Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 70 of 91
Found at i:11638831 original size:22 final size:22
Alignment explanation
Indices: 11638802--11639129 Score: 130
Period size: 22 Copynumber: 14.9 Consensus size: 22
11638792 ATCATCACAG
*
11638802 ATTTATTATTAAATTAACAATA
1 ATTTATTATTAAATTATCAATA
* *
11638824 ATTAATTATTAAATTATCATTA
1 ATTTATTATTAAATTATCAATA
*
11638846 ATTTA-TATTAAATTATCTATA
1 ATTTATTATTAAATTATCAATA
* * **
11638867 ATTTACTATTAAGTTATTGATA
1 ATTTATTATTAAATTATCAATA
* * *
11638889 ATTAACTATTACTAAGTTA-CATTA
1 ATT---TATTATTAAATTATCAATA
* * *
11638913 ATTTACTT-TTAAGTTTTCAATG
1 ATTTA-TTATTAAATTATCAATA
** * * *
11638935 ATAAACTATTAAATTATCATTG
1 ATTTATTATTAAATTATCAATA
* * ** *
11638957 ATTTATAACTAAATTATTTATG
1 ATTTATTATTAAATTATCAATA
* *
11638979 ATTTACTATTAAGTTTATCAATTA
1 ATTTATTATTAA-ATTATCAA-TA
* * * * *
11639003 A-TTACTACTAAACTA-AAACTT
1 ATTTATTATTAAATTATCAA-TA
* * *
11639024 ATTTACTATTAAGTTATCACTA
1 ATTTATTATTAAATTATCAATA
* * *
11639046 ATTTACTATTAAGA-TATCATTG
1 ATTTATTATTAA-ATTATCAATA
* * *
11639068 ATTTATTATTAAGTTATTAATG
1 ATTTATTATTAAATTATCAATA
* * * *
11639090 ATTAACTATTAAATTATCACTT
1 ATTTATTATTAAATTATCAATA
*
11639112 ATTT-TTATTAACTTATCA
1 ATTTATTATTAAATTATCA
11639130 TTGATTTACT
Statistics
Matches: 226, Mismatches: 67, Indels: 27
0.71 0.21 0.08
Matches are distributed among these distances:
21 44 0.19
22 149 0.66
23 15 0.07
24 7 0.03
25 11 0.05
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTTATTATTAAATTATCAATA
Found at i:11639028 original size:111 final size:111
Alignment explanation
Indices: 11638802--11639106 Score: 305
Period size: 111 Copynumber: 2.7 Consensus size: 111
11638792 ATCATCACAG
* * * * * * * *
11638802 ATTTATTATTAAATTAACAATAATTAATTATTAAATTATCATTAATTTATATTAAATTATCTATA
1 ATTTACTATTAAGTTATCAATAATAAACTATTAAATTATCATTGATTTATATTAAATTATTTATG
* * * *
11638867 ATTTACTATTAAGTTATTGATAATTAACTATTACTAAGTTACATTA
66 ATTTACTATTAAGTTATTGATAATTAACTACTACTAACTAAAATTA
* * * *
11638913 ATTTACTTTTAAGTTTTCAATGATAAACTATTAAATTATCATTGATTTATAACTAAATTATTTAT
1 ATTTACTATTAAGTTATCAATAATAAACTATTAAATTATCATTGATTTAT-ATTAAATTATTTAT
*
11638978 GATTTACTATTAAG-T-TT-ATCAATTAATTACTACTAAACTAAAACTT-
65 GATTTACTATTAAGTTATTGAT-AATTAACTACTACT-AACTAAAA-TTA
* ** * *
11639024 ATTTACTATTAAGTTATCACTAATTTACTATTAAGA-TATCATTGATTTATTATTAAGTTATTAA
1 ATTTACTATTAAGTTATCAATAATAAACTATTAA-ATTATCATTGATTTA-TATTAAATTATTTA
* *
11639088 TGATTAACTATTAAATTAT
64 TGATTTACTATTAAGTTAT
11639107 CACTTATTTT
Statistics
Matches: 158, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
109 2 0.01
110 14 0.09
111 111 0.70
112 30 0.19
113 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (111 bp):
ATTTACTATTAAGTTATCAATAATAAACTATTAAATTATCATTGATTTATATTAAATTATTTATG
ATTTACTATTAAGTTATTGATAATTAACTACTACTAACTAAAATTA
Found at i:11639072 original size:44 final size:44
Alignment explanation
Indices: 11638780--11639140 Score: 186
Period size: 44 Copynumber: 8.2 Consensus size: 44
11638770 GTTTTTTATT
* * ** * * * *
11638780 ATTTACTATAAAATCATCACAGATTTATTATTAAATTAACAATA
1 ATTTACTATTAAATTATCATTGATTTACTATTAAGTTATCATTA
* * * *
11638824 ATTAATTATTAAATTATCATTAATTTA-TATTAAATTATC-TATA
1 ATTTACTATTAAATTATCATTGATTTACTATTAAGTTATCAT-TA
* * * *
11638867 ATTTACTATTAAGTTATTGA-TAATTAACTATTACTAAGTTA-CATTA
1 ATTTACTATTAAATTA-TCATTGATTTACTA-T--TAAGTTATCATTA
* * * * ** * *
11638913 ATTTACTTTTAAGTTTTCAATGATAAACTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTGATTTACTATTAAGTTATCATTA
* *
11638957 ATTTA-TAACTAAATTAT-TTATGATTTACTATTAAGTTTATCAATTA
1 ATTTACT-ATTAAATTATCAT-TGATTTACTATTAAG-TTATC-ATTA
* * ** *
11639003 A-TTACTACTAAACTAAAACTT-ATTTACTATTAAGTTATCACTA
1 ATTTACTATTAAATTATCA-TTGATTTACTATTAAGTTATCATTA
* * * *
11639046 ATTTACTATTAAGA-TATCATTGATTTATTATTAAGTTATTAATG
1 ATTTACTATTAA-ATTATCATTGATTTACTATTAAGTTATCATTA
* * * *
11639090 ATTAACTATTAAATTATCACTT-ATTT-TTATTAACTTATCATTG
1 ATTTACTATTAAATTATCA-TTGATTTACTATTAAGTTATCATTA
11639133 ATTTACTA
1 ATTTACTA
11639141 ATATATTGTT
Statistics
Matches: 248, Mismatches: 48, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
43 67 0.27
44 106 0.43
45 36 0.15
46 31 0.12
47 8 0.03
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (44 bp):
ATTTACTATTAAATTATCATTGATTTACTATTAAGTTATCATTA
Found at i:11639528 original size:22 final size:22
Alignment explanation
Indices: 11639384--11639528 Score: 98
Period size: 22 Copynumber: 6.6 Consensus size: 22
11639374 TATAAAAAAA
11639384 TTATTAATGA-TTAACAATTAAG
1 TTATTAATGATTTAAC-ATTAAG
* * *
11639406 TTATTAATTATTT-ACTGTTATG
1 TTATTAATGATTTAAC-ATTAAG
* * * * *
11639428 CTATCAATGATTTAATACTAAA
1 TTATTAATGATTTAACATTAAG
* * *
11639450 CTATTAATGATTT-ACTTCTAAT
1 TTATTAATGATTTAACAT-TAAG
* * *
11639472 TTATGAATAATTTACCATTAAG
1 TTATTAATGATTTAACATTAAG
*
11639494 TTATGAATGATTTAACATTAAG
1 TTATTAATGATTTAACATTAAG
*
11639516 TTATAAATGATTT
1 TTATTAATGATTT
11639529 CTATTAAATT
Statistics
Matches: 93, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
21 1 0.01
22 87 0.94
23 5 0.05
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.46
Consensus pattern (22 bp):
TTATTAATGATTTAACATTAAG
Found at i:11639751 original size:22 final size:22
Alignment explanation
Indices: 11639643--11639754 Score: 79
Period size: 22 Copynumber: 5.3 Consensus size: 22
11639633 ATTAATTAAC
* *
11639643 TTACTACTAAATTATCATTTAT
1 TTACTACTAAATTATCAATAAT
* * *
11639665 TTACAACTAAGTTATTAATAAT
1 TTACTACTAAATTATCAATAAT
* *** * *
11639687 TTATTA-TTTGTTATTAATCAT
1 TTACTACTAAATTATCAATAAT
* *
11639708 TTATTGCTAAATTAT---TAAT
1 TTACTACTAAATTATCAATAAT
11639727 TTACTACTAAATTATCAATAAT
1 TTACTACTAAATTATCAATAAT
11639749 TTACTA
1 TTACTA
11639755 TGATATTTTT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
19 16 0.23
21 17 0.25
22 36 0.52
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
TTACTACTAAATTATCAATAAT
Found at i:11639992 original size:22 final size:21
Alignment explanation
Indices: 11639967--11640047 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 21
11639957 TAAGTTATAC
*
11639967 TAATCTTACTTTAAATTTTTAA
1 TAAT-TTACTTTAAATTTTCAA
*
11639989 TAATTTAACTATAAATTTTCAA
1 TAATTT-ACTTTAAATTTTCAA
* *
11640011 TTATTTTACTATT-AATTTATCAT
1 -TAATTTACT-TTAAATTT-TCAA
11640034 TAATTTACTATTAA
1 TAATTTACT-TTAA
11640048 GTTATTTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.04
22 36 0.75
23 10 0.21
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATTTACTTTAAATTTTCAA
Found at i:11640029 original size:11 final size:11
Alignment explanation
Indices: 11639989--11640047 Score: 57
Period size: 11 Copynumber: 5.3 Consensus size: 11
11639979 AAATTTTTAA
11639989 TAATTTAACTAT
1 TAATTT-ACTAT
* * *
11640001 AAATTTTCAAT
1 TAATTTACTAT
*
11640012 TATTTTACTAT
1 TAATTTACTAT
11640023 TAATTTA-TCAT
1 TAATTTACT-AT
11640034 TAATTTACTAT
1 TAATTTACTAT
11640045 TAA
1 TAA
11640048 GTTATTTATG
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
10 1 0.03
11 30 0.81
12 6 0.16
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATTTACTAT
Found at i:11640039 original size:23 final size:24
Alignment explanation
Indices: 11639989--11640052 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 24
11639979 AAATTTTTAA
* *
11639989 TAATTTAACTATAAATTT-TCAAT
1 TAATTTTACTATTAATTTATCAAT
11640012 T-ATTTTACTATTAATTTATC-AT
1 TAATTTTACTATTAATTTATCAAT
*
11640034 TAA-TTTACTATTAAGTTAT
1 TAATTTTACTATTAATTTAT
11640053 TTATGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 32 0.89
23 4 0.11
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATTTTACTATTAATTTATCAAT
Found at i:11640146 original size:21 final size:21
Alignment explanation
Indices: 11640097--11640147 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
11640087 AAACTAAAAA
11640097 ATTGATTTACTAGTAAATTAT
1 ATTGATTTACTAGTAAATTAT
* * * *
11640118 ACTAATTTACTATTAAGTTAT
1 ATTGATTTACTAGTAAATTAT
11640139 ATTGATTTA
1 ATTGATTTA
11640148 TCAACTAAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (21 bp):
ATTGATTTACTAGTAAATTAT
Found at i:11641254 original size:147 final size:144
Alignment explanation
Indices: 11641057--11641333 Score: 362
Period size: 146 Copynumber: 1.9 Consensus size: 144
11641047 ATTCTCTATA
* * * *
11641057 AAAATTTTCTTCTACTAAACAAAAGATAGTATATTTAATTGTTGCATCATTTTTATTATCATCAT
1 AAAATTCTCTTCTACTAAACAAAAGACAATATATTTAATTGTTGCATCATTCTTATTA-C-T-AT
*
11641122 T-T-AGAATAACTTTTTTGATATTTTGATGCCAATCAACTTCTCTATATGAAAAAAGTAAAAAAT
63 TATAAAAATAACTTTTTTGATATTTTGATGCCAATCAACTTCTCTATATGAAAAAAGTAAAAAAT
11641185 ATTTTGCATTTTCATAG
128 ATTTTGCATTTTCATAG
* **
11641202 AAAATTCT-TTCTACTAAATGAAAAGACAATATATTTTTAATTGTTGTTTCATTCTTATTACTAT
1 AAAATTCTCTTCTACTAAA-CAAAAGACAATATA--TTTAATTGTTGCATCATTCTTATTACTAT
* * * * *
11641266 TATAAAAATGACTTTTTTGATATTTTGATGCCAATCAACTTTTCTATTTGAAAAGAGTAAAAAGT
63 TATAAAAATAACTTTTTTGATATTTTGATGCCAATCAACTTCTCTATATGAAAAAAGTAAAAAAT
11641331 ATT
128 ATT
11641334 ATAAGGGTTA
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
144 13 0.11
145 20 0.18
146 59 0.52
147 22 0.19
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (144 bp):
AAAATTCTCTTCTACTAAACAAAAGACAATATATTTAATTGTTGCATCATTCTTATTACTATTAT
AAAAATAACTTTTTTGATATTTTGATGCCAATCAACTTCTCTATATGAAAAAAGTAAAAAATATT
TTGCATTTTCATAG
Found at i:11645252 original size:20 final size:20
Alignment explanation
Indices: 11645227--11645267 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11645217 ATACATCTTA
*
11645227 TATTAAATAAAA-AATTTAAT
1 TATT-AATAAAATAAATTAAT
11645247 TATTAATAAAATAAATTAAT
1 TATTAATAAAATAAATTAAT
11645267 T
1 T
11645268 TATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TATTAATAAAATAAATTAAT
Found at i:11648703 original size:53 final size:53
Alignment explanation
Indices: 11648639--11648742 Score: 172
Period size: 53 Copynumber: 2.0 Consensus size: 53
11648629 ATTTTAAGTC
* *
11648639 GGATACTTAACATGATATTAGAGCCATGATTTCTTACCATTACCCTTTTCATT
1 GGATACTTAACATGATATTAGAACCATGATTTCTTACCATTAACCTTTTCATT
* *
11648692 GGATATTTAACATGATATTAGAACCATGATTTCTTTCCATTAACCTTTTCA
1 GGATACTTAACATGATATTAGAACCATGATTTCTTACCATTAACCTTTTCA
11648743 AATCTGTCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (53 bp):
GGATACTTAACATGATATTAGAACCATGATTTCTTACCATTAACCTTTTCATT
Found at i:11653494 original size:4 final size:4
Alignment explanation
Indices: 11653485--11653523 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
11653475 AGTAATCCTC
11653485 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
11653524 AATAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:11656384 original size:28 final size:28
Alignment explanation
Indices: 11656338--11656434 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
11656328 TCAAACCTAT
* *
11656338 TCTGATATCAAC-TCAGGTTGGAACTAGC
1 TCTGATACCAACTTC-GGTTGGAATTAGC
* * *
11656366 TTTGATACCAACTTTGGTTGGAATTTGC
1 TCTGATACCAACTTCGGTTGGAATTAGC
* * *
11656394 TCTGATACCAACTTCGATTAGAATTGGC
1 TCTGATACCAACTTCGGTTGGAATTAGC
11656422 TCTGATACCAACT
1 TCTGATACCAACT
11656435 ATCACATGTC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 57 0.98
29 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (28 bp):
TCTGATACCAACTTCGGTTGGAATTAGC
Found at i:11663043 original size:192 final size:192
Alignment explanation
Indices: 11662716--11663108 Score: 723
Period size: 192 Copynumber: 2.0 Consensus size: 192
11662706 GAGATTTGTT
*
11662716 AGATATTATTTGATGGCAAAAAGACTTATAAAAGAAGAATTCTAAAAGGAAAGAGATTTTTAATA
1 AGATATTATTTGATGGCAAAAAGACTTATAAAAGAAGAATTCGAAAAGGAAAGAGATTTTTAATA
11662781 GGTAAGTATGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGACAAGTTTGTAT
66 GGTAAGTATGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGACAAGTTTGTAT
11662846 GGTTATAAATAGGTGAAGTCTCTATAGTGTTAGGTATGAAAAAAAGATGTAACAGAATTATA
131 GGTTATAAATAGGTGAAGTCTCTATAGTGTTAGGTATGAAAAAAAGATGTAACAGAATTATA
* *
11662908 AGATATTATTTGATGGCAAGAAGACTTATAAAAGAAGAATTCGAAAATGAAAGAGATTTTTAATA
1 AGATATTATTTGATGGCAAAAAGACTTATAAAAGAAGAATTCGAAAAGGAAAGAGATTTTTAATA
* *
11662973 GGTAAGTATGACTTGCAAAAGAATAATTCTAAAAGGAAAGGGATTCTTAATAGACAAGTTTGTAT
66 GGTAAGTATGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGACAAGTTTGTAT
*
11663038 GGTTATAAATAGGTGAAGTCTCTATAGTGTTAGGTATGAGAAAAAGATGTAACAGAATTATA
131 GGTTATAAATAGGTGAAGTCTCTATAGTGTTAGGTATGAAAAAAAGATGTAACAGAATTATA
*
11663100 AGATTTTAT
1 AGATATTAT
11663109 AGATAGACAC
Statistics
Matches: 194, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
192 194 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.30
Consensus pattern (192 bp):
AGATATTATTTGATGGCAAAAAGACTTATAAAAGAAGAATTCGAAAAGGAAAGAGATTTTTAATA
GGTAAGTATGACTTGCAAAAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGACAAGTTTGTAT
GGTTATAAATAGGTGAAGTCTCTATAGTGTTAGGTATGAAAAAAAGATGTAACAGAATTATA
Found at i:11666458 original size:42 final size:41
Alignment explanation
Indices: 11666384--11666469 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 41
11666374 AACTTTTTGT
*
11666384 ATAGTTATAATCTTTATAAATAATAATTTATTTTTATTCAA
1 ATAGTTATAATATTTATAAATAATAATTTATTTTTATTCAA
* * *
11666425 ATAGTTATAATTATTTATCATATGATAA-TTATTTTTATTTAA
1 ATAGTTATAA-TATTTAT-AAATAATAATTTATTTTTATTCAA
11666467 ATA
1 ATA
11666470 TAATTATTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
41 10 0.26
42 22 0.56
43 7 0.18
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (41 bp):
ATAGTTATAATATTTATAAATAATAATTTATTTTTATTCAA
Found at i:11666528 original size:20 final size:20
Alignment explanation
Indices: 11666503--11666543 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
11666493 TTAATATAAA
11666503 AATT-AATTTTATTTATTAAT
1 AATTAAATTTT-TTTATTAAT
*
11666523 AATTAAATTTTTTTTTTAAT
1 AATTAAATTTTTTTATTAAT
11666543 A
1 A
11666544 TGAGATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
AATTAAATTTTTTTATTAAT
Found at i:11670736 original size:149 final size:149
Alignment explanation
Indices: 11670461--11670737 Score: 373
Period size: 149 Copynumber: 1.9 Consensus size: 149
11670451 CTTATAATAC
*
11670461 TTTTTACTCTTTTCAAATAGAAAAGTTGATTGGCATCAAAATATCAAAAAAAGTCATTTTTATAA
1 TTTTTACTCTTTTCAAATAGAAAAGTTGATTGGCATCAAAATATCAAAAAAAGTCATTTCTATAA
* * * *
11670526 TAGTAATAAGAATGAAACAACAATTAAAAATATATTGTCTTTTCATTTAGTAGAAAGAATTTTCT
66 TAGTAATAAAAATGAAACAACAATTAAAAATATACTATCTTTTCATTTAGTAGAAAAAATTTTCT
11670591 ATGAAAAATGCAAAATATT
131 ATGAAAAATGCAAAATATT
* * * *
11670610 TTTTTACTTTTTTCATATAGAGAAGTTGATTGGCATCAAAATATC-AAAAAAGTTA-TTCTA-AA
1 TTTTTACTCTTTTCAAATAGAAAAGTTGATTGGCATCAAAATATCAAAAAAAGTCATTTCTATAA
** **
11670672 TGATGATAATAAAAATGATGCAACAATT-AAAATATACTATCTTTTTGTTTAGTAGAAGAAAATT
66 T-A-G-TAATAAAAATGAAACAACAATTAAAAATATACTATCTTTTCATTTAGTAGAA-AAAATT
11670736 TT
127 TT
11670738 TATAGAGAAT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
146 3 0.03
147 5 0.05
148 35 0.32
149 68 0.61
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (149 bp):
TTTTTACTCTTTTCAAATAGAAAAGTTGATTGGCATCAAAATATCAAAAAAAGTCATTTCTATAA
TAGTAATAAAAATGAAACAACAATTAAAAATATACTATCTTTTCATTTAGTAGAAAAAATTTTCT
ATGAAAAATGCAAAATATT
Found at i:11671663 original size:22 final size:22
Alignment explanation
Indices: 11671638--11671907 Score: 98
Period size: 22 Copynumber: 12.6 Consensus size: 22
11671628 AACTTAGTGA
11671638 TAAATCAATAATAACTTAATAG
1 TAAATCAATAATAACTTAATAG
** * * *
11671660 TAAAT-TGTAGTAATTTACTAG
1 TAAATCAATAATAACTTAATAG
** **
11671681 TAAATCAATTTTAGTTTAATAG
1 TAAATCAATAATAACTTAATAG
* * * *
11671703 T-AATTAAT--TGA--TAGTAA
1 TAAATCAATAATAACTTAATAG
11671720 TAAATC-ATAAATAACTTAATAG
1 TAAATCAAT-AATAACTTAATAG
* * *
11671742 TAAATTAATGATAAATTAATAG
1 TAAATCAATAATAACTTAATAG
* *
11671764 TAAAT-AATTGATAATTTAATAG
1 TAAATCAA-TAATAACTTAATAG
* * * *
11671786 TTAAAT-ATTAAAAATTTAAAAG
1 -TAAATCAATAATAACTTAATAG
* * *
11671808 TAAATTAGT-ATAACTTAGTAG
1 TAAATCAATAATAACTTAATAG
* * *
11671829 TAAATC-ATCGATAACATAATAA
1 TAAATCAAT-AATAACTTAATAG
** * *
11671851 TTGATCAATGATAACTTAATAA
1 TAAATCAATAATAACTTAATAG
*
11671873 TAAATC-ATATATAATTTAATA-
1 TAAATCAATA-ATAACTTAATAG
*
11671894 TAAATCTATAATAA
1 TAAATCAATAATAA
11671908 ATTGGTAGTG
Statistics
Matches: 187, Mismatches: 45, Indels: 33
0.71 0.17 0.12
Matches are distributed among these distances:
17 7 0.04
18 3 0.02
19 1 0.01
20 3 0.02
21 54 0.29
22 109 0.58
23 10 0.05
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATCAATAATAACTTAATAG
Found at i:11671749 original size:11 final size:12
Alignment explanation
Indices: 11671730--11671791 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 12
11671720 TAAATCATAA
*
11671730 ATAACTTAATAG
1 ATAAATTAATAG
11671742 -TAAATTAAT-G
1 ATAAATTAATAG
11671752 ATAAATTAATAG
1 ATAAATTAATAG
*
11671764 -TAAA-TAATTG
1 ATAAATTAATAG
*
11671774 ATAATTTAATAG
1 ATAAATTAATAG
*
11671786 TTAAAT
1 ATAAAT
11671792 ATTAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 6 0.15
11 24 0.60
12 10 0.25
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.39
Consensus pattern (12 bp):
ATAAATTAATAG
Found at i:11672051 original size:44 final size:43
Alignment explanation
Indices: 11671928--11672052 Score: 101
Period size: 44 Copynumber: 2.8 Consensus size: 43
11671918 CATCATAGAT
* * ** *
11671928 AATTTAGTTGTAAATTGGTGATAAATTTATAATAAATAATTAAA
1 AATTAAGTAGTAAATTAATGAT-AATTTATAGTAAATAATTAAA
* * *
11671972 AATTAAGTAGTAAATCAATGATAATATAATGGTAAA-AATATAAA
1 AATTAAGTAGTAAATTAATGATAAT-TTATAGTAAATAAT-TAAA
* *
11672016 AATATCA-TAGTAAATTATTGATAATTTAGTAGTAAAT
1 AAT-TAAGTAGTAAATTAATGATAATTTA-TAGTAAAT
11672053 TAAATATTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
43 8 0.13
44 53 0.84
45 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.37
Consensus pattern (43 bp):
AATTAAGTAGTAAATTAATGATAATTTATAGTAAATAATTAAA
Found at i:11672268 original size:22 final size:22
Alignment explanation
Indices: 11672242--11672386 Score: 98
Period size: 22 Copynumber: 6.6 Consensus size: 22
11672232 AATTTAATAG
*
11672242 AAATCATTTATAACTTAATGTT
1 AAATCATTAATAACTTAATGTT
* *
11672264 AAATCATTCATAACTTAATGGT
1 AAATCATTAATAACTTAATGTT
* * * *
11672286 AAATTATTCATAAATTAGAAG-T
1 AAATCATTAATAACTTA-ATGTT
** * *
11672308 AAATCATTAATAGTTTAGTATT
1 AAATCATTAATAACTTAATGTT
* * * *
11672330 AAATCATTGATAGCATAACAG-T
1 AAATCATTAATAACTTAA-TGTT
*
11672352 AAATAATTAATAACTTAATTGTT
1 AAATCATTAATAACTTAA-TGTT
11672375 -AATCATTAATAA
1 AAATCATTAATAA
11672387 TTTTTTTATA
Statistics
Matches: 94, Mismatches: 25, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
22 91 0.97
23 3 0.03
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (22 bp):
AAATCATTAATAACTTAATGTT
Found at i:11672691 original size:22 final size:22
Alignment explanation
Indices: 11672628--11672933 Score: 152
Period size: 22 Copynumber: 14.0 Consensus size: 22
11672618 AACAATATAT
*
11672628 TAGTAAATCAATGATAAGTTAA
1 TAGTAAATCAATGATAACTTAA
*
11672650 TA-AAAAT-AAGTGATAA-TTAA
1 TAGTAAATCAA-TGATAACTTAA
* * *
11672670 TAGTTAATCATTAATAACTTAA
1 TAGTAAATCAATGATAACTTAA
* *
11672692 TAATAAATCAATGATATCTTAA
1 TAGTAAATCAATGATAACTTAA
* *
11672714 TAGTAAATTAGTGATAACTTAA
1 TAGTAAATCAATGATAACTTAA
** ** *
11672736 TAGTAAAT-AAGTTTTAGTTTAG
1 TAGTAAATCAA-TGATAACTTAA
*
11672758 TAGT-AATTAATTGATAAACTTAA
1 TAGTAAATCAA-TGAT-AACTTAA
* * *
11672781 TAGTAAATC-ATAAATAATTTAGT
1 TAGTAAATCAAT-GATAACTTA-A
*
11672804 TA-TAAATCAATGATAATTTAA
1 TAGTAAATCAATGATAACTTAA
* * *
11672825 TAGT-TATCATTGAAAACTTAA
1 TAGTAAATCAATGATAACTTAA
* *
11672846 AAGTAAATTAATG-TAACTTAGTAA
1 TAGTAAATCAATGATAAC-T--TAA
* * *
11672870 TAGTTAAT-TATCAATAACTTAA
1 TAGTAAATCAAT-GATAACTTAA
* *
11672892 TAGTAAAT-TATAGATAATTTAA
1 TAGTAAATCAAT-GATAACTTAA
*
11672914 TA-TAAATTAATGATAA-TTAA
1 TAGTAAATCAATGATAACTTAA
11672934 ATAATTAATT
Statistics
Matches: 215, Mismatches: 50, Indels: 40
0.70 0.16 0.13
Matches are distributed among these distances:
20 12 0.06
21 53 0.25
22 116 0.54
23 17 0.08
24 13 0.06
25 4 0.02
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
TAGTAAATCAATGATAACTTAA
Found at i:11672809 original size:111 final size:108
Alignment explanation
Indices: 11672662--11672933 Score: 264
Period size: 111 Copynumber: 2.5 Consensus size: 108
11672652 AAAATAAGTG
* * * * *
11672662 ATAA-TTAATAGTTAATCATTAATAACTTAATAATAAATCAATGATATCTTAATAGTAAATTAGT
1 ATAACTTAATAGTAAATCATAAATAA-TTTATTATAAATCAATGATAT-TTAATAGT-AATCAGT
* * * ** *
11672726 GATAACTTAATAGTAAA-TAAGTTTTAGTTTAGTAGTAATTAATTGAT-
63 GAAAACTTAAAAGTAAATTAA--TGTAACTTAGTAATAATTAATT-ATA
* *
11672773 A-AACTTAATAGTAAATCATAAATAATTTAGTTATAAATCAATGATAATTTAATAGTTATCATTG
1 ATAACTTAATAGTAAATCATAAATAATTTA-TTATAAATCAATGAT-ATTTAATAGTAATCAGTG
*
11672837 AAAACTTAAAAGTAAATTAATGTAACTTAGTAATAGTTAATTATCA
64 AAAACTTAAAAGTAAATTAATGTAACTTAGTAATAATTAATTAT-A
* * * * *
11672883 ATAACTTAATAGTAAATTATAGATAATTTAATATAAATTAATGATAATTAA
1 ATAACTTAATAGTAAATCATAAATAATTTATTATAAATCAATGATATTTAA
11672934 ATAATTAATT
Statistics
Matches: 135, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
108 2 0.01
109 22 0.16
110 38 0.28
111 71 0.53
112 2 0.01
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (108 bp):
ATAACTTAATAGTAAATCATAAATAATTTATTATAAATCAATGATATTTAATAGTAATCAGTGAA
AACTTAAAAGTAAATTAATGTAACTTAGTAATAATTAATTATA
Found at i:11672952 original size:22 final size:22
Alignment explanation
Indices: 11672904--11672960 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11672894 GTAAATTATA
* *
11672904 GATAATTTAAT-ATAAATTAAT
1 GATAATTAAATAATTAATTAAT
*
11672925 GATAATTAAATAATTAATTATT
1 GATAATTAAATAATTAATTAAT
* *
11672947 GTTAATTTAATAAT
1 GATAATTAAATAAT
11672961 AAATCTGTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
GATAATTAAATAATTAATTAAT
Found at i:11673056 original size:22 final size:22
Alignment explanation
Indices: 11673031--11673077 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11673021 TAAAAGCATA
11673031 ATAACATA-ATAGTAAATTATTG
1 ATAACATATATA-TAAATTATTG
**
11673053 ATAATTTATATATAAATTATTG
1 ATAACATATATATAAATTATTG
11673075 ATA
1 ATA
11673078 GTTTAGTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAACATATATATAAATTATTG
Found at i:11673090 original size:22 final size:22
Alignment explanation
Indices: 11673040--11673147 Score: 101
Period size: 22 Copynumber: 4.9 Consensus size: 22
11673030 AATAACATAA
11673040 TAGTAAATTATTGATAATTTA-
1 TAGTAAATTATTGATAATTTAG
* *
11673061 TATATAAATTATTGATAGTTTAG
1 TA-GTAAATTATTGATAATTTAG
* * * *
11673084 TAGTAAATCACTAATAACTTAG
1 TAGTAAATTATTGATAATTTAG
* **
11673106 TTGTAAATTGGTGATAATTTAG
1 TAGTAAATTATTGATAATTTAG
*
11673128 TAGTAAATTAGTTAATAATT
1 TAGTAAATTA-TTGATAATT
11673148 GATAACTTTA
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
21 2 0.03
22 55 0.83
23 9 0.14
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.44
Consensus pattern (22 bp):
TAGTAAATTATTGATAATTTAG
Found at i:11673275 original size:66 final size:64
Alignment explanation
Indices: 11673161--11673295 Score: 164
Period size: 66 Copynumber: 2.1 Consensus size: 64
11673151 AACTTTATAA
* * *
11673161 TAAATCATCAAAAATTAATAGTAAATTAATTATAACTTTATAACAAATCATTAGTAACATAGTAG
1 TAAATCATCAAAAATTAAAAGTAAATTAATTATAACTTAATAACAAATCATTAATAA-ATAGTAG
* * ** *
11673226 TAAATCATCAACAATTTAAAAGTAAATTATTTATAA-TTAAGTAGTAAATCATTAATAAATTGTA
1 TAAATCATCAA-AAATTAAAAGTAAATTAATTATAACTTAA-TAACAAATCATTAATAAATAGTA
11673290 G
64 G
11673291 TAAAT
1 TAAAT
11673296 TAATATTAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 25 0.42
66 35 0.58
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (64 bp):
TAAATCATCAAAAATTAAAAGTAAATTAATTATAACTTAATAACAAATCATTAATAAATAGTAG
Found at i:11673392 original size:22 final size:22
Alignment explanation
Indices: 11673205--11673398 Score: 106
Period size: 22 Copynumber: 8.9 Consensus size: 22
11673195 ACTTTATAAC
* * *
11673205 AAATCATTAGTAACATAGTAGT
1 AAATCATTAATAATATAATAGT
* * * *
11673227 AAATCATCAACAATTTAAAAGT
1 AAATCATTAATAATATAATAGT
* *
11673249 AAATTATTTATAAT-TAAGTAGT
1 AAATCATTAATAATATAA-TAGT
**
11673271 AAATCATTAATAA-ATTGTAGT
1 AAATCATTAATAATATAATAGT
* * * * *
11673292 AAATTAATATTAATTTAATAAT
1 AAATCATTAATAATATAATAGT
* * *
11673314 AAATCACTGATAATATAGTAGT
1 AAATCATTAATAATATAATAGT
* * * *
11673336 ATATAATTAATAGCT-TAGTAGT
1 AAATCATTAATA-ATATAATAGT
* * *
11673358 AAATCACTGATAATATAATAAT
1 AAATCATTAATAATATAATAGT
*
11673380 AAATCATTAATAACATAAT
1 AAATCATTAATAATATAAT
11673399 TTCCAATCAT
Statistics
Matches: 122, Mismatches: 45, Indels: 10
0.69 0.25 0.06
Matches are distributed among these distances:
21 18 0.15
22 103 0.84
23 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.08, T:0.36
Consensus pattern (22 bp):
AAATCATTAATAATATAATAGT
Found at i:11673804 original size:21 final size:20
Alignment explanation
Indices: 11673732--11673806 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
11673722 AAGGTTGCTT
*
11673732 AAATTTTATCAATGGTTACCA
1 AAATTTTATCAAT-GTTATCA
* **
11673753 AAATTATATCATAAATTATCA
1 AAATTTTATCA-ATGTTATCA
* **
11673774 AACTACTATCGAATGTTATCA
1 AAATTTTATC-AATGTTATCA
11673795 AAATTTTATCAA
1 AAATTTTATCAA
11673807 AAATTAAGAA
Statistics
Matches: 40, Mismatches: 12, Indels: 5
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.05
21 36 0.90
22 2 0.05
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.37
Consensus pattern (20 bp):
AAATTTTATCAATGTTATCA
Found at i:11675206 original size:17 final size:18
Alignment explanation
Indices: 11675184--11675222 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
11675174 TATATTTAAA
11675184 TATATTT-AAAAATATTT
1 TATATTTAAAAAATATTT
11675201 TATATTTAAAAAAATATTT
1 TATATTT-AAAAAATATTT
11675220 TAT
1 TAT
11675223 TAATTTCGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATTTAAAAAATATTT
Found at i:11675700 original size:150 final size:150
Alignment explanation
Indices: 11675530--11675806 Score: 509
Period size: 150 Copynumber: 1.8 Consensus size: 150
11675520 TGTCAGATCA
*
11675530 TGGTGTAATGTACTATATTCATTAAAAGATATGTACCATATTGAAGTCGATGTATACCTACCTTA
1 TGGTATAATGTACTATATTCATTAAAAGATATGTACCATATTGAAGTCGATGTATACCTACCTTA
*
11675595 TTAATATGATATTATTAGATATATATCTATCATATTAAATTCAATTTATATCTACCACATTCATT
66 TTAATATGATATTATTAGATATATATCTATCATATTAAATTCAATTTATATCTACAACATTCATT
11675660 AAAAATTTCAACTAATCTAT
131 AAAAATTTCAACTAATCTAT
* *
11675680 TGGTATAATGTACTGTATTCATTAAAAGATATGTACCATATTGAAGTCGATGTATACCTACCTTT
1 TGGTATAATGTACTATATTCATTAAAAGATATGTACCATATTGAAGTCGATGTATACCTACCTTA
*
11675745 TTAATATGATATTATTAGATATATATCTATTATATTAAATTCAATTTATATCTACAACATTC
66 TTAATATGATATTATTAGATATATATCTATCATATTAAATTCAATTTATATCTACAACATTC
11675807 TAATATAGAT
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 122 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.42
Consensus pattern (150 bp):
TGGTATAATGTACTATATTCATTAAAAGATATGTACCATATTGAAGTCGATGTATACCTACCTTA
TTAATATGATATTATTAGATATATATCTATCATATTAAATTCAATTTATATCTACAACATTCATT
AAAAATTTCAACTAATCTAT
Found at i:11676443 original size:20 final size:20
Alignment explanation
Indices: 11676408--11676460 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
11676398 GAGAACTAAT
*
11676408 TAAAATAAAT-TAATATATA
1 TAAAATAATTATAATATATA
11676427 TAAAATAATTATAATATATA
1 TAAAATAATTATAATATATA
*
11676447 TAATATAATATATA
1 TAAAATAAT-TATA
11676461 TTAAAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATAATTATAATATATA
Found at i:11676974 original size:2 final size:2
Alignment explanation
Indices: 11676930--11676960 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
11676920 GTTGTCTTCA
11676930 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
11676961 TGAACTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11677770 original size:45 final size:45
Alignment explanation
Indices: 11677701--11677792 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 45
11677691 AGAGTTTCTA
*
11677701 TTTTAAGAAAAATTGATACCTTCAAC-TTTTCCTTAAAACATTTTT
1 TTTTAAGAAAAATTGATACCTTCAACTTTTTCC-CAAAACATTTTT
* * *
11677746 TTTTAA-AGAAAATTGGTACTTTCAACTTTTTCCCAAAATATTTTT
1 TTTTAAGA-AAAATTGATACCTTCAACTTTTTCCCAAAACATTTTT
11677791 TT
1 TT
11677793 GAAACTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 1 0.02
45 34 0.83
46 6 0.15
ACGTcount: A:0.34, C:0.14, G:0.05, T:0.47
Consensus pattern (45 bp):
TTTTAAGAAAAATTGATACCTTCAACTTTTTCCCAAAACATTTTT
Found at i:11677921 original size:56 final size:57
Alignment explanation
Indices: 11677753--11677954 Score: 268
Period size: 56 Copynumber: 3.6 Consensus size: 57
11677743 TTTTTTTAAA
* * *
11677753 GAAAATTGGTACTTTCAACTTTTTCC-CAAAATATTTTTTTGAAACTTTAATTTT-GAG
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTAGAAA-TTT-ATTTTCAAG
*
11677810 GAAAATTGATACTTTCAACTTTTTCCTCAAAAATATTTTTTATAAATTTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTTCCTC-AAAATATTTTTTAGAAATTTATTTTCAAG
* * *
11677868 GAAAATTGATACTTTTATC-TTTTCCTCAAAATATTTTTTAGAAAATTATTTTCAAG
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTAGAAATTTATTTTCAAG
* *
11677924 GAAAATTGATACTTTTAAC-TTTTCCTAAAAA
1 GAAAATTGATACTTTCAACTTTTTCCTCAAAA
11677955 AAAAATTGAT
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
56 56 0.42
57 38 0.29
58 23 0.17
59 15 0.11
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTTCCTCAAAATATTTTTTAGAAATTTATTTTCAAG
Found at i:11678388 original size:15 final size:15
Alignment explanation
Indices: 11678368--11678397 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11678358 TCTGCTTTCA
11678368 ATGCCAATGTAACAG
1 ATGCCAATGTAACAG
11678383 ATGCCAATGTAACAG
1 ATGCCAATGTAACAG
11678398 CCCAAGCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
ATGCCAATGTAACAG
Found at i:11687845 original size:20 final size:20
Alignment explanation
Indices: 11687807--11687844 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11687797 ACTTTGTTTC
11687807 TGTTTCTATTTTTGTTTTTG
1 TGTTTCTATTTTTGTTTTTG
*
11687827 TGTTTCTGTTTTT-TTTTT
1 TGTTTCTATTTTTGTTTTT
11687845 TCGGTTGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.03, C:0.05, G:0.13, T:0.79
Consensus pattern (20 bp):
TGTTTCTATTTTTGTTTTTG
Found at i:11692379 original size:66 final size:65
Alignment explanation
Indices: 11692273--11692402 Score: 233
Period size: 66 Copynumber: 2.0 Consensus size: 65
11692263 GGGGCAACCT
*
11692273 GTGAGGGCACTAACAAGTTAAGCTATTTGAACGTCAAGGTTTTTTATAGAAGTTGCTTGGTTTTG
1 GTGAGGGCACTAACAAGTTAACCTATTTGAACGTCAAGG-TTTTTATAGAAGTTGCTTGGTTTTG
11692338 A
65 A
*
11692339 GTGAGGGCACTAACAAGTTAACCTATTTGAACGTCAAGGTTTTTATGGAAGTTGCTTGGTTTTG
1 GTGAGGGCACTAACAAGTTAACCTATTTGAACGTCAAGGTTTTTATAGAAGTTGCTTGGTTTTG
11692403 TAAGATTTGG
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
65 24 0.39
66 38 0.61
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (65 bp):
GTGAGGGCACTAACAAGTTAACCTATTTGAACGTCAAGGTTTTTATAGAAGTTGCTTGGTTTTGA
Found at i:11695444 original size:56 final size:51
Alignment explanation
Indices: 11695326--11695437 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
11695316 TTACTTTTAA
**
11695326 ACTCATATAATCTAATTTTAAATCAACTAAATTAAATTGGATTAAACTTTG
1 ACTCATATAATCTAATTTTAAATCAACTAAATTAAATTAAATTAAACTTTG
* * ***
11695377 ACTCATGTAATCTAATTTTAAATTAACTAAATTAAATTAAATTGGGCTTTG
1 ACTCATATAATCTAATTTTAAATCAACTAAATTAAATTAAATTAAACTTTG
11695428 ACTCATATAA
1 ACTCATATAA
11695438 AATAATCCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (51 bp):
ACTCATATAATCTAATTTTAAATCAACTAAATTAAATTAAATTAAACTTTG
Found at i:11696456 original size:16 final size:16
Alignment explanation
Indices: 11696435--11696468 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11696425 TTAAGCTACG
11696435 ATAGTATATAAACATT
1 ATAGTATATAAACATT
11696451 ATAGTATATAAACATT
1 ATAGTATATAAACATT
11696467 AT
1 AT
11696469 GCACAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
ATAGTATATAAACATT
Found at i:11698770 original size:99 final size:99
Alignment explanation
Indices: 11698592--11698784 Score: 316
Period size: 99 Copynumber: 1.9 Consensus size: 99
11698582 ATTCAATAAT
*
11698592 ATACATTTAAGGGTCTCATGTTCACATCTTATGTGTAGAAAAAAAAAACACGAATTAGAAAAAGG
1 ATACATTTAAGAGTCTCATGTTCACATCTTATGTGTAG---AAAAAAACACGAATTAGAAAAAGG
11698657 AAGAAAATTGTCATTGACCAATTTTCTCTCATACATA
63 AAGAAAATTGTCATTGACCAATTTTCTCTCATACATA
* *
11698694 ATACATTTTAAGAGTCTCATGTTCACATCTTTTGTGTAG-AAAAAACACTAATTAGAAAAAGGAA
1 ATACA-TTTAAGAGTCTCATGTTCACATCTTATGTGTAGAAAAAAACACGAATTAGAAAAAGGAA
11698758 GAAAATTGTCATTGACCAATTTTCTCT
65 GAAAATTGTCATTGACCAATTTTCTCT
11698785 ATATGTATAT
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
99 51 0.59
102 5 0.06
103 31 0.36
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (99 bp):
ATACATTTAAGAGTCTCATGTTCACATCTTATGTGTAGAAAAAAACACGAATTAGAAAAAGGAAG
AAAATTGTCATTGACCAATTTTCTCTCATACATA
Found at i:11702386 original size:50 final size:50
Alignment explanation
Indices: 11702327--11702427 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
11702317 TGAAAGATTA
**
11702327 TAAAAAATAAATTATTGTGAATTTATTAATCCC-GTCATATATAAACCTGT
1 TAAAAAATAAATTATCATGAATTTATTAATCCCAGT-ATATATAAACCTGT
*
11702377 TAAAAAATAAGTTATCATGAATTTATTAATCCCAGTATATATAAACCTGT
1 TAAAAAATAAATTATCATGAATTTATTAATCCCAGTATATATAAACCTGT
11702427 T
1 T
11702428 GAACCGGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.38
Consensus pattern (50 bp):
TAAAAAATAAATTATCATGAATTTATTAATCCCAGTATATATAAACCTGT
Found at i:11707013 original size:8 final size:8
Alignment explanation
Indices: 11707002--11707030 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11706992 TTTATATTTT
11707002 TTAATAAA
1 TTAATAAA
11707010 TTAATAAA
1 TTAATAAA
11707018 TTAATAAA
1 TTAATAAA
11707026 TTAAT
1 TTAAT
11707031 TTTAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAATAAA
Found at i:11717640 original size:12 final size:12
Alignment explanation
Indices: 11717623--11717650 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11717613 GGCTTCTTCG
11717623 TAGGAGACTCTT
1 TAGGAGACTCTT
11717635 TAGGAGACTCTT
1 TAGGAGACTCTT
11717647 TAGG
1 TAGG
11717651 CTTCTTCGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (12 bp):
TAGGAGACTCTT
Found at i:11721413 original size:15 final size:15
Alignment explanation
Indices: 11721393--11721440 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
11721383 CATTTTAAGT
11721393 TTTGATTAATTTGAA
1 TTTGATTAATTTGAA
*
11721408 TTTGATCAATTTGAA
1 TTTGATTAATTTGAA
*
11721423 TTTGAGTTCATTTGAA
1 TTTGA-TTAATTTGAA
11721439 TT
1 TT
11721441 CAAATTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (15 bp):
TTTGATTAATTTGAA
Found at i:11725284 original size:36 final size:36
Alignment explanation
Indices: 11725242--11725315 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
11725232 TTTTTAAGGA
* *
11725242 TTCCTTTTGTTTCTAATGTAATAATAATTTTTTATT
1 TTCCTTTTATTTCAAATGTAATAATAATTTTTTATT
* *
11725278 TTCCTTTTATTTCAAATGTAATATTTATTTTTTATT
1 TTCCTTTTATTTCAAATGTAATAATAATTTTTTATT
11725314 TT
1 TT
11725316 TATATTAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (36 bp):
TTCCTTTTATTTCAAATGTAATAATAATTTTTTATT
Found at i:11727645 original size:19 final size:19
Alignment explanation
Indices: 11727621--11727658 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11727611 AGAAAAAGAA
11727621 AATGACAACCAGACTCGTC
1 AATGACAACCAGACTCGTC
11727640 AATGACAACCAGACTCGTC
1 AATGACAACCAGACTCGTC
11727659 TGCTTCTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.16, T:0.16
Consensus pattern (19 bp):
AATGACAACCAGACTCGTC
Found at i:11728264 original size:6 final size:7
Alignment explanation
Indices: 11728249--11728273 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11728239 AATATTATAA
11728249 TTTTATT
1 TTTTATT
11728256 TTTTATT
1 TTTTATT
11728263 TTTTATT
1 TTTTATT
11728270 TTTT
1 TTTT
11728274 CTGTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:11730347 original size:528 final size:512
Alignment explanation
Indices: 11729416--11730456 Score: 1699
Period size: 528 Copynumber: 2.0 Consensus size: 512
11729406 ATATACCAAT
* * *
11729416 TTTTTTTTTAACAATACTCACAATATTTGAACATCCAAATCATTTACTATTTCATGCTTGATCCG
1 TTTTATTTTAACAATACTCACAATATTTGAAAATCCAAATCATTTACTATTTCATGCTTGACCCG
11729481 ATTTTAAAAAACAATTCTATTTTCATAAATCATAAAACGATCAATTTCACAATATCTAATATTAT
66 ATTTTAAAAAACAATTCTATTTTCATAAATCATAAAACGATCAATTTCACAATATCTAATATTAT
* * *
11729546 TTTTTATTTTTTAAAAAATAGATATCCAATTATATCATTTATGAGACAACTAGAAAATGCTAAAA
131 TTTTTATTTTTAAAAAAATAGAAATCCAATTATATCATTTATAAGACAACTAGAAAATGCTAAAA
* * * *
11729611 CATTTATAAAACACCAATCTTCTAAAATATCGAAAAGGTCTGTCTACTTACCTGATTTTCTTGGC
196 CATTTATAAAACACCAATCTTCTAAAACAACCAAAAGGTCTGTCAACTTACCTGATTTTCTTGGC
* * *
11729676 ATATACAACACTTACCATTATGAATTAATAGCCAACCACATTTCAAATAATTAATGAATGATGCT
261 ATATACAACACTTACCACTATGAATTAATAACCAACCACATTTCAAATAATTAATGAATGATCCT
11729741 TTTACCCTTCAACCAGACCTAAACACTTTTGGAGGCGTGTTTGGAACCTTCAAAATTATTTAAAA
326 TTTACCCTTCAACCAGACCTAAACACTTTTGGAGGCGTGTTTGGAACCTTCAAAATTATTTAAAA
*
11729806 ACTCATTTTCTCAAATTTTCACAATTTTGGTATTAGTCAATAATACTAAAAA-ATATGGATCTTC
391 ACTCATTTTCTCAAATTTTCACAATTTTGGTAATAGTCAATAATACTAAAAATATATGGATCTTC
11729870 ACTTTTCAAAGGAAATATTTTGTTAATAGCTACAAATATTAATCCTCACAAAATTTA
456 ACTTTTCAAAGGAAATATTTTGTTAATAGCTACAAATATTAATCCTCACAAAATTTA
* * *
11729927 TTTTATTTTAACAATACTCACAATATTTGAAAATTCAAATCGTTTACTATTTCATGCTTGACCCT
1 TTTTATTTTAACAATACTCACAATATTTGAAAATCCAAATCATTTACTATTTCATGCTTGACCCG
11729992 ATTTTAAAAAACAATTCTATTTTCATAAATCATAAAACGATCAATTTCACAATATCTAATATTAT
66 ATTTTAAAAAACAATTCTATTTTCATAAATCATAAAACGATCAATTTCACAATATCTAATATTA-
* * *
11730057 TTTTTTAATTTTTAAAAAAATATAAATCCAATTATATCATTTATAAGACAACTAGTAAATGGTAA
130 TTTTTT-ATTTTTAAAAAAATAGAAATCCAATTATATCATTTATAAGACAACTAGAAAATGCTAA
11730122 AACATTTATAAAACACCAATCTTCTAAAACAACCAAAAGGTCTGTCAACTTACCTGATTTTC-TG
194 AACATTTATAAAACACCAATCTTCTAAAACAACCAAAAGGTCTGTCAACTTACCTGATTTTCTTG
* * *
11730186 GACGTATACAACACTTGAAAATTTTTCAATTACCACTATGAATTACTAACCAATCACATTTCAAA
259 G-CATATAC-A-AC------A-----C--TTACCACTATGAATTAATAACCAACCACATTTCAAA
11730251 TAATTAATGAATGATCCTTTTACCCTTCAACCAGACCTAAACACTTTTGGAGGCGTGTTTGGAAC
308 TAATTAATGAATGATCCTTTTACCCTTCAACCAGACCTAAACACTTTTGGAGGCGTGTTTGGAAC
11730316 CTTCAAAATTATTTAAAAACTCATTTTCTCAAATTTTCACAATTTTGGTAATAGTCAATAATACT
373 CTTCAAAATTATTTAAAAACTCATTTTCTCAAATTTTCACAATTTTGGTAATAGTCAATAATACT
11730381 AAAAATATATGGATCTTCACTTTTCAAAGGAAATATTTTGTTAATAGCTACAAATATTAATCCTC
438 AAAAATATATGGATCTTCACTTTTCAAAGGAAATATTTTGTTAATAGCTACAAATATTAATCCTC
11730446 ACAAAATTTA
503 ACAAAATTTA
11730456 T
1 T
11730457 ATTTTTCTGT
Statistics
Matches: 488, Mismatches: 23, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
511 123 0.25
512 9 0.02
513 116 0.24
514 1 0.00
515 2 0.00
521 1 0.00
526 1 0.00
528 165 0.34
529 70 0.14
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (512 bp):
TTTTATTTTAACAATACTCACAATATTTGAAAATCCAAATCATTTACTATTTCATGCTTGACCCG
ATTTTAAAAAACAATTCTATTTTCATAAATCATAAAACGATCAATTTCACAATATCTAATATTAT
TTTTTATTTTTAAAAAAATAGAAATCCAATTATATCATTTATAAGACAACTAGAAAATGCTAAAA
CATTTATAAAACACCAATCTTCTAAAACAACCAAAAGGTCTGTCAACTTACCTGATTTTCTTGGC
ATATACAACACTTACCACTATGAATTAATAACCAACCACATTTCAAATAATTAATGAATGATCCT
TTTACCCTTCAACCAGACCTAAACACTTTTGGAGGCGTGTTTGGAACCTTCAAAATTATTTAAAA
ACTCATTTTCTCAAATTTTCACAATTTTGGTAATAGTCAATAATACTAAAAATATATGGATCTTC
ACTTTTCAAAGGAAATATTTTGTTAATAGCTACAAATATTAATCCTCACAAAATTTA
Found at i:11732686 original size:14 final size:14
Alignment explanation
Indices: 11732667--11732708 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
11732657 CTGAGCCGAG
11732667 CCGAGCCGTTCTTC-
1 CCGAGCCGTT-TTCT
11732681 CCGAGCCG-TTTCT
1 CCGAGCCGTTTTCT
11732694 CCGAGCCGTTTTCT
1 CCGAGCCGTTTTCT
11732708 C
1 C
11732709 TTCCTTGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 9 0.35
14 14 0.54
ACGTcount: A:0.07, C:0.40, G:0.21, T:0.31
Consensus pattern (14 bp):
CCGAGCCGTTTTCT
Found at i:11732699 original size:13 final size:15
Alignment explanation
Indices: 11732667--11732704 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
11732657 CTGAGCCGAG
11732667 CCGAGCCG-TTCTTC
1 CCGAGCCGTTTCTTC
11732681 CCGAGCCGTTTC-T-
1 CCGAGCCGTTTCTTC
11732694 CCGAGCCGTTT
1 CCGAGCCGTTT
11732705 TCTCTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 11 0.48
14 9 0.39
15 3 0.13
ACGTcount: A:0.08, C:0.39, G:0.24, T:0.29
Consensus pattern (15 bp):
CCGAGCCGTTTCTTC
Found at i:11732793 original size:23 final size:24
Alignment explanation
Indices: 11732763--11732807 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11732753 TTTTTTTGAA
11732763 TTTTTTTTA-TTTTCATTTATTTG
1 TTTTTTTTATTTTTCATTTATTTG
*
11732786 TTTTTTTTATTTTTTATTTATT
1 TTTTTTTTATTTTTCATTTATT
11732808 AGATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (24 bp):
TTTTTTTTATTTTTCATTTATTTG
Found at i:11732891 original size:14 final size:13
Alignment explanation
Indices: 11732858--11732900 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
11732848 TTTTACTTTC
11732858 CTTTATTT-TTTAT
1 CTTTATTTATTT-T
11732871 CTTTATTTATTTT
1 CTTTATTTATTTT
11732884 CATTTATTTATTATT
1 C-TTTATTTATT-TT
11732899 CT
1 CT
11732901 ATTTTCTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.37
14 14 0.52
15 3 0.11
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTATTTATTTT
Found at i:11733015 original size:61 final size:60
Alignment explanation
Indices: 11732915--11733152 Score: 340
Period size: 61 Copynumber: 4.0 Consensus size: 60
11732905 TCTTTAAATA
*
11732915 AAAATCAAAATTTCCAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAGATATTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTG
11732975 AAAATCAAAATTTCCAAAAAAGATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAGATATTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
11733036 AAAATCAAAATTTCCAAAAAAAGATATCTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCC-AAAAAAGATAT-TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * * *
11733098 GAAATC-AAA-GT-AAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAATCAAAATTTCCAAAAAAGATA-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
11733153 CTACACAAGA
Statistics
Matches: 165, Mismatches: 8, Indels: 12
0.89 0.04 0.06
Matches are distributed among these distances:
58 38 0.23
59 1 0.01
60 22 0.13
61 54 0.33
62 48 0.29
63 2 0.01
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (60 bp):
AAAATCAAAATTTCCAAAAAAGATATTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:11733087 original size:62 final size:62
Alignment explanation
Indices: 11732915--11733152 Score: 346
Period size: 62 Copynumber: 4.0 Consensus size: 62
11732905 TCTTTAAATA
*
11732915 AAAATCAAAATTTCCAAAAAAATAT-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAAGATATTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
*
11732975 AAAATCAAAATTTCC-AAAAAAGATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAAGATATTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
11733036 AAAATCAAAATTTCCAAAAAAAGATATCTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATCAAAATTTCCAAAAAAAGATATTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * * *
11733098 GAAATC-AAA-GT--AAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCC
1 AAAATCAAAATTTCCAAAAAAAGATATTTTAGAGGAAAAGTTGAAAGTATCAATTTTCC
11733153 CTACACAAGA
Statistics
Matches: 165, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
58 40 0.24
59 8 0.05
60 21 0.13
61 47 0.28
62 49 0.30
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (62 bp):
AAAATCAAAATTTCCAAAAAAAGATATTTTAGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:11737109 original size:24 final size:24
Alignment explanation
Indices: 11737077--11737155 Score: 149
Period size: 24 Copynumber: 3.3 Consensus size: 24
11737067 ACGAATTTGA
*
11737077 AGACTCTTTGGGCTTCTTCGTAGG
1 AGACTCTTTAGGCTTCTTCGTAGG
11737101 AGACTCTTTAGGCTTCTTCGTAGG
1 AGACTCTTTAGGCTTCTTCGTAGG
11737125 AGACTCTTTAGGCTTCTTCGTAGG
1 AGACTCTTTAGGCTTCTTCGTAGG
11737149 AGACTCT
1 AGACTCT
11737156 GTTGGTATGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (24 bp):
AGACTCTTTAGGCTTCTTCGTAGG
Found at i:11742504 original size:30 final size:30
Alignment explanation
Indices: 11742468--11742525 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
11742458 ACTTGTCTGC
*
11742468 TCCTTGCGATGTTGCTGGTTGAATAAGCGA
1 TCCTTGCGATGCTGCTGGTTGAATAAGCGA
11742498 TCCTTGCGATGCTGCTGGTTGAATAAGC
1 TCCTTGCGATGCTGCTGGTTGAATAAGC
11742526 CATAGTAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (30 bp):
TCCTTGCGATGCTGCTGGTTGAATAAGCGA
Found at i:11743733 original size:36 final size:36
Alignment explanation
Indices: 11743682--11743753 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
11743672 TTAAGGATTC
* *
11743682 CTTTTGTTTCTAATGTAATAATTATTTTTTATTTTT
1 CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
*
11743718 CTTTTATTTCAAATGTAATATTTATTTTTTATTTTT
1 CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
11743754 ATATTAACTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.04, T:0.67
Consensus pattern (36 bp):
CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
Found at i:11746606 original size:19 final size:19
Alignment explanation
Indices: 11746578--11746616 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11746568 CATCGAGGTC
*
11746578 TTAGCATTTTTTTGGTTGA
1 TTAGCATTTTTCTGGTTGA
*
11746597 TTAGCGTTTTTCTGGTTGA
1 TTAGCATTTTTCTGGTTGA
11746616 T
1 T
11746617 GCATTGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.13, C:0.08, G:0.23, T:0.56
Consensus pattern (19 bp):
TTAGCATTTTTCTGGTTGA
Found at i:11750867 original size:14 final size:14
Alignment explanation
Indices: 11750850--11750883 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11750840 ATTTTTCCTC
11750850 TTAAAATATATTTT
1 TTAAAATATATTTT
*
11750864 TTAAAATATGTTTT
1 TTAAAATATATTTT
*
11750878 ATAAAA
1 TTAAAA
11750884 AAGAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TTAAAATATATTTT
Found at i:11750961 original size:8 final size:8
Alignment explanation
Indices: 11750950--11750978 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11750940 TTTATATTTT
11750950 TTAATAAA
1 TTAATAAA
11750958 TTAATAAA
1 TTAATAAA
11750966 TTAATAAA
1 TTAATAAA
11750974 TTAAT
1 TTAAT
11750979 TTTAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TTAATAAA
Found at i:11751886 original size:21 final size:22
Alignment explanation
Indices: 11751860--11751900 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
11751850 CTCATTTATT
11751860 AATTAATATATAATT-GAATAA
1 AATTAATATATAATTAGAATAA
11751881 AATTAATATATAATTAGAAT
1 AATTAATATATAATTAGAAT
11751901 GAAACTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
AATTAATATATAATTAGAATAA
Found at i:11755834 original size:2 final size:2
Alignment explanation
Indices: 11755827--11755851 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11755817 CTATACCAAC
11755827 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11755852 GAAAATACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11758738 original size:24 final size:24
Alignment explanation
Indices: 11758706--11758761 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
11758696 TGAATTTGGG
11758706 GACTCTTTAGGCTTCTTCGTAGGA
1 GACTCTTTAGGCTTCTTCGTAGGA
*
11758730 GACTCTTTAGGCTTCTTCGTCGGA
1 GACTCTTTAGGCTTCTTCGTAGGA
*
11758754 AACTCTTT
1 GACTCTTT
11758762 TGGTATGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.23, G:0.21, T:0.39
Consensus pattern (24 bp):
GACTCTTTAGGCTTCTTCGTAGGA
Found at i:11763270 original size:13 final size:13
Alignment explanation
Indices: 11763252--11763278 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11763242 AATGCTTACT
11763252 GAAAGCCCAACCC
1 GAAAGCCCAACCC
11763265 GAAAGCCCAACCC
1 GAAAGCCCAACCC
11763278 G
1 G
11763279 GATTTCAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.44, G:0.19, T:0.00
Consensus pattern (13 bp):
GAAAGCCCAACCC
Found at i:11765066 original size:6 final size:7
Alignment explanation
Indices: 11765051--11765081 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11765041 GGGAATATAA
11765051 TTTTATT
1 TTTTATT
11765058 TTTTATT
1 TTTTATT
11765065 TTTTA-T
1 TTTTATT
11765071 TTTTATT
1 TTTTATT
11765078 TTTT
1 TTTT
11765082 GTAATTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTATT
Found at i:11765073 original size:13 final size:14
Alignment explanation
Indices: 11765051--11765081 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11765041 GGGAATATAA
11765051 TTTTATTTTTTATT
1 TTTTATTTTTTATT
11765065 TTTTA-TTTTTATT
1 TTTTATTTTTTATT
11765078 TTTT
1 TTTT
11765082 GTAATTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:11765431 original size:36 final size:35
Alignment explanation
Indices: 11765384--11765456 Score: 128
Period size: 36 Copynumber: 2.1 Consensus size: 35
11765374 TTTTTCCGGA
11765384 TTCCTTTTGTTTCAAATGTAATATTTATTTTGTATT
1 TTCCTTTTGTTTCAAATGTAATATTTATTTT-TATT
*
11765420 TTCCTTTTGTTTCAAATTTAATATTTATTTTTATT
1 TTCCTTTTGTTTCAAATGTAATATTTATTTTTATT
11765455 TT
1 TT
11765457 TATTTTTATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
35 6 0.17
36 30 0.83
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.64
Consensus pattern (35 bp):
TTCCTTTTGTTTCAAATGTAATATTTATTTTTATT
Found at i:11765585 original size:36 final size:36
Alignment explanation
Indices: 11765545--11765614 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
11765535 ATATCTTATT
* *
11765545 ATGAAGTGT-ATTAATTGTACATATAATAGAAGTATC
1 ATGAAGTGTAATAAATT-TACATATAATACAAGTATC
11765581 ATGAAGTGTAATAAATTTACATATAATACAAGTA
1 ATGAAGTGTAATAAATTTACATATAATACAAGTA
11765615 CAATGTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 25 0.81
37 6 0.19
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (36 bp):
ATGAAGTGTAATAAATTTACATATAATACAAGTATC
Found at i:11766017 original size:17 final size:18
Alignment explanation
Indices: 11765987--11766021 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11765977 AATTTTTTAC
*
11765987 TTTTCTTTTTTCCTTTTT
1 TTTTCTTTTATCCTTTTT
11766005 TTTTC-TTTATCCTTTTT
1 TTTTCTTTTATCCTTTTT
11766022 CTTATTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTATCCTTTTT
Found at i:11767029 original size:16 final size:16
Alignment explanation
Indices: 11766992--11767025 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11766982 GCAAAAAAGG
*
11766992 AAATAGAAATAGAAAT
1 AAATAAAAATAGAAAT
11767008 AAATAAAAATA-AAAT
1 AAATAAAAATAGAAAT
11767023 AAA
1 AAA
11767026 ATAATAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATAAAAATAGAAAT
Found at i:11767033 original size:3 final size:3
Alignment explanation
Indices: 11767009--11767104 Score: 108
Period size: 3 Copynumber: 32.7 Consensus size: 3
11766999 AATAGAAATA
* ** *
11767009 AAT AAA AAT AA- AAT AA- AAT AAT AAT GGT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
11767055 AAT AAT AAT AAT AAT AAT AA- AAGT AGT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
11767100 AAT AA
1 AAT AA
11767105 ACATCCACTT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
2 6 0.08
3 72 0.91
4 1 0.01
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:11767808 original size:89 final size:89
Alignment explanation
Indices: 11767585--11767810 Score: 258
Period size: 89 Copynumber: 2.5 Consensus size: 89
11767575 AAGGTTGAAG
11767585 ATGAATAATCAGGATGAAACCATGAATCATGTGATCGAGA-AGAAACCACGAGTCAAAATAAAGC
1 ATGAATAATCAGGATGAAACCATGAATCATGTGATCGAGATA-AAACCACGAGTCAAAATAAAGC
* * **
11767649 GATCAAAATCGAGTCAAGATTGAAA
65 AACCAAAATCGAGTCAAGATAAAAA
* * ** * *
11767674 ATAAATGATTGGGATGAAACCATGAATCATGTGA-CCAGATCAAAACCACGAGTCGAAATAAAGC
1 ATGAATAATCAGGATGAAACCATGAATCATGTGATCGAGAT-AAAACCACGAGTCAAAATAAAGC
* **
11767738 AACCAAGATCGAGTTGAGATAAAAA
65 AACCAAAATCGAGTCAAGATAAAAA
* ** * *
11767763 ATGAATAATCAGGATGAAACTACAAATCATATGATCGGGATAAAACCA
1 ATGAATAATCAGGATGAAACCATGAATCATGTGATCGAGATAAAACCA
11767811 TGAATTATGT
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
88 4 0.04
89 102 0.92
90 5 0.05
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (89 bp):
ATGAATAATCAGGATGAAACCATGAATCATGTGATCGAGATAAAACCACGAGTCAAAATAAAGCA
ACCAAAATCGAGTCAAGATAAAAA
Found at i:11767809 original size:115 final size:115
Alignment explanation
Indices: 11767678--11767897 Score: 307
Period size: 115 Copynumber: 1.9 Consensus size: 115
11767668 TTGAAAATAA
* * * *
11767678 ATGATTGGGATGAAACCATGAATCATGTGA-CCAGATCAAAACCACGAGTCGAAATAAAGCAACC
1 ATGATCGGGATAAAACCATGAATCATGTGACCCAGAT-AAAACCACGAGTCAAAATAAAACAACC
* * *
11767742 AAGATCGAGTTGAGATAAAAAATGAATAATCAGGATGAAACTACAAATCAT
65 AAGATCAAGTTGAGATAAAAAATAAATAATCAGAATGAAACTACAAATCAT
* * *
11767793 ATGATCGGGATAAAACCATGAATTATGTGACCCAGATGAAACCACGAGTCAAAATAAAACGACCA
1 ATGATCGGGATAAAACCATGAATCATGTGACCCAGATAAAACCACGAGTCAAAATAAAACAACCA
* * *
11767858 AGATCAAGTTGAGGTTAAAAATAAATGATCAGAATGAAAC
66 AGATCAAGTTGAGATAAAAAATAAATAATCAGAATGAAAC
11767898 CATGAATCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
115 85 0.93
116 6 0.07
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (115 bp):
ATGATCGGGATAAAACCATGAATCATGTGACCCAGATAAAACCACGAGTCAAAATAAAACAACCA
AGATCAAGTTGAGATAAAAAATAAATAATCAGAATGAAACTACAAATCAT
Found at i:11767898 original size:89 final size:89
Alignment explanation
Indices: 11767805--11767975 Score: 234
Period size: 89 Copynumber: 1.9 Consensus size: 89
11767795 GATCGGGATA
* * *
11767805 AAACCATGAATTATGTGACCCAGATGAAACCACGAGTCAAAATAAAACGACCAAGATCAAGTTGA
1 AAACCATGAATCATGTGACCAAGATGAAACCACGAGTCAAAATAAAACGACCAAGATCAAGTCGA
*
11767870 GGTTAAAAATAAATGATCAGAATG
66 GGTCAAAAATAAATGATCAGAATG
* ** ** *
11767894 AAACCATGAATCATGTGATCAAGATGAAACCACGAGTTGAAATAAAGTGACCAAGATCGAGTCGA
1 AAACCATGAATCATGTGACCAAGATGAAACCACGAGTCAAAATAAAACGACCAAGATCAAGTCGA
* *
11767959 TGTCGAAAATAAATGAT
66 GGTCAAAAATAAATGAT
11767976 TAGGATGATG
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (89 bp):
AAACCATGAATCATGTGACCAAGATGAAACCACGAGTCAAAATAAAACGACCAAGATCAAGTCGA
GGTCAAAAATAAATGATCAGAATG
Found at i:11767924 original size:115 final size:115
Alignment explanation
Indices: 11767686--11767925 Score: 302
Period size: 115 Copynumber: 2.1 Consensus size: 115
11767676 AAATGATTGG
* * *
11767686 GATGAAACCATGAATCATGTGACCAGATCAAAACCACGAGTCGAAATAAAGCAACCAAGATCGAG
1 GATGAAACCATGAATCATGTGACCAGATCAAAACCACGAGTCAAAATAAAACAACCAAGATCAAG
* * * **
11767751 TTGAGATAAAAAATGAATAATCAGGATGAAACTACAAATCATATGATCGG
66 TTGAGATAAAAAATAAATAATCAGAATGAAACCACAAATCATATGATCAA
* * * *
11767801 GATAAAACCATGAATTATGTGACCCAGAT-GAAACCACGAGTCAAAATAAAACGACCAAGATCAA
1 GATGAAACCATGAATCATGTGA-CCAGATCAAAACCACGAGTCAAAATAAAACAACCAAGATCAA
* * * ** *
11767865 GTTGAGGTTAAAAATAAATGATCAGAATGAAACCATGAATCATGTGATCAA
65 GTTGAGATAAAAAATAAATAATCAGAATGAAACCACAAATCATATGATCAA
11767916 GATGAAACCA
1 GATGAAACCA
11767926 CGAGTTGAAA
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
115 99 0.94
116 6 0.06
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (115 bp):
GATGAAACCATGAATCATGTGACCAGATCAAAACCACGAGTCAAAATAAAACAACCAAGATCAAG
TTGAGATAAAAAATAAATAATCAGAATGAAACCACAAATCATATGATCAA
Found at i:11782517 original size:11 final size:11
Alignment explanation
Indices: 11782501--11782526 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11782491 TTATTTTGTT
11782501 TTAAGTAGATA
1 TTAAGTAGATA
11782512 TTAAGTAGATA
1 TTAAGTAGATA
11782523 TTAA
1 TTAA
11782527 TGTAAAACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (11 bp):
TTAAGTAGATA
Found at i:11783820 original size:148 final size:148
Alignment explanation
Indices: 11783552--11783846 Score: 572
Period size: 148 Copynumber: 2.0 Consensus size: 148
11783542 ACATTTTCCC
*
11783552 GCACCCAACCTGGTGACGCCCTCGTCATGGAGGCTGGCCACCCTGCCTACCTTCCTCAAGGTGCT
1 GCACCCAACCTCGTGACGCCCTCGTCATGGAGGCTGGCCACCCTGCCTACCTTCCTCAAGGTGCT
11783617 TGGCGTGGATCGAACGGTTTAACCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTCC
66 TGGCGTGGATCGAACGGTTTAACCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTCC
11783682 GAACCCGCGCGGCTCCGA
131 GAACCCGCGCGGCTCCGA
11783700 GCACCCAACCTCGTGACGCCCTCGTCATGGAGGCTGGCCACCCTGCCTACCTTCCTCAAGGTGCT
1 GCACCCAACCTCGTGACGCCCTCGTCATGGAGGCTGGCCACCCTGCCTACCTTCCTCAAGGTGCT
*
11783765 TGGCGTGGATCGAACGGTTTAACCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTTC
66 TGGCGTGGATCGAACGGTTTAACCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTCC
11783830 GAACCCGCGCGGCTCCG
131 GAACCCGCGCGGCTCCG
11783847 GGACCCGGGC
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.17, C:0.35, G:0.27, T:0.21
Consensus pattern (148 bp):
GCACCCAACCTCGTGACGCCCTCGTCATGGAGGCTGGCCACCCTGCCTACCTTCCTCAAGGTGCT
TGGCGTGGATCGAACGGTTTAACCTGGCTCTGATACCACTTGTCACGGGTCGAGACTTAAGCTCC
GAACCCGCGCGGCTCCGA
Found at i:11790104 original size:42 final size:42
Alignment explanation
Indices: 11789999--11790105 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
11789989 ACTTTCCCAG
* ** *
11789999 AACACTGCAATGGAGCACACCAAAATTTGGACTGATTCCTAC
1 AACACTGCAATGGGGCACACCAAAAGATGGACCGATTCCTAC
* ***
11790041 AACACTGCACTGGGATTCACCAAAAGATGGACACG-TTCCTAC
1 AACACTGCAATGGGGCACACCAAAAGATGGAC-CGATTCCTAC
*
11790083 AGCACTGCAATGGGGCACACCAA
1 AACACTGCAATGGGGCACACCAA
11790106 TAAGTGGGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 50 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.18
Consensus pattern (42 bp):
AACACTGCAATGGGGCACACCAAAAGATGGACCGATTCCTAC
Found at i:11801499 original size:19 final size:17
Alignment explanation
Indices: 11801477--11801525 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 17
11801467 TGTATCTGAA
11801477 TTTTAATTTTTTTTTGTT
1 TTTTAATTTTTTTTTG-T
* *
11801495 GTTTTAATATTTTATTGT
1 -TTTTAATTTTTTTTTGT
*
11801513 TTTCAATTTTTTT
1 TTTTAATTTTTTT
11801526 GATATTAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 14 0.56
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTAATTTTTTTTTGT
Found at i:11804957 original size:14 final size:14
Alignment explanation
Indices: 11804938--11804967 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11804928 ATTACTAAAA
11804938 TACTTGACTTGCCT
1 TACTTGACTTGCCT
11804952 TACTTGACTTGCCT
1 TACTTGACTTGCCT
11804966 TA
1 TA
11804968 GTAATAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.27, G:0.13, T:0.43
Consensus pattern (14 bp):
TACTTGACTTGCCT
Found at i:11808313 original size:17 final size:17
Alignment explanation
Indices: 11808293--11808326 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11808283 AAAAAAAAAT
11808293 ATATTATAATATTTTTA
1 ATATTATAATATTTTTA
*
11808310 ATATTATATTATTTTTA
1 ATATTATAATATTTTTA
11808327 CCTATATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATATTATAATATTTTTA
Found at i:11810837 original size:35 final size:36
Alignment explanation
Indices: 11810770--11810840 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
11810760 TTAAGGATTC
*
11810770 CTTTTATTTCTAATGTAATAATTATTTTTTATTTTT
1 CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
* *
11810806 CTTTTGTTTCAAATGT-ATATTTATTTTTTATTTTT
1 CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
11810841 ATATTAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 18 0.56
36 14 0.44
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.68
Consensus pattern (36 bp):
CTTTTATTTCAAATGTAATAATTATTTTTTATTTTT
Found at i:11810962 original size:36 final size:36
Alignment explanation
Indices: 11810917--11810985 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
11810907 TCCACATATC
*
11810917 TTATTATGAAGTGTAATAATTGTACATATAATATAA
1 TTATTATGAAGTGTAATAAATGTACATATAATATAA
11810953 TTATTATGAAGTGTAATAAATGTACATATAATA
1 TTATTATGAAGTGTAATAAATGTACATATAATA
11810986 GAAGTACAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.41
Consensus pattern (36 bp):
TTATTATGAAGTGTAATAAATGTACATATAATATAA
Found at i:11813828 original size:31 final size:31
Alignment explanation
Indices: 11813761--11813833 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
11813751 AATTTCCAGA
* * *
11813761 TTCCGACGAAAATTCCGGCGACTTTTGAATT
1 TTCCGGCGACAATTCCGGCGACTTTTGAAGT
11813792 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGT
1 TTCCGGCGACAATTCCGGCG-ACTTTTGAAGT
11813823 TTCCGGCGACA
1 TTCCGGCGACA
11813834 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (31 bp):
TTCCGGCGACAATTCCGGCGACTTTTGAAGT
Found at i:11813919 original size:19 final size:19
Alignment explanation
Indices: 11813895--11813939 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
11813885 TCCGGCCAAT
11813895 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
*
11813914 TTCCGGCGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
11813933 ATCCGGC
1 TTCCGGC
11813940 ACCGGCGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.22
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:11814169 original size:5 final size:5
Alignment explanation
Indices: 11814159--11814196 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
11814149 CAGCCCCCCT
*
11814159 CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
11814197 CGATCCGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.21, C:0.45, G:0.34, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:11814247 original size:16 final size:15
Alignment explanation
Indices: 11814216--11814290 Score: 55
Period size: 16 Copynumber: 4.8 Consensus size: 15
11814206 CCGCTCCAGG
11814216 TTTTTTTTTTTT--T
1 TTTTTTTTTTTTGAT
11814229 TTTTTTTTTTTTGAAT
1 TTTTTTTTTTTTG-AT
*
11814245 TTTTTTTTATTTGACT
1 TTTTTTTTTTTTGA-T
** *
11814261 TTGATTTTGATCTTGAT
1 TT--TTTTTTTTTTGAT
11814278 TTTTTTTCTTTTT
1 TTTTTTT-TTTTT
11814291 CTTTAATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
13 12 0.26
15 5 0.11
16 19 0.40
17 3 0.06
18 8 0.17
ACGTcount: A:0.09, C:0.04, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTTTTTTTTGAT
Found at i:11814252 original size:1 final size:1
Alignment explanation
Indices: 11814216--11814240 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
11814206 CCGCTCCAGG
11814216 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
11814241 GAATTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:11814560 original size:156 final size:156
Alignment explanation
Indices: 11814286--11814570 Score: 534
Period size: 156 Copynumber: 1.8 Consensus size: 156
11814276 ATTTTTTTTC
*
11814286 TTTTTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTC
11814351 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
11814416 ATAATTAATTAATTGGTTGATCTTGA
131 ATAATTAATTAATTGGTTGATCTTGA
* *
11814442 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGTGAAACAGTAGTTTTTCTTGCATACTC
1 TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTC
*
11814507 TTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
66 CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTC
11814571 AACAACTAAC
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 125 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (156 bp):
TTTTTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAACAGTAGTTTTTCTTGCATACTC
CTGAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCG
ATAATTAATTAATTGGTTGATCTTGA
Found at i:11818240 original size:17 final size:16
Alignment explanation
Indices: 11818220--11818271 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
11818210 AAAAAAAGAA
11818220 AGAAAGAAGAAAAAATG
1 AGAAA-AAGAAAAAATG
*
11818237 AGAAAATGAAAAAAATG
1 AGAAAAAG-AAAAAATG
11818254 A-AAAAATGAAAAAA-G
1 AGAAAAA-GAAAAAATG
11818269 AGA
1 AGA
11818272 TCCGAATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 2 0.07
16 13 0.43
17 15 0.50
ACGTcount: A:0.73, C:0.00, G:0.19, T:0.08
Consensus pattern (16 bp):
AGAAAAAGAAAAAATG
Found at i:11818251 original size:9 final size:8
Alignment explanation
Indices: 11818228--11818267 Score: 62
Period size: 8 Copynumber: 4.9 Consensus size: 8
11818218 AAAGAAAGAA
11818228 GAAAAAAT
1 GAAAAAAT
*
11818236 GAGAAAAT
1 GAAAAAAT
11818244 GAAAAAAAT
1 G-AAAAAAT
11818253 GAAAAAAT
1 GAAAAAAT
11818261 GAAAAAA
1 GAAAAAA
11818268 GAGATCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (8 bp):
GAAAAAAT
Found at i:11819494 original size:40 final size:40
Alignment explanation
Indices: 11819456--11820231 Score: 1023
Period size: 40 Copynumber: 19.0 Consensus size: 40
11819446 GTCTAGGAGT
*
11819456 ATTTATTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
* *
11819497 ATTTATTTTTTTCAAAGTTCGT-TGCCTCTATTTAGAGGAGCA
1 ATTTA--CTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
11819539 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
11819579 ATTTACTTTTCCAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
* *
11819619 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
11819661 ATTTACTTTCCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
11819701 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
11819742 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
11819782 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
11819823 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
11819865 ATTTACTTTCCAAAGTTCGT-TGCCTCTCTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
11819905 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
11819946 ATTTACTTTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
*
11819986 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
11820027 ATTTATTTTTCCAAAGTCGTGGTGCATCTGTTTAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
11820069 ATTTACTTTTCAAAGTCGTGGTGCTTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
11820110 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
11820152 ATTTACTTTCCAAAGTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-CGTGTGCCTCTGTTTAGAGGAGCA
* *
11820192 ATTTAC-TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
1 ATTTACTTTTC-AAAGTCG-TGTGCCTCTGTTTAGAGGAGC
11820232 TTCGGCCAAA
Statistics
Matches: 677, Mismatches: 34, Indels: 48
0.89 0.04 0.06
Matches are distributed among these distances:
39 21 0.03
40 253 0.37
41 203 0.30
42 188 0.28
43 12 0.02
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:11819728 original size:81 final size:81
Alignment explanation
Indices: 11819477--11820231 Score: 1028
Period size: 81 Copynumber: 9.2 Consensus size: 81
11819467 AAAGTTCCGT
* * *
11819477 TGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCAAAGTTCGTTGCCTCTATTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTA--CTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATT
*
11819542 TACTTTTCAAAGTTCGT--
64 TACTTTCCAAAG-TCGTGG
11819559 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
1 TGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTT
*
11819623 ATTTTTCCAAAGTCGTGG
65 A-CTTTCCAAAGTCGTGG
*
11819641 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
11819706 CTTTCCAAAGTCGTGG
66 CTTTCCAAAGTCGTGG
*
11819722 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
*
11819787 CTTTTCAAAGTCGTGG
66 CTTTCCAAAGTCGTGG
* * *
11819803 TGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAAT
1 TGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAAT
11819867 TTACTTTCCAAAGTTCGT--
63 TTACTTTCCAAAG-TCGTGG
*
11819885 TGCCTCTCTTTAGAGGAGCAATTTACTTTCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATT
*
11819949 TACTTTTCAAAGTTCGT--
64 TACTTTCCAAAG-TCGTGG
* *
11819966 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATT
*
11820030 TATTTTTCCAAAGTCGTGG
64 TA-CTTTCCAAAGTCGTGG
* * * *
11820049 TGCATCTGTTTAGAGGAGCAATTTACTTTTCAAAG-TCGTGGTGCTTCTGTTGAGAGGAGCAATT
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATT
*
11820113 TATTTTTCCAAAGTCGTGG
64 TA-CTTTCCAAAGTCGTGG
* *
11820132 TGCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTA
1 TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
* *
11820197 CTTTCAAAAGTCGTTG
66 CTTTCCAAAGTCGTGG
* *
11820213 AGTCTCTGTTTAGAGGAGC
1 TGCCTCTGTTTAGAGGAGC
11820232 TTCGGCCAAA
Statistics
Matches: 621, Mismatches: 39, Indels: 27
0.90 0.06 0.04
Matches are distributed among these distances:
80 36 0.06
81 287 0.46
82 145 0.23
83 146 0.24
84 7 0.01
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (81 bp):
TGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
CTTTCCAAAGTCGTGG
Found at i:11819834 original size:204 final size:205
Alignment explanation
Indices: 11819456--11820231 Score: 1244
Period size: 204 Copynumber: 3.8 Consensus size: 205
11819446 GTCTAGGAGT
* * * *
11819456 ATTTATTTTTCAAAGTTCCGTTGCCTCTGTTTAGAGGAGCAATTTATTTTTTTCAAAGTTCGT--
1 ATTTACTTTCCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTA-TCTTTCCAAAG-TCGTGG
*
11819519 TGCCTCTATTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
63 TGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA
* *
11819584 CTTTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTC
128 CTTTTCAAAG-TCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTC
11819647 TGTTGAGAGGAGCA
192 TGTTGAGAGGAGCA
11819661 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTGC
1 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGTGC
11819725 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
11819790 TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTT
131 TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTT
11819855 GAGAGGAGCA
196 GAGAGGAGCA
*
11819865 ATTTACTTTCCAAAGTTCGTTGCCTCTCTTTAGAGGAGCAATTTA-CTTTCCAAAGTCGTGGTGC
1 ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGTGC
11819929 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
66 CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
*
11819994 TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCATCTGTT
131 TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTT
*
11820059 TAGAGGAGCA
196 GAGAGGAGCA
* * * *
11820069 ATTTACTTTTCAAAG-TCGTGGTGCTTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGT
1 ATTTACTTTCCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGT
* * *
11820133 GCCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCCGTTGCCTCTGTTTAGAGGAGCAATTTAC
64 GCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC
* * * *
11820198 -TTTCAAAAGTCGTTGAGTCTCTGTTTAGAGGAGC
129 TTTTC-AAAGTCGTGGTGCCTCTGTTGAGAGGAGC
11820232 TTCGGCCAAA
Statistics
Matches: 541, Mismatches: 22, Indels: 15
0.94 0.04 0.03
Matches are distributed among these distances:
201 4 0.01
202 12 0.02
203 77 0.14
204 304 0.56
205 41 0.08
206 103 0.19
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.38
Consensus pattern (205 bp):
ATTTACTTTCCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGGTGC
CTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTT
TTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTGGTGCCTCTGTT
GAGAGGAGCA
Found at i:11820258 original size:14 final size:14
Alignment explanation
Indices: 11820239--11820338 Score: 110
Period size: 14 Copynumber: 6.5 Consensus size: 14
11820229 AGCTTCGGCC
11820239 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
11820253 AAAAAAAAAACAAA
1 AAAAAAAAAACAAA
*
11820267 AAAACAAAAACAAAA
1 AAAAAAAAAAC-AAA
11820282 AAATCAAAAAAATCAAA
1 AAA--AAAAAAA-CAAA
11820299 AAAAATAAAAACAAAA
1 AAAAA-AAAAAC-AAA
11820315 ATAAAAAAAAATCAAA
1 A-AAAAAAAAA-CAAA
11820331 AATAAAAA
1 AA-AAAAA
11820339 TGTTGAGTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
14 24 0.32
15 10 0.13
16 23 0.31
17 17 0.23
18 1 0.01
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:11820270 original size:22 final size:22
Alignment explanation
Indices: 11820242--11820325 Score: 116
Period size: 22 Copynumber: 3.7 Consensus size: 22
11820232 TTCGGCCAAA
11820242 AAAAAAACAAAAAAAAAAAAAC
1 AAAAAAACAAAAAAAAAAAAAC
*
11820264 AAAAAAACAAAAACAAAAAAATC
1 AAAAAAACAAAAA-AAAAAAAAC
11820287 AAAAAAATCAAAAAAAATAAAAAC
1 AAAAAAA-CAAAAAAAA-AAAAAC
*
11820311 AAAAATA-AAAAAAAA
1 AAAAAAACAAAAAAAA
11820326 TCAAAAATAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
22 21 0.38
23 18 0.32
24 17 0.30
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAAAAAAC
Found at i:11820291 original size:32 final size:31
Alignment explanation
Indices: 11820239--11820332 Score: 117
Period size: 33 Copynumber: 3.1 Consensus size: 31
11820229 AGCTTCGGCC
11820239 AAAAA-AAAAAC-AAAA-AAAAAAAAA-CAA
1 AAAAACAAAAACAAAAATAAAAAAAAATCAA
11820266 AAAAACAAAAACAAAAA-AATCAAAAAAATCAAA
1 AAAAACAAAAACAAAAATAA--AAAAAAATC-AA
*
11820299 AAAAATAAAAACAAAAATAAAAAAAAATCAA
1 AAAAACAAAAACAAAAATAAAAAAAAATCAA
11820330 AAA
1 AAA
11820333 TAAAAATGTT
Statistics
Matches: 59, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
27 5 0.08
28 6 0.10
29 6 0.10
31 12 0.20
32 10 0.17
33 18 0.31
34 2 0.03
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (31 bp):
AAAAACAAAAACAAAAATAAAAAAAAATCAA
Found at i:11820300 original size:41 final size:41
Alignment explanation
Indices: 11820239--11820332 Score: 117
Period size: 37 Copynumber: 2.4 Consensus size: 41
11820229 AGCTTCGGCC
*
11820239 AAAAAAAAAACAAAAAAA--AAAAAACAA-AAAAAC-AAAA-
1 AAAAAAAAATCAAAAAAATCAAAAAA-AACAAAAACAAAAAT
* *
11820276 ACAAAAAAATCAAAAAAATCAAAAAAAATAAAAACAAAAAT
1 AAAAAAAAATCAAAAAAATCAAAAAAAACAAAAACAAAAAT
11820317 AAAAAAAAATCAAAAA
1 AAAAAAAAATCAAAAA
11820333 TAAAAATGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
37 16 0.33
38 2 0.04
39 12 0.24
40 4 0.08
41 15 0.31
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (41 bp):
AAAAAAAAATCAAAAAAATCAAAAAAAACAAAAACAAAAAT
Found at i:11820331 original size:9 final size:8
Alignment explanation
Indices: 11820242--11820332 Score: 95
Period size: 9 Copynumber: 11.6 Consensus size: 8
11820232 TTCGGCCAAA
11820242 AAAAAAAC
1 AAAAAAAC
11820250 -AAAAAA-
1 AAAAAAAC
11820256 AAAAAAAC
1 AAAAAAAC
11820264 AAAAAAAC
1 AAAAAAAC
11820272 --AAAAAC
1 AAAAAAAC
11820278 AAAAAAATC
1 AAAAAAA-C
11820287 AAAAAAATC
1 AAAAAAA-C
11820296 AAAAAAA-
1 AAAAAAAC
*
11820303 ATAAAAAC
1 AAAAAAAC
11820311 AAAAATAA-
1 AAAAA-AAC
11820319 AAAAAAATC
1 AAAAAAA-C
11820328 AAAAA
1 AAAAA
11820333 TAAAAATGTT
Statistics
Matches: 72, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
6 6 0.08
7 20 0.28
8 22 0.31
9 24 0.33
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:11820338 original size:1 final size:1
Alignment explanation
Indices: 11820239--11820325 Score: 75
Period size: 1 Copynumber: 87.0 Consensus size: 1
11820229 AGCTTCGGCC
* * * * ** **
11820239 AAAAAAAAAACAAAAAAAAAAAAACAAAAAAACAAAAACAAAAAAATCAAAAAAATCAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
11820304 TAAAAACAAAAATAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAA
11820326 TCAAAAATAA
Statistics
Matches: 66, Mismatches: 20, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 66 1.00
ACGTcount: A:0.87, C:0.08, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:11820339 original size:23 final size:22
Alignment explanation
Indices: 11820241--11820339 Score: 91
Period size: 23 Copynumber: 4.5 Consensus size: 22
11820231 CTTCGGCCAA
* *
11820241 AAAAAAAACAAAAAAAAAAAAAC
1 AAAAAAAA-AATAAAAAAAAATC
11820264 AAAAAAACAAA-AACAAAAAAATC
1 AAAAAAA-AAATAA-AAAAAAATC
*
11820287 ---AAAAAAATCAAAAAAAAT-
1 AAAAAAAAAATAAAAAAAAATC
11820305 AAAAACAAAAATAAAAAAAAATC
1 AAAAA-AAAAATAAAAAAAAATC
11820328 AAAAATAAAAAT
1 AAAAA-AAAAAT
11820340 GTTGAGTTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
19 11 0.17
20 5 0.08
21 2 0.03
22 17 0.27
23 28 0.44
24 1 0.02
ACGTcount: A:0.85, C:0.08, G:0.00, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAATAAAAAAAAATC
Found at i:11821154 original size:31 final size:31
Alignment explanation
Indices: 11821116--11821186 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
11821106 AATTTCCAGA
* *
11821116 TTCCGGCGAAAATTCTGGCG-ACTTTTGAATT
1 TTCCGGCGAAAATTCCGGCGAAC-TTTGAAGT
* *
11821147 TTTCGGCGATAATTCCGGCGAACTTTGAAGT
1 TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
11821178 TTCCGGCGA
1 TTCCGGCGA
11821187 CAGACCCAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 32 0.94
32 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (31 bp):
TTCCGGCGAAAATTCCGGCGAACTTTGAAGT
Found at i:11821279 original size:19 final size:19
Alignment explanation
Indices: 11821257--11821293 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11821247 AATTTCCGAC
*
11821257 GAAATTCCCAGATTCCGGT
1 GAAATTCCCAGAATCCGGT
*
11821276 GAAATTTCCAGAATCCGG
1 GAAATTCCCAGAATCCGG
11821294 CACCGGCGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (19 bp):
GAAATTCCCAGAATCCGGT
Found at i:11821523 original size:5 final size:5
Alignment explanation
Indices: 11821513--11821555 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
11821503 TTCAGCCCCT
*
11821513 CCGAG CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
11821556 CGATCCGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 1 0.03
5 32 0.94
6 1 0.03
ACGTcount: A:0.21, C:0.44, G:0.35, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:11821524 original size:15 final size:15
Alignment explanation
Indices: 11821513--11821567 Score: 67
Period size: 15 Copynumber: 3.5 Consensus size: 15
11821503 TTCAGCCCCT
11821513 CCGAGCCGAGCCG-A
1 CCGAGCCGAGCCGCA
11821527 GCCGAGCCGAGCCGCA
1 -CCGAGCCGAGCCGCA
*
11821543 CCAAGCCGAGCCGCGA
1 CCGAGCCGAGCCGC-A
11821559 TCCGAGCCG
1 -CCGAGCCG
11821568 CTCCAGGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 26 0.74
16 2 0.06
17 7 0.20
ACGTcount: A:0.20, C:0.44, G:0.35, T:0.02
Consensus pattern (15 bp):
CCGAGCCGAGCCGCA
Found at i:11821937 original size:156 final size:157
Alignment explanation
Indices: 11821637--11821937 Score: 514
Period size: 156 Copynumber: 1.9 Consensus size: 157
11821627 TTTTTCTTTA
*
11821637 TTCTTTAATTAATCCGACGACGGAGCCTCTACAAGTAAAAACAATAGTTTTTCTTGCATACTCCT
1 TTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAATAGTTTTTCTTGCATACTCCT
* *
11821702 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCGAT
66 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCAAC
* *
11821767 AATTAATTAATTGGTTGATCTTGATTT
131 AACTAACTAATTGGTTGATCTTGATTT
* * *
11821794 TTCTTTAAATAATCCGACGACGGAGCCTCTGCAAGT-GAAACAATAGTTTTTCTTGCATACTCTT
1 TTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAATAGTTTTTCTTGCATACTCCT
11821858 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCAAC
66 GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCAAC
*
11821923 AACTAACTACTTGGT
131 AACTAACTAATTGGT
11821938 AAAATTTTAA
Statistics
Matches: 135, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
156 101 0.75
157 34 0.25
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (157 bp):
TTCTTTAAATAATCCGACGACGGAGCCTCTACAAGTAAAAACAATAGTTTTTCTTGCATACTCCT
GAGGTGAGGGAATTTTCTCAATTTTCTGCTAAAAGTATTAGAGTCAATTGAGAATAATTTTCAAC
AACTAACTAATTGGTTGATCTTGATTT
Found at i:11828182 original size:18 final size:18
Alignment explanation
Indices: 11828159--11828195 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11828149 TTTGTCAAAA
11828159 AAATAATTAATAAATTTT
1 AAATAATTAATAAATTTT
* *
11828177 AAATAATTTATTAATTTT
1 AAATAATTAATAAATTTT
11828195 A
1 A
11828196 TAAATATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATAATTAATAAATTTT
Found at i:11829715 original size:12 final size:12
Alignment explanation
Indices: 11829694--11829743 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
11829684 TTTTAAATTA
11829694 TAATAAAATATT
1 TAATAAAATATT
*
11829706 TAATATAATATT
1 TAATAAAATATT
*
11829718 TAA-AAAATTTT
1 TAATAAAATATT
**
11829729 TAATACTATATT
1 TAATAAAATATT
11829741 TAA
1 TAA
11829744 ATTATGAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (12 bp):
TAATAAAATATT
Found at i:11829730 original size:23 final size:23
Alignment explanation
Indices: 11829698--11829744 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11829688 AAATTATAAT
11829698 AAAATATTTAATA-TAATATTTAA
1 AAAATATTTAATACT-ATATTTAA
*
11829721 AAAATTTTTAATACTATATTTAA
1 AAAATATTTAATACTATATTTAA
11829744 A
1 A
11829745 TTATGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
AAAATATTTAATACTATATTTAA
Found at i:11832158 original size:22 final size:22
Alignment explanation
Indices: 11832132--11832175 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11832122 TTGTATATTT
* *
11832132 ATATTTGTATCTCTAGAATTAA
1 ATATTTGTATCCCTAAAATTAA
11832154 ATATTTGTATCCCTAAAATTAA
1 ATATTTGTATCCCTAAAATTAA
11832176 GGATAAAATA
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:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATTTGTATCCCTAAAATTAA
Found at i:11834363 original size:11 final size:10
Alignment explanation
Indices: 11834347--11834436 Score: 58
Period size: 11 Copynumber: 8.5 Consensus size: 10
11834337 TCTATATTCT
11834347 TTTTTTCTTTA
1 TTTTTT-TTTA
11834358 TTTTTTTCTTA
1 TTTTTTT-TTA
*
11834369 -TTTTTATT-
1 TTTTTTTTTA
*
11834377 TTTATTTTTA
1 TTTTTTTTTA
*
11834387 TTTTTTTGTA
1 TTTTTTTTTA
11834397 TTTTACATTTTTA
1 TTTT---TTTTTA
* *
11834410 TTTTATTTCTG
1 TTTT-TTTTTA
11834421 TTTTATTTTTA
1 TTTT-TTTTTA
11834432 TTTTT
1 TTTTT
11834437 ATCATTATTA
Statistics
Matches: 63, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.13
10 19 0.30
11 27 0.43
13 9 0.14
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:11834363 original size:12 final size:12
Alignment explanation
Indices: 11834346--11834385 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
11834336 GTCTATATTC
11834346 TTTTTTTCTTTA
1 TTTTTTTCTTTA
11834358 TTTTTTTC-TTA
1 TTTTTTTCTTTA
11834369 TTTTTATT-TTTA
1 TTTTT-TTCTTTA
11834381 TTTTT
1 TTTTT
11834386 ATTTTTTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTTTCTTTA
Found at i:11834377 original size:6 final size:6
Alignment explanation
Indices: 11834354--11834454 Score: 86
Period size: 6 Copynumber: 17.5 Consensus size: 6
11834344 TCTTTTTTTC
* *
11834354 TTTATT TTT-TT CTTATT TTTATT TTTATT TTTA-T TTT-TT TGTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * * *
11834399 TTACATT TTTA-T TTTATT TCT-GT TTTATT TTTATT TTTATC ATTATT
1 TT-TATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
11834446 ATTATT TTT
1 TTTATT TTT
11834455 TATATATATA
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
5 19 0.25
6 51 0.68
7 5 0.07
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:11834386 original size:29 final size:28
Alignment explanation
Indices: 11834346--11834457 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 28
11834336 GTCTATATTC
11834346 TTTTT-TTCTTTATTTTTTTCTTATTTTTA
1 TTTTTATT-TTTATTTTTTT-TTATTTTTA
* *
11834375 TTTTTATTTTTATTTTTTTGTATTTTACA
1 TTTTTATTTTTATTTTTTTTTATTTT-TA
*
11834404 TTTTTA-TTTTATTTCTGTTTTATTTTTA
1 TTTTTATTTTTATTT-TTTTTTATTTTTA
*
11834432 TTTTTATCATTATTATTATTTTTTAT
1 TTTTTAT--TT-TTATTTTTTTTTAT
11834458 ATATATATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
28 21 0.30
29 32 0.46
30 2 0.03
31 9 0.13
32 5 0.07
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (28 bp):
TTTTTATTTTTATTTTTTTTTATTTTTA
Found at i:11834407 original size:35 final size:35
Alignment explanation
Indices: 11834368--11834435 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
11834358 TTTTTTTCTT
*
11834368 ATTTTTATTTTTATTTTTATTTT-TTTGTATTTTAC
1 ATTTTTA-TTTTATTTCTATTTTATTTGTATTTTAC
* *
11834403 ATTTTTATTTTATTTCTGTTTTATTTTTATTTT
1 ATTTTTATTTTATTTCTATTTTATTTGTATTTT
11834436 TATCATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 13 0.45
35 16 0.55
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (35 bp):
ATTTTTATTTTATTTCTATTTTATTTGTATTTTAC
Found at i:11834466 original size:18 final size:18
Alignment explanation
Indices: 11834423--11834471 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
11834413 TATTTCTGTT
11834423 TTATT-TTTATTTTTATCA
1 TTATTATTT-TTTTTATCA
11834441 TTATTATTATTTTTTAT-A
1 TTATTATT-TTTTTTATCA
11834459 -TATATATTTTTTT
1 TTAT-TATTTTTTT
11834472 CTTAGGTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 8 0.29
18 10 0.36
19 9 0.32
20 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATTATTTTTTTTATCA
Found at i:11834630 original size:13 final size:13
Alignment explanation
Indices: 11834612--11834637 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11834602 TTTCATTTGA
11834612 TTTTTTTATTTAT
1 TTTTTTTATTTAT
11834625 TTTTTTTATTTAT
1 TTTTTTTATTTAT
11834638 CTGGCTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTATTTAT
Found at i:11835470 original size:4 final size:4
Alignment explanation
Indices: 11835463--11835488 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11835453 CGGGTTTTTT
11835463 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
11835489 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Done.