10705180 GTTCTAACTC
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
66 7 0.11
67 54 0.89
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (67 bp):
ATTTTACTTTTCTAACTCACGGTTTGATCTCAGTCACTCAATTTTAATCTTAGCTTGGTCCAGAT
CA
Found at i:10706398 original size:3 final size:3
Alignment explanation
Indices: 10706392--10706444 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
10706382 ATTTTTTTAC
10706392 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10706440 TTA TT
1 TTA TT
10706445 GTTGTTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10708163 original size:30 final size:30
Alignment explanation
Indices: 10708127--10708193 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10708117 CTATCTCTAT
* * * **
10708127 TGCCACACTATATTTTTTTTCCATGTTGTG
1 TGCCACACTAGACTTTTTTTCCACGTTGCA
*
10708157 TGCCACATTAGACTTTTTTTCCACGTTGCA
1 TGCCACACTAGACTTTTTTTCCACGTTGCA
10708187 TGCCACA
1 TGCCACA
10708194 TTTGCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.42
Consensus pattern (30 bp):
TGCCACACTAGACTTTTTTTCCACGTTGCA
Found at i:10710062 original size:56 final size:56
Alignment explanation
Indices: 10709994--10710099 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 56
10709984 TGCATTTGAA
* * *
10709994 AGATCAAAATCTAAGTCACATCCAACAAATAACAAATAACAAGAAAACATTTAAGT
1 AGATCAAAATCTAAGCCAAATCAAACAAATAACAAATAACAAGAAAACATTTAAGT
* * *
10710050 AGATCAAGATCTAAGCCAAATTAAACAAATAACAAATAACAAGAACACAT
1 AGATCAAAATCTAAGCCAAATCAAACAAATAACAAATAACAAGAAAACAT
10710100 ATGATAGATC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.57, C:0.18, G:0.08, T:0.18
Consensus pattern (56 bp):
AGATCAAAATCTAAGCCAAATCAAACAAATAACAAATAACAAGAAAACATTTAAGT
Found at i:10711298 original size:30 final size:30
Alignment explanation
Indices: 10711242--10711298 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10711232 ACAGGTGTTT
* * *
10711242 AATCATGTGGTTAGGAATGTAGCTTTGTCC
1 AATCATGTAGTTAGGAATGCAACTTTGTCC
*
10711272 AATCGTGTAGTTAGGAATGCAACTTTG
1 AATCATGTAGTTAGGAATGCAACTTTG
10711299 CGTGTCATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (30 bp):
AATCATGTAGTTAGGAATGCAACTTTGTCC
Found at i:10716758 original size:16 final size:16
Alignment explanation
Indices: 10716737--10716767 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10716727 AAAATCATCG
10716737 TAAATCATCATTATCA
1 TAAATCATCATTATCA
10716753 TAAATCATCATTATC
1 TAAATCATCATTATC
10716768 CTTCAAATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATCATCATTATCA
Found at i:10726145 original size:62 final size:61
Alignment explanation
Indices: 10726015--10726432 Score: 539
Period size: 62 Copynumber: 6.8 Consensus size: 61
10726005 TTTTGTAGGA
* ** *
10726015 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ACCTTTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTCTAAGG
*
10726074 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTGATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTT-ATTTCTAAGG
* *
10726136 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTTTGAAATTT-TATTTC---TAAG
10726201 G
61 G
* * *
10726202 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTCGAAA-TTTATTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTCTAAGG
* * *
10726261 AAAATTGATAGTTTCAACTTTTCCCCAAAAACAATTTTTTTTTTTGAAA-TTTATTTCTGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TA-TTTTTTTTTTGAAATTTTATTTCTAAGG
*
10726323 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTCTAAGG
* *
10726380 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTTTTGGAATTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-T-TTTTTTTTGAAATTTT
10726433 TTTATTTTTA
Statistics
Matches: 319, Mismatches: 22, Indels: 32
0.86 0.06 0.09
Matches are distributed among these distances:
56 10 0.03
57 44 0.14
59 58 0.18
60 5 0.02
61 17 0.05
62 103 0.32
63 32 0.10
64 13 0.04
66 37 0.12
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTTTGAAATTTTATTTCTAAGG
Found at i:10726242 original size:187 final size:178
Alignment explanation
Indices: 10726015--10726422 Score: 581
Period size: 187 Copynumber: 2.2 Consensus size: 178
10726005 TTTTGTAGGA
**
10726015 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCTTTTTTTT-GAAAATTTATTTCTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAATATTTTTTTTCG-AAATTTATTTCTAAGGAAAA
* *
10726078 TTGATACTTTCAACTTTTCCCCAAAAA-TA-TTTTTTTTTTGAAATTTTGATTTTTAAGGAAAAT
64 TTGATACTTTCAACTTTTCCCCAAAAACAATTTTTTTTTTTGAAA-TTT-ATTTCTAAGGAAAAT
*
10726141 TGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
127 TGATACTTTCAACTTTTCCCC-AAAA-ATA--TTTTTTGAAAATTTA--TTTC---TAAGG
*
10726202 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTAAGGAAAATT
* *
10726267 GATAGTTTCAACTTTTCCCCAAAAACAATTTTTTTTTTTGAAATTTATTTCTGAGGAAAATTGAT
66 GATACTTTCAACTTTTCCCCAAAAACAATTTTTTTTTTTGAAATTTATTTCTAAGGAAAATTGAT
10726332 ACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
131 ACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
10726380 AAAATTGATACTTTCAACTTTTCCCTAAAAATATATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATAT-T-TTTTTT
10726423 TTGGAATTTT
Statistics
Matches: 207, Mismatches: 8, Indels: 19
0.88 0.03 0.08
Matches are distributed among these distances:
178 39 0.19
179 1 0.00
180 6 0.03
181 4 0.02
183 14 0.07
185 3 0.01
186 4 0.02
187 114 0.55
188 8 0.04
189 14 0.07
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (178 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTCGAAATTTATTTCTAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAACAATTTTTTTTTTTGAAATTTATTTCTAAGGAAAATTGAT
ACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAAGG
Found at i:10726583 original size:5 final size:5
Alignment explanation
Indices: 10726573--10726599 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
10726563 GCTCGGATCG
10726573 CGGCT CGGCT CGGCT CGGCT CGGCT CG
1 CGGCT CGGCT CGGCT CGGCT CGGCT CG
10726600 AAGGGGGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.41, T:0.19
Consensus pattern (5 bp):
CGGCT
Found at i:10726965 original size:31 final size:31
Alignment explanation
Indices: 10726922--10726982 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
10726912 GGGCAGGTCG
* ** *
10726922 CCGGAAACTTCAATGTTGGCCGGAATTTTCA
1 CCGGAAAATTCAAACTTCGCCGGAATTTTCA
10726953 CCGGAAAATTCAAACTTCGCCGGAATTTTC
1 CCGGAAAATTCAAACTTCGCCGGAATTTTC
10726983 GTCGGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (31 bp):
CCGGAAAATTCAAACTTCGCCGGAATTTTCA
Found at i:10727489 original size:9 final size:9
Alignment explanation
Indices: 10727442--10727500 Score: 52
Period size: 8 Copynumber: 6.7 Consensus size: 9
10727432 AATCTAATAA
10727442 AAAATAAAT
1 AAAATAAAT
10727451 -AAATAAAT
1 AAAATAAAT
*
10727459 -AAATATAT
1 AAAATAAAT
10727467 ACATAAT-AAT
1 A-A-AATAAAT
*
10727477 AAAATATAT
1 AAAATAAAT
*
10727486 AAAATACAT
1 AAAATAAAT
10727495 AAAATA
1 AAAATA
10727501 CAAAATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
8 18 0.43
9 17 0.40
10 4 0.10
11 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATAAAT
Found at i:10727501 original size:9 final size:9
Alignment explanation
Indices: 10727471--10727512 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
10727461 ATATATACAT
10727471 AATA-ATAA
1 AATACATAA
*
10727479 AATATATAA
1 AATACATAA
10727488 AATACATAA
1 AATACATAA
*
10727497 AATACAAAA
1 AATACATAA
10727506 TAATACA
1 -AATACA
10727513 GGACAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 4 0.13
9 20 0.67
10 6 0.20
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (9 bp):
AATACATAA
Found at i:10727679 original size:1 final size:1
Alignment explanation
Indices: 10727675--10727749 Score: 78
Period size: 1 Copynumber: 75.0 Consensus size: 1
10727665 ATTTTTTTGG
* ** * * * * *
10727675 TTTTTTTTTTGTTTTTTGGTTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTGTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10727740 TTTTTTTTTT
1 TTTTTTTTTT
10727750 ACCAAAGCTC
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:10727680 original size:8 final size:8
Alignment explanation
Indices: 10727678--10727748 Score: 101
Period size: 8 Copynumber: 8.9 Consensus size: 8
10727668 TTTTTGGTTT
10727678 TTTTTTTG
1 TTTTTTTG
*
10727686 TTTTTTGGTT
1 TTTTTT--TG
10727696 TTTTTTTG
1 TTTTTTTG
10727704 TTTTTTTG
1 TTTTTTTG
10727712 TTTTTTTG
1 TTTTTTTG
10727720 -TTTTTTG
1 TTTTTTTG
10727727 TTTTTTTG
1 TTTTTTTG
10727735 TTTTTTT-
1 TTTTTTTG
10727742 TTTTTTT
1 TTTTTTT
10727749 TACCAAAGCT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
7 14 0.24
8 37 0.64
10 7 0.12
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTTTG
Found at i:10727691 original size:19 final size:19
Alignment explanation
Indices: 10727667--10727749 Score: 98
Period size: 19 Copynumber: 4.3 Consensus size: 19
10727657 AACTCAACAT
10727667 TTTTTTGGTTTTTTTTTTG
1 TTTTTTGGTTTTTTTTTTG
10727686 TTTTTTGG-TTTTTTTTTG
1 TTTTTTGGTTTTTTTTTTG
*
10727704 TTTTTTTGTTTTTTTGTTTTTTG
1 -TTTTTTG--GTTTT-TTTTTTG
*
10727727 TTTTTTTGTTTTTTTTTT-
1 TTTTTTGGTTTTTTTTTTG
10727745 TTTTT
1 TTTTT
10727750 ACCAAAGCTC
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
18 15 0.27
19 21 0.38
20 4 0.07
22 9 0.16
23 7 0.12
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (19 bp):
TTTTTTGGTTTTTTTTTTG
Found at i:10727999 original size:40 final size:39
Alignment explanation
Indices: 10727756--10728406 Score: 926
Period size: 40 Copynumber: 16.0 Consensus size: 39
10727746 TTTTACCAAA
10727756 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGAC-TTTGAAAAGTAAATT
* *
10727798 GCTCCTCTAAACAGAGGTATCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
*
10727839 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTT-GAAAAGTAAATT
* *
10727881 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATT
10727922 GCTCCTCTAAACAGAGGCAACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCAACGACTTT-GAAAAGTAAATT
10727961 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
10728001 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCA--ACGACTTTGAAAAGTAAATT
10728042 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
10728082 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATT
*
10728123 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
10728163 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAATT
10728205 GCTCCTCTAAACAGAGGCAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
10728245 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG--CAACGACTTTGAAAAGTAAATT
*
10728286 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
10728326 GCTCCTCTAAACAGAGGCAACGAACTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCAACG-ACTTTGAAAAGTAAATT
*
10728366 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAAT
1 GCTCCTCTAAACAGAGG--CAACGACTTT-GAAAAGTAAAT
10728407 ACTCCTAGAC
Statistics
Matches: 564, Mismatches: 23, Indels: 44
0.89 0.04 0.07
Matches are distributed among these distances:
39 53 0.09
40 207 0.37
41 185 0.33
42 118 0.21
44 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (39 bp):
GCTCCTCTAAACAGAGGCAACGACTTTGAAAAGTAAATT
Found at i:10728061 original size:81 final size:81
Alignment explanation
Indices: 10727756--10728406 Score: 1030
Period size: 81 Copynumber: 8.0 Consensus size: 81
10727746 TTTTACCAAA
*
10727756 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTATCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
10727821 G-ACTTTGGAAAGTAAATT
63 GAACTTTGAAAAGTAAATT
* *
10727839 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
*
10727904 G-ACTTTGGAAAGTAAATT
63 GAACTTTGAAAAGTAAATT
10727922 GCTCCTCTAAACAGAGGCA--ACGACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10727984 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
10728001 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
10728066 CTTTGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
*
10728082 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
*
10728147 CTTGGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
*
10728163 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGA
10728228 ACTTTGAAAAGTAAATT
65 ACTTTGAAAAGTAAATT
*
10728245 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
*
10728310 CTTGGAAAAGTAAATT
66 CTTTGAAAAGTAAATT
* *
10728326 GCTCCTCTAAACAGAGGCA--ACGAACTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
10728389 G-ACTTTGGAAAAGTAAAT
63 GAACTTT-GAAAAGTAAAT
10728407 ACTCCTAGAC
Statistics
Matches: 543, Mismatches: 13, Indels: 25
0.93 0.02 0.04
Matches are distributed among these distances:
78 4 0.01
79 38 0.07
80 61 0.11
81 249 0.46
82 98 0.18
83 93 0.17
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
CTTTGAAAAGTAAATT
Done.