Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 66 of 109
Found at i:13113836 original size:44 final size:43
Alignment explanation
Indices: 13113734--13113839 Score: 140
Period size: 44 Copynumber: 2.4 Consensus size: 43
13113724 GATCACCAAC
* *
13113734 AATTTAATAGAAATCATTTATAATTTAATAGTAAATTATTCAT
1 AATTTAATAGAAATCATTCATAAATTAATAGTAAATTATTCAT
* * * *
13113777 AACTTAATGACAAATCATTCATAAATTAGTAGTAAATTATTGAT
1 AATTTAAT-AGAAATCATTCATAAATTAATAGTAAATTATTCAT
13113821 AATTTAATAGTAAATCATT
1 AATTTAATAG-AAATCATT
13113840 GATAGCTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 8 0.15
44 45 0.85
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (43 bp):
AATTTAATAGAAATCATTCATAAATTAATAGTAAATTATTCAT
Found at i:13113843 original size:22 final size:22
Alignment explanation
Indices: 13113734--13113839 Score: 117
Period size: 22 Copynumber: 4.9 Consensus size: 22
13113724 GATCACCAAC
*
13113734 AATTTAATAG-AAATCATTTAT
1 AATTTAATAGTAAATCATTCAT
*
13113755 AATTTAATAGTAAATTATTCAT
1 AATTTAATAGTAAATCATTCAT
* *
13113777 AACTTAAT-GACAAATCATTCAT
1 AATTTAATAG-TAAATCATTCAT
* * * *
13113799 AAATTAGTAGTAAATTATTGAT
1 AATTTAATAGTAAATCATTCAT
13113821 AATTTAATAGTAAATCATT
1 AATTTAATAGTAAATCATT
13113840 GATAGCTTAT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
21 11 0.16
22 57 0.83
23 1 0.01
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (22 bp):
AATTTAATAGTAAATCATTCAT
Found at i:13114217 original size:11 final size:11
Alignment explanation
Indices: 13114159--13114235 Score: 50
Period size: 11 Copynumber: 7.0 Consensus size: 11
13114149 AAAAAAAATG
13114159 ATAACTTAATA
1 ATAACTTAATA
* *
13114170 ATTAA-TCAGTA
1 A-TAACTTAATA
13114181 ATAACTTACA-A
1 ATAACTTA-ATA
* * *
13114192 TTAAATTAATG
1 ATAACTTAATA
13114203 ATAACTTAATA
1 ATAACTTAATA
* * *
13114214 ATAAATTAGTT
1 ATAACTTAATA
13114225 ATAACTTAATA
1 ATAACTTAATA
13114236 GTAAATTAGT
Statistics
Matches: 46, Mismatches: 16, Indels: 8
0.66 0.23 0.11
Matches are distributed among these distances:
10 4 0.09
11 39 0.85
12 3 0.07
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.38
Consensus pattern (11 bp):
ATAACTTAATA
Found at i:13114241 original size:44 final size:44
Alignment explanation
Indices: 13114155--13114243 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
13114145 TAATAAAAAA
* *
13114155 AATGATAACTTAATAATTAATCAGTAATAACTTACAATTAAATT
1 AATGATAACTTAATAATAAATCAGTAATAACTTACAAGTAAATT
* *
13114199 AATGATAACTTAATAATAAATTAGTTATAACTTA-ATAGTAAATT
1 AATGATAACTTAATAATAAATCAGTAATAACTTACA-AGTAAATT
13114243 A
1 A
13114244 GTTTTAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.51, C:0.07, G:0.06, T:0.37
Consensus pattern (44 bp):
AATGATAACTTAATAATAAATCAGTAATAACTTACAAGTAAATT
Found at i:13114246 original size:22 final size:22
Alignment explanation
Indices: 13114159--13114246 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
13114149 AAAAAAAATG
* * *
13114159 ATAACTTAATAATTAATCAGTA
1 ATAACTTAATAATAAATTAGTT
* * *
13114181 ATAACTTACA-ATTAAATTAATG
1 ATAACTTA-ATAATAAATTAGTT
13114203 ATAACTTAATAATAAATTAGTT
1 ATAACTTAATAATAAATTAGTT
*
13114225 ATAACTTAATAGTAAATTAGTT
1 ATAACTTAATAATAAATTAGTT
13114247 TTAATTTAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 1 0.02
22 53 0.96
23 1 0.02
ACGTcount: A:0.49, C:0.07, G:0.06, T:0.39
Consensus pattern (22 bp):
ATAACTTAATAATAAATTAGTT
Found at i:13120249 original size:26 final size:27
Alignment explanation
Indices: 13120220--13120274 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
13120210 ATAATATCAA
*
13120220 AATATCAAAATCATT-CATGTAATCCC
1 AATATCAAAACCATTACATGTAATCCC
*
13120246 AATATCAAGACCATTCACATGTAATCCC
1 AATATCAAAACCATT-ACATGTAATCCC
13120274 A
1 A
13120275 CAAATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.52
28 12 0.48
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.27
Consensus pattern (27 bp):
AATATCAAAACCATTACATGTAATCCC
Found at i:13124190 original size:23 final size:23
Alignment explanation
Indices: 13124160--13124203 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13124150 TTTCCTCATA
13124160 TTTCTTTTCTCCCTCTCTCTCCT
1 TTTCTTTTCTCCCTCTCTCTCCT
* *
13124183 TTTCTTTTTTCCCTCTTTCTC
1 TTTCTTTTCTCCCTCTCTCTC
13124204 TCTCTAGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (23 bp):
TTTCTTTTCTCCCTCTCTCTCCT
Found at i:13124725 original size:11 final size:11
Alignment explanation
Indices: 13124709--13124745 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
13124699 TTAATAGAAC
13124709 ATAATAAAATA
1 ATAATAAAATA
13124720 ATAATAAAATA
1 ATAATAAAATA
13124731 ATAA-AAAGATA
1 ATAATAAA-ATA
13124742 ATAA
1 ATAA
13124746 ATGAACAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 3 0.12
11 22 0.88
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
ATAATAAAATA
Found at i:13124733 original size:19 final size:19
Alignment explanation
Indices: 13124709--13124746 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
13124699 TTAATAGAAC
13124709 ATAATAAAATA-ATAATAAA
1 ATAATAAAA-AGATAATAAA
13124728 ATAATAAAAAGATAATAAA
1 ATAATAAAAAGATAATAAA
13124747 TGAACAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (19 bp):
ATAATAAAAAGATAATAAA
Found at i:13125325 original size:89 final size:87
Alignment explanation
Indices: 13125096--13125396 Score: 283
Period size: 89 Copynumber: 3.4 Consensus size: 87
13125086 GATGCTTACA
* * * * * * * *
13125096 ACTTTTGAAAAATATATAAGG-CTCATCTAAATAGA-ACTCTACAACTTTTGAAAAATATAGAAG
1 ACTTTTGAAAAATAAACAAGGTTTC-TCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAAG
* *
13125159 CTCCTCTAGACAGAGGCTCAATG
65 CTCTTCTAAACAGAGGCTCAATG
* * * *
13125182 ACTTTTGAAAAATAAACAAGACTCTT-T-TAAACAGATGCTGAACAACTTTAGAAAAATAAACAA
1 ACTTTTGAAAAATAAACAAG-GT-TTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAA
* *
13125245 TGCTCTTCCAAATAGAGGCTCAATG
64 -GCTCTTCTAAACAGAGGCTCAATG
* *
13125270 ACTTTAGAAAAAATAAACAAGGTTTCTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAACAAG
1 ACTTTTG-AAAAATAAACAAGGTTTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAA-
*
13125335 GCT-TCTCTAAACAGAGGCTCAA-A
64 GCTCT-TCTAAACAGAGGCTCAATG
* * *
13125358 ATTTTTGAAAAATAAATAAGG-TTCATCTAAATAGAGGCT
1 ACTTTTGAAAAATAAACAAGGTTTC-TCTAAACAGAGGCT
13125397 TTTTTTTAAC
Statistics
Matches: 176, Mismatches: 29, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
86 28 0.16
87 50 0.28
88 34 0.19
89 64 0.36
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (87 bp):
ACTTTTGAAAAATAAACAAGGTTTCTCTAAACAGAGGCTCAACAACTTTTGAAAAATAAACAAGC
TCTTCTAAACAGAGGCTCAATG
Found at i:13125387 original size:43 final size:43
Alignment explanation
Indices: 13125093--13125396 Score: 272
Period size: 44 Copynumber: 7.0 Consensus size: 43
13125083 GTAGATGCTT
* * * * *
13125093 ACAACTTTTGAAAAATATATAAGGCTCATCTAAATAGA-ACTCT
1 ACAACTTTTGAAAAATAAACAAGGCTC-TCTAAACAGAGGCTCA
* * *
13125136 ACAACTTTTGAAAAATATAGAA-GCTCCTCTAGACAGAGGCTCA
1 ACAACTTTTGAAAAATAAACAAGGCT-CTCTAAACAGAGGCTCA
** * * * *
13125179 ATGACTTTTGAAAAATAAACAAGACTCTTTTAAACAGATGCTGA
1 ACAACTTTTGAAAAATAAACAAGGCTC-TCTAAACAGAGGCTCA
* * * *
13125223 ACAACTTTAGAAAAATAAACAATGCTCTTCCAAATAGAGGCTCA
1 ACAACTTTTGAAAAATAAACAAGGCTC-TCTAAACAGAGGCTCA
** * *
13125267 ATGACTTTAGAAAAAATAAACAAGGTTTCTCTAAACAGAGGCTCA
1 ACAACTTTTG-AAAAATAAACAAGG-CTCTCTAAACAGAGGCTCA
*
13125312 ACGACTTTTGAAAAATAAACAAGGCTTCTCTAAACAGAGGCTCA
1 ACAACTTTTGAAAAATAAACAAGGC-TCTCTAAACAGAGGCTCA
* * * *
13125356 A-AATTTTTGAAAAATAAATAAGGTTCATCTAAATAGAGGCT
1 ACAACTTTTGAAAAATAAACAAGGCTC-TCTAAACAGAGGCT
13125397 TTTTTTTAAC
Statistics
Matches: 215, Mismatches: 38, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
42 13 0.06
43 76 0.35
44 89 0.41
45 35 0.16
46 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (43 bp):
ACAACTTTTGAAAAATAAACAAGGCTCTCTAAACAGAGGCTCA
Found at i:13147675 original size:22 final size:22
Alignment explanation
Indices: 13147650--13147703 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
13147640 TTAATCATCA
* *
13147650 ATAACTTAATAGTTAATTA-ATG
1 ATAATTTAATAGTAAATTATA-G
13147672 ATAATTTAATAGTAAATTATAG
1 ATAATTTAATAGTAAATTATAG
13147694 ATAATTTAAT
1 ATAATTTAAT
13147704 TTAAATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (22 bp):
ATAATTTAATAGTAAATTATAG
Found at i:13147717 original size:21 final size:21
Alignment explanation
Indices: 13147650--13147718 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
13147640 TTAATCATCA
* * *
13147650 ATAACTTAATAGTTAATTAATG
1 ATAATTTAATAG-TAAATGATG
*
13147672 ATAATTTAATAGTAAATTATAG
1 ATAATTTAATAGTAAATGAT-G
*
13147694 ATAATTTAAT-TTAAATCGATG
1 ATAATTTAATAGTAAAT-GATG
13147715 ATAA
1 ATAA
13147719 CTTGATAATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.40
22 24 0.60
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.41
Consensus pattern (21 bp):
ATAATTTAATAGTAAATGATG
Found at i:13147871 original size:22 final size:22
Alignment explanation
Indices: 13147738--13147888 Score: 78
Period size: 22 Copynumber: 6.9 Consensus size: 22
13147728 GAGTCATAGT
*
13147738 TAACTTAGTAATAAA-TATGTGA
1 TAACTTAGTAGTAAATTA-GTGA
* * *
13147760 TAATTTTGTAGTAAA-TAATCGA
1 TAACTTAGTAGTAAATTAGT-GA
*
13147782 -AA-TTAAGTAGTAAATTAATGA
1 TAACTT-AGTAGTAAATTAGTGA
* * * *
13147803 TAACATAATAGTAAATGCA-TAA
1 TAACTTAGTAGTAAAT-TAGTGA
** * * * *
13147825 TAAGATAATAGTAAATCACTAA
1 TAACTTAGTAGTAAATTAGTGA
*
13147847 TAACTTAGTTGTAAATTAGTGA
1 TAACTTAGTAGTAAATTAGTGA
*
13147869 TAATTTAGTAGTAAATTAGT
1 TAACTTAGTAGTAAATTAGT
13147889 TAATTATTGA
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.02
21 15 0.15
22 84 0.82
23 2 0.02
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (22 bp):
TAACTTAGTAGTAAATTAGTGA
Found at i:13147945 original size:22 final size:21
Alignment explanation
Indices: 13147920--13148136 Score: 105
Period size: 22 Copynumber: 9.9 Consensus size: 21
13147910 TAAAGCATCA
13147920 ATAAATTAATAGTAAATCAGTT
1 ATAAATTAATAGTAAATCA-TT
* * ** *
13147942 ATAATTTTATAACAAATAATT
1 ATAAATTAATAGTAAATCATT
* * * * *
13147963 AGTAATTTAGTAATAAATTATC
1 A-TAAATTAATAGTAAATCATT
*
13147985 A-ACAATTTAATAGTAAGTCATT
1 ATA-AA-TTAATAGTAAATCATT
* * *
13148007 CATAACTTAACAGTAGATCATT
1 -ATAAATTAATAGTAAATCATT
* *
13148029 CATAAATTAGTAGTAAATCAAT
1 -ATAAATTAATAGTAAATCATT
*
13148051 ACTAATTTAATAGTAAATCATT
1 A-TAAATTAATAGTAAATCATT
* * *
13148073 AATAACTTAGTAGTATATCATT
1 -ATAAATTAATAGTAAATCATT
** *
13148095 GATAGTTTAGTAGTAAATCACTT
1 -ATAAATTAATAGTAAATCA-TT
*
13148118 AT-AATATAATATTAAATCA
1 ATAAAT-TAATAGTAAATCA
13148137 ATGATATCTT
Statistics
Matches: 147, Mismatches: 39, Indels: 18
0.72 0.19 0.09
Matches are distributed among these distances:
20 1 0.01
21 6 0.04
22 134 0.91
23 5 0.03
24 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (21 bp):
ATAAATTAATAGTAAATCATT
Found at i:13148071 original size:44 final size:44
Alignment explanation
Indices: 13148008--13148142 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 44
13147998 TAAGTCATTC
* * * *
13148008 ATAACTTAACAGTAGATCATTCATAAATTAGTAGTAAATCAAT-
1 ATAATTTAATAGTAAATCATTAATAAATTAGTAGTAAATCAATG
* * *
13148051 ACTAATTTAATAGTAAATCATTAATAACTTAGTAGTATATCATTG
1 A-TAATTTAATAGTAAATCATTAATAAATTAGTAGTAAATCAATG
* * * *
13148096 ATAGTTTAGTAGTAAATCACTT-AT-AATATAATATTAAATCAATG
1 ATAATTTAATAGTAAATCA-TTAATAAAT-TAGTAGTAAATCAATG
13148140 ATA
1 ATA
13148143 TCTTCATTGT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.04
44 68 0.92
45 3 0.04
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (44 bp):
ATAATTTAATAGTAAATCATTAATAAATTAGTAGTAAATCAATG
Found at i:13148093 original size:66 final size:66
Alignment explanation
Indices: 13147988--13148136 Score: 183
Period size: 66 Copynumber: 2.3 Consensus size: 66
13147978 AATTATCAAC
* *
13147988 AATTTAATAGTAAGTCATTCATAACTTAACAGTAGATCATTCATAAATTAGTAGTAAATCA-ATA
1 AATTTAATAGTAAATCATTAATAACTTAACAGTAGATCATTCATAAATTAGTAGTAAATCACATA
13148052 CT
66 -T
** * * ** *
13148054 AATTTAATAGTAAATCATTAATAACTTAGTAGTATATCATTGATAGTTTAGTAGTAAATCACTTA
1 AATTTAATAGTAAATCATTAATAACTTAACAGTAGATCATTCATAAATTAGTAGTAAATCACATA
13148119 T
66 T
* *
13148120 AATATAATATTAAATCA
1 AATTTAATAGTAAATCA
13148137 ATGATATCTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 69 0.97
67 2 0.03
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (66 bp):
AATTTAATAGTAAATCATTAATAACTTAACAGTAGATCATTCATAAATTAGTAGTAAATCACATA
T
Found at i:13148518 original size:21 final size:20
Alignment explanation
Indices: 13148445--13148609 Score: 78
Period size: 21 Copynumber: 7.8 Consensus size: 20
13148435 ATAAGTTACT
* *
13148445 AAAAGGTTACTAAAATTCCATC
1 AAAA-GTTACCAAAATT-TATC
*
13148467 AAGAAGTTACCAAAAATTTATT
1 AA-AAGTTACC-AAAATTTATC
*
13148489 AAAAATTACCAAAATTGTATC
1 AAAAGTTACCAAAATT-TATC
* *
13148510 AATAGTTACCAAAATTATATT
1 AAAAGTTACCAAAATT-TATC
* * * ** *
13148531 ATAAGTTACTAAACTAAAAAC
1 AAAAGTTACCAAAAT-TTATC
* * *
13148552 GAATGTTAACAAAAGTTATATC
1 AAAAGTTACCAAAA-TT-TATC
*
13148574 AAAAGTTATCAAAATTTTATC
1 AAAAGTTACCAAAA-TTTATC
* *
13148595 AAATGTTATCAAAAT
1 AAAAGTTACCAAAAT
13148610 CAAAATAATA
Statistics
Matches: 106, Mismatches: 31, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
20 7 0.07
21 64 0.60
22 27 0.25
23 8 0.08
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
AAAAGTTACCAAAATTTATC
Found at i:13148583 original size:10 final size:10
Alignment explanation
Indices: 13148556--13148608 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
13148546 AAAAACGAAT
*
13148556 GTTAACAAAA
1 GTTATCAAAA
13148566 GTTATATCAAAA
1 G-T-TATCAAAA
13148578 GTTATCAAAA
1 GTTATCAAAA
* *
13148588 TTTTATCAAAT
1 -GTTATCAAAA
13148599 GTTATCAAAA
1 GTTATCAAAA
13148609 TCAAAATAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 17 0.49
11 10 0.29
12 8 0.23
ACGTcount: A:0.49, C:0.09, G:0.08, T:0.34
Consensus pattern (10 bp):
GTTATCAAAA
Found at i:13148595 original size:11 final size:11
Alignment explanation
Indices: 13148570--13148609 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
13148560 ACAAAAGTTA
13148570 TATCAAAA-GT
1 TATCAAAATGT
*
13148580 TATCAAAATTT
1 TATCAAAATGT
13148591 TATC-AAATGT
1 TATCAAAATGT
13148601 TATCAAAAT
1 TATCAAAAT
13148610 CAAAATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (11 bp):
TATCAAAATGT
Found at i:13148705 original size:21 final size:20
Alignment explanation
Indices: 13148681--13148721 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13148671 TAATATTTAT
13148681 AATTA-TTATTATAATATAAAA
1 AATTATTTATTA-AA-ATAAAA
13148702 AATTATTTATTAAAATAAAA
1 AATTATTTATTAAAATAAAA
13148722 TTTTAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 7 0.37
22 6 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATTATTTATTAAAATAAAA
Found at i:13148908 original size:2 final size:2
Alignment explanation
Indices: 13148903--13148940 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
13148893 TCTTTTCAAC
*
13148903 AT AT AT AT AT AT AT AT AT AT TT 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
13148941 GATCTTTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:13152825 original size:20 final size:20
Alignment explanation
Indices: 13152800--13152839 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13152790 GGTGCTGTTT
13152800 AGGCCCTGGGTTTGAGGTGG
1 AGGCCCTGGGTTTGAGGTGG
13152820 AGGCCCTGGGTTTGAGGTGG
1 AGGCCCTGGGTTTGAGGTGG
13152840 CCTTCATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.50, T:0.25
Consensus pattern (20 bp):
AGGCCCTGGGTTTGAGGTGG
Found at i:13153796 original size:21 final size:21
Alignment explanation
Indices: 13153770--13153833 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
13153760 TGAAACCTGA
13153770 GGGGGGAACTCCCGTATGAGG
1 GGGGGGAACTCCCGTATGAGG
13153791 GGGGGGAACTCCCGTATGAGG
1 GGGGGGAACTCCCGTATGAGG
*
13153812 GGGGGTAACTCCCGTATGAGG
1 GGGGGGAACTCCCGTATGAGG
13153833 G
1 G
13153834 TCTGGAGCTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.19, C:0.19, G:0.47, T:0.16
Consensus pattern (21 bp):
GGGGGGAACTCCCGTATGAGG
Found at i:13156881 original size:11 final size:10
Alignment explanation
Indices: 13156854--13156921 Score: 64
Period size: 10 Copynumber: 6.4 Consensus size: 10
13156844 ATGTCATGTT
13156854 AATTTTAAAATA
1 AATTTT-AAA-A
13156866 AATTTTCAAAA
1 AATTTT-AAAA
13156877 AATTTTAAAA
1 AATTTTAAAA
13156887 AATTCTTAAAA
1 AATT-TTAAAA
*
13156898 AATTGTAAAA
1 AATTTTAAAA
** *
13156908 GTTTTTTAAA
1 AATTTTAAAA
13156918 AATT
1 AATT
13156922 CTATAAATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
10 21 0.45
11 17 0.36
12 9 0.19
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:13156897 original size:21 final size:21
Alignment explanation
Indices: 13156854--13156907 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
13156844 ATGTCATGTT
13156854 AATTTTAAAATAAATTTTCAAAA
1 AATTTT-AAA-AAATTTTCAAAA
13156877 AATTTTAAAAAATTCTT-AAAA
1 AATTTTAAAAAATT-TTCAAAA
*
13156898 AATTGTAAAA
1 AATTTTAAAA
13156908 GTTTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 18 0.62
22 5 0.17
23 6 0.21
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTTTAAAAAATTTTCAAAA
Found at i:13156898 original size:12 final size:11
Alignment explanation
Indices: 13156854--13156899 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
13156844 ATGTCATGTT
13156854 AATTTTAAAATA
1 AATTTTAAAA-A
*
13156866 AATTTTCAAAA
1 AATTTTAAAAA
13156877 AATTTT-AAAA
1 AATTTTAAAAA
13156887 AATTCTTAAAAA
1 AATT-TTAAAAA
13156899 A
1 A
13156900 TTGTAAAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 8 0.26
11 9 0.29
12 14 0.45
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (11 bp):
AATTTTAAAAA
Found at i:13156916 original size:21 final size:21
Alignment explanation
Indices: 13156865--13156919 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
13156855 ATTTTAAAAT
* *
13156865 AAATTTTCAAAAAATTTTAAA
1 AAATTTTTAAAAAATTGTAAA
*
13156886 AAATTCTTAAAAAATTGTAAA
1 AAATTTTTAAAAAATTGTAAA
**
13156907 AGTTTTTTAAAAA
1 AAATTTTTAAAAA
13156920 TTCTATAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
AAATTTTTAAAAAATTGTAAA
Found at i:13157057 original size:19 final size:17
Alignment explanation
Indices: 13157026--13157063 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
13157016 GAAAATTTTG
13157026 ATTTTTTTCTTTTTAGA
1 ATTTTTTTCTTTTTAGA
13157043 ATTTTTTTCAATTTTTAGA
1 ATTTTTTTC--TTTTTAGA
13157062 AT
1 AT
13157064 GTTTCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
19 10 0.53
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (17 bp):
ATTTTTTTCTTTTTAGA
Found at i:13157124 original size:20 final size:21
Alignment explanation
Indices: 13157101--13157167 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
13157091 TTTCAAAAAA
* *
13157101 TTTTAAAAATTTTTATATATT
1 TTTTAAAAATTTTCAAATATT
*
13157122 TTTTTAAAA-TTTCAAATA-T
1 TTTTAAAAATTTTCAAATATT
* *
13157141 TTTTAAATAATTTT-AGATTTT
1 TTTTAAA-AATTTTCAAATATT
13157162 TTTTAA
1 TTTTAA
13157168 TTTTAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 7 0.19
20 12 0.32
21 18 0.49
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTAAAAATTTTCAAATATT
Found at i:13157132 original size:30 final size:30
Alignment explanation
Indices: 13157097--13157154 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13157087 AATTTTTCAA
* * *
13157097 AAAATTTTAAAAATTTTTATATATTTTTTT
1 AAAATTTCAAAAATTTTTAAATAATTTTTT
*
13157127 AAAATTTCAAATATTTTTAAATAATTTT
1 AAAATTTCAAAAATTTTTAAATAATTTT
13157155 AGATTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
AAAATTTCAAAAATTTTTAAATAATTTTTT
Found at i:13157145 original size:40 final size:39
Alignment explanation
Indices: 13157091--13157167 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 39
13157081 TTATCTAATT
*
13157091 TTTCAAAAAATTTTAAA-AATTTTTATATATTTTTTTAAAA
1 TTTCAAAAAATTTTAAATAA-TTTTAGAT-TTTTTTTAAAA
* *
13157131 TTTCAAATATTTTTAAATAATTTTAGATTTTTTTTAA
1 TTTCAAAAAATTTTAAATAATTTTAGATTTTTTTTAA
13157168 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 9 0.27
40 22 0.67
41 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (39 bp):
TTTCAAAAAATTTTAAATAATTTTAGATTTTTTTTAAAA
Found at i:13157168 original size:17 final size:16
Alignment explanation
Indices: 13157148--13157179 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
13157138 TATTTTTAAA
13157148 TAATTTTAGATTTTTTT
1 TAATTTTA-ATTTTTTT
13157165 TAATTTTAATTTTTT
1 TAATTTTAATTTTTT
13157180 AATTTTTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TAATTTTAATTTTTTT
Found at i:13157272 original size:25 final size:25
Alignment explanation
Indices: 13157244--13157332 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 25
13157234 TAGGTTTTTA
13157244 TTAAATTTTTAATTTTTTTTAATTT
1 TTAAATTTTTAATTTTTTTTAATTT
** *
13157269 TTAAAAATAT-ATTTTTTTATAATTT
1 TTAAATTTTTAATTTTTTT-TAATTT
* * *
13157294 TAAAATTATTTCA-TTTTTTTATTTT
1 TTAAATT-TTTAATTTTTTTTAATTT
13157319 TTAAAAATTTTTAA
1 TT--AAATTTTTAA
13157333 AATTTTTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
24 8 0.16
25 23 0.47
26 12 0.24
27 6 0.12
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (25 bp):
TTAAATTTTTAATTTTTTTTAATTT
Found at i:13157328 original size:24 final size:23
Alignment explanation
Indices: 13157257--13157328 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
13157247 AATTTTTAAT
* *
13157257 TTTTTTTAATTTTTAAAAATATA
1 TTTTTTTATTTTTTAAAAATTTA
*
13157280 TTTTTTTATAATTTTAAAATTATTTCA
1 TTTTTTTAT-TTTTTAAAA--ATTT-A
13157307 TTTTTTTATTTTTTAAAAATTT
1 TTTTTTTATTTTTTAAAAATTT
13157329 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 8 0.20
24 12 0.29
26 11 0.27
27 10 0.24
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTTTTATTTTTTAAAAATTTA
Found at i:13157348 original size:10 final size:10
Alignment explanation
Indices: 13157314--13157371 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
13157304 TCATTTTTTT
*
13157314 ATTTTTTAAA
1 ATTTTTTAGA
*
13157324 AATTTTTA-A
1 ATTTTTTAGA
*
13157333 AATTTTTAGA
1 ATTTTTTAGA
13157343 ATTTTTTTAGA
1 A-TTTTTTAGA
*
13157354 ATTGTTTAGA
1 ATTTTTTAGA
*
13157364 ATTGTTTA
1 ATTTTTTA
13157372 TCCATTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
9 9 0.21
10 25 0.58
11 9 0.21
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (10 bp):
ATTTTTTAGA
Found at i:13157350 original size:21 final size:21
Alignment explanation
Indices: 13157326--13157366 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
13157316 TTTTTAAAAA
13157326 TTTTTAAAATT-TTTAGAATT
1 TTTTTAAAATTGTTTAGAATT
*
13157346 TTTTTAGAATTGTTTAGAATT
1 TTTTTAAAATTGTTTAGAATT
13157367 GTTTATCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.59
Consensus pattern (21 bp):
TTTTTAAAATTGTTTAGAATT
Found at i:13159117 original size:17 final size:17
Alignment explanation
Indices: 13159085--13159116 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13159075 TTTCAATATT
13159085 TTTTTTGTATCTTTTTA
1 TTTTTTGTATCTTTTTA
13159102 TTTTTTGTAT-TTTTT
1 TTTTTTGTATCTTTTT
13159117 TGCTCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.81
Consensus pattern (17 bp):
TTTTTTGTATCTTTTTA
Found at i:13160373 original size:3 final size:3
Alignment explanation
Indices: 13160365--13160390 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13160355 ATATGTGGGG
13160365 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
13160391 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:13160753 original size:15 final size:15
Alignment explanation
Indices: 13160735--13160801 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
13160725 TCAAAACATT
13160735 AAACCCTAAAACTCA
1 AAACCCTAAAACTCA
* *
13160750 AAACCCCAAAA-TAA
1 AAACCCTAAAACTCA
* *
13160764 AAATCCTAAAACCCA
1 AAACCCTAAAACTCA
* * *
13160779 TAATCCTAAAATCTCG
1 AAACCCTAAAA-CTCA
13160795 AAACCCT
1 AAACCCT
13160802 CAAATGAGAT
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
14 11 0.28
15 21 0.54
16 7 0.18
ACGTcount: A:0.51, C:0.31, G:0.01, T:0.16
Consensus pattern (15 bp):
AAACCCTAAAACTCA
Found at i:13160862 original size:18 final size:19
Alignment explanation
Indices: 13160839--13160881 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
13160829 CATCAAGACT
13160839 CTAAATTTAAC-CCTAACC
1 CTAAATTTAACACCTAACC
*
13160857 CTAAATTTAACACGTAACC
1 CTAAATTTAACACCTAACC
*
13160876 CCAAAT
1 CTAAAT
13160882 CATCACCCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.26
Consensus pattern (19 bp):
CTAAATTTAACACCTAACC
Found at i:13177941 original size:2 final size:2
Alignment explanation
Indices: 13177934--13177979 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
13177924 TATCTGTGTT
* *
13177934 TA TA TA TA TA TA TA TA TA TG TT TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13177976 TA TA
1 TA TA
13177980 GATTATAGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13177955 original size:22 final size:22
Alignment explanation
Indices: 13177930--13177974 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13177920 TAAATATCTG
13177930 TGTTTATATATATATATATATA
1 TGTTTATATATATATATATATA
13177952 TGTTTATATATATATATATATA
1 TGTTTATATATATATATATATA
13177974 T
1 T
13177975 ATATAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TGTTTATATATATATATATATA
Found at i:13181026 original size:9 final size:9
Alignment explanation
Indices: 13181014--13181103 Score: 51
Period size: 9 Copynumber: 10.0 Consensus size: 9
13181004 TATTCCTTAT
13181014 ATTATATAA
1 ATTATATAA
13181023 ATTATAT-A
1 ATTATATAA
**
13181031 A-TATATTT
1 ATTATATAA
* *
13181039 ACTCTATAA
1 ATTATATAA
*
13181048 ATTATATTTAT
1 ATTATA--TAA
13181059 ATTATATAA
1 ATTATATAA
**
13181068 ATTATATTT
1 ATTATATAA
*
13181077 A-TACTATAG
1 ATTA-TATAA
*
13181086 ATTATATAT
1 ATTATATAA
13181095 ATTATATAA
1 ATTATATAA
13181104 TTGAAAAAAC
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
7 5 0.08
8 5 0.08
9 41 0.67
10 2 0.03
11 8 0.13
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (9 bp):
ATTATATAA
Found at i:13181053 original size:18 final size:17
Alignment explanation
Indices: 13181032--13181105 Score: 60
Period size: 18 Copynumber: 4.1 Consensus size: 17
13181022 AATTATATAA
13181032 TATATTTACTCTATAAAT
1 TATATTTA-TCTATAAAT
*
13181050 TATATTTATATTATATAAAT
1 TATA-TT-TA-TCTATAAAT
*
13181070 TATATTTATACTATAGAT
1 TATATTTAT-CTATAAAT
*
13181088 TATATATAT-TATATAAT
1 TATATTTATCTATA-AAT
13181105 T
1 T
13181106 GAAAAAACAG
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 4 0.09
17 4 0.09
18 20 0.43
19 4 0.09
20 14 0.30
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (17 bp):
TATATTTATCTATAAAT
Found at i:13181084 original size:38 final size:35
Alignment explanation
Indices: 13180997--13181103 Score: 112
Period size: 36 Copynumber: 3.0 Consensus size: 35
13180987 CTATAATATT
* * *
13180997 ATATATTTATTCCT-TATATTATATAAATTATAT-A
1 ATATATTTACT-CTATAAATTATATATATTATATAA
13181031 ATATATTTACTCTATAAATTATATTTATATTATATAA
1 ATATATTTACTCTATAAATTATA--TATATTATATAA
*
13181068 ATTATATTTA-TACTATAGATTATATATATTATATAA
1 A-TATATTTACT-CTATAAATTATATATATTATATAA
13181104 TTGAAAAAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
33 2 0.03
34 18 0.29
36 21 0.33
37 3 0.05
38 19 0.30
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (35 bp):
ATATATTTACTCTATAAATTATATATATTATATAA
Found at i:13193437 original size:31 final size:31
Alignment explanation
Indices: 13193373--13193447 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
13193363 CATATAGACC
*
13193373 AAATTTGTTTCAAAATTAGAAGTACGGTAAT
1 AAATTTGTTTCAAAATTAGAAGTACGATAAT
* *
13193404 AAATTTGTTTCAAAATT-GAAAGTATGATGAT
1 AAATTTGTTTCAAAATTAG-AAGTACGATAAT
* *
13193435 AAAATTGTATCAA
1 AAATTTGTTTCAA
13193448 TTGAAATAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (31 bp):
AAATTTGTTTCAAAATTAGAAGTACGATAAT
Found at i:13195309 original size:42 final size:42
Alignment explanation
Indices: 13195263--13195346 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
13195253 CTATTTGTTC
*
13195263 TTTTAAAAAGA-TTCAATTGTCATG-CTAATTTAATATTTTATG
1 TTTTAAAAAGACTTC-ATTATCA-GACTAATTTAATATTTTATG
* * *
13195305 TTTTAAAGAGACTTCATTATTAGATTAATTTAATATTTTATG
1 TTTTAAAAAGACTTCATTATCAGACTAATTTAATATTTTATG
13195347 AAAAAATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.03
42 32 0.89
43 3 0.08
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.49
Consensus pattern (42 bp):
TTTTAAAAAGACTTCATTATCAGACTAATTTAATATTTTATG
Found at i:13195748 original size:25 final size:24
Alignment explanation
Indices: 13195708--13195761 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
13195698 TAAATAACAA
13195708 AAAAATAAAACTAAAAAG-TAAATG
1 AAAAATAAAACTAAAAAGATAAA-G
13195732 AAAAATCAAAGAC-AAAAAGATAAAG
1 AAAAAT-AAA-ACTAAAAAGATAAAG
13195757 AAAAA
1 AAAAA
13195762 AAGAGTTGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.22
25 15 0.56
26 6 0.22
ACGTcount: A:0.74, C:0.06, G:0.09, T:0.11
Consensus pattern (24 bp):
AAAAATAAAACTAAAAAGATAAAG
Found at i:13206870 original size:37 final size:36
Alignment explanation
Indices: 13206820--13206899 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 36
13206810 CCCAAAGTAA
** * *
13206820 ATTTTATGTGTAATAATATTAAGTCAATATATTTTAT
1 ATTTTATAAGTAATAATATTAAATAAATAT-TTTTAT
*
13206857 ATTTTATAAGTAATAATGTTAAATAAATATTTTTAT
1 ATTTTATAAGTAATAATATTAAATAAATATTTTTAT
*
13206893 TTTTTAT
1 ATTTTAT
13206900 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (36 bp):
ATTTTATAAGTAATAATATTAAATAAATATTTTTAT
Found at i:13209995 original size:19 final size:20
Alignment explanation
Indices: 13209958--13209996 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
13209948 TCTTAATTTG
*
13209958 AATCTCTCTCTTGATTCATC
1 AATCTCTCTCTTGAGTCATC
*
13209978 AATCT-TCTTTTGAGTCATC
1 AATCTCTCTCTTGAGTCATC
13209997 TCTCGATCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.26, G:0.08, T:0.46
Consensus pattern (20 bp):
AATCTCTCTCTTGAGTCATC
Found at i:13210740 original size:31 final size:31
Alignment explanation
Indices: 13210697--13210768 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
13210687 AACCTCGCTC
13210697 TGATACCACTTGTTACAAATCACCACAGCTT
1 TGATACCACTTGTTACAAATCACCACAGCTT
* ** *
13210728 TGATGCCACTTGTTGGAAATCACCACAGCTC
1 TGATACCACTTGTTACAAATCACCACAGCTT
*
13210759 TAATACCACT
1 TGATACCACT
13210769 GATTAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (31 bp):
TGATACCACTTGTTACAAATCACCACAGCTT
Found at i:13219732 original size:160 final size:160
Alignment explanation
Indices: 13219468--13219788 Score: 588
Period size: 160 Copynumber: 2.0 Consensus size: 160
13219458 ATTCCCTCAT
13219468 AAATATTTTTTGAATATAATATAGGCATCTTGAACATATCGCCACACAAATTTTAACATGGTTAT
1 AAATATTTTTTGAATATAATATAGGCATCTTGAACATATCGCCACACAAATTTTAACATGGTTAT
*
13219533 TGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTATATAATTAGTGA
66 TGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTAGTGA
*
13219598 ATGCGGTTTCAAAAAACAATGCCTTTAATA
131 ATGCGGTTTCAAAAAACAATGCCTTCAATA
** *
13219628 AAATATTTTTTGAATATAATATAGGTGTCTTGAACATATCGTCACACAAATTTTAACATGGTTAT
1 AAATATTTTTTGAATATAATATAGGCATCTTGAACATATCGCCACACAAATTTTAACATGGTTAT
13219693 TGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTAGTGA
66 TGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTAGTGA
*
13219758 ATGTGGTTTCAAAAAACAATGCCTTCAATA
131 ATGCGGTTTCAAAAAACAATGCCTTCAATA
13219788 A
1 A
13219789 TTTTCCTAAA
Statistics
Matches: 155, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
160 155 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (160 bp):
AAATATTTTTTGAATATAATATAGGCATCTTGAACATATCGCCACACAAATTTTAACATGGTTAT
TGAAGGCGTATATCCAAGAAAGACGCCTTTAATAATTTCTATCACAGTTTGTATATAATTAGTGA
ATGCGGTTTCAAAAAACAATGCCTTCAATA
Found at i:13228677 original size:358 final size:357
Alignment explanation
Indices: 13227660--13229254 Score: 1809
Period size: 358 Copynumber: 4.5 Consensus size: 357
13227650 GAACATATCG
* * * * * * *
13227660 TCACACAAATTTTAACACGGTTATTGAAGGCATATATCTAAGAAAGACGCGTTTAATAATTCTTA
1 TCACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* * * * * * * * *
13227725 TCACAGCTTGTATATAATTAGTGAAGATGGTTGCAAAAAATAATGCCTTTAATAATGTTC-CT-A
66 TCACAGTTTGTAGATAATTACTGAAGGTGATTGCAAATAACAACGCCTTTAATAATTTTCTCTAA
* * * * * * * *
13227788 AAAAAATTTTCTCGGATTAGTAAAGGCATCTTTTATTATGACACACATTCGATATACCATGATGC
131 AAAAAATTTT-T-GAATTATTAAAGACGTCTTTTATTATGACACGCCTTCAATATACCATGATGA
* * * ** * ** *
13227853 TTATGAAATGTATTTATTTGAAAAGGTACCTTTAATATACCTTTAAACTTAGTAATCCATTACTA
194 TAATGAAAGGCATTTATTAAAAAAGGCAAATTCAATATACCTTTAAACTTAGTAATCCATTACTA
* * * * * *
13227918 AAGGCGTTTGTTAATAACAAACGCTTTCAAAATTTTTTCACTAAAAATTTTGAA-AATTATTAAT
259 AAGGCATTTGTTAATAACAGACACCTTCAAAATTTTTTCACTAAATATTTT-AAGAATTATTAAA
* * * * *
13227982 GGCGTCTTCTATTGTAAAATGCCTTATATATACCG
323 AGCATCTTCTACTGTAAAATGCCTTCTATATACCA
* * * * * ** *
13228017 TCACAAAAATTTTAACATTGTTATTGAAGGCATATATCAAAGAAA-AACCCTTTAATAATTTCTA
1 TCACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* * *
13228081 TCACAGTTTATAGATAATTACTGAAAGTTG-TTGCAAAGAACAACGCCTTTAATAATTTT-TCTA
66 TCACAGTTTGTAGATAATTACTG-AAGGTGATTGCAAATAACAACGCCTTTAATAATTTTCTCTA
* * **
13228144 AAAAAATTTTTTGAATTATTAAAGATGTCTTTTATTATGACACTTCTTCAATATACCATGATGAT
130 AAAAAAATTTTTGAATTATTAAAGACGTCTTTTATTATGACACGCCTTCAATATACCATGATGAT
* * * * * *
13228209 GATGAAAGGCGTTTATTAAAAAAAGCACATTCAATATACCTTTAAACTTAGTAATCCATTATTGA
195 AATGAAAGGCATTTATTAAAAAAGGCAAATTCAATATACCTTTAAACTTAGTAATCCATTACTAA
* * *
13228274 AGGCATTTGTTAATAACAGACACCTTCAAATTTTTTTCACTAAATATTTTAAGAATTGTTAAAGG
260 AGGCATTTGTTAATAACAGACACCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAAG
*
13228339 CATTTTCTACTGTAAAATGCCTTCTATATACCA
325 CATCTTCTACTGTAAAATGCCTTCTATATACCA
* * * * *
13228372 TCACACAAATTCTAACACTATTATTGAATGTGTATATCTAAGAAAGATGCCTTTAAAAATTCCTA
1 TCACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
* * * * *
13228437 TCACAGTTTGTTGATAATTACTGAAGGCGATTGCAGATAACAATGCCTTTAATAATTTTCTTTAA
66 TCACAGTTTGTAGATAATTACTGAAGGTGATTGCAAATAACAACGCCTTTAATAATTTTCTCTAA
* * *
13228502 AAAAAAATTTTGAATTATTAATGACGTCTTTTATTATGACACGCCTTCAATATATCATGAT-AGT
131 AAAAAATTTTTGAATTATTAAAGACGTCTTTTATTATGACACGCCTTCAATATACCATGATGA-T
* * *
13228566 AATGGAAGGCATTTATTAAAAAAGGCATAATTCGATATACCTTTAAACTTAGTAATCCGTTACTA
195 AATGAAAGGCATTTATTAAAAAAGGCA-AATTCAATATACCTTTAAACTTAGTAATCCATTACTA
* * * * *
13228631 AAGGTATTTATTAATAATAGACGCCTTCAAAATTTTTTCACTAAATATTTTAATAATTATTAAAA
259 AAGGCATTTGTTAATAACAGACACCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAA
* *
13228696 GCATCTTCTATTGTAAAATGCCTTCTATATACTA
324 GCATCTTCTACTGTAAAATGCCTTCTATATACCA
* * * *
13228730 -CTATAAAAATTCTAACACTGTTATTAAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCAT
1 TC-ACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCT
* * *
13228794 ATCACAGTTTGTAGATAATTACTGAAGG-CAGTTGTAAATAACAACGCCTTCAATAATTTT-TCT
65 ATCACAGTTTGTAGATAATTACTGAAGGTGA-TTGCAAATAACAACGCCTTTAATAATTTTCTCT
* * *
13228857 AAAAAAATTTTTTCAGATTATTAAA-AGCGTCTTTTATTATGACACGCCTTCAATATACCATGAC
129 AAAAAAAATTTTTGA-ATTATTAAAGA-CGTCTTTTATTATGACACGCCTTCAATATACCATGAT
* * * ** *
13228921 GGTAATGGAAGGCATTTATTAAAAAAGACACCTTCAATATACCTTTAAACTAAGTAATCCATTAC
192 GATAATGAAAGGCATTTATTAAAAAAGGCAAATTCAATATACCTTTAAACTTAGTAATCCATTAC
* *
13228986 TAAAGGCGTTTGTTAATAACAGACACCTTCAAAAATTTTTCACTAAATATTTT-AGAAATTATTA
257 TAAAGGCATTTGTTAATAACAGACACCTTCAAAATTTTTTCACTAAATATTTTAAG-AATTATT-
** *
13229050 AAAAGTGTCTTCTACTGTAAAATACCTTCTATATACC-
320 AAAAGCATCTTCTACTGTAAAATGCCTTCTATATACCA
* * **
13229087 TCCACACAAATTCTAACACTATTATTGAAGGCGCATATCCAAGAAAGACT-TATTTAATAATTCC
1 T-CACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGA-TGCCTTTAATAATTCC
* * * * *
13229151 TATCATAGTTTGTAGATAATTACTGAAGGTGATTGTAGATAACAACACCTTCAATAA-TTT-TCT
64 TATCACAGTTTGTAGATAATTACTGAAGGTGATTGCAAATAACAACGCCTTTAATAATTTTCTCT
* **
13229214 AAAAAAAATTTTCTCAAATTATTAAAGGTGTCTTTTATTAT
129 AAAAAAAATTTT-T-GAATTATTAAAGACGTCTTTTATTAT
13229255 AAAATACCTT
Statistics
Matches: 1057, Mismatches: 158, Indels: 45
0.84 0.13 0.04
Matches are distributed among these distances:
354 2 0.00
355 219 0.21
356 125 0.12
357 256 0.24
358 451 0.43
359 4 0.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (357 bp):
TCACACAAATTCTAACACTGTTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTCCTA
TCACAGTTTGTAGATAATTACTGAAGGTGATTGCAAATAACAACGCCTTTAATAATTTTCTCTAA
AAAAAATTTTTGAATTATTAAAGACGTCTTTTATTATGACACGCCTTCAATATACCATGATGATA
ATGAAAGGCATTTATTAAAAAAGGCAAATTCAATATACCTTTAAACTTAGTAATCCATTACTAAA
GGCATTTGTTAATAACAGACACCTTCAAAATTTTTTCACTAAATATTTTAAGAATTATTAAAAGC
ATCTTCTACTGTAAAATGCCTTCTATATACCA
Found at i:13231576 original size:21 final size:21
Alignment explanation
Indices: 13231534--13231576 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13231524 GTAACAAATT
***
13231534 AATGACCAAGAGCAACGTCTC
1 AATGACCAAGAGCAAAAACTC
*
13231555 AATGACCAATAGCAAAAACTC
1 AATGACCAAGAGCAAAAACTC
13231576 A
1 A
13231577 TCACTTTGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.26, G:0.14, T:0.14
Consensus pattern (21 bp):
AATGACCAAGAGCAAAAACTC
Found at i:13238096 original size:15 final size:13
Alignment explanation
Indices: 13238055--13238087 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
13238045 TTAAAAATTA
13238055 ATAAATATTTA-T
1 ATAAATATTTATT
13238067 ATAAATATTTATT
1 ATAAATATTTATT
13238080 ATAGAATA
1 ATA-AATA
13238088 CTTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 4 0.21
14 4 0.21
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
ATAAATATTTATT
Found at i:13242285 original size:30 final size:30
Alignment explanation
Indices: 13242241--13242321 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
13242231 TGAACTTTGT
* *
13242241 TCTGATATCACTTGTTACGAATCACCAC-GC
1 TCTGATACCACTTGTTA-AAATCACCACAGC
13242271 T-TCGATACCACTTGTTGAAAATCACCACAGC
1 TCT-GATACCACTTGTT-AAAATCACCACAGC
13242302 TCTGATACCACTTGTTAAAA
1 TCTGATACCACTTGTTAAAA
13242322 AATTAACATG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
29 1 0.02
30 26 0.58
31 17 0.38
32 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (30 bp):
TCTGATACCACTTGTTAAAATCACCACAGC
Found at i:13243688 original size:134 final size:133
Alignment explanation
Indices: 13243428--13243690 Score: 298
Period size: 135 Copynumber: 2.0 Consensus size: 133
13243418 GAAATACCGC
* * * *
13243428 TACTTTAGAGGCATTTGAATCTGAAAATGACTTAATATTAATGGCGTTTGTATCTTTTAGTCGCT
1 TACTTTAGAGGCATTTGAATCTAAAAATGACTCAATATTAATGGCGTTTGTATCTTTTAATCGCC
* * * * * ** * *
13243493 GCTATTTTAGTGACATTTTTATGAGAAAAACGTTGTTGTATTGACGGCGTTTGTAACAAAAAATG
66 ACTAATTCAATGACATTGTTATGAGAAAAACGCCGTTG-AGTGACGGCGTTTGTAAAAAAAAATG
13243558 TCGT
130 TCGT
*
13243562 TACTTTAGAGGCATTTGAATCTAAAAAT-ACATCAATATTTATGGCGTTTTGTATCTTTTAAAT-
1 TACTTTAGAGGCATTTGAATCTAAAAATGAC-TCAATATTAATGGCG-TTTGTATCTTTT-AATC
* * * * *
13243625 GCCACTAATTCAATGGCATTGTTATGAGAAAAATGCCGTTG-GTGATGGCGTTTTTATAAAAAAA
63 GCCACTAATTCAATGACATTGTTATGAGAAAAACGCCGTTGAGTGACGGCGTTTGTAAAAAAAAA
13243689 TG
128 TG
13243691 CCACCTACCT
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
133 22 0.21
134 40 0.37
135 43 0.40
136 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (133 bp):
TACTTTAGAGGCATTTGAATCTAAAAATGACTCAATATTAATGGCGTTTGTATCTTTTAATCGCC
ACTAATTCAATGACATTGTTATGAGAAAAACGCCGTTGAGTGACGGCGTTTGTAAAAAAAAATGT
CGT
Found at i:13260649 original size:357 final size:354
Alignment explanation
Indices: 13259878--13261171 Score: 1653
Period size: 357 Copynumber: 3.6 Consensus size: 354
13259868 CAGAGCCTTC
* * * *
13259878 AAAATT-TTAATGGCGTCTTCTACTATAAAATGCTTTCTATATAC-CGTCACAAAAATTTTAACA
1 AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATACTC--CACAAAAATTCTAACA
* * *
13259941 CTGTTATTGAAGGCGTATATCGAAGAAAGA-CCCTTTAATAATTTCTATCACAGTTTGTAGATAA
64 CTATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAA
* * * * * *
13260005 TTACTGAAGGCTG-TTACAGATAACAATGTCTTTAATAATTTTTTTAAAAAAATTTTCTCGAATT
129 TTACTGAAGGC-GATTACAAATAACAACGCCTTCAATAATTTTTTAAAAAAAAATTTCTCGAATT
* * * *
13260069 ATTAAAGACATCTTTTATTATGACACGCTTTCAATATACCACAAT-GATAATGGAAGGAGTTTAT
193 ATTAAAGGCGTCTTTTATTATGACACGCCTTCAATATACCACAATGGA-AATGGAAGGAATTTAT
* *
13260133 TCAAAAAGGCACCTTCAATATGCCTTTAAACTTAGTAATCCATTACTGAAGGCATTTGTTAATAA
257 T-AAAAAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGG-ATTTGTTAATAA
*
13260198 CAGATGCCTTCAAAATTTTTTCACTAAATATTTTG
320 CAGATGCCTTCAAAATTTTTTCACTAAATATTTTA
* * * * *
13260233 AGAATTATTAAAGGCGTTTTCTACTGTAAAATACCTTCTATATACTGTCACACAAATTCTAACAC
1 AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATACT-CCACAAAAATTCTAACAC
** * *
13260298 TATTATTGAAGATGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTATTGATAAT
65 TATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAAT
* * *
13260363 TACTGAAGGCGATTGCAAAAAACAACGCCTTCAATAATTTTCTTAAAAAAAAATTT-TCGGATTA
130 TACTGAAGGCGATTACAAATAACAACGCCTTCAATAATTTT-TTAAAAAAAAATTTCTCGAATTA
* * *
13260427 TTAATGGTGTCTTTTATTATGACACGCCTTCAATATACCACGATGGAAATGGAAGGAATTTATTA
194 TTAAAGGCGTCTTTTATTATGACACGCCTTCAATATACCACAATGGAAATGGAAGGAATTTATTA
13260492 AAAAAGACACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGTATTTTGTTAATAAC
259 AAAAAG-CACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGG-A-TTTGTTAATAAC
* *
13260557 AGACGCCTTCAAAATTTTCTCACTAAATATTTTA
321 AGATGCCTTCAAAATTTTTTCACTAAATATTTTA
* * * * * * *
13260591 ATAATTATTAAAAGCGTCTTCTATTGTAAAATGCCTTCTATATACAT-TATAAAAATTCTAACA-
1 AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATAC-TCCACAAAAATTCTAACAC
*
13260654 TAGTTATTGAAGGCGTATATCTAAGAAAGATGCCTTTAATAA-TTCATATCACAGTTTGTAGATA
65 TA-TTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTC-TATCACAGTTTGTAGATA
* * * * * *
13260718 ATTACTGAAGGCGGTTGCAAATAACAACACCTTCAATAATTTTTCT-AAAAAAAATTTTTTGGAT
128 ATTACTGAAGGCGATTACAAATAACAACGCCTTCAATAATTTTT-TAAAAAAAAATTTCTCGAAT
* * * * *
13260782 TATTAAAGGCGTCTTTTATTATGACACGTCTTCAACATACCACAACGGTAATGGAAGGTATTTAT
192 TATTAAAGGCGTCTTTTATTATGACACGCCTTCAATATACCACAATGGAAATGGAAGGAATTTAT
* *
13260847 TAAAAAATGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTAAAGGCGTTTGTTAATAA
257 TAAAAAA-GCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGG-ATTTGTTAATAA
13260912 CAGATGCCTTCAAAATTTTTTCACTAAATA-TTTA
320 CAGATGCCTTCAAAATTTTTTCACTAAATATTTTA
*
13260946 AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATACCTCCACACAAATTCTAACAC
1 AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATA-CTCCACAAAAATTCTAACAC
* * * * * *
13261011 TGTTATTGAAGGCATATATCCAAG-AA-CT-CATTTAATAATTCCTATCACAATTTGTAGATAAT
65 TATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAAT
* * * * * *
13261073 TACTGAAGGCAATTATAGATAATAACGCCTTCAATAATTTCTCAAAAAAAAATTTCTCGAATTAT
130 TACTGAAGGCGATTACAAATAACAACGCCTTCAATAATTTTTTAAAAAAAAATTTCTCGAATTAT
* * * *
13261138 TAAAGGTGTCTTTTATTATAAAATGCCTTCAATA
195 TAAAGGCGTCTTTTATTATGACACGCCTTCAATA
13261172 ATTTGTTATA
Statistics
Matches: 818, Mismatches: 101, Indels: 42
0.85 0.11 0.04
Matches are distributed among these distances:
353 108 0.13
354 3 0.00
355 51 0.06
356 170 0.21
357 387 0.47
358 98 0.12
359 1 0.00
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (354 bp):
AAAATTATTAAAGGCGTCTTCTACTATAAAATACCTTCTATATACTCCACAAAAATTCTAACACT
ATTATTGAAGGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATCACAGTTTGTAGATAATT
ACTGAAGGCGATTACAAATAACAACGCCTTCAATAATTTTTTAAAAAAAAATTTCTCGAATTATT
AAAGGCGTCTTTTATTATGACACGCCTTCAATATACCACAATGGAAATGGAAGGAATTTATTAAA
AAAGCACCTTCAATATACCTTTAAACTTAGTAATCCATTACTGAAGGATTTGTTAATAACAGATG
CCTTCAAAATTTTTTCACTAAATATTTTA
Found at i:13270921 original size:15 final size:15
Alignment explanation
Indices: 13270901--13270929 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13270891 GTGGCAAAGA
13270901 AAGGAAAAATCAATT
1 AAGGAAAAATCAATT
13270916 AAGGAAAAATCAAT
1 AAGGAAAAATCAAT
13270930 ATTTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (15 bp):
AAGGAAAAATCAATT
Found at i:13272205 original size:470 final size:465
Alignment explanation
Indices: 13271209--13272119 Score: 1089
Period size: 470 Copynumber: 1.9 Consensus size: 465
13271199 AATTTTAATT
* * * * *** **
13271209 TTAATGTATCATTTTTATTATTAAAAAAATAAAAAATTTAAATATAAAGTGTTTAAAAATTAAAA
1 TTAATGTATCATTTATATTATT-AAAAAATATAAAAGTAAAATATAAACACTCCAAAAATTAAAA
*
13271274 ATTTTTGAAAATGAATAAAAACGAGACAACCAAATTATTTTTTATTTAGGATATTTTGTTCAAAA
65 ATTTTTGAAAATGAATAAAAACGAGACAACCAAATTATTTTTTACTTAGGATATTTTGTTCAAAA
* *
13271339 ATCAAAGTGCAAATAAATAGAACATGAGCAAATTTTATTATATTCATAACCTATTCATTTAATTA
130 ATCAAAGTGCAAATAAATAGAACATAAGCAAAATTTATTATATTCATAACCTATTCATTTAATTA
* * * *
13271404 ATAAATTTTAAAATATTATTTATGATCGTTTGATAAGTTTAATAAGTAAATATAAACGAACAAAA
195 ACAAATTTCAAAATATTATTTATGATCCTTTGATAAGTTTAATAAATAAATATAAACGAACAAAA
* * * * * * *
13271469 ATCGACATTCTTTACAAATTTTTTGTTAAGTATTCTTTTTGTTTACACTTCCACATTACAAATAA
260 ATCGACA-TCTTCACAAACTATTTGTTAAGTATTCTCTTTATTTACACTTCCACAGTACAAACAA
* * *
13271534 ACTGAATAAGAATAAATTTTATTATATTTGTAAATTATTTATTTAGTTAACGAATTTCAAAATAT
324 ACTGAATAAAAATAAATTTTATTATATTTGTAAATTATTTATTTAATTAACAAATTTCAAAATAT
* * * * *
13271599 TATTTTTGATTTTTTGTTAAAATTAATAAATAAATATAAACAAATTAACATTACAAATTCAAATT
389 TATTTTTGATTGTTTGTTAAAATTAATAAATAAACATAAACAAATAAAAATGACAAATTCAAATT
* ** **
13271664 TTTATTTTAATT
454 TTTAGTCAAACA
* * *** *
13271676 TTAATGTATCATTTTTATTATTAAAAAATATAAAAATTAAAATATAAAGTGTTCAAAAATTAAAA
1 TTAATGTATCATTTATATTATTAAAAAATAT-AAAAGTAAAATATAAACACTCCAAAAATTAAAA
* * * * *
13271741 A-TTTTGAAAATTAATAAAAATGAGACAATCAGATTATTTTTTACTTAGGATATTTTGTTTAAAA
65 ATTTTTGAAAATGAATAAAAACGAGACAACCAAATTATTTTTTACTTAGGATATTTTGTTCAAAA
* * *
13271805 ATCAGAAGTATGAGATGCAAATAAATTGAATATAAGCAAAATTTATTATATTGATAACCTATTCA
130 ATC---A--A--AG-TGCAAATAAATAGAACATAAGCAAAATTTATTATATTCATAACCTATTCA
*
13271870 TTTAATTAACAAATTTCAAAATATTA-TTAGTGATCCTTTGATAAGTTTAATAAATGAATATAAA
187 TTTAATTAACAAATTTCAAAATATTATTTA-TGATCCTTTGATAAGTTTAATAAATAAATATAAA
* * * *
13271934 TGAATAAAAATC-A-A-CTTCACAAACTATTTGTTAAGTATTCTCTTTATTTACACTTTCATAGT
251 CGAACAAAAATCGACATCTTCACAAACTATTTGTTAAGTATTCTCTTTATTTACACTTCCACAGT
* * * * * *
13271996 ATAAACAAA-TCGAATAAAAATGAATTTTATTATATTTGT-GATCTGTTTGTTTAATTAATAAAT
316 ACAAACAAACT-GAATAAAAATAAATTTTATTATATTTGTAAAT-TATTTATTTAATTAACAAAT
*
13272059 TTTAAAATATTATTTTTGATTGTTTGTTAAAATTAATAAATAAACATAAACAAATAAAAAT
379 TTCAAAATATTATTTTTGATTGTTTGTTAAAATTAATAAATAAACATAAACAAATAAAAAT
13272120 CGAATATATT
Statistics
Matches: 388, Mismatches: 44, Indels: 21
0.86 0.10 0.05
Matches are distributed among these distances:
466 68 0.18
467 54 0.14
469 4 0.01
470 144 0.37
471 1 0.00
472 1 0.00
473 6 0.02
474 110 0.28
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (465 bp):
TTAATGTATCATTTATATTATTAAAAAATATAAAAGTAAAATATAAACACTCCAAAAATTAAAAA
TTTTTGAAAATGAATAAAAACGAGACAACCAAATTATTTTTTACTTAGGATATTTTGTTCAAAAA
TCAAAGTGCAAATAAATAGAACATAAGCAAAATTTATTATATTCATAACCTATTCATTTAATTAA
CAAATTTCAAAATATTATTTATGATCCTTTGATAAGTTTAATAAATAAATATAAACGAACAAAAA
TCGACATCTTCACAAACTATTTGTTAAGTATTCTCTTTATTTACACTTCCACAGTACAAACAAAC
TGAATAAAAATAAATTTTATTATATTTGTAAATTATTTATTTAATTAACAAATTTCAAAATATTA
TTTTTGATTGTTTGTTAAAATTAATAAATAAACATAAACAAATAAAAATGACAAATTCAAATTTT
TAGTCAAACA
Found at i:13272559 original size:20 final size:19
Alignment explanation
Indices: 13272516--13272560 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
13272506 ATTGTTACAT
13272516 AATTTACATTATAAAAATA
1 AATTTACATTATAAAAATA
13272535 AATTTAC-TTATCAATAAATA
1 AATTTACATTAT-AA-AAATA
*
13272555 TATTTA
1 AATTTA
13272561 TTAGTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 9 0.39
20 10 0.43
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTACATTATAAAAATA
Found at i:13273780 original size:18 final size:17
Alignment explanation
Indices: 13273757--13273800 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 17
13273747 TTTTATTTTA
*
13273757 TAAAATAAATTATAATTT
1 TAAAATAAATTA-AATAT
13273775 TAAAATTAAATTAAATAT
1 TAAAA-TAAATTAAATAT
13273793 TAATAATA
1 TAA-AATA
13273801 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATAAATTAAATAT
Found at i:13273806 original size:18 final size:18
Alignment explanation
Indices: 13273785--13273921 Score: 58
Period size: 18 Copynumber: 8.3 Consensus size: 18
13273775 TAAAATTAAA
13273785 TTAAATATTAATAATATT
1 TTAAATATTAATAATATT
13273803 TT-AA-A-TAAT--T-TT
1 TTAAATATTAATAATATT
*
13273815 TAAAATATTAATAATATT
1 TTAAATATTAATAATATT
**
13273833 TGGTTTAT-TTAA-AATAATTT
1 T--TAAATATTAATAAT-A-TT
13273853 TTAAATA-T--TAATA-T
1 TTAAATATTAATAATATT
13273867 TTAAA-ATTATATTAA-ATT
1 TTAAATATTA-A-TAATATT
13273885 TTAAATATTAATAATA--
1 TTAAATATTAATAATATT
*
13273901 TT-AATATTATTAAT-TT
1 TTAAATATTAATAATATT
13273917 TTAAA
1 TTAAA
13273922 ATAATTTTTA
Statistics
Matches: 89, Mismatches: 7, Indels: 47
0.62 0.05 0.33
Matches are distributed among these distances:
12 3 0.03
13 4 0.04
14 8 0.09
15 19 0.21
16 6 0.07
17 12 0.13
18 23 0.26
19 9 0.10
20 5 0.06
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (18 bp):
TTAAATATTAATAATATT
Found at i:13273872 original size:26 final size:25
Alignment explanation
Indices: 13273838--13273946 Score: 107
Period size: 26 Copynumber: 4.3 Consensus size: 25
13273828 ATATTTGGTT
*
13273838 TATTTAAAATAATTTTTAAATATTAA
1 TATTTAAAATAA-TATTAAATATTAA
* *
13273864 TATTTAAAATTATATTAAATTTTAA
1 TATTTAAAATAATATTAAATATTAA
13273889 -ATATT--AATAATATTAATATTATTAA
1 TAT-TTAAAATAATATTAA-A-TATTAA
* *
13273914 TTTTTAAAATAATTTTTAAATATTAA
1 TATTTAAAATAA-TATTAAATATTAA
13273940 TATTTAA
1 TATTTAA
13273947 CATTATTCAA
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
23 10 0.15
24 3 0.04
25 20 0.29
26 24 0.35
27 6 0.09
28 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTAAAATAATATTAAATATTAA
Found at i:13273890 original size:32 final size:32
Alignment explanation
Indices: 13273851--13273943 Score: 95
Period size: 32 Copynumber: 2.9 Consensus size: 32
13273841 TTAAAATAAT
13273851 TTTTAAATATTAATATTTAAAATTATATTAAA
1 TTTTAAATATTAATATTTAAAATTATATTAAA
* *
13273883 TTTTAAATATTAATAATATTAATA-T-TATTAAT
1 TTTTAAATATTAAT-AT-TTAAAATTATATTAAA
*
13273915 TTTTAAA-A-TAATTTTTAAATATTAATATT
1 TTTTAAATATTAATATTTAAA-ATT-ATATT
13273944 TAACATTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 4 0.08
29 2 0.04
30 5 0.10
31 1 0.02
32 31 0.61
33 3 0.06
34 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTTAAATATTAATATTTAAAATTATATTAAA
Found at i:13273924 original size:18 final size:17
Alignment explanation
Indices: 13273847--13273921 Score: 61
Period size: 15 Copynumber: 4.6 Consensus size: 17
13273837 TTATTTAAAA
*
13273847 TAATTTTTAAATATTAA
1 TAATTTTTAAATATTAT
*
13273864 T-A-TTTAAAAT-TATAT
1 TAATTTTTAAATAT-TAT
* *
13273879 TAAATTTTAAATATTAA
1 TAATTTTTAAATATTAT
*
13273896 TAA-TATT-AATATTAT
1 TAATTTTTAAATATTAT
13273911 TAATTTTTAAA
1 TAATTTTTAAA
13273922 ATAATTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
14 1 0.02
15 20 0.44
16 8 0.18
17 15 0.33
18 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTTTTAAATATTAT
Found at i:13277876 original size:63 final size:63
Alignment explanation
Indices: 13277788--13277949 Score: 175
Period size: 63 Copynumber: 2.6 Consensus size: 63
13277778 CTATTTTATA
* * * * *
13277788 ATCAATCAAGGTGTTTTTATCCACAAATGTCTTAATTGATCTATTTTATAAATTT-TAAAATAG
1 ATCAATTAAGGCGTTTCTATACACAAATGCCTTAATTGATCTATTTTAT-AATTTATAAAATAG
* * * **
13277851 ATCAATTACGGCGTTTCTCA-ACACAAATGCCTTAATTGATCTGTTTTATAATTTATTATTTAG
1 ATCAATTAAGGCGTTTCT-ATACACAAATGCCTTAATTGATCTATTTTATAATTTATAAAATAG
* **
13277914 ATCAATTAAGGTGTTTCTATACACAAACACCTTAAT
1 ATCAATTAAGGCGTTTCTATACACAAATGCCTTAAT
13277950 ACAAATACCT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
62 6 0.07
63 75 0.91
64 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.41
Consensus pattern (63 bp):
ATCAATTAAGGCGTTTCTATACACAAATGCCTTAATTGATCTATTTTATAATTTATAAAATAG
Found at i:13278568 original size:25 final size:24
Alignment explanation
Indices: 13278508--13278570 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
13278498 GGTTTTCTTC
*
13278508 TATTATAT-GTATATTGGTGTATT
1 TATTATATGGGATATTGGTGTATT
* * *
13278531 TATTGTATTGGATATTGGTTGTTTT
1 TATTATATGGGATATTGG-TGTATT
*
13278556 TATTATGTGGGATAT
1 TATTATATGGGATAT
13278571 ATAGATAGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 7 0.22
24 8 0.25
25 17 0.53
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (24 bp):
TATTATATGGGATATTGGTGTATT
Found at i:13280710 original size:20 final size:20
Alignment explanation
Indices: 13280685--13280723 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
13280675 ATGACATCTA
13280685 ATATCATGCCTATTATTTTG
1 ATATCATGCCTATTATTTTG
13280705 ATATCATGCCTATTATTTT
1 ATATCATGCCTATTATTTT
13280724 ACAGGGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (20 bp):
ATATCATGCCTATTATTTTG
Found at i:13282156 original size:2 final size:2
Alignment explanation
Indices: 13282149--13282187 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
13282139 TCTTGATAAT
* * *
13282149 TA TA TA TA TA TA TA TA TA CA AA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13282188 TCAAAGGGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13282177 original size:22 final size:22
Alignment explanation
Indices: 13282149--13282192 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13282139 TCTTGATAAT
13282149 TATATATATATATATATACAAA
1 TATATATATATATATATACAAA
* *
13282171 TATATATTTATATATATTCAAA
1 TATATATATATATATATACAAA
13282193 GGGAGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATATATATATATATACAAA
Found at i:13284435 original size:51 final size:51
Alignment explanation
Indices: 13284380--13284478 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
13284370 TAGCTTACAT
13284380 CTCAAATCCAACTATTTAATTATAAATAATATAGAA-AAATATTATAAATTC
1 CTCAAATCCAACTATTTAATTATAAATAATAT-GAATAAATATTATAAATTC
** *
13284431 CTCAAATTTAACTATTTAATTATAAATAATATGAATAAATGTTATAAA
1 CTCAAATCCAACTATTTAATTATAAATAATATGAATAAATATTATAAA
13284479 AATCGAACTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 3 0.07
51 41 0.93
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (51 bp):
CTCAAATCCAACTATTTAATTATAAATAATATGAATAAATATTATAAATTC
Found at i:13285730 original size:15 final size:15
Alignment explanation
Indices: 13285712--13285744 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
13285702 TTTCTCTTAA
13285712 ATTATAATTATTTT-T
1 ATTATAATT-TTTTAT
13285727 ATTATAATTTTTTAT
1 ATTATAATTTTTTAT
13285742 ATT
1 ATT
13285745 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATTATAATTTTTTAT
Found at i:13287920 original size:30 final size:29
Alignment explanation
Indices: 13287879--13287942 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
13287869 AACAGCATTC
13287879 TAAAATTTTATT-TTT-ATTTTTAATCT-TT
1 TAAAATTTT-TTATTTGATTTTTAAT-TATT
13287907 TAAAATTTTTTATTTGATTTTTAATTATT
1 TAAAATTTTTTATTTGATTTTTAATTATT
13287936 TAAAATT
1 TAAAATT
13287943 ATCTTAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.06
28 13 0.39
29 18 0.55
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
TAAAATTTTTTATTTGATTTTTAATTATT
Found at i:13288308 original size:30 final size:29
Alignment explanation
Indices: 13288274--13288330 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
13288264 AAACTATTTT
*
13288274 ATATT-AAAAATGTTATTTTACTAATAAATC
1 ATATTGAAAAATATTATTTT-CT-ATAAATC
*
13288304 ATATTGGAAAATATTATTTTCTATAAA
1 ATATTGAAAAATATTATTTTCTATAAA
13288331 AAAAACTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.21
30 7 0.29
31 12 0.50
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (29 bp):
ATATTGAAAAATATTATTTTCTATAAATC
Found at i:13288675 original size:33 final size:32
Alignment explanation
Indices: 13288628--13288696 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
13288618 TATCCGTTTA
*
13288628 AAAATTTAAATAAAAACACTCCATATCATTTT
1 AAAATTTAAATAAAAAAACTCCATATCATTTT
* * *
13288660 AAAATATTAAGTAAAAAAATTTCATATCATTTT
1 AAAAT-TTAAATAAAAAAACTCCATATCATTTT
13288693 AAAA
1 AAAA
13288697 AATAGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 5 0.16
33 27 0.84
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (32 bp):
AAAATTTAAATAAAAAAACTCCATATCATTTT
Found at i:13288998 original size:31 final size:30
Alignment explanation
Indices: 13288959--13289077 Score: 96
Period size: 32 Copynumber: 3.8 Consensus size: 30
13288949 ATAAATAAAT
13288959 TTTTTAAAATGATTTGA-AAATTTTACTTAA
1 TTTTTAAAATGATTT-ACAAATTTTACTTAA
* *** *
13288989 TATTTTAAAAAGATATTATGTATTTTATTTAA
1 T-TTTTAAAATGAT-TTACAAATTTTACTTAA
* *
13289021 TTTTTTAAATCGATATACAAGATTTTACTTAA
1 TTTTTAAAAT-GATTTACAA-ATTTTACTTAA
* *
13289053 TTTTTAAAAATGATATACATATTTT
1 TTTTT-AAAATGATTTACAAATTTT
13289078 TCAAAAGAAT
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
30 1 0.01
31 26 0.37
32 39 0.56
33 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.50
Consensus pattern (30 bp):
TTTTTAAAATGATTTACAAATTTTACTTAA
Found at i:13289021 original size:32 final size:31
Alignment explanation
Indices: 13288978--13289071 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 31
13288968 TGATTTGAAA
* *
13288978 ATTTTACTTAATATTTTAAAAAGATAT-TATG
1 ATTTTACTTAAT-TTTTAAAAAGATATACAAG
* **
13289009 TATTTTATTTAATTTTTTAAATCGATATACAAG
1 -ATTTTACTTAA-TTTTTAAAAAGATATACAAG
13289042 ATTTTACTTAATTTTTAAAAATGATATACA
1 ATTTTACTTAATTTTTAAAAA-GATATACA
13289072 TATTTTTCAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 8 0.16
32 40 0.78
33 3 0.06
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (31 bp):
ATTTTACTTAATTTTTAAAAAGATATACAAG
Found at i:13289902 original size:23 final size:24
Alignment explanation
Indices: 13289867--13289912 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
13289857 AAATATATCA
* *
13289867 AATAATTTTTTTA-AAAAATTGAT
1 AATAATATATTTACAAAAATTGAT
*
13289890 AATAATATATTTACACAAATTGA
1 AATAATATATTTACAAAAATTGA
13289913 AACTTAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.41
Consensus pattern (24 bp):
AATAATATATTTACAAAAATTGAT
Found at i:13295087 original size:15 final size:15
Alignment explanation
Indices: 13295067--13295097 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13295057 TAACCATTGA
13295067 ATTATAGTAAAATGT
1 ATTATAGTAAAATGT
13295082 ATTATAGTAAAATGT
1 ATTATAGTAAAATGT
13295097 A
1 A
13295098 CAATGTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
ATTATAGTAAAATGT
Found at i:13295260 original size:30 final size:30
Alignment explanation
Indices: 13295215--13295286 Score: 108
Period size: 30 Copynumber: 2.3 Consensus size: 30
13295205 AGTCAAGGGT
13295215 GAGTATTACATTTAGTGAAAATAAATAATTAA
1 GAGT-TTA-ATTTAGTGAAAATAAATAATTAA
*
13295247 GAGTTTAATTTAGTGAAAATAAATATTTAA
1 GAGTTTAATTTAGTGAAAATAAATAATTAA
*
13295277 GGGTTTAATT
1 GAGTTTAATT
13295287 CGAATAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 31 0.82
31 3 0.08
32 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.15, T:0.39
Consensus pattern (30 bp):
GAGTTTAATTTAGTGAAAATAAATAATTAA
Found at i:13295328 original size:29 final size:31
Alignment explanation
Indices: 13295230--13295332 Score: 90
Period size: 30 Copynumber: 3.5 Consensus size: 31
13295220 TTACATTTAG
* * * * *
13295230 TGAAAATAAATAATTAAGAGTTTAATT-TAG
1 TGAAAATAAATATTTAAGGGCTTAATTCGAA
*
13295260 TGAAAATAAATATTTAAGGGTTTAATTCGAA
1 TGAAAATAAATATTTAAGGGCTTAATTCGAA
* * *
13295291 T-AAAA-AAATGTTTATGGGCTTAA-T-GGA
1 TGAAAATAAATATTTAAGGGCTTAATTCGAA
13295318 TGAAAATAAATATTT
1 TGAAAATAAATATTT
13295333 GTGGACTCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
27 3 0.05
28 5 0.08
29 22 0.36
30 29 0.48
31 2 0.03
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.36
Consensus pattern (31 bp):
TGAAAATAAATATTTAAGGGCTTAATTCGAA
Found at i:13295354 original size:2 final size:2
Alignment explanation
Indices: 13295347--13295382 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
13295337 ACTCAATCTA
13295347 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13295383 ACAACATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13297834 original size:59 final size:60
Alignment explanation
Indices: 13297721--13297835 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 60
13297711 ATTTAATTTT
* * ***
13297721 AAGGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTATATCTTTTTATCTTC
1 AAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAAATTTTATCTTC
* * *
13297781 AAGG-AAAATTGATATTTTCAAC-TTTTCCCAAAATGTTTTTTTTAGAAAATTTTAT
1 AAGGAAAAATTGATACTTTCAACTTTTTCCCAAAA-ATATTTTTTAGAAAATTTTAT
13297836 TTTAGAAACT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 10 0.22
59 32 0.70
60 4 0.09
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (60 bp):
AAGGAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTTAGAAAATTTTATCTTC
Found at i:13297838 original size:15 final size:15
Alignment explanation
Indices: 13297810--13297852 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
13297800 AACTTTTCCC
*
13297810 AAAATGTTTTTTTTAG
1 AAAAT-TTTATTTTAG
13297826 AAAATTTTATTTTAG
1 AAAATTTTATTTTAG
*
13297841 -AAACTTTATTTT
1 AAAATTTTATTTT
13297853 TAAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (15 bp):
AAAATTTTATTTTAG
Found at i:13297853 original size:15 final size:14
Alignment explanation
Indices: 13297816--13297860 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
13297806 TCCCAAAATG
13297816 TTTTTTTTAGAAAA
1 TTTTTTTTAGAAAA
*
13297830 TTTTATTTTAGAAAC
1 TTTT-TTTTAGAAAA
13297845 TTTATTTTTAAGAAAA
1 TTT-TTTTT-AGAAAA
13297861 AATGATACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 4 0.15
15 16 0.62
16 6 0.23
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTTTTTTAGAAAA
Found at i:13297880 original size:59 final size:57
Alignment explanation
Indices: 13297816--13297936 Score: 147
Period size: 58 Copynumber: 2.1 Consensus size: 57
13297806 TCCCAAAATG
*
13297816 TTTTTTTTAGAAAAT-TTTATTTTAGAAAC-TTTATTTTTAAGAAAAAATGATACTTTCAAC
1 TTTTTTTTA-AAAATATTT-TTTT--AAACTTTTATTTTCAAG-AAAAATGATACTTTCAAC
* *
13297876 TTTTTTTTAAAAATATTTTTTTAACCTTTTTATTTTCAAGAAAATTGATACTTTCAAC
1 TTTTTTTTAAAAATATTTTTTTAAAC-TTTTATTTTCAAGAAAAATGATACTTTCAAC
13297934 TTT
1 TTT
13297937 CCCTCAAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
57 3 0.05
58 20 0.36
59 20 0.36
60 12 0.22
ACGTcount: A:0.35, C:0.08, G:0.05, T:0.52
Consensus pattern (57 bp):
TTTTTTTTAAAAATATTTTTTTAAACTTTTATTTTCAAGAAAAATGATACTTTCAAC
Found at i:13298006 original size:31 final size:30
Alignment explanation
Indices: 13297971--13298064 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 30
13297961 TTATTTTAGA
13297971 AACTTTATTTTTAAGGAAAATTGATACTTTC
1 AACTTTATTTTTAA-GAAAATTGATACTTTC
** *
13298002 AACTTT-TTCCTAA-AAATATT--T--TTTAG
1 AACTTTATTTTTAAGAAA-ATTGATACTTT-C
*
13298028 AATTTTATTTTTAAGAAAAATTGATACTTTC
1 AACTTTATTTTTAAG-AAAATTGATACTTTC
13298059 AACTTT
1 AACTTT
13298065 TTCACAAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 6 0.13
28 6 0.13
29 6 0.13
30 6 0.13
31 11 0.24
32 3 0.07
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (30 bp):
AACTTTATTTTTAAGAAAATTGATACTTTC
Found at i:13298016 original size:129 final size:128
Alignment explanation
Indices: 13297712--13298064 Score: 487
Period size: 129 Copynumber: 2.7 Consensus size: 128
13297702 TTTTTTTTAA
* *
13297712 TTTAATTTTAAGGAAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTATATCTTTTTAT
1 TTTATTTTTAAGG-AAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGA-CTTTTTAT
* * * *
13297777 CTTCAAGGAAAATTGATATTTTCAACTTTTCCCAAAATGTTTTTTTTAGAAAATTTTATTTTAGA
64 TTTCAA-GAAAATTGATACTTTCAACTTTCCCCAAAATG--TTTTCTAGAAAATTTTATTTTAGA
13297842 AAC
126 AAC
* * **
13297845 TTTATTTTTAAGAAAAAATGATACTTTCAACTTTTTTTTAAAAATATTTTTTTA-ACCTTTTTAT
1 TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATA-TTTTTTAGA-CTTTTTAT
*
13297909 TTTCAAGAAAATTGATACTTTCAACTTTCCCTCAAAATG-TTTCTAGAAATTTTTATTTTAGAAA
64 TTTCAAGAAAATTGATACTTTCAACTTTCCC-CAAAATGTTTTCTAGAAAATTTTATTTTAGAAA
13297973 C
128 C
*
13297974 TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGA-ATTTTATTT
1 TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGACTTTTTATTT
*
13298038 TTAAGAAAAATTGATACTTTCAACTTT
66 TCAAG-AAAATTGATACTTTCAACTTT
13298065 TTCACAAATT
Statistics
Matches: 199, Mismatches: 17, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
127 12 0.06
128 28 0.14
129 67 0.34
131 23 0.12
132 51 0.26
133 18 0.09
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (128 bp):
TTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATTTTTTAGACTTTTTATTT
TCAAGAAAATTGATACTTTCAACTTTCCCCAAAATGTTTTCTAGAAAATTTTATTTTAGAAAC
Found at i:13298049 original size:57 final size:54
Alignment explanation
Indices: 13297964--13298092 Score: 177
Period size: 57 Copynumber: 2.3 Consensus size: 54
13297954 GAAATTTTTA
* *
13297964 TTTTAGAAACTTTATTTTTAAGGAAAATTGATACTTTCAACTTTTTCCTAAAAATATT
1 TTTTAG-AATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTT-C-AAAAAT-TT
*
13298022 TTTTAGAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCACAAATTT
1 TTTTAGAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCAAAAATTT
**
13298076 TTTTTTAATTTTATTTT
1 TTTTAGAATTTTATTTT
13298093 AGGAAAATCA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
54 17 0.26
55 5 0.08
56 1 0.02
57 37 0.56
58 6 0.09
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (54 bp):
TTTTAGAATTTTATTTTTAAGAAAAATTGATACTTTCAACTTTTTCAAAAATTT
Found at i:13298169 original size:3 final size:3
Alignment explanation
Indices: 13298161--13298204 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
13298151 AATAAGTAGA
* *
13298161 AAT AAT AAT AAT AAT AAT AAC AAT AAT AAT AAA AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13298205 CAACAACAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:13300512 original size:44 final size:44
Alignment explanation
Indices: 13300458--13300714 Score: 174
Period size: 44 Copynumber: 5.9 Consensus size: 44
13300448 TAAAGGCTCC
*
13300458 TCTAAACAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCT
1 TCTAATCAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCT
* * * * *
13300502 TCTAATCAGAGGCTTAATGATTTTGAGAAATAAAACAAAGCTCC
1 TCTAATCAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCT
** * *** *
13300546 TCTAATCAGAGGCTTGACGACTTTGA-AAA-ATAA-AGGGCTCC
1 TCTAATCAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCT
* * * * *
13300587 CCTAAGT-AGAGGATCAAGGACTTT-AAAATATAAAACAAAGCT-T
1 TCTAA-TCAGAGGCTCAACGACTTTGAGAA-ATAAAACAAAACTCT
* * * * *
13300630 ATTTAATCAAAGGCTCAACAACTTTGAAAAAATAGAAAAAAAACT-T
1 -TCTAATCAGAGGCTCAACGACTTTG-AGAAATA-AAACAAAACTCT
*
13300676 ATCTAATCAGAGGCTCAACAACTTTG-GAAA-AAAA-AAAAC
1 -TCTAATCAGAGGCTCAACGACTTTGAGAAATAAAACAAAAC
13300715 AAAGCTCCTT
Statistics
Matches: 171, Mismatches: 32, Indels: 23
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 30 0.18
42 8 0.05
43 8 0.05
44 84 0.49
45 3 0.02
46 37 0.22
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (44 bp):
TCTAATCAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCT
Found at i:13300656 original size:129 final size:130
Alignment explanation
Indices: 13300443--13300690 Score: 279
Period size: 129 Copynumber: 1.9 Consensus size: 130
13300433 ACAATTTCAA
* * *
13300443 AAAAATAAAGGCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAATAAAACAAAACTCTTCTAAT
1 AAAAATAAAGGCTCCCCTAAACAGAGGATCAACGACTTTGAAAAATAAAACAAAACTCTTCTAAT
* * ** * * * * *
13300508 CAGAGGCTTAATGATTTTG-AGAAATA-AAACAAAGCTCCTCTAATCAGAGGCTTGACGACTTTG
66 CAAAGGCTCAACAACTTTGAAAAAATAGAAAAAAAACTCATCTAATCAGAGGCTTGACGACTTTG
** * * *
13300571 AAAAATAAAGGGCTCCCCTAAGTAGAGGATCAAGGACTTT-AAAATATAAAACAAAGCT-TATTT
1 AAAAATAAA-GGCTCCCCTAAACAGAGGATCAACGACTTTGAAAA-ATAAAACAAAACTCT-TCT
*
13300634 AATCAAAGGCTCAACAACTTTGAAAAAATAGAAAAAAAACTTATCTAATCAGAGGCT
63 AATCAAAGGCTCAACAACTTTGAAAAAATAGAAAAAAAACTCATCTAATCAGAGGCT
13300691 CAACAACTTT
Statistics
Matches: 97, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
128 13 0.13
129 56 0.58
130 6 0.06
131 22 0.23
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.23
Consensus pattern (130 bp):
AAAAATAAAGGCTCCCCTAAACAGAGGATCAACGACTTTGAAAAATAAAACAAAACTCTTCTAAT
CAAAGGCTCAACAACTTTGAAAAAATAGAAAAAAAACTCATCTAATCAGAGGCTTGACGACTTTG
Found at i:13300683 original size:46 final size:48
Alignment explanation
Indices: 13300611--13300717 Score: 150
Period size: 46 Copynumber: 2.3 Consensus size: 48
13300601 CAAGGACTTT
* * *
13300611 AAAATATAAAACAAAGCTTATTTAATCAAAGGCTCAACAACTTT-GAA
1 AAAATAGAAAACAAAACTTATCTAATCAAAGGCTCAACAACTTTGGAA
*
13300658 AAAATAGAAAA-AAAACTTATCTAATCAGAGGCTCAACAACTTTGGAA
1 AAAATAGAAAACAAAACTTATCTAATCAAAGGCTCAACAACTTTGGAA
13300705 AAAA-A-AAAACAAA
1 AAAATAGAAAACAAA
13300718 GCTCCTTTTG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 4 0.07
46 33 0.61
47 17 0.31
ACGTcount: A:0.56, C:0.14, G:0.09, T:0.21
Consensus pattern (48 bp):
AAAATAGAAAACAAAACTTATCTAATCAAAGGCTCAACAACTTTGGAA
Found at i:13300732 original size:26 final size:26
Alignment explanation
Indices: 13300698--13300749 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13300688 GCTCAACAAC
13300698 TTTGGAAAAAAAAAAACAAAGCTCCT
1 TTTGGAAAAAAAAAAACAAAGCTCCT
13300724 TTTGGAAAAAAAAAAACAAAGCTCCT
1 TTTGGAAAAAAAAAAACAAAGCTCCT
13300750 CTAATCAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.19
Consensus pattern (26 bp):
TTTGGAAAAAAAAAAACAAAGCTCCT
Found at i:13300778 original size:42 final size:43
Alignment explanation
Indices: 13300731--13301037 Score: 157
Period size: 42 Copynumber: 7.1 Consensus size: 43
13300721 CCTTTTGGAA
* *
13300731 AAAAAAAAACAAAGCTCCTCTAATCAGAGGTTCAACAACTTTG
1 AAAAAAAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTG
* * * * *
13300774 AAAAAAATAAACAAAGCTCCTTTAAACTGAGGCTCTATAACTTTT
1 -AAAAAA-AAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTG
* * * * *
13300819 AAAGAAATA-AATGCTCCTCTAAACAGAGGCACCACAAAC-TTG
1 AAAAAAAAACAAAGCTCCTCTAAACAGAGGCTCAAC-AACTTTG
* ** * * * * *
13300861 AAAAAATAA-ATTGCTCCCCTAAACAGAGGCACCATAACTTTT
1 AAAAAAAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTG
* * * *
13300903 AAAAAAAATA-AATTGCTCCT-TAAACAGAAGCACCACAAC-TTG
1 AAAAAAAA-ACAA-AGCTCCTCTAAACAGAGGCTCAACAACTTTG
* * *
13300945 AAAAAAAATA-AAATGCTCCTCTAAATAGAGGCAACCACAAC-TT-
1 AAAAAAAA-ACAAA-GCTCCTCTAAACAGAGGC-TCAACAACTTTG
** * * * *
13300988 AAAAAAATAA-ATTGCTCCTCTAAATAGAGGCAACCACGACTTTG
1 AAAAAAA-AACAAAGCTCCTCTAAACAGAGGC-TCAACAACTTTG
13301032 AAAAAA
1 AAAAAA
13301038 TAAATTGCTC
Statistics
Matches: 217, Mismatches: 35, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
41 3 0.01
42 106 0.49
43 44 0.20
44 34 0.16
45 30 0.14
ACGTcount: A:0.47, C:0.21, G:0.11, T:0.21
Consensus pattern (43 bp):
AAAAAAAAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTG
Found at i:13301443 original size:43 final size:43
Alignment explanation
Indices: 13301379--13301460 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
13301369 ACTTAACATA
*
13301379 TTTGGAATTCACATCCAAAAAGTATAAAGCTTTTCATTTGAAT
1 TTTGGAATTCACATCCAAAAAGTATAAAACTTTTCATTTGAAT
* * * *
13301422 TTTGGAGATTTACATTC-AAAAGTTTAAAATTTTTCATTT
1 TTTGGA-ATTCACATCCAAAAAGTATAAAACTTTTCATTT
13301461 TGGGTTTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
43 25 0.76
44 8 0.24
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (43 bp):
TTTGGAATTCACATCCAAAAAGTATAAAACTTTTCATTTGAAT
Found at i:13301534 original size:21 final size:21
Alignment explanation
Indices: 13301504--13301549 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13301494 GGTTTCACAC
13301504 CTCAAAGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
*
13301525 CTCAATGATTCTCATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
13301546 -TCAA
1 CTCAA
13301550 GACTTCATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:13302791 original size:9 final size:9
Alignment explanation
Indices: 13302777--13302811 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
13302767 CTTTCATCTT
13302777 TTTTTTTTA
1 TTTTTTTTA
*
13302786 TTTTTTTCA
1 TTTTTTTTA
*
13302795 TTTGTTTTA
1 TTTTTTTTA
13302804 TTTTTTTT
1 TTTTTTTT
13302812 TCTGTCCTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:13305699 original size:17 final size:18
Alignment explanation
Indices: 13305669--13305707 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
13305659 AAAATATGAT
*
13305669 AATGAAAATGATGCATAG
1 AATGAAAATAATGCATAG
13305687 AATG-AAATAATGCATAG
1 AATGAAAATAATGCATAG
13305704 AATG
1 AATG
13305708 CAATGATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.51, C:0.05, G:0.21, T:0.23
Consensus pattern (18 bp):
AATGAAAATAATGCATAG
Found at i:13306962 original size:57 final size:56
Alignment explanation
Indices: 13306826--13306963 Score: 140
Period size: 57 Copynumber: 2.4 Consensus size: 56
13306816 TTTTGTACAG
*
13306826 GAAAAAGTGATACTTTCAACTTTTTCTTAAAACATTTTTCTTGACAAACTTTTTTAAA
1 GAAAAATTGATACTTTCAAC-TTTTCTTAAAACATTTTTCTT-ACAAACTTTTTTAAA
* * * * *
13306884 G-AAAATTGGTACTGCTC-ACTTTTCTTCAAAATATTTTT-TT-TAAATTTAATTTTAAA
1 GAAAAATTGATACT-TTCAACTTTTCTT-AAAACATTTTTCTTACAAACTT--TTTTAAA
13306940 GAAAAATTGATACTTTCAACTTTT
1 GAAAAATTGATACTTTCAACTTTT
13306964 TTTATTGATA
Statistics
Matches: 66, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
54 5 0.08
56 19 0.29
57 39 0.59
58 3 0.05
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (56 bp):
GAAAAATTGATACTTTCAACTTTTCTTAAAACATTTTTCTTACAAACTTTTTTAAA
Found at i:13306973 original size:22 final size:22
Alignment explanation
Indices: 13306945--13306987 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13306935 TTAAAGAAAA
13306945 ATTGATACTTTCAACTTTTTTT
1 ATTGATACTTTCAACTTTTTTT
13306967 ATTGATACTTTCAACTTTTTT
1 ATTGATACTTTCAACTTTTTT
13306988 CAAAATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTGATACTTTCAACTTTTTTT
Found at i:13307147 original size:129 final size:126
Alignment explanation
Indices: 13306967--13307204 Score: 361
Period size: 129 Copynumber: 1.8 Consensus size: 126
13306957 AACTTTTTTT
* * * *
13306967 ATTGATACTTTCAACTTTTTTCAAAATGATTTTTTTGAAAATTTTTATTTTAGAAACTTTATTTT
1 ATTGAGACTTTCAACTTTCTCCAAAATG--TTTTCTGAAAATTTTTATTTTAGAAACTTTATTTT
13307032 TAAGAAAAATTAATACTTTCAACTCTTCTCTAAAAATATATTTTTAACCTTTTTGTTTTTAGGAA
64 TAAGAAAAATTAATACTTTCAACTCTTCT-TAAAAA-AT-TTTTTAACCTTTTTGTTTTTAGGAA
13307097 A
126 A
13307098 ATTGAGACTTTCAACTTTCCTCCAAAATG-TTTCTGAAAATTTTTATTTTAGAAACTTTATTTTT
1 ATTGAGACTTTCAACTTT-CTCCAAAATGTTTTCTGAAAATTTTTATTTTAGAAACTTTATTTTT
* *
13307162 AAGAAAAATTAATACTTTCAACTTTTCTTCAAAAATTTTTTAA
65 AAGAAAAATTAATACTTTCAACTCTTCTTAAAAAATTTTTTAA
13307205 AATTTTATTT
Statistics
Matches: 100, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
126 7 0.07
127 2 0.02
128 5 0.05
129 61 0.61
131 17 0.17
132 8 0.08
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (126 bp):
ATTGAGACTTTCAACTTTCTCCAAAATGTTTTCTGAAAATTTTTATTTTAGAAACTTTATTTTTA
AGAAAAATTAATACTTTCAACTCTTCTTAAAAAATTTTTTAACCTTTTTGTTTTTAGGAAA
Found at i:13307168 original size:70 final size:69
Alignment explanation
Indices: 13307087--13307217 Score: 167
Period size: 71 Copynumber: 1.9 Consensus size: 69
13307077 AACCTTTTTG
* * *
13307087 TTTTT-AGGAAAATTGAGACTTTCAAC-TTTCCTCCAAAATGTTTCTGAAAATTTTTATTTTAGA
1 TTTTTAAGAAAAATTAAGACTTTCAACTTTTCCTCAAAAAT-TTT-TGAAAA-TTTTATTTTAGA
13307150 AACTTTA
63 AACTTTA
* * *
13307157 TTTTTAAGAAAAATTAATACTTTCAACTTTTCTTCAAAAATTTTTTAAAATTTTATTTTAG
1 TTTTTAAGAAAAATTAAGACTTTCAACTTTTCCTCAAAAATTTTTGAAAATTTTATTTTAG
13307218 GAAAATCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
69 11 0.21
70 10 0.19
71 21 0.40
72 11 0.21
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (69 bp):
TTTTTAAGAAAAATTAAGACTTTCAACTTTTCCTCAAAAATTTTTGAAAATTTTATTTTAGAAAC
TTTA
Found at i:13307292 original size:3 final size:3
Alignment explanation
Indices: 13307284--13307321 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13307274 AATAAGTAGA
13307284 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13307322 CAACAAACAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13311204 original size:16 final size:17
Alignment explanation
Indices: 13311165--13311216 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
13311155 GAAAATATTT
13311165 TTTTTTTATATTT-TGA
1 TTTTTTTATATTTATGA
**
13311181 TTCATTTATATTTAT-A
1 TTTTTTTATATTTATGA
*
13311197 TTTTTTTATTTTTAATGA
1 TTTTTTTATATTT-ATGA
13311215 TT
1 TT
13311217 AAATACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 22 0.79
17 3 0.11
18 3 0.11
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (17 bp):
TTTTTTTATATTTATGA
Found at i:13320576 original size:61 final size:60
Alignment explanation
Indices: 13320500--13320647 Score: 165
Period size: 62 Copynumber: 2.4 Consensus size: 60
13320490 CGTCATTTTT
* * * *
13320500 TAAAAAATGTTTTGAATAATTTCTTACAAAAATTA-AATAGGACTATTCAATGTATTTTTGA
1 TAAAAAATGTCTTGAATAATTTCTT-CAAAAATTAGAA-AGGACTATTCAAGGCATTTATGA
*** *
13320561 TAAAAAATGTCTTGAATAATCATT-TTCAATTTTTATGAAAGGATTATTCAAGGCATTTATGA
1 TAAAAAATGTCTTGAATAAT--TTCTTCAAAAATTA-GAAAGGACTATTCAAGGCATTTATGA
13320623 TAAAAAATGTCTTGAATAATTTCTT
1 TAAAAAATGTCTTGAATAATTTCTT
13320648 TCAATTTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
60 2 0.03
61 27 0.36
62 41 0.55
63 4 0.05
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (60 bp):
TAAAAAATGTCTTGAATAATTTCTTCAAAAATTAGAAAGGACTATTCAAGGCATTTATGA
Found at i:13320626 original size:62 final size:63
Alignment explanation
Indices: 13320538--13320709 Score: 194
Period size: 62 Copynumber: 2.8 Consensus size: 63
13320528 AAAATTAAAT
* * *
13320538 AGGACTATTCAATGTATTTTTGATAAAAAATGTCTTGAATAATCATTTTCAA-TTTTTATGAA
1 AGGATTATTCAAGGCATTTTTGATAAAAAATGTCTTGAATAATCATTTTCAATTTTTTATGAA
* * *
13320600 AGGATTATTCAAGGCATTTATGATAAAAAATGTCTTGAATAAT-TTCTTTCAATTTTTTATTAA
1 AGGATTATTCAAGGCATTTTTGATAAAAAATGTCTTGAATAATCAT-TTTCAATTTTTTATGAA
* * *
13320663 A--ATTATTCAAGACATTTTTGCCT-AAAAACG-CTTTGAATAATCATTTT
1 AGGATTATTCAAGGCATTTTTG-ATAAAAAATGTC-TTGAATAATCATTTT
13320710 ATAAAAAATG
Statistics
Matches: 94, Mismatches: 11, Indels: 11
0.81 0.09 0.09
Matches are distributed among these distances:
60 1 0.01
61 36 0.38
62 47 0.50
63 10 0.11
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (63 bp):
AGGATTATTCAAGGCATTTTTGATAAAAAATGTCTTGAATAATCATTTTCAATTTTTTATGAA
Found at i:13320679 original size:61 final size:61
Alignment explanation
Indices: 13320553--13320709 Score: 178
Period size: 61 Copynumber: 2.6 Consensus size: 61
13320543 TATTCAATGT
* *
13320553 ATTTTTGATAAAAAATGTCTTGAATAATCATTTTCAATTTTTATGAAAGGATTATTCAAGGC
1 ATTTATGATAAAAAATGTCTTGAATAATCATTTTCAATTTTTATGAAA-GATTATTCAAGAC
* *
13320615 ATTTATGATAAAAAATGTCTTGAATAAT-TTCTTTCAATTTTTTATTAAA-ATTATTCAAGAC
1 ATTTATGATAAAAAATGTCTTGAATAATCAT-TTTCAA-TTTTTATGAAAGATTATTCAAGAC
* * *
13320676 ATTTTTGCCT-AAAAACG-CTTTGAATAATCATTTT
1 ATTTATG-ATAAAAAATGTC-TTGAATAATCATTTT
13320710 ATAAAAAATG
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
60 1 0.01
61 36 0.44
62 35 0.43
63 10 0.12
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.44
Consensus pattern (61 bp):
ATTTATGATAAAAAATGTCTTGAATAATCATTTTCAATTTTTATGAAAGATTATTCAAGAC
Found at i:13326296 original size:2 final size:2
Alignment explanation
Indices: 13326289--13326315 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13326279 GTTTATCCAT
13326289 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
13326316 CTTTTGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13335647 original size:3 final size:3
Alignment explanation
Indices: 13335594--13335631 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
13335584 TATATCTTTC
* *
13335594 TTA TTA TGA TTA TTA TTA TTA TTA TTA CTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
13335632 TTCCTAAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13336997 original size:22 final size:21
Alignment explanation
Indices: 13336967--13337010 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13336957 ATACTAACCT
* *
13336967 TTATGTTGTTCTTTTGTGTATA
1 TTATATTGTTC-TTTGTATATA
13336989 TTATATTGTTCTTTGTATATA
1 TTATATTGTTCTTTGTATATA
13337010 T
1 T
13337011 ATCATGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.18, C:0.05, G:0.14, T:0.64
Consensus pattern (21 bp):
TTATATTGTTCTTTGTATATA
Found at i:13341080 original size:16 final size:17
Alignment explanation
Indices: 13341056--13341089 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13341046 ATTGCAAACT
*
13341056 TGAATTTCTTGTGAATC
1 TGAATTTCTTATGAATC
13341073 TGAA-TTCTTATGAATC
1 TGAATTTCTTATGAATC
13341089 T
1 T
13341090 TTCATTCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (17 bp):
TGAATTTCTTATGAATC
Found at i:13341870 original size:43 final size:42
Alignment explanation
Indices: 13341754--13342254 Score: 280
Period size: 43 Copynumber: 11.6 Consensus size: 42
13341744 TCCCAGTCAC
** * * * * *
13341754 TTATTTTAAAGTCGTTTTGCCTTTGTTTAGAAAAGCTCATTTC
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGC-CATTTT
* * **
13341797 CTA-TTTAAAGTTGTTTAGCCTCTAAATA-AAGATGTCCATTTT
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGA-G-CCATTTT
* * *
13341839 TTATTTTAAAGTCATTTTGCCTCTATTTA-AAGGAGCTCATTTC
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAA-GAGC-CATTTT
* * * * * * * *
13341882 TTA-TATAAAGTTGTTTAGTCTCTGTATAGAGGAACTCATTTC
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGC-CATTTT
* * *
13341924 TTATTTTAAA-TTCATTTTGCCTCTATTTAAAAAAGCTCATTTT
1 TTATTTTAAAGTT-ATTTAGCCTCTATTTAGAAGAGC-CATTTT
* * * * * *
13341967 CTA-TATAAAGTTGTTTAGCCTTTATTTATAGGAGCCCATTTT
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAG-CCATTTT
* * *
13342009 TTATTTTAAAGTTATTAAGCCTTTATTTAGAGGAGCCCATTTT
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAG-CCATTTT
* * * *
13342052 TTATTGTAAAGTTATTGAACCTCTATTTAGAAGAGCTCATTTC
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGC-CATTTT
* ** * * *
13342095 TTATTTTAAAGTTGTTTATACTTTATTTAGAGGAGTCTATTTCTTCATT
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAG-CCA----TT--TT
*
13342144 TCTCATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGCTCATTTC
1 T-T-ATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGC-CATTTT
* * * * *
13342189 TCATTTTAAAGTTGTTTAGCCTCTGTTTAG-AGGGCCCATTTC
1 TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAG-CCATTTT
* *
13342231 TCA-TTTAAAGTTATTTAGCTTCTA
1 TTATTTTAAAGTTATTTAGCCTCTA
13342255 ATTTTTTTTC
Statistics
Matches: 357, Mismatches: 78, Indels: 48
0.74 0.16 0.10
Matches are distributed among these distances:
41 21 0.06
42 103 0.29
43 191 0.54
44 3 0.01
45 2 0.01
47 4 0.01
49 2 0.01
50 2 0.01
51 29 0.08
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.47
Consensus pattern (42 bp):
TTATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGCCATTTT
Found at i:13341897 original size:85 final size:85
Alignment explanation
Indices: 13341754--13342106 Score: 320
Period size: 85 Copynumber: 4.1 Consensus size: 85
13341744 TCCCAGTCAC
* * * * *
13341754 TTATTTTAAAGTCGTTTTGCCTTTGTTTAGAA-AAGCTCATTTCCTATTTAAAGTTGTTTAGCCT
1 TTATTTTAAAGTCATTTTGCCTCTATTTA-AAGAAGCTCATTTCTTATATAAAGTTGTTTAGCCT
* *
13341818 CTAAATA-AAGATGTCCATTTT
65 CTATATAGAGGA-GTCCATTTT
* *
13341839 TTATTTTAAAGTCATTTTGCCTCTATTTAAAGGAGCTCATTTCTTATATAAAGTTGTTTAGTCTC
1 TTATTTTAAAGTCATTTTGCCTCTATTTAAAGAAGCTCATTTCTTATATAAAGTTGTTTAGCCTC
* * *
13341904 TGTATAGAGGA-ACTCATTTC
66 TATATAGAGGAGTC-CATTTT
* *
13341924 TTATTTTAAATTCATTTTGCCTCTATTTAAAAAAGCTCATTT-TCTATATAAAGTTGTTTAGCCT
1 TTATTTTAAAGTCATTTTGCCTCTATTTAAAGAAGCTCATTTCT-TATATAAAGTTGTTTAGCCT
* * * *
13341988 TTATTTATAGGAGCCCATTTT
65 CTATATAGAGGAGTCCATTTT
* ** * * * * * * * * *
13342009 TTATTTTAAAGTTATTAAGCCTTTATTTAGAGGAGCCCATTTTTTATTGTAAAGTTATTGAACCT
1 TTATTTTAAAGTCATTTTGCCTCTATTTAAAGAAGCTCATTTCTTA-TATAAAGTTGTTTAGCCT
* * *
13342074 CTATTTAGAAGAG-CTCATTTC
65 CTATATAGAGGAGTC-CATTTT
13342095 TTATTTTAAAGT
1 TTATTTTAAAGT
13342107 TGTTTATACT
Statistics
Matches: 221, Mismatches: 39, Indels: 15
0.80 0.14 0.05
Matches are distributed among these distances:
84 4 0.02
85 171 0.77
86 46 0.21
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.46
Consensus pattern (85 bp):
TTATTTTAAAGTCATTTTGCCTCTATTTAAAGAAGCTCATTTCTTATATAAAGTTGTTTAGCCTC
TATATAGAGGAGTCCATTTT
Found at i:13341965 original size:128 final size:129
Alignment explanation
Indices: 13341833--13342106 Score: 284
Period size: 128 Copynumber: 2.1 Consensus size: 129
13341823 TAAAGATGTC
* * *
13341833 CATTTTTTATTTTAAAGTCATTTTGCCTCTATTTAAAGGAGCTCATTTCTTA-TATAAAGTTGTT
1 CATTTTTTATTTTAAAGTCATTTAGCCTCTATTTAAAGGAGCCCATTTCTTATTATAAAGTTATT
* * * * * ***
13341897 TAGTCTCTGTATAGAGGAACTCATTTCTTATTTTAAA-TTCATTTTGCCTCTATTTAAAAAAGCT
66 AAGCCTCTATATAGAGGAACCCATTTCTTATTGTAAAGTT-ATTGAACCTCTATTTAAAAAAGCT
* * ** * * * *
13341961 CATTTTCTA-TATAAAGTTGTTTAGCCTTTATTTATAGGAGCCCATTTTTTATTTTAAAGTTATT
1 CATTTTTTATTTTAAAGTCATTTAGCCTCTATTTAAAGGAGCCCATTTCTTATTATAAAGTTATT
* * * * * *
13342025 AAGCCTTTATTTAGAGGAGCCCATTTTTTATTGTAAAGTTATTGAACCTCTATTTAGAAGAGCT
66 AAGCCTCTATATAGAGGAACCCATTTCTTATTGTAAAGTTATTGAACCTCTATTTAAAAAAGCT
*
13342089 CATTTCTTATTTTAAAGT
1 CATTTTTTATTTTAAAGT
13342107 TGTTTATACT
Statistics
Matches: 115, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
127 34 0.30
128 72 0.63
129 9 0.08
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (129 bp):
CATTTTTTATTTTAAAGTCATTTAGCCTCTATTTAAAGGAGCCCATTTCTTATTATAAAGTTATT
AAGCCTCTATATAGAGGAACCCATTTCTTATTGTAAAGTTATTGAACCTCTATTTAAAAAAGCT
Found at i:13342143 original size:51 final size:50
Alignment explanation
Indices: 13342087--13342194 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 50
13342077 TTTAGAAGAG
* * * * *
13342087 CTCATTTCTTATTTTAAAGTTGTTTATACTTTATTTAGAGGAG-TCTATTT
1 CTCATTTCTCATTTTAAAGTTATTTAGACTCTATTTAGAAGAGCTC-ATTT
*
13342137 CTTCATTTCTCATTTTAAAGTTATTTAGCCTCTATTTAGAAGAGCTCATTT
1 C-TCATTTCTCATTTTAAAGTTATTTAGACTCTATTTAGAAGAGCTCATTT
13342188 CTCATTT
1 CTCATTT
13342195 TAAAGTTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
50 7 0.14
51 41 0.82
52 2 0.04
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (50 bp):
CTCATTTCTCATTTTAAAGTTATTTAGACTCTATTTAGAAGAGCTCATTT
Found at i:13343502 original size:4 final size:5
Alignment explanation
Indices: 13343464--13343599 Score: 87
Period size: 6 Copynumber: 24.2 Consensus size: 5
13343454 TCTTTTTCTT
* *
13343464 TTTTA CTTTTT TTTTG TTTTCA TTTTCA TTTTA -TTTA -TTTA TTTTA
1 TTTTA -TTTTA TTTTA TTTT-A TTTT-A TTTTA TTTTA TTTTA TTTTA
13343510 TTTTA TTTTA TTTTA TATATATA TCTTTA TTATTA TTATTA TTATTA TTATTA
1 TTTTA TTTTA TTTTA T-T-T-TA T-TTTA TT-TTA TT-TTA TT-TTA TT-TTA
13343563 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA T
1 TT-TTA TT-TTA TT-TTA TT-TTA TT-TTA TT-TTA T
13343600 CCTAAACAAT
Statistics
Matches: 120, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
4 8 0.07
5 30 0.25
6 76 0.63
7 2 0.02
8 4 0.03
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.71
Consensus pattern (5 bp):
TTTTA
Found at i:13343503 original size:15 final size:14
Alignment explanation
Indices: 13343485--13343599 Score: 71
Period size: 15 Copynumber: 7.9 Consensus size: 14
13343475 TTTTGTTTTC
13343485 ATTTTCATTTTATTT
1 ATTTT-ATTTTATTT
13343500 A-TTTATTTTATTTT
1 ATTTTATTTTA-TTT
*
13343514 ATTTTATTTTATAT
1 ATTTTATTTTATTT
*
13343528 A-TATATCTTTA-TT
1 ATTTTAT-TTTATTT
13343541 ATTATTATTATTA-TT
1 ATT-TTATT-TTATTT
13343556 ATTATTATTATTA-TT
1 ATT-TTATT-TTATTT
13343571 ATTATTATTATTA-TT
1 ATT-TTATT-TTATTT
13343586 ATTATTATTATTAT
1 ATT-TTATT-TTAT
13343600 CCTAAACAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
13 12 0.13
14 16 0.18
15 61 0.69
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTATTT
Done.