Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167827.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_10, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24162007
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 47000 characters in sequence are not A, C, G, or T
File 118 of 131
Found at i:21189341 original size:22 final size:22
Alignment explanation
Indices: 21189316--21189389 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
21189306 ACTGAAAATG
*
21189316 ATTTACTATTAAGCTATCATTT
1 ATTTACTATTAAGTTATCATTT
* ** * *
21189338 ATTTATTCCTAAATTATCACTT
1 ATTTACTATTAAGTTATCATTT
** *
21189360 ATTTTTTATTAAGTTATCATTA
1 ATTTACTATTAAGTTATCATTT
21189382 ATTTACTA
1 ATTTACTA
21189390 ATATATTGTT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCATTT
Found at i:21189661 original size:22 final size:22
Alignment explanation
Indices: 21189617--21189766 Score: 95
Period size: 22 Copynumber: 6.8 Consensus size: 22
21189607 GTATAAAAAA
* *
21189617 AAGTTATCAATAATTGACAATT
1 AAGTTATCAATAATTTACTATT
* *
21189639 AAGTTATCATTAATTTATTATT
1 AAGTTATCAATAATTTACTATT
* * * *
21189661 ATA-TTATTAGTGATTTACTACT
1 A-AGTTATCAATAATTTACTATT
* * * * *
21189683 AAATTATTAATGATTTAATAAT
1 AAGTTATCAATAATTTACTATT
* * *
21189705 AAATTATCCATAATTTATTATT
1 AAGTTATCAATAATTTACTATT
* *
21189727 AATTTATGAAATAATTTACTATT
1 AAGTTAT-CAATAATTTACTATT
* *
21189750 AAGTTATGAATGATTTA
1 AAGTTATCAATAATTTA
21189767 TCATTAAATT
Statistics
Matches: 101, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
21 1 0.01
22 81 0.80
23 19 0.19
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
AAGTTATCAATAATTTACTATT
Found at i:21189772 original size:22 final size:21
Alignment explanation
Indices: 21189636--21189822 Score: 97
Period size: 22 Copynumber: 8.5 Consensus size: 21
21189626 ATAATTGACA
* *
21189636 ATTAAGTTATCATTAATTTATT
1 ATTAAGTTATGA-TGATTTATT
* *
21189658 ATTATA-TTATTAGTGATTTACT
1 ATTA-AGTTATGA-TGATTTATT
* * * *
21189680 ACTAAATTATTAATGATTTAAT
1 ATTAAGTTA-TGATGATTTATT
* * * *
21189702 AATAAATTATCCATAATTTATT
1 ATTAAGTTAT-GATGATTTATT
* * *
21189724 ATTAATTTATGAAATAATTTACT
1 ATTAAGTTATG--ATGATTTATT
*
21189747 ATTAAGTTATGAATGATTTATC
1 ATTAAGTTATG-ATGATTTATT
* * *
21189769 ATTAAATTGTTGGTGATTTATT
1 ATTAAGTT-ATGATGATTTATT
21189791 ATTAAGTTATTGATGATTTATT
1 ATTAAGTTA-TGATGATTTATT
*
21189813 ATAAAGTTAT
1 ATTAAGTTAT
21189823 AATTGACTTA
Statistics
Matches: 130, Mismatches: 27, Indels: 17
0.75 0.16 0.10
Matches are distributed among these distances:
21 3 0.02
22 103 0.79
23 24 0.18
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.50
Consensus pattern (21 bp):
ATTAAGTTATGATGATTTATT
Found at i:21189842 original size:111 final size:111
Alignment explanation
Indices: 21189625--21189844 Score: 237
Period size: 111 Copynumber: 2.0 Consensus size: 111
21189615 AAAAGTTATC
* * *
21189625 AATAATTGACAATTAAGTTATCATTAATTTATTATTATATTATTAGTGATTTACTACTAAATTAT
1 AATAATTGACAATTAAGTTATCAATAATTTATCATTAAATTATTAGTGATTTACTACTAAATTAT
* * * *
21189690 TAATGATTTAATAATAAATTATCCATAATTTATTATTAATTTATGA
66 TAATGATTTAATAATAAATTATCAATAACTTACTATAAATTTATGA
* * * * * * * * *
21189736 AATAATTTACTATTAAGTTATGAATGATTTATCATTAAATTGTTGGTGATTTATTATTAAGTTAT
1 AATAATTGACAATTAAGTTATCAATAATTTATCATTAAATTATTAGTGATTTACTACTAAATTAT
* * *
21189801 TGATGATTT-ATTATAAAGTTAT-AATTGACTTACTATAAATTTAT
66 TAATGATTTAATAATAAA-TTATCAA-TAACTTACTATAAATTTAT
21189845 CAATGAGTTA
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
110 8 0.09
111 80 0.91
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (111 bp):
AATAATTGACAATTAAGTTATCAATAATTTATCATTAAATTATTAGTGATTTACTACTAAATTAT
TAATGATTTAATAATAAATTATCAATAACTTACTATAAATTTATGA
Found at i:21189854 original size:33 final size:33
Alignment explanation
Indices: 21189817--21189888 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
21189807 TTTATTATAA
*
21189817 AGTTATAATTGACTTACTATAAATTTATCAATG
1 AGTTATAATTGACTTACTACAAATTTATCAATG
21189850 AGTTATAATTGACTTACTACAAATTTATCAATG
1 AGTTATAATTGACTTACTACAAATTTATCAATG
*
21189883 ATTTAT
1 AGTTAT
21189889 TATAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (33 bp):
AGTTATAATTGACTTACTACAAATTTATCAATG
Found at i:21190708 original size:29 final size:29
Alignment explanation
Indices: 21190669--21190726 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
21190659 TTTTTTAATT
21190669 TTATAAATATTAATAATTTATAT-TTTTTA
1 TTATAAATATTAATAATTTA-ATGTTTTTA
* **
21190698 TTATATATATTTTTAATTTAATGTTTTTA
1 TTATAAATATTAATAATTTAATGTTTTTA
21190727 ATGATTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (29 bp):
TTATAAATATTAATAATTTAATGTTTTTA
Found at i:21190739 original size:29 final size:29
Alignment explanation
Indices: 21190682--21190740 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
21190672 TAAATATTAA
*
21190682 TAATTTATATTTTTTATTATATATATTTT
1 TAATTTATATTTTTTATGATATATATTTT
21190711 TAATTTA-ATGTTTTTAATGAT-TAT-TTTT
1 TAATTTATAT-TTTTT-ATGATATATATTTT
21190739 TA
1 TA
21190741 TTTTCGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 8 0.30
29 15 0.56
30 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (29 bp):
TAATTTATATTTTTTATGATATATATTTT
Found at i:21190994 original size:11 final size:11
Alignment explanation
Indices: 21190980--21191029 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
21190970 TATTGTCTAA
* *
21190980 TTATGATTAAT
1 TTATTATTAAG
21190991 TTATTATTAAG
1 TTATTATTAAG
* *
21191002 TTATTATTGAT
1 TTATTATTAAG
21191013 TTATTATTAAG
1 TTATTATTAAG
21191024 TTATTA
1 TTATTA
21191030 ATGATTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:21191028 original size:22 final size:22
Alignment explanation
Indices: 21190963--21191049 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
21190953 TTAAATCAAA
* * *
21190963 ATTGACTTATTGTCTAA-TTATG
1 ATTGATTTATTAT-TAAGTTATT
*
21190985 ATTAATTTATTATTAAGTTATT
1 ATTGATTTATTATTAAGTTATT
21191007 ATTGATTTATTATTAAGTTATT
1 ATTGATTTATTATTAAGTTATT
* * *
21191029 AATGATTAATTACTAAGTTAT
1 ATTGATTTATTATTAAGTTAT
21191050 CATCTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 3 0.05
22 53 0.95
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (22 bp):
ATTGATTTATTATTAAGTTATT
Found at i:21191217 original size:22 final size:22
Alignment explanation
Indices: 21191104--21191282 Score: 80
Period size: 22 Copynumber: 8.2 Consensus size: 22
21191094 TAGAACTATA
* *
21191104 TTATAATTGATTTACTATTAAA
1 TTATCATTGATTTACTATTAAG
* * *
21191126 TTATTA-TGTTATTACTA-TATG
1 TTATCATTGAT-TTACTATTAAG
* *
21191147 TTATTATTGATTTACTACTAAG
1 TTATCATTGATTTACTATTAAG
* * * * *
21191169 TTAACAATT-ATTGAGTGTTAAA
1 TTATC-ATTGATTTACTATTAAG
*
21191191 TTATCATTCATTTACTATTAAG
1 TTATCATTGATTTACTATTAAG
* *
21191213 TTATCA-TGAATTCACTAATAAG
1 TTATCATTG-ATTTACTATTAAG
* **
21191235 TCATCCA-TGATTTAAGATTAAG
1 TTAT-CATTGATTTACTATTAAG
* * * * *
21191257 TTGTTATTGATTAATTATTATG
1 TTATCATTGATTTACTATTAAG
21191279 TTAT
1 TTAT
21191283 TAATCATTGT
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
21 22 0.19
22 86 0.75
23 7 0.06
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (22 bp):
TTATCATTGATTTACTATTAAG
Found at i:21191374 original size:40 final size:40
Alignment explanation
Indices: 21191330--21191407 Score: 131
Period size: 40 Copynumber: 1.9 Consensus size: 40
21191320 TTTTTAATAT
21191330 TAATTAATAAATTAA-TAACTATTTACTATTATATTATCAC
1 TAATT-ATAAATTAATTAACTATTTACTATTATATTATCAC
*
21191370 TAATTATGAATTAATTAACTATTTACTATTATATTATC
1 TAATTATAAATTAATTAACTATTTACTATTATATTATC
21191408 GCTGATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 8 0.22
40 28 0.78
ACGTcount: A:0.42, C:0.09, G:0.01, T:0.47
Consensus pattern (40 bp):
TAATTATAAATTAATTAACTATTTACTATTATATTATCAC
Found at i:21192037 original size:37 final size:37
Alignment explanation
Indices: 21191968--21192038 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
21191958 ATTTAAAATG
* * *
21191968 ATTTGAATCCAACTTTTTAAATGATGAGAAACATGTA
1 ATTTGAATCCAACTTTTTAAATAAAGAAAAACATGTA
* *
21192005 ATTTGAATCTAATTTTTTAAATAAAGAAAAACAT
1 ATTTGAATCCAACTTTTTAAATAAAGAAAAACAT
21192039 ATACCAATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (37 bp):
ATTTGAATCCAACTTTTTAAATAAAGAAAAACATGTA
Found at i:21192248 original size:13 final size:13
Alignment explanation
Indices: 21192232--21192282 Score: 68
Period size: 13 Copynumber: 3.8 Consensus size: 13
21192222 AGATTTATCA
21192232 AATAAATTTTACT
1 AATAAATTTTACT
21192245 AATAAATTTTACT
1 AATAAATTTTACT
21192258 AATAAATAATTTA-T
1 AATAAAT--TTTACT
21192272 AATAATATTTT
1 AATAA-ATTTT
21192283 GGCTAACATA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
13 23 0.66
14 6 0.17
15 6 0.17
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (13 bp):
AATAAATTTTACT
Found at i:21192255 original size:27 final size:27
Alignment explanation
Indices: 21192225--21192282 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
21192215 TAAATAAAGA
21192225 TTTATCAAATAAAT-TTTACTAATAA-AT
1 TTTA-CAAATAAATATTTA-TAATAATAT
*
21192252 TTTACTAATAAATAATTTATAATAATAT
1 TTTACAAATAAAT-ATTTATAATAATAT
21192280 TTT
1 TTT
21192283 GGCTAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 8 0.30
27 10 0.37
28 9 0.33
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (27 bp):
TTTACAAATAAATATTTATAATAATAT
Found at i:21193214 original size:16 final size:15
Alignment explanation
Indices: 21193195--21193224 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
21193185 AACAAGTTAG
21193195 TAATAATACAAAAATT
1 TAATAATA-AAAAATT
21193211 TAATAATAAAAAAT
1 TAATAATAAAAAAT
21193225 ACTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TAATAATAAAAAATT
Found at i:21193324 original size:55 final size:56
Alignment explanation
Indices: 21193207--21193313 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 56
21193197 ATAATACAAA
** *
21193207 AATTTAATAATAAAAAATACTTAAAATTAAATTTTATTAAAAATTTAATAAATGAG
1 AATTTAATAATAAAAAATACTTAAAATTAAAAATCATTAAAAATTTAATAAATGAG
* * * *
21193263 AATTTAATAATAAAAACTA-TTTAAATTAAAAATCATTCAAAATTTTATAAA
1 AATTTAATAATAAAAAATACTTAAAATTAAAAATCATTAAAAATTTAATAAA
21193314 GGGTATTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 26 0.59
56 18 0.41
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (56 bp):
AATTTAATAATAAAAAATACTTAAAATTAAAAATCATTAAAAATTTAATAAATGAG
Found at i:21195045 original size:16 final size:16
Alignment explanation
Indices: 21195024--21195075 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
21195014 ATTGATTTTA
21195024 AATTAAATATAAAATT
1 AATTAAATATAAAATT
*
21195040 AATTAAAAATAAAATT
1 AATTAAATATAAAATT
*
21195056 AATTTAAATA-AATATT
1 AA-TTAAATATAAAATT
21195072 AATT
1 AATT
21195076 TTAGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.06
16 24 0.75
17 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAAATATAAAATT
Found at i:21197686 original size:14 final size:12
Alignment explanation
Indices: 21197667--21197711 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 12
21197657 CTGTGTTATA
21197667 TTTTTTTTGGTTTG
1 TTTTTTTT--TTTG
*
21197681 TTTTTTTTTTGTT
1 TTTTTTTTTT-TG
21197694 TTTTTTTTTTTG
1 TTTTTTTTTTTG
21197706 TTTTTT
1 TTTTTT
21197712 GTGAGAAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 9 0.32
13 11 0.39
14 8 0.29
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:21197688 original size:16 final size:15
Alignment explanation
Indices: 21197667--21197711 Score: 67
Period size: 14 Copynumber: 3.1 Consensus size: 15
21197657 CTGTGTTATA
21197667 TTTTTTTTGGTTTGTT
1 TTTTTTTTGGTTT-TT
21197683 TTTTTTTT-GTTTTT
1 TTTTTTTTGGTTTTT
21197697 TTTTTTTT-GTTTTT
1 TTTTTTTTGGTTTTT
21197711 T
1 T
21197712 GTGAGAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 17 0.59
15 4 0.14
16 8 0.28
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTGGTTTTT
Found at i:21197691 original size:11 final size:11
Alignment explanation
Indices: 21197677--21197713 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
21197667 TTTTTTTTGG
21197677 TTTGTTTTTTT
1 TTTGTTTTTTT
21197688 TTTGTTTTTTT
1 TTTGTTTTTTT
*
21197699 TTT-TTTGTTT
1 TTTGTTTTTTT
21197709 TTTGT
1 TTTGT
21197714 GAGAAGGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:21197710 original size:15 final size:15
Alignment explanation
Indices: 21197667--21197711 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
21197657 CTGTGTTATA
* *
21197667 TTTTTTTTGGTTTGT
1 TTTTTTTTTGTTTTT
21197682 TTTTTTTTTG-TTTT
1 TTTTTTTTTGTTTTT
21197696 TTTTTTTTTGTTTTT
1 TTTTTTTTTGTTTTT
21197711 T
1 T
21197712 GTGAGAAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGTTTTT
Found at i:21198541 original size:37 final size:37
Alignment explanation
Indices: 21198477--21198699 Score: 173
Period size: 37 Copynumber: 6.1 Consensus size: 37
21198467 TCAAGTGATA
* * * *
21198477 AAGAAAACGACCAGGACGACA-TCGCGAGTTGAGAAGT
1 AAGAAAATGACCGGGACAACACT-GCGAGTCGAGAAGT
21198514 AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
1 AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
* * * ** *
21198551 AA-AAATTGATCGAGACAACACCACGAGTCGAAAAGT
1 AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
* * *
21198587 AAGAAAATGACCAGGACAACATTGCAAGTCGAGAAGT
1 AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
* ** * * * *
21198624 AA-AGAATCGATTGGGATAACACTGCAAGTCAAAAAGT
1 AAGAAAAT-GACCGGGACAACACTGCGAGTCGAGAAGT
* * * ** *
21198661 AAAAAAATGATCGGGACAATACTAAGAGTCAAGAAGT
1 AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
21198698 AA
1 AA
21198700 AGAATTGACT
Statistics
Matches: 147, Mismatches: 35, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
36 34 0.23
37 108 0.73
38 5 0.03
ACGTcount: A:0.46, C:0.16, G:0.24, T:0.14
Consensus pattern (37 bp):
AAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGT
Found at i:21198678 original size:74 final size:74
Alignment explanation
Indices: 21198510--21198737 Score: 246
Period size: 74 Copynumber: 3.1 Consensus size: 74
21198500 GCGAGTTGAG
* * * * * *
21198510 AAGTAAGAAAATGACCGGGACAACACTGCGAGTCGAGAAGTAAA-AATTGATCGAGACAACACCA
1 AAGTAAAAAAATGACCGGGACAACACTGCAAGTCGAGAAGTAAAGAATTGATTGGGATAACACCG
* *
21198574 CGAGTCGAA
66 CAAGTCAAA
* * * * *
21198583 AAGTAAGAAAATGACCAGGACAACATTGCAAGTCGAGAAGTAAAGAATCGATTGGGATAACACTG
1 AAGTAAAAAAATGACCGGGACAACACTGCAAGTCGAGAAGTAAAGAATTGATTGGGATAACACCG
21198648 CAAGTCAAA
66 CAAGTCAAA
* * * * * *
21198657 AAGTAAAAAAATGATCGGGACAATACT-AAGAGTCAAGAAGTAAAGAATTGACTAGGATAACACC
1 AAGTAAAAAAATGACCGGGACAACACTGCA-AGTCGAGAAGTAAAGAATTGATTGGGATAACACC
21198721 GCAAGTCAATA
65 GCAAGTCAA-A
21198732 AA-TAAA
1 AAGTAAA
21198738 GAATCGATTA
Statistics
Matches: 130, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
73 42 0.32
74 85 0.65
75 3 0.02
ACGTcount: A:0.47, C:0.15, G:0.22, T:0.15
Consensus pattern (74 bp):
AAGTAAAAAAATGACCGGGACAACACTGCAAGTCGAGAAGTAAAGAATTGATTGGGATAACACCG
CAAGTCAAA
Found at i:21198725 original size:111 final size:110
Alignment explanation
Indices: 21198526--21198758 Score: 263
Period size: 111 Copynumber: 2.1 Consensus size: 110
21198516 GAAAATGACC
* * * * * *
21198526 GGGACAACACTGCGAGTCGAGAAGTAAAAATTGATCGAGACAACACCACGAGTCGAAAAGTAAGA
1 GGGATAACACTGCAAGTCAAAAAGTAAAAAATGATCGAGACAACACCAAGAGTCGAAAAGTAAGA
** * *
21198591 AAATGACCAGGACAACATTGCAAGTCGAGAAGTAAAGAATCGATT
66 AAATGACCAGGACAACACCGCAAGTCAAGAAATAAAGAATCGATT
* * *
21198636 GGGATAACACTGCAAGTCAAAAAGTAAAAAAATGATCGGGACAATACTAAGAGTC-AAGAAGTAA
1 GGGATAACACTGCAAGTCAAAAAGT-AAAAAATGATCGAGACAACACCAAGAGTCGAA-AAGTAA
* * * *
21198700 -AGAATTGACTAGGATAACACCGCAAGTCAATAAATAAAGAATCGATT
64 GA-AAATGACCAGGACAACACCGCAAGTCAAGAAATAAAGAATCGATT
*
21198747 AGGATAACACTG
1 GGGATAACACTG
21198759 TGAATCGATA
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
110 24 0.24
111 78 0.76
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.16
Consensus pattern (110 bp):
GGGATAACACTGCAAGTCAAAAAGTAAAAAATGATCGAGACAACACCAAGAGTCGAAAAGTAAGA
AAATGACCAGGACAACACCGCAAGTCAAGAAATAAAGAATCGATT
Found at i:21198728 original size:37 final size:37
Alignment explanation
Indices: 21198610--21198756 Score: 127
Period size: 37 Copynumber: 4.0 Consensus size: 37
21198600 GGACAACATT
* * *
21198610 GCAAGTCGAGAAGTAAAGAATCGATTGGGATAACACT
1 GCAAGTCAAGAAGTAAAGAATCGATTAGGATAACACC
* * ** * *
21198647 GCAAGTCAAAAAGTAAAAAAAT-GATCGGGACAATA-C
1 GCAAGTCAAGAAGT-AAAGAATCGATTAGGATAACACC
** * *
21198683 TAAGAGTCAAGAAGTAAAGAATTGACTAGGATAACACC
1 GCA-AGTCAAGAAGTAAAGAATCGATTAGGATAACACC
* *
21198721 GCAAGTCAATAAATAAAGAATCGATTAGGATAACAC
1 GCAAGTCAAGAAGTAAAGAATCGATTAGGATAACAC
21198757 TGTGAATCGA
Statistics
Matches: 84, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
36 7 0.08
37 69 0.82
38 8 0.10
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.18
Consensus pattern (37 bp):
GCAAGTCAAGAAGTAAAGAATCGATTAGGATAACACC
Found at i:21199077 original size:37 final size:36
Alignment explanation
Indices: 21199002--21199349 Score: 193
Period size: 37 Copynumber: 9.4 Consensus size: 36
21198992 ACAACACCAC
* * * * *
21199002 AAGTCAAAAAGTAAAGAATGGATCGAGACAACATCGT
1 AAGTTAAAAAGTAAAGAATCGACCG-GATAACACCGT
* * *
21199039 AAGTTGAACAGTGAAGAATCGACCAGGATAACACCGT
1 AAGTTAAAAAGTAAAGAATCGACC-GGATAACACCGT
* * ** * * *
21199076 AAGTCGAACAA-TGGAGAATCGACGGGGATAACATCGC
1 AAGT-TAAAAAGTAAAGAATCGAC-CGGATAACACCGT
* * * *
21199113 GAGTCAAAAAGTAAGGAATCAACCGAGATAACACCGT
1 AAGTTAAAAAGTAAAGAATCGACCG-GATAACACCGT
* * *
21199150 AA--AAAATAAGTAAAAAATCGATCGGGATAACACCGT
1 AAGTTAAA-AAGTAAAGAATCGA-CCGGATAACACCGT
* * * *
21199186 AAGTTGAAAAGTAAAGAATCAATCGAGACAACACCGT
1 AAGTTAAAAAGTAAAGAATCGACCG-GATAACACCGT
* * * *
21199223 AAATCACAAAA-TAAAGAATCAACCGAGACAACACCGT
1 AAGTTA-AAAAGTAAAGAATCGACCG-GATAACACCGT
* *
21199260 AAGTCAAATAGTAAAGAATCGACCAGGATAACACCGT
1 AAGTTAAAAAGTAAAGAATCGACC-GGATAACACCGT
* * * *
21199297 GAGTTAAAAAAGT-AAGAAAACGATCGAGATAATACCGT
1 AAGTT-AAAAAGTAAAG-AATCGACCG-GATAACACCGT
*
21199335 GAGTTAAAAAAGTAA
1 AAGTT-AAAAAGTAA
21199350 GAAAACAACT
Statistics
Matches: 241, Mismatches: 53, Indels: 32
0.74 0.16 0.10
Matches are distributed among these distances:
35 3 0.01
36 33 0.14
37 159 0.66
38 45 0.19
39 1 0.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (36 bp):
AAGTTAAAAAGTAAAGAATCGACCGGATAACACCGT
Found at i:21199080 original size:74 final size:74
Alignment explanation
Indices: 21199002--21199349 Score: 235
Period size: 74 Copynumber: 4.7 Consensus size: 74
21198992 ACAACACCAC
* * ** * * *
21199002 AAGTCAAAAAGTAAAGAATGGATCGAGACAACATCGTAAGTTGAACAGTGAAGAATCGACC-AGG
1 AAGTCAAAAAGTAAAGAATCGATCGAGACAACACCGTAAGTCAAAAAGTAAAGAATCAACCGA-G
21199066 ATAACACCGT
65 ATAACACCGT
* ** * * * ** *
21199076 AAGTCGAACAA-TGGAGAATCGA-CGGGGATAACATCGCGAGTCAAAAAGTAAGGAATCAACCGA
1 AAGTC-AAAAAGTAAAGAATCGATC-GAGACAACACCGTAAGTCAAAAAGTAAAGAATCAACCGA
21199139 GATAACACCGT
64 GATAACACCGT
* * * * ** *
21199150 AA--AAAATAAGTAAAAAATCGATCGGGATAACACCGTAAGTTGAAAAGTAAAGAATCAATCGAG
1 AAGTCAAA-AAGTAAAGAATCGATCGAGACAACACCGTAAGTCAAAAAGTAAAGAATCAACCGAG
*
21199213 ACAACACCGT
65 ATAACACCGT
* * * * *
21199223 AAATCACAAAA-TAAAGAATCAACCGAGACAACACCGTAAGTCAAATAGTAAAGAATCGACC-AG
1 AAGTCA-AAAAGTAAAGAATCGATCGAGACAACACCGTAAGTCAAAAAGTAAAGAATCAACCGA-
21199286 GATAACACCGT
64 GATAACACCGT
* * * * * * *
21199297 GAGTTAAAAAAGT-AAGAAAACGATCGAGATAATACCGTGAGTTAAAAAAGTAA
1 AAG-TCAAAAAGTAAAG-AATCGATCGAGACAACACCGTAAG-TCAAAAAGTAA
21199350 GAAAACAACT
Statistics
Matches: 210, Mismatches: 50, Indels: 26
0.73 0.17 0.09
Matches are distributed among these distances:
71 2 0.01
72 2 0.01
73 54 0.26
74 112 0.53
75 29 0.14
76 11 0.05
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (74 bp):
AAGTCAAAAAGTAAAGAATCGATCGAGACAACACCGTAAGTCAAAAAGTAAAGAATCAACCGAGA
TAACACCGT
Found at i:21199204 original size:110 final size:110
Alignment explanation
Indices: 21198991--21199311 Score: 274
Period size: 110 Copynumber: 2.9 Consensus size: 110
21198981 AATCAATTAG
* * ** * * ** * * *
21198991 GACAACACCACAAGTCA-AAAAGTAAAGAATGGATCGAGACAACATCGTAAGTTGAACAGTGAAG
1 GACAACACCGCAAATCACAAAA-TAAAGAATCAACCGAGACAACACCGTAAG-AAAATAGTAAAA
* ** * *
21199055 AATCGACCAGGATAACACCGTAAGTCGAACAA-TGGAGAATCGA-CGGG
64 AATCGACCAGGATAACACCGTAAGTTGAA-AAGTAAAGAATCAATC-GA
* * * * * *
21199102 GATAACATCGCGAGTCA-AAAAGTAAGGAATCAACCGAGATAACACCGTAA-AAAATAAGTAAAA
1 GACAACACCGCAAATCACAAAA-TAAAGAATCAACCGAGACAACACCGTAAGAAAAT-AGTAAAA
* *
21199165 AATCGATCGGGATAACACCGTAAGTTGAAAAGTAAAGAATCAATCGA
64 AATCGACCAGGATAACACCGTAAGTTGAAAAGTAAAGAATCAATCGA
* * *
21199212 GACAACACCGTAAATCACAAAATAAAGAATCAACCGAGACAACACCGTAAGTCAAATAGTAAAGA
1 GACAACACCGCAAATCACAAAATAAAGAATCAACCGAGACAACACCGTAAG-AAAATAGTAAAAA
* *
21199277 ATCGACCAGGATAACACCGTGAGTTAAAAAAGTAA
65 ATCGACCAGGATAACACCGTAAGTT-GAAAAGTAA
21199312 GAAAACGATC
Statistics
Matches: 168, Mismatches: 35, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
109 4 0.02
110 78 0.46
111 74 0.44
112 12 0.07
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (110 bp):
GACAACACCGCAAATCACAAAATAAAGAATCAACCGAGACAACACCGTAAGAAAATAGTAAAAAA
TCGACCAGGATAACACCGTAAGTTGAAAAGTAAAGAATCAATCGA
Found at i:21199241 original size:147 final size:148
Alignment explanation
Indices: 21199007--21199422 Score: 337
Period size: 147 Copynumber: 2.8 Consensus size: 148
21198997 ACCACAAGTC
* * * * * * * *
21199007 AAAAAGTAAAGAATGGATCGAGACAACATCGTAAGTTGAACAGTGAAGAATCGACCAGGATAACA
1 AAAAAGTAAAAAATCGATCGAGATAACACCGTAAGTTGAAAAGTAAAGAATCAACCAGGACAACA
* * ** * * * * * * *
21199072 CCGTAAGTCGAACAATGGAGAATCGACGGGGATAACATCGCGAGTCAAAAAGTAAGGAATCAACC
66 CCGTAAATCGAAAAATAAAGAATCAACCGAGACAACACCGCAAGTCAAAAAGTAAAGAATCAACC
21199137 -GAGATAACACCGT-A-AA
131 AG-GATAACACCGTGAGAA
* *
21199153 AAATAAGTAAAAAATCGATCGGGATAACACCGTAAGTTGAAAAGTAAAGAATCAATC-GAGACAA
1 AAA-AAGTAAAAAATCGATCGAGATAACACCGTAAGTTGAAAAGTAAAGAATCAACCAG-GACAA
* * *
21199217 CACCGTAAATC-ACAAAATAAAGAATCAACCGAGACAACACCGTAAGTCAAATAGTAAAGAATCG
64 CACCGTAAATCGA-AAAATAAAGAATCAACCGAGACAACACCGCAAGTCAAAAAGTAAAGAATCA
*
21199281 ACCAGGATAACACCGTGAGTTA
128 ACCAGGATAACACCGTGAG-AA
* * * * * *
21199303 AAAAAGTAAGAAAA-CGATCGAGATAATACCGTGAGTTAAAAAAGT-AAGAAAACAACTAGGATA
1 AAAAAGTAA-AAAATCGATCGAGATAACACCGTAAGTT-GAAAAGTAAAG-AATCAACCAGGACA
* ** * * * * * *
21199366 ACACTGCGAGTCG--AAATTAAGAATCAACCGGGATAACACCGTAAGTCAAAAAATAAA
63 ACACCGTAAATCGAAAAATAAAGAATCAACCGAGACAACACCGCAAGTCAAAAAGTAAA
21199423 AAATTGATCG
Statistics
Matches: 216, Mismatches: 42, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
146 5 0.02
147 110 0.51
148 41 0.19
149 29 0.13
150 30 0.14
151 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (148 bp):
AAAAAGTAAAAAATCGATCGAGATAACACCGTAAGTTGAAAAGTAAAGAATCAACCAGGACAACA
CCGTAAATCGAAAAATAAAGAATCAACCGAGACAACACCGCAAGTCAAAAAGTAAAGAATCAACC
AGGATAACACCGTGAGAA
Found at i:21199366 original size:38 final size:37
Alignment explanation
Indices: 21199284--21199369 Score: 127
Period size: 38 Copynumber: 2.3 Consensus size: 37
21199274 AGAATCGACC
*
21199284 AGGATAACACCGTGAGTTAAAAAAGTAAGAAAACGAT
1 AGGATAACACCGTGAGTTAAAAAAGTAAGAAAACAAT
* *
21199321 CGAGATAATACCGTGAGTTAAAAAAGTAAGAAAACAACT
1 AG-GATAACACCGTGAGTTAAAAAAGTAAGAAAACAA-T
21199360 AGGATAACAC
1 AGGATAACAC
21199370 TGCGAGTCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 39 0.93
39 2 0.05
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (37 bp):
AGGATAACACCGTGAGTTAAAAAAGTAAGAAAACAAT
Found at i:21200291 original size:32 final size:32
Alignment explanation
Indices: 21200098--21200330 Score: 93
Period size: 33 Copynumber: 7.2 Consensus size: 32
21200088 AACTAAACGG
* *
21200098 GGCTTAAAACCTT-ATTTAGGGCCAGATAAATTA
1 GGCTTAAAA-CTTCA-TTAGTGCCAGATAAACTA
* * * *
21200131 GGCTTAAAATTTCGTTAATGGCCAGGTAAACT-
1 GGCTTAAAACTTCATTAGT-GCCAGATAAACTA
* * * ** * * *
21200163 GGGTATAAGATTTTTTTAGAGGCCAGCTAAACTG
1 GGCT-TAAAACTTCATTAG-TGCCAGATAAACTA
* * * *
21200197 GGTTTAAAACTTTATT-GATGACTAGATAAACTG
1 GGCTTAAAACTTCATTAG-TG-CCAGATAAACTA
*
21200230 GGCTT-AAATTTCATTAAAG-GCCA-ACTAAACTA
1 GGCTTAAAACTTCATT--AGTGCCAGA-TAAACTA
*
21200262 GGCTTAAAACTTCATTAGTGCTAGATAAACTA
1 GGCTTAAAACTTCATTAGTGCCAGATAAACTA
* * * * * *
21200294 AGCTT-ATATTTCATTGGTGCCAAATAATCTA
1 GGCTTAAAACTTCATTAGTGCCAGATAAACTA
21200325 GGCTTA
1 GGCTTA
21200331 TGTGTCAACT
Statistics
Matches: 151, Mismatches: 35, Indels: 29
0.70 0.16 0.13
Matches are distributed among these distances:
31 27 0.18
32 46 0.30
33 74 0.49
34 3 0.02
35 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (32 bp):
GGCTTAAAACTTCATTAGTGCCAGATAAACTA
Found at i:21200306 original size:64 final size:65
Alignment explanation
Indices: 21200182--21200308 Score: 168
Period size: 65 Copynumber: 2.0 Consensus size: 65
21200172 ATTTTTTTAG
* * * * **
21200182 AGGCCAGCTAAACTGGGTTTAAAACTTTATTGATGACTAGATAAACTGGGCTTAAATTTCATTAA
1 AGGCCAACTAAACTAGGCTTAAAACTTCATTGATGACTAGATAAACTAAGCTTAAATTTCATTAA
*
21200247 AGGCCAACTAAACTAGGCTTAAAACTTCATT-AGTG-CTAGATAAACTAAGCTTATATTTCATT
1 AGGCCAACTAAACTAGGCTTAAAACTTCATTGA-TGACTAGATAAACTAAGCTTAAATTTCATT
21200309 GGTGCCAAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
64 25 0.46
65 29 0.54
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (65 bp):
AGGCCAACTAAACTAGGCTTAAAACTTCATTGATGACTAGATAAACTAAGCTTAAATTTCATTAA
Found at i:21200330 original size:31 final size:31
Alignment explanation
Indices: 21200222--21200331 Score: 87
Period size: 31 Copynumber: 3.5 Consensus size: 31
21200212 TGATGACTAG
* * *
21200222 ATAAACTGGGCTTAAATTTCATTAAAG-GCCAA
1 ATAAACTAGGCTTATACTTCATT--AGTGCCAA
* * * *
21200254 CTAAACTAGGCTTAAAACTTCATTAGTGCTAG
1 ATAAACTAGGCTT-ATACTTCATTAGTGCCAA
* * *
21200286 ATAAACTAAGCTTATATTTCATTGGTGCCAA
1 ATAAACTAGGCTTATACTTCATTAGTGCCAA
*
21200317 ATAATCTAGGCTTAT
1 ATAAACTAGGCTTAT
21200332 GTGTCAACTA
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
31 28 0.45
32 25 0.40
33 9 0.15
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (31 bp):
ATAAACTAGGCTTATACTTCATTAGTGCCAA
Found at i:21200987 original size:15 final size:16
Alignment explanation
Indices: 21200959--21200992 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
21200949 CTAAAGCCAC
*
21200959 TTTTATTTCTATTTTT
1 TTTTATTTCGATTTTT
21200975 TTTTATTT-GATTTTT
1 TTTTATTTCGATTTTT
21200990 TTT
1 TTT
21200993 ACTCACCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTCGATTTTT
Found at i:21207764 original size:29 final size:27
Alignment explanation
Indices: 21207657--21207767 Score: 89
Period size: 29 Copynumber: 3.9 Consensus size: 27
21207647 GATTTTATAT
* *
21207657 TTTAGGGTTTCGATTTCGAGGTTTGAGG
1 TTTAGGGTTTAG-TTTCAAGGTTTGAGG
* *
21207685 TTT-GGGTTTAGTTTTATGGTTTTGAGAG
1 TTTAGGGTTTAGTTTCAAGG-TTTGAG-G
* * **
21207713 TTTAAGGTTTCAATTTCGGGGTTTAGAGG
1 TTTAGGGTTT-AGTTTCAAGGTTT-GAGG
21207742 TTTTAGGGTTTAGTTTCAAGGTTTGA
1 -TTTAGGGTTTAGTTTCAAGGTTTGA
21207768 AAAATTTAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
26 5 0.08
27 13 0.20
28 9 0.14
29 19 0.30
30 18 0.28
ACGTcount: A:0.17, C:0.05, G:0.32, T:0.47
Consensus pattern (27 bp):
TTTAGGGTTTAGTTTCAAGGTTTGAGG
Found at i:21207776 original size:59 final size:58
Alignment explanation
Indices: 21207657--21207809 Score: 168
Period size: 59 Copynumber: 2.7 Consensus size: 58
21207647 GATTTTATAT
* * * * * * *
21207657 TTTAGGGTTTCGATTTCGAGGTTTGAGG-TTT-GGGTTTAGTTTTATGGTTTTGAGAG
1 TTTAAGGTTTCAATTTCGGGGTTTGAGGTTTTAGGGTTTAGTTTCAAGGTTTTGAAAA
21207713 TTTAAGGTTTCAATTTCGGGGTTTAGAGGTTTTAGGGTTTAGTTTCAAGG-TTTGAAAAA
1 TTTAAGGTTTCAATTTCGGGGTTT-GAGGTTTTAGGGTTTAGTTTCAAGGTTTTG-AAAA
* * * *
21207772 TTTAAGATTTCAATTTTGGGGTTTGAGATTTTAAGGTT
1 TTTAAGGTTTCAATTTCGGGGTTTGAGGTTTTAGGGTT
21207810 AAAATTTGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
56 21 0.26
57 4 0.05
58 19 0.23
59 38 0.46
ACGTcount: A:0.21, C:0.04, G:0.29, T:0.46
Consensus pattern (58 bp):
TTTAAGGTTTCAATTTCGGGGTTTGAGGTTTTAGGGTTTAGTTTCAAGGTTTTGAAAA
Found at i:21207927 original size:14 final size:14
Alignment explanation
Indices: 21207908--21207948 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
21207898 GAAGTTTTGA
21207908 GTTTTGATTTTAGG
1 GTTTTGATTTTAGG
*
21207922 GTTTTG-GTTTATGG
1 GTTTTGATTTTA-GG
21207936 GTTTTGATTTTAG
1 GTTTTGATTTTAG
21207949 AGTTAAGGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 15 0.65
15 4 0.17
ACGTcount: A:0.12, C:0.00, G:0.29, T:0.59
Consensus pattern (14 bp):
GTTTTGATTTTAGG
Found at i:21207945 original size:28 final size:27
Alignment explanation
Indices: 21207908--21207974 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
21207898 GAAGTTTTGA
* ** *
21207908 GTTTTGATTTTAGGGTTTTGGTTTATGG
1 GTTTTGATTTTAGAGTTAAGGTTT-TAG
21207936 GTTTTGATTTTAGAGTTAAGGTTTTAG
1 GTTTTGATTTTAGAGTTAAGGTTTTAG
21207963 GTTTTAGATTTT
1 GTTTT-GATTTT
21207975 TTAATAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 7 0.21
28 27 0.79
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (27 bp):
GTTTTGATTTTAGAGTTAAGGTTTTAG
Found at i:21207974 original size:14 final size:13
Alignment explanation
Indices: 21207908--21207974 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
21207898 GAAGTTTTGA
21207908 GTTTTGATTTTAGG
1 GTTTTGATTTTA-G
* *
21207922 GTTTTGGTTTATGG
1 GTTTTGATTT-TAG
21207936 GTTTTGATTTTAG
1 GTTTTGATTTTAG
** *
21207949 AGTTAAGGTTTTAG
1 -GTTTTGATTTTAG
21207963 GTTTTAGATTTT
1 GTTTT-GATTTT
21207975 TTAATAATTT
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
13 5 0.12
14 34 0.85
15 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.27, T:0.57
Consensus pattern (13 bp):
GTTTTGATTTTAG
Found at i:21208119 original size:3 final size:3
Alignment explanation
Indices: 21208111--21208156 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
21208101 TTATGAAAAT
21208111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21208157 AATTCTCTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21208400 original size:22 final size:21
Alignment explanation
Indices: 21208358--21208401 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
21208348 ATAATCAAAT
* * *
21208358 ATTTATTATAATAATTTTAAA
1 ATTTATCATAATAAATATAAA
21208379 ATTTATCATACATAAATATAAA
1 ATTTATCATA-ATAAATATAAA
21208401 A
1 A
21208402 AAACTCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTTATCATAATAAATATAAA
Found at i:21211665 original size:133 final size:136
Alignment explanation
Indices: 21211425--21211698 Score: 484
Period size: 133 Copynumber: 2.0 Consensus size: 136
21211415 GTAACAGATC
21211425 AATGAGCTAGTAATTTTACAGCAATAAAAGGCTTATTCTATGGCCAAAAAGGCCAGGAAGCAAAA
1 AATGAGCTAGTAATTTTACAGCAATAAAAGGCTTATTCTATGGCCAAAAAGGCCAGGAAGCAAAA
* *
21211490 TCAGAATGAATAGAGGATGTAAGAACAAAAAGAAGTTAACGGAAAAC-TTG-ATGAATTTGT-AA
66 TCAGAATGAATAGAGGAGGTAAGAACAAAAAGAAGTTAACGGAAAACTTTGCATGAATTGGTAAA
21211552 AGAACG
131 AGAACG
*
21211558 AATGAGCTAGTAATTTTGCAGCAATAAAAGGCTTATTCTATGGCCAAAAAGGCCAGGAAGCAAAA
1 AATGAGCTAGTAATTTTACAGCAATAAAAGGCTTATTCTATGGCCAAAAAGGCCAGGAAGCAAAA
21211623 TCAGAATGAATAGAGGAGGTAAGAAACAAAAAGAAGTT-ACGGAAAACTTTGCATGAATTGGTAA
66 TCAGAATGAATAGAGGAGGTAAG-AACAAAAAGAAGTTAACGGAAAACTTTGCATGAATTGGTAA
21211687 AAGAACG
130 AAGAACG
21211694 AATGA
1 AATGA
21211699 AATAATATGC
Statistics
Matches: 134, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
133 95 0.71
134 17 0.13
135 9 0.07
136 13 0.10
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.20
Consensus pattern (136 bp):
AATGAGCTAGTAATTTTACAGCAATAAAAGGCTTATTCTATGGCCAAAAAGGCCAGGAAGCAAAA
TCAGAATGAATAGAGGAGGTAAGAACAAAAAGAAGTTAACGGAAAACTTTGCATGAATTGGTAAA
AGAACG
Found at i:21213449 original size:2 final size:2
Alignment explanation
Indices: 21213442--21213469 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21213432 GATTAAATCA
21213442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21213470 TACAAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21213887 original size:25 final size:25
Alignment explanation
Indices: 21213853--21213902 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
21213843 CATACTTAGT
21213853 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
21213878 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
21213903 CTCCTCCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (25 bp):
TGCTTCAACCACTAACACACTAACA
Found at i:21218184 original size:25 final size:25
Alignment explanation
Indices: 21218150--21218204 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
21218140 CATACTTAGT
21218150 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
21218175 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
21218200 T-CTTC
1 TGCTTC
21218205 CTTTTCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.36, C:0.36, G:0.04, T:0.24
Consensus pattern (25 bp):
TGCTTCAACCACTAACACACTAACA
Found at i:21222875 original size:14 final size:15
Alignment explanation
Indices: 21222854--21222890 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
21222844 TATTTTCAAT
21222854 TTTA-TTTTAT-TTA
1 TTTATTTTTATCTTA
21222867 TTTATTTTTATCTTA
1 TTTATTTTTATCTTA
21222882 -TTATTTTTA
1 TTTATTTTTA
21222891 GTTTTATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 3 0.14
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATCTTA
Found at i:21227851 original size:21 final size:21
Alignment explanation
Indices: 21227817--21227881 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
21227807 TAATCTCTAT
* *
21227817 TAAAAGTTTCATAACCTTTGA
1 TAAAATTTTGATAACCTTTGA
*
21227838 TAAAATTTTGATAACTTTTGA
1 TAAAATTTTGATAACCTTTGA
* *
21227859 TATAATTTTGTTAACCTTTGA
1 TAAAATTTTGATAACCTTTGA
21227880 TA
1 TA
21227882 TTAATATAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (21 bp):
TAAAATTTTGATAACCTTTGA
Found at i:21228025 original size:20 final size:22
Alignment explanation
Indices: 21227962--21228036 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 22
21227952 TTATTACCTC
* **
21227962 TTAATGTAATTTTAGTAACAT-
1 TTAATATAATTTTAGTAATTTA
* *
21227983 TTCATATAATTTTGGTAATTTA
1 TTAATATAATTTTAGTAATTTA
*
21228005 -TAATATATTTTTAGTAA-TTA
1 TTAATATAATTTTAGTAATTTA
*
21228025 TTAATAAAATTT
1 TTAATATAATTT
21228037 GTGCATCATA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 3 0.07
21 39 0.93
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.52
Consensus pattern (22 bp):
TTAATATAATTTTAGTAATTTA
Found at i:21228311 original size:22 final size:22
Alignment explanation
Indices: 21228281--21228344 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
21228271 AAGTTATACA
*
21228281 ATTAAATTATCATTAATTTACT
1 ATTAAATTATCAATAATTTACT
* *
21228303 ATTATATTATCAATAATTTATT
1 ATTAAATTATCAATAATTTACT
* **
21228325 ACTAAATTATTGATAATTTA
1 ATTAAATTATCAATAATTTA
21228345 TTACAAAGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTAAATTATCAATAATTTACT
Found at i:21228345 original size:22 final size:22
Alignment explanation
Indices: 21228315--21228374 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
21228305 TATATTATCA
21228315 ATAATTTATTACTAAA-TTATTG
1 ATAATTTATTAC-AAAGTTATTG
21228337 ATAATTTATTACAAAGTTATTG
1 ATAATTTATTACAAAGTTATTG
* *
21228359 ATGATTTATTAAAAAG
1 ATAATTTATTACAAAG
21228375 CTATAACTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (22 bp):
ATAATTTATTACAAAGTTATTG
Found at i:21228610 original size:118 final size:119
Alignment explanation
Indices: 21228391--21228645 Score: 370
Period size: 118 Copynumber: 2.2 Consensus size: 119
21228381 CTTATTCATG
**
21228391 ACTAATTTATTGATAATTTACTTCAAAGTTAACAATGATTAACTAATTTATTATTAAATTATCAT
1 ACTAATTTATCAATAATTTACTTCAAAGTTAACAATGATTAACTAATTTATTATTAAATTATCAT
* * *
21228456 TGATTTATAATTAAGTTAAGCGATTTACTAGTAATAAGTTATCAATAATTTACT
66 TGATTTACAAGTAAGTTAAGCAATTTACTAGTAATAAGTTATCAATAATTTACT
* *
21228510 ACTAATTTATCAATGATTTATTTCAAAGTTAACAATGATTAACTAA-TTATTATTAAATTATCAT
1 ACTAATTTATCAATAATTTACTTCAAAGTTAACAATGATTAACTAATTTATTATTAAATTATCAT
* * *
21228574 TGCTTTACAAGTAAGTTAAGTAATTTACTA-TCAATAAGTTATCAATAATTTATT
66 TGATTTACAAGTAAGTTAAGCAATTTACTAGT-AATAAGTTATCAATAATTTACT
* * *
21228628 ATTAAATAATCAATAATT
1 ACTAATTTATCAATAATT
21228646 GACTAATATG
Statistics
Matches: 121, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
117 1 0.01
118 78 0.64
119 42 0.35
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.43
Consensus pattern (119 bp):
ACTAATTTATCAATAATTTACTTCAAAGTTAACAATGATTAACTAATTTATTATTAAATTATCAT
TGATTTACAAGTAAGTTAAGCAATTTACTAGTAATAAGTTATCAATAATTTACT
Found at i:21228744 original size:21 final size:23
Alignment explanation
Indices: 21228710--21228767 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 23
21228700 TTTTCGATTA
*
21228710 TTATTATAAAATTATTACA-AAT
1 TTATTATTAAATTATTACATAAT
*
21228732 TTA-TATTAAATTA-TCCATAAT
1 TTATTATTAAATTATTACATAAT
*
21228753 TTATTATTAAGTTAT
1 TTATTATTAAATTAT
21228768 CATTGATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 12 0.40
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (23 bp):
TTATTATTAAATTATTACATAAT
Found at i:21228838 original size:42 final size:43
Alignment explanation
Indices: 21228757--21228888 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 43
21228747 CATAATTTAT
*
21228757 TATTAAGTTATCATTGATTAACTATTAAATTATTGATGATTAC
1 TATTAAGTTATCATTGATTAACTATTAAATTATTAATGATTAC
* * *
21228800 TATTAAGTTAT-ATTGATTTTACT-TTAAGTT-TTCAATGATTAAT
1 TATTAAGTTATCATTGA-TTAACTATTAAATTATT-AATGATT-AC
* * * * *
21228843 TATTAAATTATCGTTGATTTATTATTAAATTATTTATGATTTAC
1 TATTAAGTTATCATTGATTAACTATTAAATTATTAATGA-TTAC
21228887 TA
1 TA
21228889 CTAAATTTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 13
0.76 0.11 0.14
Matches are distributed among these distances:
41 2 0.03
42 17 0.24
43 32 0.44
44 17 0.24
45 4 0.06
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (43 bp):
TATTAAGTTATCATTGATTAACTATTAAATTATTAATGATTAC
Found at i:21228861 original size:64 final size:66
Alignment explanation
Indices: 21228759--21228884 Score: 166
Period size: 64 Copynumber: 1.9 Consensus size: 66
21228749 TAATTTATTA
* * *
21228759 TTAAGTTATCATTGATTAACTATTAAATTATTGATGA-TTACTATTAAGTTATAT-TGATTTTAC
1 TTAAGTTATCAATGATTAACTATTAAATTATCGATGATTTACTATTAAATTATATATGATTTTAC
21228822 T
66 T
* * * * *
21228823 TTAAGTTTTCAATGATTAATTATTAAATTATCGTTGATTTATTATTAAATTATTTATGATTT
1 TTAAGTTATCAATGATTAACTATTAAATTATCGATGATTTACTATTAAATTATATATGATTT
21228885 ACTACTAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 32 0.62
65 14 0.27
66 6 0.12
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (66 bp):
TTAAGTTATCAATGATTAACTATTAAATTATCGATGATTTACTATTAAATTATATATGATTTTAC
T
Found at i:21228882 original size:22 final size:22
Alignment explanation
Indices: 21228730--21228913 Score: 94
Period size: 22 Copynumber: 8.5 Consensus size: 22
21228720 ATTATTACAA
** *
21228730 ATTTA-TATTAAATTATCCATA
1 ATTTACTATTAAATTATTTATG
* * *
21228751 ATTTATTATTAAGTTA-TCATTG
1 ATTTACTATTAAATTATTTA-TG
* *
21228773 ATTAACTATTAAATTATTGATG
1 ATTTACTATTAAATTATTTATG
* *
21228795 A-TTACTATTAAGTTATAT-TG
1 ATTTACTATTAAATTATTTATG
* *
21228815 ATTTTACT-TTAAGTT-TTCAATG
1 A-TTTACTATTAAATTATT-TATG
* * *
21228837 ATTAATTATTAAATTATCGT-TG
1 ATTTACTATTAAATTAT-TTATG
*
21228859 ATTTATTATTAAATTATTTATG
1 ATTTACTATTAAATTATTTATG
* * *
21228881 ATTTACTACTAAATTTATTAATT
1 ATTTACTATTAAA-TTATTTATG
*
21228904 AATTACTATT
1 ATTTACTATT
21228914 GCACTGAAAA
Statistics
Matches: 125, Mismatches: 26, Indels: 22
0.72 0.15 0.13
Matches are distributed among these distances:
20 4 0.03
21 32 0.26
22 71 0.57
23 18 0.14
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (22 bp):
ATTTACTATTAAATTATTTATG
Found at i:21229272 original size:22 final size:22
Alignment explanation
Indices: 21229228--21229376 Score: 102
Period size: 22 Copynumber: 6.8 Consensus size: 22
21229218 GTATAAAAAA
* *
21229228 AAGTTATCAATAATTGACAATT
1 AAGTTATCAATAATTTACTATT
* *
21229250 AAGTTATCATTAATTTATTATT
1 AAGTTATCAATAATTTACTATT
* * * *
21229272 ATA-TTATTAGTGATTTACTACT
1 A-AGTTATCAATAATTTACTATT
* * * * *
21229294 AAATTATTAATGATTTAATAAT
1 AAGTTATCAATAATTTACTATT
* * *
21229316 AAATTATCCATAATTTATTATT
1 AAGTTATCAATAATTTACTATT
* *
21229338 AATTTATGAATAATTTACTATT
1 AAGTTATCAATAATTTACTATT
* *
21229360 AAGTTATGAATGATTTA
1 AAGTTATCAATAATTTA
21229377 TCATTAAATT
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
21 1 0.01
22 100 0.98
23 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (22 bp):
AAGTTATCAATAATTTACTATT
Found at i:21229340 original size:11 final size:11
Alignment explanation
Indices: 21229247--21229366 Score: 55
Period size: 11 Copynumber: 10.9 Consensus size: 11
21229237 ATAATTGACA
* *
21229247 ATTAAGTTATC
1 ATTAATTTATT
21229258 ATTAATTTATT
1 ATTAATTTATT
21229269 ATT-ATATTATT
1 ATTAAT-TTATT
* * *
21229280 AGTGATTTACT
1 ATTAATTTATT
* *
21229291 ACTAAATTATT
1 ATTAATTTATT
* * *
21229302 AATGATTTAAT
1 ATTAATTTATT
* * *
21229313 AATAAATTATCC
1 ATTAATTTAT-T
21229325 A-TAATTTATT
1 ATTAATTTATT
*
21229335 ATTAATTTATG
1 ATTAATTTATT
* *
21229346 AATAATTTACT
1 ATTAATTTATT
*
21229357 ATTAAGTTAT
1 ATTAATTTAT
21229367 GAATGATTTA
Statistics
Matches: 80, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
10 3 0.04
11 74 0.93
12 3 0.04
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (11 bp):
ATTAATTTATT
Found at i:21229382 original size:22 final size:21
Alignment explanation
Indices: 21229247--21229433 Score: 99
Period size: 22 Copynumber: 8.5 Consensus size: 21
21229237 ATAATTGACA
* *
21229247 ATTAAGTTATCATTAATTTATT
1 ATTAAGTTATGA-TGATTTATT
* *
21229269 ATTATA-TTATTAGTGATTTACT
1 ATTA-AGTTATGA-TGATTTATT
* * * *
21229291 ACTAAATTATTAATGATTTAAT
1 ATTAAGTTA-TGATGATTTATT
* * * *
21229313 AATAAATTATCCATAATTTATT
1 ATTAAGTTAT-GATGATTTATT
* * *
21229335 ATTAATTTATGAATAATTTACT
1 ATTAAGTTATG-ATGATTTATT
*
21229357 ATTAAGTTATGAATGATTTATC
1 ATTAAGTTATG-ATGATTTATT
*
21229379 ATTAAATTGTT-TGGTGATTTATT
1 ATT-AA--GTTATGATGATTTATT
21229402 ATTAAGTTATTGATGATTTATT
1 ATTAAGTTA-TGATGATTTATT
*
21229424 ATAAAGTTAT
1 ATTAAGTTAT
21229434 AATTGACTTA
Statistics
Matches: 132, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
20 3 0.02
21 3 0.02
22 105 0.80
23 16 0.12
24 2 0.02
25 3 0.02
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (21 bp):
ATTAAGTTATGATGATTTATT
Found at i:21229385 original size:66 final size:66
Alignment explanation
Indices: 21229247--21229386 Score: 160
Period size: 66 Copynumber: 2.1 Consensus size: 66
21229237 ATAATTGACA
* * * * *
21229247 ATTAAGTTATCATTAATTTATTATTATATTATTAGTGATTTACTACTAAATTATTAATGATTTAA
1 ATTAAATTATCATTAATTTATTATTATATTATGAATAATTTACTACTAAATTATGAATGATTTAA
21229312 T
66 T
* * *
21229313 AATAAATTATCCA-TAATTTATTATTA-ATTTATGAATAATTTACTATTAAGTTATGAATGATTT
1 ATTAAATTAT-CATTAATTTATTATTATA-TTATGAATAATTTACTACTAAATTATGAATGATTT
21229376 -AT
64 AAT
21229378 CATTAAATT
1 -ATTAAATT
21229387 GTTTGGTGAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
65 3 0.05
66 57 0.92
67 2 0.03
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.49
Consensus pattern (66 bp):
ATTAAATTATCATTAATTTATTATTATATTATGAATAATTTACTACTAAATTATGAATGATTTAA
T
Found at i:21229465 original size:33 final size:33
Alignment explanation
Indices: 21229428--21229499 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
21229418 TTTATTATAA
*
21229428 AGTTATAATTGACTTACTATAAATTTATCAATG
1 AGTTATAATTGACTTACTACAAATTTATCAATG
21229461 AGTTATAATTGACTTACTACAAATTTATCAATG
1 AGTTATAATTGACTTACTACAAATTTATCAATG
*
21229494 ATTTAT
1 AGTTAT
21229500 TATAAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (33 bp):
AGTTATAATTGACTTACTACAAATTTATCAATG
Found at i:21229625 original size:11 final size:11
Alignment explanation
Indices: 21229611--21229653 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21229601 AGTTATCAAT
*
21229611 TTATTATTAAA
1 TTATTAATAAA
*
21229622 TTATTAATAAT
1 TTATTAATAAA
*
21229633 TTATTACTAAA
1 TTATTAATAAA
*
21229644 TTATTGATAA
1 TTATTAATAA
21229654 TTTGTATTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (11 bp):
TTATTAATAAA
Found at i:21229636 original size:22 final size:22
Alignment explanation
Indices: 21229608--21229665 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 22
21229598 TTAAGTTATC
21229608 AATTTATTATTAAATTATTAAT
1 AATTTATTATTAAATTATTAAT
* *
21229630 AATTTATTACTAAATTATTGAT
1 AATTTATTATTAAATTATTAAT
21229652 AATTTGTATTATTA
1 AA-TT-TATTATTA
21229666 TGTATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 22 0.71
23 2 0.06
24 7 0.23
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
AATTTATTATTAAATTATTAAT
Found at i:21229749 original size:22 final size:21
Alignment explanation
Indices: 21229680--21229758 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 21
21229670 TTTAAATCTA
21229680 TTATTATTTATTTACTACTTAAT
1 TTATTA-TTATTTACTAC-TAAT
* ** *
21229703 TT-TTGATTAGTTACTAAAAAA
1 TTATT-ATTATTTACTACTAAT
21229724 TTATTATTGATTTACTACTAAT
1 TTATTATT-ATTTACTACTAAT
21229746 TTATT-TATATTTA
1 TTATTAT-TATTTA
21229759 TTTTATCACT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 13 0.30
22 28 0.64
23 3 0.07
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (21 bp):
TTATTATTATTTACTACTAAT
Found at i:21230625 original size:11 final size:11
Alignment explanation
Indices: 21230611--21230660 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
21230601 TATTGTCTAA
* *
21230611 TTATGATTAAT
1 TTATTATTAAG
21230622 TTATTATTAAG
1 TTATTATTAAG
* *
21230633 TTATTATTGAT
1 TTATTATTAAG
21230644 TTATTATTAAG
1 TTATTATTAAG
21230655 TTATTA
1 TTATTA
21230661 ATGATTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (11 bp):
TTATTATTAAG
Found at i:21230659 original size:22 final size:22
Alignment explanation
Indices: 21230594--21230680 Score: 95
Period size: 22 Copynumber: 4.0 Consensus size: 22
21230584 TTAAATCAAA
* * *
21230594 ATTGACTTATTGTCTAA-TTATG
1 ATTGATTTATTAT-TAAGTTATT
*
21230616 ATTAATTTATTATTAAGTTATT
1 ATTGATTTATTATTAAGTTATT
21230638 ATTGATTTATTATTAAGTTATT
1 ATTGATTTATTATTAAGTTATT
* * *
21230660 AATGATTAATTACTAAGTTAT
1 ATTGATTTATTATTAAGTTAT
21230681 CATCTTTTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
21 3 0.05
22 53 0.95
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.53
Consensus pattern (22 bp):
ATTGATTTATTATTAAGTTATT
Found at i:21230849 original size:22 final size:22
Alignment explanation
Indices: 21230736--21230914 Score: 80
Period size: 22 Copynumber: 8.2 Consensus size: 22
21230726 TAGAACTATA
* *
21230736 TTATAATTGATTTACTATTAAA
1 TTATCATTGATTTACTATTAAG
* * *
21230758 TTATTA-TGTTATTACTA-TATG
1 TTATCATTGAT-TTACTATTAAG
* *
21230779 TTATTATTGATTTACTACTAAG
1 TTATCATTGATTTACTATTAAG
* * * * *
21230801 TTAACAATT-ATTGAGTGTTAAA
1 TTATC-ATTGATTTACTATTAAG
*
21230823 TTATCATTCATTTACTATTAAG
1 TTATCATTGATTTACTATTAAG
* *
21230845 TTATCA-TGAATTCACTAATAAG
1 TTATCATTG-ATTTACTATTAAG
* **
21230867 TCATCCA-TGATTTAAGATTAAG
1 TTAT-CATTGATTTACTATTAAG
* * * * *
21230889 TTGTTATTGATTAATTATTATG
1 TTATCATTGATTTACTATTAAG
21230911 TTAT
1 TTAT
21230915 TAATCATTGT
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
21 22 0.19
22 86 0.75
23 7 0.06
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.48
Consensus pattern (22 bp):
TTATCATTGATTTACTATTAAG
Found at i:21231030 original size:41 final size:40
Alignment explanation
Indices: 21230963--21231052 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 40
21230953 TTTTAATTAT
* *
21230963 TAATTAATAAATTAATAACTATTTACTATTATATTATCAC
1 TAATTTATGAATTAATAACTATTTACTATTATATTATCAC
*
21231003 TAATTTATGAATTAATTAACTATTTACTATTATATTATCGC
1 TAATTTATGAATTAA-TAACTATTTACTATTATATTATCAC
*
21231044 TGATTTATG
1 TAATTTATG
21231053 TATATCTAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 13 0.29
41 32 0.71
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (40 bp):
TAATTTATGAATTAATAACTATTTACTATTATATTATCAC
Found at i:21231049 original size:22 final size:21
Alignment explanation
Indices: 21230980--21231050 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 21
21230970 TAAATTAATA
21230980 ACTATTTACTATTATATTATC
1 ACTATTTACTATTATATTATC
21231001 ACTAATTTA-TGAATTA-ATTA--
1 ACT-ATTTACT--ATTATATTATC
21231021 ACTATTTACTATTATATTATC
1 ACTATTTACTATTATATTATC
*
21231042 GCTGATTTA
1 ACT-ATTTA
21231051 TGTATATCTA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
18 4 0.10
19 9 0.22
20 4 0.10
21 6 0.15
22 14 0.34
23 4 0.10
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.49
Consensus pattern (21 bp):
ACTATTTACTATTATATTATC
Found at i:21231671 original size:37 final size:37
Alignment explanation
Indices: 21231602--21231672 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
21231592 ATTTAAAATG
* * *
21231602 ATTTGAATCCAACTTTTTAAATGATGAGAAACATGTA
1 ATTTGAATCCAACTTTTTAAATAAAGAAAAACATGTA
* *
21231639 ATTTGAATCTAATTTTTTAAATAAAGAAAAACAT
1 ATTTGAATCCAACTTTTTAAATAAAGAAAAACAT
21231673 ATACCAATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (37 bp):
ATTTGAATCCAACTTTTTAAATAAAGAAAAACATGTA
Found at i:21233799 original size:27 final size:28
Alignment explanation
Indices: 21233761--21233819 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
21233751 CTGCCGTTAG
*
21233761 ATATGCACTATCTGTAATTTGGTATG-A
1 ATATGCACTATCTGTAATGTGGTATGCA
21233788 ATATGCACTATCTGTAATGTGGTATGCA
1 ATATGCACTATCTGTAATGTGGTATGCA
21233816 ATAT
1 ATAT
21233820 TCAGAAGGTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (28 bp):
ATATGCACTATCTGTAATGTGGTATGCA
Found at i:21234705 original size:16 final size:16
Alignment explanation
Indices: 21234684--21234735 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
21234674 ATTGATTTTA
21234684 AATTAAATATAAAATT
1 AATTAAATATAAAATT
*
21234700 AATTAAAAATAAAATT
1 AATTAAATATAAAATT
*
21234716 AATTTAAATA-AATATT
1 AA-TTAAATATAAAATT
21234732 AATT
1 AATT
21234736 TTAGATTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 2 0.06
16 24 0.75
17 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATTAAATATAAAATT
Found at i:21235482 original size:3 final size:3
Alignment explanation
Indices: 21235474--21235503 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21235464 GTTTTTGTTT
21235474 TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
21235504 GTTTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:21235511 original size:14 final size:14
Alignment explanation
Indices: 21235476--21235503 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21235466 TTTTGTTTTA
21235476 ATAATAATAATAAT
1 ATAATAATAATAAT
21235490 ATAATAATAATAAT
1 ATAATAATAATAAT
21235504 GTTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:21235511 original size:17 final size:17
Alignment explanation
Indices: 21235469--21235511 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
21235459 TTTTAGTTTT
21235469 TGTTTTAATAATAATAA
1 TGTTTTAATAATAATAA
** *
21235486 TAATATAATAATAATAA
1 TGTTTTAATAATAATAA
21235503 TGTTTTAAT
1 TGTTTTAAT
21235512 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
TGTTTTAATAATAATAA
Found at i:21236691 original size:3 final size:3
Alignment explanation
Indices: 21236637--21236679 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
21236627 TTACAAAAAG
* *
21236637 TAA TAA TAA TAA -AA TAA TAA -AA AAA TAG TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21236680 CACCAATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:21237152 original size:30 final size:29
Alignment explanation
Indices: 21237102--21237331 Score: 209
Period size: 30 Copynumber: 7.9 Consensus size: 29
21237092 ACCTTATACT
* **
21237102 TCAAACCC-AAAA-CTAAACCCTAAACTTT
1 TCAAACCCTAAAATCAAAACCCTAAAC-CC
* **
21237130 TCAAACCCTAGAATCAAAACCCTAAGGCC
1 TCAAACCCTAAAATCAAAACCCTAAACCC
** *
21237159 TCTAAACCCTAAAATCAAAACTATAAAGCC
1 TC-AAACCCTAAAATCAAAACCCTAAACCC
* * *
21237189 TCAGACCCTAAAATCGAAACCCTAAAACC
1 TCAAACCCTAAAATCAAAACCCTAAACCC
* * *
21237218 TCCAAGCCCTAAAA-CTAAAACCTTAAAACC
1 T-CAAACCCTAAAATC-AAAACCCTAAACCC
*
21237248 TCAAACCCTAAAATCAAAACCCTAAATCCT
1 TCAAACCCTAAAATCAAAACCCTAAA-CCC
* *
21237278 TCAAACCTTGAAA-CTAAAACCCTAAACCC
1 TCAAACCCTAAAATC-AAAACCCTAAACCC
21237307 T-AAACCCTAAAATCAAAACCCTAAA
1 TCAAACCCTAAAATCAAAACCCTAAA
21237332 ATCAAGACTT
Statistics
Matches: 165, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
28 28 0.17
29 55 0.33
30 82 0.50
ACGTcount: A:0.47, C:0.32, G:0.03, T:0.17
Consensus pattern (29 bp):
TCAAACCCTAAAATCAAAACCCTAAACCC
Found at i:21237211 original size:59 final size:59
Alignment explanation
Indices: 21237130--21237332 Score: 241
Period size: 59 Copynumber: 3.5 Consensus size: 59
21237120 CCTAAACTTT
* ** * *
21237130 TCAAACCCTAGAATCAAAACCCTAAGGCCTCTAAACCCTAAAA-TCAAAA-CTATAAAGCC
1 TCAAACCCTAAAATCAAAACCCTAAAACCTCCAAACCCTAAAACT-AAAACCT-TAAAACC
* * *
21237189 TCAGACCCTAAAATCGAAACCCTAAAACCTCCAAGCCCTAAAACTAAAACCTTAAAACC
1 TCAAACCCTAAAATCAAAACCCTAAAACCTCCAAACCCTAAAACTAAAACCTTAAAACC
* * * * * *
21237248 TCAAACCCTAAAATCAAAACCCTAAATCCTTCAAACCTTGAAACTAAAACCCTAAACCC
1 TCAAACCCTAAAATCAAAACCCTAAAACCTCCAAACCCTAAAACTAAAACCTTAAAACC
21237307 T-AAACCCTAAAATCAAAACCCTAAAA
1 TCAAACCCTAAAATCAAAACCCTAAAA
21237333 TCAAGACTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
58 24 0.19
59 97 0.78
60 3 0.02
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (59 bp):
TCAAACCCTAAAATCAAAACCCTAAAACCTCCAAACCCTAAAACTAAAACCTTAAAACC
Found at i:21237212 original size:14 final size:14
Alignment explanation
Indices: 21237193--21237336 Score: 89
Period size: 14 Copynumber: 9.9 Consensus size: 14
21237183 AAAGCCTCAG
*
21237193 ACCCTAAAATCGAA
1 ACCCTAAAATCAAA
*
21237207 ACCCTAAAACCTCCAA
1 ACCCTAAAA--TCAAA
*
21237223 GCCCTAAAA-CTAAA
1 ACCCTAAAATC-AAA
*
21237237 ACCTTAAAACCTC-AA
1 ACCCTAAAA--TCAAA
21237252 ACCCTAAAATCAAA
1 ACCCTAAAATCAAA
*
21237266 ACCCT-AAATCCTTCAA
1 ACCCTAAAAT-C--AAA
* *
21237282 ACCTTGAAA-CTAAA
1 ACCCTAAAATC-AAA
** *
21237296 ACCCTAAACCCTAA
1 ACCCTAAAATCAAA
21237310 ACCCTAAAATCAAA
1 ACCCTAAAATCAAA
21237324 ACCCTAAAATCAA
1 ACCCTAAAATCAA
21237337 GACTTAAAGT
Statistics
Matches: 102, Mismatches: 16, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
13 7 0.07
14 61 0.60
15 12 0.12
16 18 0.18
17 4 0.04
ACGTcount: A:0.49, C:0.33, G:0.02, T:0.17
Consensus pattern (14 bp):
ACCCTAAAATCAAA
Found at i:21237214 original size:29 final size:29
Alignment explanation
Indices: 21237130--21237332 Score: 214
Period size: 30 Copynumber: 6.9 Consensus size: 29
21237120 CCTAAACTTT
* **
21237130 TCAAACCCTAGAATCAAAACCCTAAGGCC
1 TCAAACCCTAAAATCAAAACCCTAAAACC
** *
21237159 TCTAAACCCTAAAATCAAAACTATAAAGCC
1 TC-AAACCCTAAAATCAAAACCCTAAAACC
* *
21237189 TCAGACCCTAAAATCGAAACCCTAAAACC
1 TCAAACCCTAAAATCAAAACCCTAAAACC
* *
21237218 TCCAAGCCCTAAAA-CTAAAACCTTAAAACC
1 T-CAAACCCTAAAATC-AAAACCCTAAAACC
*
21237248 TCAAACCCTAAAATCAAAACCCTAAATCC
1 TCAAACCCTAAAATCAAAACCCTAAAACC
* * *
21237277 TTCAAACCTTGAAA-CTAAAACCCTAAACCC
1 -TCAAACCCTAAAATC-AAAACCCTAAAACC
21237307 T-AAACCCTAAAATCAAAACCCTAAAA
1 TCAAACCCTAAAATCAAAACCCTAAAA
21237333 TCAAGACTTA
Statistics
Matches: 145, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
28 20 0.14
29 52 0.36
30 73 0.50
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (29 bp):
TCAAACCCTAAAATCAAAACCCTAAAACC
Found at i:21244649 original size:30 final size:30
Alignment explanation
Indices: 21244598--21244814 Score: 148
Period size: 30 Copynumber: 7.3 Consensus size: 30
21244588 TAAACTTTCC
* * * *
21244598 AAACCATAAAGCCTC-AAACCCTATAATCG
1 AAACCCTAAAACCTCTAAACCCTAAAATCA
21244627 AAACCCTAAAACCTCTAAACCCTAAAATCA
1 AAACCCTAAAACCTCTAAACCCTAAAATCA
** * * * *
21244657 AAACTTTAAATCCTTCAAAACCATAAAACCTCT
1 AAACCCTAAAACC-TCTAAACCCTAAAA--TCA
* *
21244690 AAA-CTTCAAAA--TC-AAAGCCCTAAAATCG
1 AAACCCT-AAAACCTCTAAA-CCCTAAAATCA
* *
21244718 AAACCCTAAATCTTCTAAACCCTAAAACTC-
1 AAACCCTAAAACCTCTAAACCCTAAAA-TCA
* *
21244748 AAATCCT-AAACC-CTAAACCTTAAAATCA
1 AAACCCTAAAACCTCTAAACCCTAAAATCA
*
21244776 AAACTCT-AAACCTCTAAA-CCTCAAAATCA
1 AAACCCTAAAACCTCTAAACCCT-AAAATCA
21244805 AAACCCTAAA
1 AAACCCTAAA
21244815 TTCAAAACCC
Statistics
Matches: 149, Mismatches: 24, Indels: 29
0.74 0.12 0.14
Matches are distributed among these distances:
27 2 0.01
28 32 0.21
29 39 0.26
30 49 0.33
31 17 0.11
32 2 0.01
33 8 0.05
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (30 bp):
AAACCCTAAAACCTCTAAACCCTAAAATCA
Found at i:21244716 original size:14 final size:14
Alignment explanation
Indices: 21244697--21244824 Score: 55
Period size: 14 Copynumber: 8.9 Consensus size: 14
21244687 TCTAAACTTC
21244697 AAAATC-AAAGCCCT
1 AAAATCGAAA-CCCT
21244711 AAAATCGAAACCCT
1 AAAATCGAAACCCT
* *
21244725 AAATCTTCTAAACCCT
1 AAA--ATCGAAACCCT
*
21244741 AAAACTC-AAATCCT
1 AAAA-TCGAAACCCT
** * *
21244755 AAACCCTAAACCTT
1 AAAATCGAAACCCT
* *
21244769 AAAATCAAAACTCT
1 AAAATCGAAACCCT
* *
21244783 AAACCTCTAAA-CCT
1 AAA-ATCGAAACCCT
*
21244797 CAAAATCAAAACCCT
1 -AAAATCGAAACCCT
* *
21244812 AAATTCAAAACCC
1 AAAATCGAAACCC
21244825 CAAGCACATG
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
13 1 0.01
14 58 0.67
15 16 0.18
16 12 0.14
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAATCGAAACCCT
Found at i:21244779 original size:21 final size:21
Alignment explanation
Indices: 21244755--21244824 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
21244745 CTCAAATCCT
21244755 AAACCCTAAACCTTAAAATCA
1 AAACCCTAAACCTTAAAATCA
* *
21244776 AAACTCTAAACCTCTAAACCTCA
1 AAACCCTAAACCT-TAAA-ATCA
* * * *
21244799 AAA-TCAAAACCCTAAATTCA
1 AAACCCTAAACCTTAAAATCA
21244819 AAACCC
1 AAACCC
21244825 CAAGCACATG
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
20 6 0.15
21 17 0.43
22 11 0.28
23 6 0.15
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACCTTAAAATCA
Found at i:21244792 original size:8 final size:8
Alignment explanation
Indices: 21244718--21244797 Score: 50
Period size: 7 Copynumber: 10.9 Consensus size: 8
21244708 CCTAAAATCG
21244718 AAACC-CT
1 AAACCTCT
*
21244725 AAATCTTCT
1 AAA-CCTCT
21244734 AAACC-CT
1 AAACCTCT
*
21244741 AAAACTC-
1 AAACCTCT
*
21244748 AAATC-CT
1 AAACCTCT
21244755 AAACC-CT
1 AAACCTCT
21244762 AAACCT-T
1 AAACCTCT
*
21244769 AAA-ATC-
1 AAACCTCT
*
21244775 AAAACTCT
1 AAACCTCT
21244783 AAACCTCT
1 AAACCTCT
21244791 AAACCTC
1 AAACCTC
21244798 AAAATCAAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
6 5 0.09
7 30 0.53
8 17 0.30
9 5 0.09
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.23
Consensus pattern (8 bp):
AAACCTCT
Found at i:21244860 original size:101 final size:101
Alignment explanation
Indices: 21244682--21244865 Score: 230
Period size: 101 Copynumber: 1.8 Consensus size: 101
21244672 CAAAACCATA
* * * * *
21244682 AAACCTCTAAACTTCAAAATCAAAGCCCTAAAATCGAAACCCTAAATCTTCTAAACCCTAAAACT
1 AAACCTCTAAACCTCAAAATCAAAACCCTAAAATCAAAACCCTAAAGCTACTAAACCCTAAAACT
*
21244747 CAAATCCTAAACCCTAAACCTTAAAATCAAAACTCT
66 CAAATCCCAAACCCTAAACCTTAAAATCAAAACTCT
* * * *
21244783 AAACCTCTAAACCTCAAAATCAAAACCCTAAATTCAAAACCC-CAAGC-ACATGAAGCCT-AAAC
1 AAACCTCTAAACCTCAAAATCAAAACCCTAAAATCAAAACCCTAAAGCTAC-TAAACCCTAAAAC
21244845 TTCTAAATCCCAAACCCTAAA
65 -TC-AAATCCCAAACCCTAAA
21244866 ATCAAAAACC
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
99 5 0.07
100 11 0.16
101 54 0.77
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.20
Consensus pattern (101 bp):
AAACCTCTAAACCTCAAAATCAAAACCCTAAAATCAAAACCCTAAAGCTACTAAACCCTAAAACT
CAAATCCCAAACCCTAAACCTTAAAATCAAAACTCT
Found at i:21244895 original size:21 final size:20
Alignment explanation
Indices: 21244838--21244895 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
21244828 GCACATGAAG
21244838 CCTAAACTTCTAAATCCCAAAC
1 CCTAAAC-TCTAAA-CCCAAAC
* * *
21244860 CCTAAAATCAAAAACCTAAAC
1 CCTAAACTC-TAAACCCAAAC
21244881 CCTAAACTCTGAAAC
1 CCTAAACTCT-AAAC
21244896 TCGAAATCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.19
Consensus pattern (20 bp):
CCTAAACTCTAAACCCAAAC
Found at i:21246093 original size:17 final size:16
Alignment explanation
Indices: 21246073--21246143 Score: 50
Period size: 16 Copynumber: 4.8 Consensus size: 16
21246063 AATAAAATAT
21246073 TTTATATAATATTTAAA
1 TTTATATAATATTT-AA
21246090 TTTA-A-AAT-TTT--
1 TTTATATAATATTTAA
21246101 TTTA-AT-ATATTTAA
1 TTTATATAATATTTAA
*
21246115 ATTATA-AATATATTAA
1 TTTATATAATAT-TTAA
*
21246131 TTAATATAATATT
1 TTTATATAATATT
21246144 CACTTTTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 17
0.68 0.05 0.27
Matches are distributed among these distances:
11 7 0.16
12 3 0.07
14 6 0.14
15 8 0.19
16 10 0.23
17 9 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTATATAATATTTAA
Found at i:21246096 original size:27 final size:28
Alignment explanation
Indices: 21246064--21246143 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 28
21246054 TTTAATTATA
21246064 ATAAAATATTTTATATAATATTTAAATT
1 ATAAAATATTTTATATAATATTTAAATT
*
21246092 -TAAAAT-TTTTTTA-ATATATTTAAATT
1 ATAAAATATTTTATATA-ATATTTAAATT
21246118 ATAAATATATTAATTAATATAATATT
1 ATAAA-ATATT--TT-ATATAATATT
21246144 CACTTTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
25 1 0.02
26 17 0.40
27 10 0.24
28 2 0.05
29 2 0.05
31 2 0.05
32 7 0.17
33 1 0.02
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATAAAATATTTTATATAATATTTAAATT
Found at i:21246270 original size:29 final size:27
Alignment explanation
Indices: 21246203--21246271 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 27
21246193 TTTAAATATC
*
21246203 ATATTAATTAATAAATTTAAAATTTAA
1 ATATTAATTAAAAAATTTAAAATTTAA
*
21246230 ATATGAAGTTAAAAAATTTTAAAATTTAA
1 ATATTAA-TTAAAAAA-TTTAAAATTTAA
21246259 ATATTACATTAAA
1 ATATTA-ATTAAA
21246272 TATTTTTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 6 0.17
28 7 0.19
29 22 0.61
30 1 0.03
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (27 bp):
ATATTAATTAAAAAATTTAAAATTTAA
Found at i:21246370 original size:16 final size:15
Alignment explanation
Indices: 21246345--21246389 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
21246335 TAAAGTTAAA
* *
21246345 TTTTTGTTTTATTTAT
1 TTTTT-TTTTATTGAG
21246361 TTTTTATTTTATTGAG
1 TTTTT-TTTTATTGAG
21246377 TTTTTTTTTATTG
1 TTTTTTTTTATTG
21246390 TTTTGGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 8 0.31
16 18 0.69
ACGTcount: A:0.13, C:0.00, G:0.09, T:0.78
Consensus pattern (15 bp):
TTTTTTTTTATTGAG
Found at i:21249861 original size:68 final size:68
Alignment explanation
Indices: 21249751--21249882 Score: 228
Period size: 68 Copynumber: 1.9 Consensus size: 68
21249741 ATCTATTTGG
* * *
21249751 AACCTTTGAAACCTTCTTACCTTAAGTGATATGACGCTAATGCTATTTATGATTATCATCCTAGT
1 AACCTTTAAAACCTTCTTACCTTAAGTGATATGACGCCAATGCCATTTATGATTATCATCCTAGT
21249816 TGA
66 TGA
*
21249819 AACCTTTAAAACTTTCTTACCTTAAGTGATATGACGCCAATGCCATTTATGATTATCATCCTAG
1 AACCTTTAAAACCTTCTTACCTTAAGTGATATGACGCCAATGCCATTTATGATTATCATCCTAG
21249883 GATTATAGGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.37
Consensus pattern (68 bp):
AACCTTTAAAACCTTCTTACCTTAAGTGATATGACGCCAATGCCATTTATGATTATCATCCTAGT
TGA
Found at i:21250874 original size:30 final size:32
Alignment explanation
Indices: 21250794--21250907 Score: 89
Period size: 30 Copynumber: 3.8 Consensus size: 32
21250784 GTTTATGTAC
* *
21250794 TATTCGATTTTTAAG-AATTTAATCC-CTATAG
1 TATT-GATTTTTAAGAAATTTAGTCCTCTATAA
* * * *
21250825 CATT-A-TTTAAAGGAATTTAGTCCT-TGTAA
1 TATTGATTTTTAAGAAATTTAGTCCTCTATAA
*
21250854 TATT-ATTTTTAAGAAATTTAGT-CTCTATAG
1 TATTGATTTTTAAGAAATTTAGTCCTCTATAA
* *
21250884 TATTGTTTTTTAAGGAATTTAGTC
1 TATTGATTTTTAAGAAATTTAGTC
21250908 TTTATGCATT
Statistics
Matches: 65, Mismatches: 12, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
28 6 0.09
29 19 0.29
30 21 0.32
31 19 0.29
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.47
Consensus pattern (32 bp):
TATTGATTTTTAAGAAATTTAGTCCTCTATAA
Found at i:21250919 original size:30 final size:31
Alignment explanation
Indices: 21250859--21250920 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21250849 TGTAATATTA
*
21250859 TTTTTAAGAAATTTAGTCTCTATAGTATTGT
1 TTTTTAAGAAATTTAGTCTCTATAGCATTGT
* *
21250890 TTTTTAAGGAATTTAGTCTTTAT-GCATTGT
1 TTTTTAAGAAATTTAGTCTCTATAGCATTGT
21250920 T
1 T
21250921 AACGATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.26, C:0.06, G:0.15, T:0.53
Consensus pattern (31 bp):
TTTTTAAGAAATTTAGTCTCTATAGCATTGT
Found at i:21251416 original size:18 final size:19
Alignment explanation
Indices: 21251393--21251429 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21251383 ATGATTGGGG
21251393 TGAATGAAACAAA-AATGA
1 TGAATGAAACAAACAATGA
*
21251411 TGAATGAAAGAAACAATGA
1 TGAATGAAACAAACAATGA
21251430 AAAAATGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.16
Consensus pattern (19 bp):
TGAATGAAACAAACAATGA
Found at i:21251460 original size:18 final size:18
Alignment explanation
Indices: 21251396--21251462 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
21251386 ATTGGGGTGA
* *
21251396 ATGAAACAAAAATG-ATG
1 ATGAAAAAAAAATGAAAG
* *
21251413 AATGAAAGAAACAATGAAAAA
1 -ATGAAA-AAAAAATG-AAAG
21251434 ATGAGAAAAAAAATGAAAG
1 ATGA-AAAAAAAATGAAAG
21251453 ATGAAAAAAA
1 ATGAAAAAAA
21251463 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
18 12 0.31
19 13 0.33
20 11 0.28
21 3 0.08
ACGTcount: A:0.69, C:0.03, G:0.16, T:0.12
Consensus pattern (18 bp):
ATGAAAAAAAAATGAAAG
Found at i:21252257 original size:14 final size:13
Alignment explanation
Indices: 21252222--21252261 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
21252212 GCATTTGTGA
21252222 CATTACATTCATG
1 CATTACATTCATG
* *
21252235 CATTGCATTCGTAG
1 CATTACATTCAT-G
21252249 CATTACATTCATG
1 CATTACATTCATG
21252262 GCAATTGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (13 bp):
CATTACATTCATG
Found at i:21252729 original size:42 final size:41
Alignment explanation
Indices: 21252655--21252759 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 41
21252645 ATGAGACGAG
21252655 CTTTTAAAATTTTTAAAGTTTCATTACCTTTGAT-GAAAGGAAA
1 CTTTT-AAATTTTTAAAGTTTCATTACCTTTGATAGAAA--AAA
* *
21252698 CTTTTAAATTTTTAAAGTTTCA-TAGCTTTTGATAAGAAAAAC
1 CTTTTAAATTTTTAAAGTTTCATTA-CCTTTGAT-AGAAAAAA
21252740 CTTTTAAATTTTTCAAAGTT
1 CTTTTAAATTTTT-AAAGTT
21252760 GATAAACCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
41 2 0.04
42 39 0.70
43 11 0.20
44 4 0.07
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (41 bp):
CTTTTAAATTTTTAAAGTTTCATTACCTTTGATAGAAAAAA
Found at i:21252788 original size:43 final size:42
Alignment explanation
Indices: 21252741--21253008 Score: 152
Period size: 42 Copynumber: 6.3 Consensus size: 42
21252731 AAGAAAAACC
* *
21252741 TTTTAAATTTTTCAAAGTTGATAAACCTCTTATAAAATGAGCT
1 TTTTAAATTTTT-AAAGTTGATGAACCTCTTATAAAAGGAGCT
* * * * * *
21252784 TTTTAAA-CTTTAAAGCTTCAT-AACCTCTAATGAATGGAGCC
1 TTTTAAATTTTTAAAG-TTGATGAACCTCTTATAAAAGGAGCT
* * * * *
21252825 TTTTAAATTTTTTAAGTTTCAT-AGCCTCTGATAAGAGGAG-T
1 TTTTAAATTTTTAAAG-TTGATGAACCTCTTATAAAAGGAGCT
* * * * * *
21252866 TTTATAAATTTTTTTAAGTCGTTGAGCCT-TTAATGAAAGGAGAT
1 TTT-TAAA-TTTTTAAAGTTGATGAACCTCTT-ATAAAAGGAGCT
* ** * *
21252910 TTTTAAATTTTTGAAGTT-ATTGAGTCTCTGATAAAATGAGCT
1 TTTTAAATTTTTAAAGTTGA-TGAACCTCTTATAAAAGGAGCT
* * * *
21252952 TTTTAAATTTTTTTAAAGTTGATGAACCTTTTATGAGAGGAGAAT
1 TTTTAAA--TTTTTAAAGTTGATGAACCTCTTATAAAAGGAG-CT
21252997 TTTTAAATTTTT
1 TTTTAAATTTTT
21253009 TGAAAGTGTT
Statistics
Matches: 173, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
41 29 0.17
42 69 0.40
43 39 0.23
44 27 0.16
45 9 0.05
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTTAAATTTTTAAAGTTGATGAACCTCTTATAAAAGGAGCT
Found at i:21252914 original size:85 final size:86
Alignment explanation
Indices: 21252805--21253009 Score: 229
Period size: 85 Copynumber: 2.4 Consensus size: 86
21252795 AAAGCTTCAT
* * ** *
21252805 AACCTCTAATGAATGGAGCCTTTTAAATTTTTTAAGTT-TCAT-AGCCTCTGATAAGAGGAG-TT
1 AACCTTTAATGAAAGGAGATTTTTAAATTTTTTAAGTTAT--TGAGCCTCTGATAAAAGGAGCTT
*
21252867 TTATAAATTTTTTT-AAGTCGTTG
64 TT-TAAATTTTTTTAAAGTCGATG
* * * *
21252890 AGCCTTTAATGAAAGGAGATTTTTAAATTTTTGAAGTTATTGAGTCTCTGATAAAATGAGCTTTT
1 AACCTTTAATGAAAGGAGATTTTTAAATTTTTTAAGTTATTGAGCCTCTGATAAAAGGAGCTTTT
*
21252955 TAAATTTTTTTAAAGTTGATG
66 TAAATTTTTTTAAAGTCGATG
* *
21252976 AACCTTTTATGAGAGGAGAATTTTTAAATTTTTT
1 AACCTTTAATGAAAGGAG-ATTTTTAAATTTTTT
21253010 GAAAGTGTTG
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
84 1 0.01
85 58 0.58
86 27 0.27
87 14 0.14
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (86 bp):
AACCTTTAATGAAAGGAGATTTTTAAATTTTTTAAGTTATTGAGCCTCTGATAAAAGGAGCTTTT
TAAATTTTTTTAAAGTCGATG
Found at i:21253044 original size:88 final size:85
Alignment explanation
Indices: 21252870--21253053 Score: 192
Period size: 88 Copynumber: 2.1 Consensus size: 85
21252860 AGGAGTTTTA
* *
21252870 TAAATTTTTTTAAGTCGTTGAGCCTTTAATGAAAGGAGATTTTTAAATTTTTGAAGTTATTGAGT
1 TAAATTTTTTTAAGTCGATGAACCTTTAATGAAAGGAGATTTTTAAATTTTTGAAGTTATTGAGT
** * *
21252935 CTCTGATAAAATGAGCTTTT
66 CTCTGATAAAACAAACATTT
* * * *
21252955 TAAATTTTTTTAAAGTTGATGAACCTTTTATGAGAGGAGAATTTTTAAATTTTTTGAAAG-TGTT
1 TAAATTTTTTT-AAGTCGATGAACCTTTAATGAAAGGAG-ATTTTTAAA-TTTTTG-AAGTTATT
* *
21253019 GAGT-TGCTGATGAGACAAACATTT
62 GAGTCT-CTGATAAAACAAACATTT
21253043 TATAATTTTTT
1 TA-AATTTTTT
21253054 GAAATTATTG
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
85 11 0.14
86 22 0.27
87 10 0.12
88 27 0.33
89 11 0.14
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (85 bp):
TAAATTTTTTTAAGTCGATGAACCTTTAATGAAAGGAGATTTTTAAATTTTTGAAGTTATTGAGT
CTCTGATAAAACAAACATTT
Found at i:21253094 original size:44 final size:43
Alignment explanation
Indices: 21252807--21253096 Score: 146
Period size: 44 Copynumber: 6.7 Consensus size: 43
21252797 AGCTTCATAA
* * *
21252807 CCTCTAATGAATGGAGCCTTTTAAATTTTTT-AAGTT-TCAT-AG
1 CCTCTAATGAAAGGAGCTTTTTAAATTTTTTGAAATTAT--TGAG
* * * **
21252849 CCTCTGAT-AAGAGGAG-TTTTATAAATTTTTTTAAGTCGTTGAG
1 CCTCTAATGAA-AGGAGCTTTT-TAAATTTTTTGAAATTATTGAG
* * *
21252892 CCTTTAATGAAAGGAGATTTTTAAA-TTTTTGAAGTTATTGAG
1 CCTCTAATGAAAGGAGCTTTTTAAATTTTTTGAAATTATTGAG
* * * * * *
21252934 TCTCTGATAAAATGAGCTTTTTAAATTTTTTTAAAGTTGA-TGAA
1 CCTCTAATGAAAGGAGCTTTTTAAATTTTTTGAAA-TT-ATTGAG
* * * * * *
21252978 CCTTTTATGAGAGGAGAATTTTTAAATTTTTTGAAAGTGTTGAG
1 CCTCTAATGAAAGGAG-CTTTTTAAATTTTTTGAAATTATTGAG
* * * ** * *
21253022 -TTGCTGATGAGACAAACATTTTATAATTTTTTGAAATTATTGAG
1 CCT-CTAATGAAAGGAGCTTTTTA-AATTTTTTGAAATTATTGAG
* *
21253066 CCTCTAATAAAATGAGCCTTTTTAAATTTTT
1 CCTCTAATGAAAGGAG-CTTTTTAAATTTTT
21253097 CGAAGTTGTT
Statistics
Matches: 185, Mismatches: 47, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
41 5 0.03
42 55 0.30
43 34 0.18
44 66 0.36
45 25 0.14
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (43 bp):
CCTCTAATGAAAGGAGCTTTTTAAATTTTTTGAAATTATTGAG
Found at i:21253335 original size:21 final size:21
Alignment explanation
Indices: 21253309--21253358 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
21253299 GAGTTAAATT
*
21253309 TTTATTTTATTTA-TTTGTTTA
1 TTTATTTTATTGAGTTT-TTTA
*
21253330 TTTATTTTATTGAGTTTTTTT
1 TTTATTTTATTGAGTTTTTTA
21253351 TTTATTTT
1 TTTATTTT
21253359 GGTTGTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTATTTTATTGAGTTTTTTA
Found at i:21258000 original size:107 final size:107
Alignment explanation
Indices: 21257814--21258028 Score: 376
Period size: 107 Copynumber: 2.0 Consensus size: 107
21257804 GACAAGATTG
* *
21257814 AATAATCCATCAGAAGTTAGGTACTAAGAAGGATTCATTCAAGTAAGATTCTGGATCAGGATTAA
1 AATAATCCATCAGAAGTTAGGTACTAAAAAGGATTCATTCAAGTAAGATTCCGGATCAGGATTAA
*
21257879 TAACATGGTCACCTGTTTAATATTCGCTTAATTACTATTTAC
66 AAACATGGTCACCTGTTTAATATTCGCTTAATTACTATTTAC
* *
21257921 AATAATCCATCTGAAGTTAGGTGCTAAAAAGGATTCATTCAAGTAAGATTCCGGATCAGGATTAA
1 AATAATCCATCAGAAGTTAGGTACTAAAAAGGATTCATTCAAGTAAGATTCCGGATCAGGATTAA
*
21257986 AAACATGGTCACCTGTTTAATATTTGCTTAATTACTATTTAC
66 AAACATGGTCACCTGTTTAATATTCGCTTAATTACTATTTAC
21258028 A
1 A
21258029 TCATCAGTTT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (107 bp):
AATAATCCATCAGAAGTTAGGTACTAAAAAGGATTCATTCAAGTAAGATTCCGGATCAGGATTAA
AAACATGGTCACCTGTTTAATATTCGCTTAATTACTATTTAC
Found at i:21260240 original size:10 final size:11
Alignment explanation
Indices: 21260206--21260245 Score: 55
Period size: 10 Copynumber: 3.5 Consensus size: 11
21260196 TTTTATAATT
21260206 TAAAATATAATA
1 TAAAATA-AATA
21260218 TTAAAATAAATA
1 -TAAAATAAATA
21260230 TAAAA-AAATA
1 TAAAATAAATA
21260240 TAAAAT
1 TAAAAT
21260246 TTTAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 4 0.15
13 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
TAAAATAAATA
Found at i:21260279 original size:46 final size:49
Alignment explanation
Indices: 21260193--21260293 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 49
21260183 CTAGCGGCGT
* *
21260193 AAATTTTATAATTTAAAATATAATATTAAAATAAATATAAAAAAATATA
1 AAATTTTATAATTTAAAATATAATATTAAAATAAAAATAAAAAAATAAA
* * *
21260242 AAATTTTA-ATTTTAATATATAA-A-TATAATAAAAATAAAAAAATAAA
1 AAATTTTATAATTTAAAATATAATATTAAAATAAAAATAAAAAAATAAA
21260288 AAATTT
1 AAATTT
21260294 ATTGTTATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
46 26 0.55
47 1 0.02
48 12 0.26
49 8 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (49 bp):
AAATTTTATAATTTAAAATATAATATTAAAATAAAAATAAAAAAATAAA
Found at i:21260576 original size:23 final size:24
Alignment explanation
Indices: 21260539--21260584 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
21260529 AAAATTATAT
21260539 TTTTTTAAATATCTAAAATTTTTA
1 TTTTTTAAATATCTAAAATTTTTA
* *
21260563 TTTTTTATAT-TCTAAATTTTTT
1 TTTTTTAAATATCTAAAATTTTT
21260585 TTATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTTTTAAATATCTAAAATTTTTA
Found at i:21260597 original size:18 final size:18
Alignment explanation
Indices: 21260563--21260598 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21260553 AAAATTTTTA
**
21260563 TTTTTTATATTCTAAATT
1 TTTTTTATATTAAAAATT
21260581 TTTTTTATATTAAAAATT
1 TTTTTTATATTAAAAATT
21260599 ATGAAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTTATATTAAAAATT
Found at i:21262832 original size:24 final size:24
Alignment explanation
Indices: 21262805--21262867 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 24
21262795 ATCGATGATT
*
21262805 AAACATAACTTTTACTTGATAAAC
1 AAACATAACTTTTACTCGATAAAC
* * * *
21262829 AAACATAGCTCTTAACTCGATGACC
1 AAACATAACT-TTTACTCGATAAAC
21262854 AAACATAACTTTTA
1 AAACATAACTTTTA
21262868 ACAATTTAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 12 0.39
25 19 0.61
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (24 bp):
AAACATAACTTTTACTCGATAAAC
Found at i:21262868 original size:25 final size:25
Alignment explanation
Indices: 21262786--21262869 Score: 82
Period size: 24 Copynumber: 3.4 Consensus size: 25
21262776 TGAATTAATG
* **
21262786 TAACTTTTCA-TCGATGATTAAACA
1 TAACTTTTAACTCGATGAACAAACA
* *
21262810 TAACTTTT-ACTTGATAAACAAACA
1 TAACTTTTAACTCGATGAACAAACA
* * *
21262834 TAGCTCTTAACTCGATGACCAAACA
1 TAACTTTTAACTCGATGAACAAACA
21262859 TAACTTTTAAC
1 TAACTTTTAAC
21262870 AATTTAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 1 0.02
24 24 0.51
25 22 0.47
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (25 bp):
TAACTTTTAACTCGATGAACAAACA
Found at i:21264316 original size:16 final size:17
Alignment explanation
Indices: 21264297--21264329 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21264287 AAATTTTAAA
*
21264297 TTTATTAAT-ATTATAT
1 TTTATAAATAATTATAT
21264313 TTTATAAATAATTATAT
1 TTTATAAATAATTATAT
21264330 AAATTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATAAATAATTATAT
Found at i:21264628 original size:20 final size:21
Alignment explanation
Indices: 21264587--21264632 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
21264577 CTCAAAATTA
21264587 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTTAAAAT
*
21264608 ATAAAATATTATTTTT-TAAT
1 ATAAAATATTATTTTTAAAAT
21264628 ATAAA
1 ATAAA
21264633 TATAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:21264635 original size:19 final size:19
Alignment explanation
Indices: 21264584--21264635 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
21264574 TAACTCAAAA
21264584 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
*
21264602 TAAAATATAAAATATTATTTT
1 T-TAATAT-AAATATTATTTT
21264623 TTAATATAAATAT
1 TTAATATAAATAT
21264636 AAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 1 0.03
19 10 0.34
20 5 0.17
21 13 0.45
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:21264649 original size:16 final size:17
Alignment explanation
Indices: 21264623--21264654 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21264613 ATATTATTTT
21264623 TTAATATAAATATAAAA
1 TTAATATAAATATAAAA
21264640 TTAA-ATAAATATAAA
1 TTAATATAAATATAAA
21264655 TATAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:21264677 original size:22 final size:22
Alignment explanation
Indices: 21264625--21264678 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
21264615 ATTATTTTTT
*
21264625 AATATAAATATAAAATTAAATA
1 AATAAAAATATAAAATTAAATA
* * *
21264647 AATATAAATATAATATTAATTA
1 AATAAAAATATAAAATTAAATA
*
21264669 ATTAAAAATA
1 AATAAAAATA
21264679 ATTTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAAAATATAAAATTAAATA
Found at i:21275461 original size:61 final size:61
Alignment explanation
Indices: 21275375--21275492 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
21275365 GAACTCAATT
* * *
21275375 CAAAAACCTATGACAAATTTCAATGAGAAAAACGCTCACAAGCAGCAAATTGGAAAATCAA
1 CAAAAACCTATGACAAATTTCAATGAGAAAAACCCTCACAACCAGCAAACTGGAAAATCAA
* * * * *
21275436 CAAATACCTGTGACCAATTTTAATGAGAAAAACCCTCACAACCATCAAACTGGAAAA
1 CAAAAACCTATGACAAATTTCAATGAGAAAAACCCTCACAACCAGCAAACTGGAAAA
21275493 CATATTCACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.48, C:0.22, G:0.12, T:0.18
Consensus pattern (61 bp):
CAAAAACCTATGACAAATTTCAATGAGAAAAACCCTCACAACCAGCAAACTGGAAAATCAA
Found at i:21277481 original size:22 final size:21
Alignment explanation
Indices: 21277429--21277481 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
21277419 ACGTAATTCG
** *
21277429 TTAAATATATATCATCTATACA
1 TTAAA-ATATATCAAATATAAA
21277451 TTAACAATATATCAAATATAAA
1 TTAA-AATATATCAAATATAAA
21277473 TTTAAAATA
1 -TTAAAATA
21277482 AATATTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAATATATCAAATATAAA
Found at i:21284819 original size:25 final size:25
Alignment explanation
Indices: 21284791--21284870 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
21284781 AAAAGTTGAC
21284791 TATATTTGATGAAACAATTCACTGA
1 TATATTTGATGAAACAATTCACTGA
** *** ** *
21284816 TATATTCAATTTTA-TTTTCA-TAA
1 TATATTTGATGAAACAATTCACTGA
21284839 CTATATTTGATGAAACAATTCACTGA
1 -TATATTTGATGAAACAATTCACTGA
21284865 TATATT
1 TATATT
21284871 CAATTTATTT
Statistics
Matches: 36, Mismatches: 16, Indels: 6
0.62 0.28 0.10
Matches are distributed among these distances:
23 2 0.06
24 13 0.36
25 19 0.53
26 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.44
Consensus pattern (25 bp):
TATATTTGATGAAACAATTCACTGA
Found at i:21284861 original size:49 final size:48
Alignment explanation
Indices: 21284789--21284884 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 48
21284779 ATAAAAGTTG
21284789 ACTATATTTGATGAAACAATTCACTGATATATTCAATTTTATTTTCATA
1 ACTATATTTGATGAAACAATTCACTGATATATTCAA-TTTATTTTCATA
21284838 ACTATATTTGATGAAACAATTCACTGATATATTCAATTTATTTTCAT
1 ACTATATTTGATGAAACAATTCACTGATATATTCAATTTATTTTCAT
21284885 CGTTATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 11 0.23
49 36 0.77
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (48 bp):
ACTATATTTGATGAAACAATTCACTGATATATTCAATTTATTTTCATA
Found at i:21296976 original size:9 final size:9
Alignment explanation
Indices: 21296962--21296987 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21296952 ACCCTCGAAA
21296962 AAAAAAAAG
1 AAAAAAAAG
21296971 AAAAAAAAG
1 AAAAAAAAG
21296980 AAAAAAAA
1 AAAAAAAA
21296988 CTTTGTTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:21298488 original size:13 final size:12
Alignment explanation
Indices: 21298459--21298499 Score: 57
Period size: 11 Copynumber: 3.4 Consensus size: 12
21298449 TTTTTATTTT
21298459 TTTTATATCAT-
1 TTTTATATCATA
21298470 TTTTATATCATA
1 TTTTATATCATA
*
21298482 TTATTATGTCATA
1 TT-TTATATCATA
21298495 TTTTA
1 TTTTA
21298500 AATTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.41
12 5 0.19
13 11 0.41
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (12 bp):
TTTTATATCATA
Found at i:21299272 original size:18 final size:17
Alignment explanation
Indices: 21299239--21299272 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21299229 TTTATTAGTT
*
21299239 AAATATTTTTTTAATAA
1 AAATATTTTTTAAATAA
21299256 AAATATTTTTTCAAATA
1 AAATATTTTTT-AAATA
21299273 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATATTTTTTAAATAA
Done.