Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 103 of 133
Found at i:20210474 original size:9 final size:9
Alignment explanation
Indices: 20210462--20210494 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
20210452 ATTTTATTAT
20210462 TTTTTAGAA
1 TTTTTAGAA
20210471 TTTTTAGAA
1 TTTTTAGAA
*
20210480 TTTTTAAAA
1 TTTTTAGAA
20210489 TTTTTA
1 TTTTTA
20210495 TAAAATTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (9 bp):
TTTTTAGAA
Found at i:20210763 original size:9 final size:9
Alignment explanation
Indices: 20210744--20210828 Score: 50
Period size: 10 Copynumber: 9.0 Consensus size: 9
20210734 TTTTTCATTT
20210744 AAATATTAAA
1 AAAT-TTAAA
20210754 AAATTT-AA
1 AAATTTAAA
20210762 AAA-TTACTAA
1 AAATTTA--AA
20210772 AAA-TTAAA
1 AAATTTAAA
20210780 AAATATATAGAA
1 AAAT-T-TA-AA
* *
20210792 GATTTTATAA
1 AAATTTA-AA
*
20210802 AAATTTCAA
1 AAATTTAAA
*
20210811 AAATTTTAA
1 AAATTTAAA
20210820 AAATTTAAA
1 AAATTTAAA
20210829 TATTTTGATT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
7 2 0.03
8 10 0.17
9 20 0.33
10 21 0.35
11 3 0.05
12 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (9 bp):
AAATTTAAA
Found at i:20210765 original size:8 final size:8
Alignment explanation
Indices: 20210740--20210833 Score: 53
Period size: 8 Copynumber: 10.5 Consensus size: 8
20210730 TTTATTTTTC
*
20210740 ATTTAAAT
1 ATTTAAAA
*
20210748 ATTAAAAA
1 ATTTAAAA
20210756 ATTTAAAA
1 ATTTAAAA
20210764 ATTACTAAAA
1 ATT--TAAAA
*
20210774 ATTAAAAA
1 ATTTAAAA
20210782 ATATATAGAAGA
1 AT-T-TA-AA-A
*
20210794 TTTTATAAAA
1 -ATT-TAAAA
20210804 ATTTCAAAA
1 ATTT-AAAA
20210813 ATTTTAAAA
1 A-TTTAAAA
*
20210822 ATTTAAAT
1 ATTTAAAA
20210830 ATTT
1 ATTT
20210834 TGATTTAATA
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
8 33 0.48
9 13 0.19
10 13 0.19
11 4 0.06
12 5 0.07
13 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (8 bp):
ATTTAAAA
Found at i:20210773 original size:18 final size:16
Alignment explanation
Indices: 20210740--20210783 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
20210730 TTTATTTTTC
*
20210740 ATTTAAATATTAAAAA
1 ATTTAAAAATTAAAAA
20210756 ATTTAAAAATTACTAAAA
1 ATTTAAAAATTA--AAAA
*
20210774 ATTAAAAAAT
1 ATTTAAAAAT
20210784 ATATAGAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.46
18 13 0.54
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTTAAAAATTAAAAA
Found at i:20214219 original size:16 final size:16
Alignment explanation
Indices: 20214182--20214262 Score: 58
Period size: 16 Copynumber: 4.8 Consensus size: 16
20214172 TGGACATTTA
*
20214182 TATTTATCTTAATT-AT
1 TATTTAT-TTATTTGAT
*
20214198 TCTTTATTTATTTGAT
1 TATTTATTTATTTGAT
*
20214214 TATTTATTTATCTCTTTAT
1 TATTTATTTA--T-TTGAT
20214233 TATTTGATTTGATTTGAT
1 TATTT-ATTT-ATTTGAT
*
20214251 T-TTGATTTATTT
1 TATTTATTTATTT
20214263 TTAATTTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
15 9 0.17
16 21 0.40
17 2 0.04
18 6 0.11
19 10 0.19
20 4 0.08
21 1 0.02
ACGTcount: A:0.22, C:0.05, G:0.06, T:0.67
Consensus pattern (16 bp):
TATTTATTTATTTGAT
Found at i:20214222 original size:36 final size:36
Alignment explanation
Indices: 20214177--20214260 Score: 93
Period size: 36 Copynumber: 2.3 Consensus size: 36
20214167 TTTTATGGAC
* *
20214177 ATTTATATTTATCT-TAATTATTCTTT-ATTT-ATTTG
1 ATTTTTATTTATCTCT--TTATTATTTGATTTGATTTG
20214212 ATTATTTATTTATCTCTTTATTATTTGATTTGATTTG
1 ATT-TTTATTTATCTCTTTATTATTTGATTTGATTTG
*
20214249 ATTTTGATTTAT
1 ATTTTTATTTAT
20214261 TTTTAATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
35 11 0.26
36 22 0.52
37 9 0.21
ACGTcount: A:0.24, C:0.05, G:0.06, T:0.65
Consensus pattern (36 bp):
ATTTTTATTTATCTCTTTATTATTTGATTTGATTTG
Found at i:20214235 original size:27 final size:28
Alignment explanation
Indices: 20214185--20214241 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
20214175 ACATTTATAT
20214185 TTATCTTAATTATTCTTTATTTATTTGA
1 TTATCTTAATTATTCTTTATTTATTTGA
*
20214213 TTAT-TTATTTATCTCTTTA-TTATTTGA
1 TTATCTTAATTAT-TCTTTATTTATTTGA
20214240 TT
1 TT
20214242 TGATTTGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.23, C:0.07, G:0.04, T:0.67
Consensus pattern (28 bp):
TTATCTTAATTATTCTTTATTTATTTGA
Found at i:20226343 original size:19 final size:18
Alignment explanation
Indices: 20226319--20226384 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
20226309 TCTCAGTTAG
*
20226319 GGTTTCACTTAGGGTTTAA
1 GGTTTCACCTAGGGTTT-A
*
20226338 GGTTTCACCTAGAGCTTTTA
1 GGTTTCACCTAG-G-GTTTA
*
20226358 GGTTTTACCTAGGGTTTA
1 GGTTTCACCTAGGGTTTA
20226376 GAGTTTCAC
1 G-GTTTCAC
20226385 TTAAGGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 5 0.13
19 18 0.46
20 13 0.33
21 3 0.08
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (18 bp):
GGTTTCACCTAGGGTTTA
Found at i:20226465 original size:19 final size:19
Alignment explanation
Indices: 20226425--20226495 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
20226415 TTCGTTTAAA
* *
20226425 GTTTAGGGTTTTA-TCTAAG
1 GTTTAGGATTTTACT-TAGG
20226444 GTTTAGGATTTTACTTAGG
1 GTTTAGGATTTTACTTAGG
* * *
20226463 GTTTCA-AATTTTACCTAGA
1 GTTT-AGGATTTTACTTAGG
*
20226482 GTTTAGGGTTTTAC
1 GTTTAGGATTTTAC
20226496 ATAAGGTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 1 0.02
19 39 0.93
20 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (19 bp):
GTTTAGGATTTTACTTAGG
Found at i:20226692 original size:13 final size:13
Alignment explanation
Indices: 20226676--20226721 Score: 55
Period size: 11 Copynumber: 3.8 Consensus size: 13
20226666 TGAAATTTTA
20226676 TTATTAATATTAT
1 TTATTAATATTAT
20226689 TTATTAATA-T-T
1 TTATTAATATTAT
*
20226700 TTATT-ATTTTAT
1 TTATTAATATTAT
20226712 TT-TTAATATT
1 TTATTAATATT
20226722 TAATAATTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.07
11 9 0.32
12 8 0.29
13 9 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTAATATTAT
Found at i:20226723 original size:13 final size:13
Alignment explanation
Indices: 20226672--20226723 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
20226662 TCGCTGAAAT
20226672 TTTATTATTAATA
1 TTTATTATTAATA
20226685 -TTATTTATTAATA
1 TTTA-TTATTAATA
20226698 -TT-TTATT-AT-
1 TTTATTATTAATA
*
20226707 TTTATTTTTAATA
1 TTTATTATTAATA
20226720 TTTA
1 TTTA
20226724 ATAATTCTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
10 4 0.12
11 9 0.27
12 5 0.15
13 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTATTAATA
Found at i:20226738 original size:144 final size:142
Alignment explanation
Indices: 20226580--20226873 Score: 507
Period size: 142 Copynumber: 2.0 Consensus size: 142
20226570 TAAAAATATC
20226580 TAATATCTAGGCAGAATTTCAAAAGAAACTCATTTCTTTACAATTTCTTTAAAAATGAAAATTTA
1 TAAT-TCTAGGCAGAATTTCAAAAGAAACTCATTTCTTTACAATTTCTTTAAAAATG-AAATTTA
*
20226645 TATTTCTCTTTATTTTTTCGCTGAAATTTTATTATTAATATTATTTATTAATATTTTATTATTTT
64 TATTTCTCTTTA-TTTTTCGCTAAAATTTTATTATTAATATTATTTATTAATATTTTATTATTTT
20226710 ATTTTTAATATTTAA
128 ATTTTTAATATTTAA
* * *
20226725 TAATTCTAGGCAGAATTTCAAAGGAAACTCATTTTTTTACAATTTTTTTAAAAATGAAATTTATA
1 TAATTCTAGGCAGAATTTCAAAAGAAACTCATTTCTTTACAATTTCTTTAAAAATGAAATTTATA
* *
20226790 TTTCTTTTTATTTTTCGCTAAAATTTTATTATTAATATTATTTATTATTATTTTATTATTTTATT
66 TTTCTCTTTATTTTTCGCTAAAATTTTATTATTAATATTATTTATTAATATTTTATTATTTTATT
20226855 TTTAATATTTAA
131 TTTAATATTTAA
20226867 TAATTCT
1 TAATTCT
20226874 TCAATATCTA
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
142 72 0.50
143 18 0.13
144 49 0.34
145 4 0.03
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.53
Consensus pattern (142 bp):
TAATTCTAGGCAGAATTTCAAAAGAAACTCATTTCTTTACAATTTCTTTAAAAATGAAATTTATA
TTTCTCTTTATTTTTCGCTAAAATTTTATTATTAATATTATTTATTAATATTTTATTATTTTATT
TTTAATATTTAA
Found at i:20226839 original size:19 final size:17
Alignment explanation
Indices: 20226812--20226863 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
20226802 TTTCGCTAAA
20226812 ATTTTATTATTAATATT
1 ATTTTATTATTAATATT
*
20226829 A-TTTATTATTATTTTATT
1 ATTTTATTATTA--ATATT
*
20226847 ATTTTATTTTTAATATT
1 ATTTTATTATTAATATT
20226864 TAATAATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 10 0.34
17 5 0.17
18 5 0.17
19 9 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTATTATTAATATT
Found at i:20226976 original size:3 final size:3
Alignment explanation
Indices: 20226968--20226998 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
20226958 TTTCAAAAAA
20226968 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20226999 CTACTACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20228554 original size:7 final size:7
Alignment explanation
Indices: 20228537--20228592 Score: 62
Period size: 7 Copynumber: 8.0 Consensus size: 7
20228527 TTCCCAAAAC
20228537 GTTTTTT
1 GTTTTTT
*
20228544 -TTTTTG
1 GTTTTTT
20228550 GTTTTGTT
1 GTTTT-TT
20228558 GTTTTTT
1 GTTTTTT
*
20228565 GTTTCTT
1 GTTTTTT
20228572 GTTTTTT
1 GTTTTTT
20228579 -TTTGTTT
1 GTTT-TTT
20228586 GTTTTTT
1 GTTTTTT
20228593 ACTTTTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 8 0.20
7 24 0.59
8 9 0.22
ACGTcount: A:0.00, C:0.02, G:0.16, T:0.82
Consensus pattern (7 bp):
GTTTTTT
Found at i:20228583 original size:17 final size:16
Alignment explanation
Indices: 20228540--20228585 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
20228530 CCAAAACGTT
*
20228540 TTTTTTTTTGGTTTTG
1 TTTTTTTTTGTTTTTG
*
20228556 TTGTTTTTTGTTTCTTG
1 TTTTTTTTTGTTT-TTG
20228573 TTTTTTTTTGTTT
1 TTTTTTTTTGTTT
20228586 GTTTTTTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (16 bp):
TTTTTTTTTGTTTTTG
Found at i:20228664 original size:36 final size:36
Alignment explanation
Indices: 20228623--20228816 Score: 164
Period size: 36 Copynumber: 5.4 Consensus size: 36
20228613 GATAACACCG
* *
20228623 CAAGTCAAAAAATAAAGAACGATTGAGAAAACACTA
1 CAAGTCAAAAAATAAAGAACAATTGAGACAACACTA
* * * *
20228659 TAAGTC-AAAAGTAAA-ACACAATTGGGACAACACCA
1 CAAGTCAAAAAATAAAGA-ACAATTGAGACAACACTA
* * *
20228694 CAAGTC-GAAAATAAAGAA-AGATTGAGACAACATTG
1 CAAGTCAAAAAATAAAGAACA-ATTGAGACAACACTA
* ** * *
20228729 CAAGTCAAAAAATAAAAAATTATCGAGACAACACCA
1 CAAGTCAAAAAATAAAGAACAATTGAGACAACACTA
* * * *
20228765 CAAGT-AAGAAACTAAAGGATAATTGAAACAACACTA
1 CAAGTCAA-AAAATAAAGAACAATTGAGACAACACTA
20228801 CAAGTCAAAAAATAAA
1 CAAGTCAAAAAATAAA
20228817 AATGACTAAG
Statistics
Matches: 123, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
34 2 0.02
35 54 0.44
36 65 0.53
37 2 0.02
ACGTcount: A:0.56, C:0.15, G:0.13, T:0.15
Consensus pattern (36 bp):
CAAGTCAAAAAATAAAGAACAATTGAGACAACACTA
Found at i:20228761 original size:71 final size:71
Alignment explanation
Indices: 20228611--20228818 Score: 213
Period size: 71 Copynumber: 2.9 Consensus size: 71
20228601 AAAAAAAACT
* * * * * * *
20228611 GAGATAACACCGCAAGTCAAAAAATAAAGAACGATTGAGAAAACACTATAAGTC-AAAAGTAAAA
1 GAGACAACACCACAAGTC-GAAAATAAAGAAAGATTGAGACAACACTACAAGTCAAAAAATAAAA
* *
20228675 CACAATT
65 AACAATC
* * *
20228682 GGGACAACACCACAAGTCGAAAATAAAGAAAGATTGAGACAACATTGCAAGTCAAAAAATAAAAA
1 GAGACAACACCACAAGTCGAAAATAAAGAAAGATTGAGACAACACTACAAGTCAAAAAATAAAAA
**
20228747 ATTATC
66 ACAATC
* * * *
20228753 GAGACAACACCACAAGTAAGAAACTAAAGGATA-ATTGAAACAACACTACAAGTCAAAAAATAAA
1 GAGACAACACCACAAGT-CGAAAATAAA-GAAAGATTGAGACAACACTACAAGTCAAAAAATAAA
20228817 AA
64 AA
20228819 TGACTAAGAC
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
70 29 0.26
71 43 0.38
72 38 0.34
73 3 0.03
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (71 bp):
GAGACAACACCACAAGTCGAAAATAAAGAAAGATTGAGACAACACTACAAGTCAAAAAATAAAAA
ACAATC
Found at i:20228897 original size:35 final size:34
Alignment explanation
Indices: 20228831--20228912 Score: 92
Period size: 35 Copynumber: 2.4 Consensus size: 34
20228821 ACTAAGACAA
* *
20228831 CATAAGTTGAAAACAAAGCACGACCATGACAACAC
1 CATAAGTT-AAAACAAAGCACGACCAGGACAAAAC
* * *
20228866 CATAAGTTAAAACTAAAGCATGACTAGGACAAAAT
1 CATAAGTTAAAAC-AAAGCACGACCAGGACAAAAC
*
20228901 CATAAGTCAAAA
1 CATAAGTTAAAA
20228913 AATAAGGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 5 0.12
35 35 0.88
ACGTcount: A:0.51, C:0.20, G:0.13, T:0.16
Consensus pattern (34 bp):
CATAAGTTAAAACAAAGCACGACCAGGACAAAAC
Found at i:20229144 original size:34 final size:32
Alignment explanation
Indices: 20229081--20229295 Score: 139
Period size: 33 Copynumber: 6.4 Consensus size: 32
20229071 AGGTAATCTG
* * *
20229081 GGCTTAAAT-TCTCATTGACTGTCAATTAAACT
1 GGCTTAAATCTTTCATTGA-TGCCAGTTAAACT
* *
20229113 GAGTTTAAATCTTTCATTAGATGCTAGTTAAACT
1 G-GCTTAAATCTTTCATT-GATGCCAGTTAAACT
*
20229147 GGGCTTAAAT-TTTTATTGATGCCAGTTAATACT
1 -GGCTTAAATCTTTCATTGATGCCAGTTAA-ACT
* *
20229180 GGACTTAAATCATTTCA-TGATATACCAGCTAAACT
1 GG-CTTAAATC-TTTCATTG--ATGCCAGTTAAACT
* * ** * *
20229215 AGGCTTAAATGTTTCATTAATAACAGTCAAACAA
1 -GGCTTAAATCTTTCATTGATGCCAGTTAAAC-T
* * *
20229249 GGCTTAAATTTTTCATTGATGCCAATCAAACT
1 GGCTTAAATCTTTCATTGATGCCAGTTAAACT
*
20229281 GAACTTAAATCTTTC
1 G-GCTTAAATCTTTC
20229296 TATGACAAGC
Statistics
Matches: 144, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
32 15 0.10
33 70 0.49
34 30 0.21
35 18 0.12
36 11 0.08
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (32 bp):
GGCTTAAATCTTTCATTGATGCCAGTTAAACT
Found at i:20229188 original size:67 final size:68
Alignment explanation
Indices: 20229078--20229224 Score: 156
Period size: 67 Copynumber: 2.2 Consensus size: 68
20229068 GTCAGGTAAT
* * * * * *
20229078 CTGGGCTTAAATTCTCATTGACTGTCAATTAAACTGAGTTTAAATC-TTTCATTAGATGCTAGTT
1 CTGGGCTTAAATTCTCATTGACTGCCAATTAAACTGAGCTTAAATCATTTCATGAGATACCAGCT
20229142 AAA
66 AAA
* * * *
20229145 CTGGGCTTAAATTTTTATTGA-TGCCAGTTAATACTG-GACTTAAATCATTTCATGATATACCAG
1 CTGGGCTTAAATTCTCATTGACTGCCAATTAA-ACTGAG-CTTAAATCATTTCATGAGATACCAG
20229208 CTAAA
64 CTAAA
*
20229213 CTAGGCTTAAAT
1 CTGGGCTTAAAT
20229225 GTTTCATTAA
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
66 9 0.14
67 30 0.45
68 27 0.41
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (68 bp):
CTGGGCTTAAATTCTCATTGACTGCCAATTAAACTGAGCTTAAATCATTTCATGAGATACCAGCT
AAA
Found at i:20229324 original size:101 final size:101
Alignment explanation
Indices: 20229107--20229331 Score: 253
Period size: 101 Copynumber: 2.2 Consensus size: 101
20229097 GACTGTCAAT
* * * ** *
20229107 TAAACTGAGTTTAAATCTTTCATTAGATGCTAGTTAAACTGGGCTTAAATTTTTATTGATGCCAG
1 TAAACTGGGTTTAAAT-TTTCATTAGATACTAGTCAAACAAGGCTTAAATTTTTATTGATGCCAA
* * * *
20229172 TTAATACTGGACTTAAATCATTTCATGATATACCAGC
65 TCAATACTGAACTTAAATCATTTCATGACATACCAAC
* *
20229209 TAAACTAGGCTTAAATGTTTCATTA-ATAAC-AGTCAAACAAGGCTTAAATTTTTCATTGATGCC
1 TAAACTGGGTTTAAAT-TTTCATTAGAT-ACTAGTCAAACAAGGCTTAAATTTTT-ATTGATGCC
20229272 AATCAA-ACTGAACTTAAATC-TTTCTATGACA-AGCCAAC
63 AATCAATACTGAACTTAAATCATTTC-ATGACATA-CCAAC
20229310 TAAACTGGGTTTAAATTTTCAT
1 TAAACTGGGTTTAAATTTTCAT
20229332 GAGAGTCAAC
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
100 11 0.11
101 58 0.56
102 35 0.34
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (101 bp):
TAAACTGGGTTTAAATTTTCATTAGATACTAGTCAAACAAGGCTTAAATTTTTATTGATGCCAAT
CAATACTGAACTTAAATCATTTCATGACATACCAAC
Found at i:20230999 original size:19 final size:20
Alignment explanation
Indices: 20230969--20231008 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
20230959 TTGGGTTAAA
20230969 AATATATATATTTATCAAAT
1 AATATATATATTTATCAAAT
20230989 AATAT-TATATTTATCAAAT
1 AATATATATATTTATCAAAT
20231008 A
1 A
20231009 TTATCAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATATATATTTATCAAAT
Found at i:20231008 original size:16 final size:17
Alignment explanation
Indices: 20230967--20231012 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
20230957 TATTGGGTTA
20230967 AAAATATATATATTTATC
1 AAAATAT-TATATTTATC
20230985 AAATAATATTATATTTATC
1 -AA-AATATTATATTTATC
20231004 -AAATATTAT
1 AAAATATTAT
20231013 CAAACCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 8 0.31
17 1 0.04
19 12 0.46
20 5 0.19
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATATTATATTTATC
Found at i:20232170 original size:16 final size:16
Alignment explanation
Indices: 20232123--20232170 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
20232113 ATAGCTATTT
20232123 TTTTTCT-ATTTTTCC
1 TTTTTCTCATTTTTCC
20232138 TTCTTTCTCATTTTTTTCC
1 TT-TTTCTCA--TTTTTCC
20232157 TTTTTCTCATTTTT
1 TTTTTCTCATTTTT
20232171 TTTTTTTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
17 1 0.03
18 7 0.24
19 9 0.31
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTCTCATTTTTCC
Found at i:20232173 original size:19 final size:19
Alignment explanation
Indices: 20232131--20232172 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
20232121 TTTTTTTCTA
20232131 TTTTTCCTTCTTTCTCATT
1 TTTTTCCTTCTTTCTCATT
20232150 TTTTTCCTT-TTTCTCATT
1 TTTTTCCTTCTTTCTCATT
20232168 TTTTT
1 TTTTT
20232173 TTTTTTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCCTTCTTTCTCATT
Found at i:20232178 original size:18 final size:18
Alignment explanation
Indices: 20232122--20232178 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
20232112 CATAGCTATT
*
20232122 TTTTTTCT-A-TTTTTCC
1 TTTTTTCTCATTTTTTTC
*
20232138 TTCTTTCTCATTTTTTTC
1 TTTTTTCTCATTTTTTTC
*
20232156 CTTTTTCTCATTTTTTT-
1 TTTTTTCTCATTTTTTTC
20232173 TTTTTT
1 TTTTTT
20232179 GTTTTTGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
18 21 0.62
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTCATTTTTTTC
Found at i:20232895 original size:13 final size:13
Alignment explanation
Indices: 20232877--20232913 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
20232867 AGACTCAAAA
20232877 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
20232890 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
*
20232903 TTCTCTTTTTT
1 TTTTCTTTTTT
20232914 CAAGGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:20232898 original size:11 final size:11
Alignment explanation
Indices: 20232884--20232913 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
20232874 AAATTTTCTT
20232884 TTTTTTTTTTC
1 TTTTTTTTTTC
20232895 TTTTTTTTTTC
1 TTTTTTTTTTC
20232906 TCTTTTTT
1 T-TTTTTT
20232914 CAAGGTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:20236814 original size:26 final size:25
Alignment explanation
Indices: 20236780--20236830 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
20236770 TATATTTTAA
*
20236780 AAATTAAAATAAAAAGAATTAAATT
1 AAATTAAAATAAAAACAATTAAATT
*
20236805 AAATATAAAATAAAACCAATTAAATT
1 AAAT-TAAAATAAAAACAATTAAATT
20236831 CAAAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATTAAAATAAAAACAATTAAATT
Found at i:20238050 original size:20 final size:19
Alignment explanation
Indices: 20237994--20238070 Score: 84
Period size: 19 Copynumber: 4.1 Consensus size: 19
20237984 AGGTTTCTCA
20237994 TTTAAGGTTTCACCTAGGG
1 TTTAAGGTTTCACCTAGGG
*
20238013 TTTAAGGTTTCACTTAGGG
1 TTTAAGGTTTCACCTAGGG
** *
20238032 CTTTCGGGTTTTACCTA-GG
1 -TTTAAGGTTTCACCTAGGG
* *
20238051 TTCAAGGTTTCACTTAGGG
1 TTTAAGGTTTCACCTAGGG
20238070 T
1 T
20238071 CACATTTAAG
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
18 11 0.24
19 23 0.50
20 12 0.26
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (19 bp):
TTTAAGGTTTCACCTAGGG
Found at i:20238178 original size:26 final size:25
Alignment explanation
Indices: 20238149--20238209 Score: 86
Period size: 26 Copynumber: 2.4 Consensus size: 25
20238139 TAGAGTTTAG
* *
20238149 GGTTTCATCTAGGGTTTTGATTTTGA
1 GGTTTCAT-TAAGGTTTTAATTTTGA
20238175 GGTTTCGATTAAGGTTTTAATTTTGA
1 GGTTTC-ATTAAGGTTTTAATTTTGA
20238201 GGTTTCATT
1 GGTTTCATT
20238210 TCACAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 3 0.09
26 27 0.84
27 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.25, T:0.51
Consensus pattern (25 bp):
GGTTTCATTAAGGTTTTAATTTTGA
Found at i:20239178 original size:24 final size:24
Alignment explanation
Indices: 20239142--20239191 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
20239132 ATTCTAGTTC
*
20239142 TTTTGCTATAAAAATTTTTTGGTT
1 TTTTGCTACAAAAATTTTTTGGTT
* *
20239166 TTTTGCTGCAAAACTTTTTTGGTT
1 TTTTGCTACAAAAATTTTTTGGTT
20239190 TT
1 TT
20239192 CTTCTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (24 bp):
TTTTGCTACAAAAATTTTTTGGTT
Found at i:20239590 original size:26 final size:26
Alignment explanation
Indices: 20239535--20239591 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
20239525 TTCATGTCTC
*
20239535 TTTTTTTTTTATATATTTTATGACTC
1 TTTTTTTTTTATATATTTTATGACTA
*
20239561 TTTTTTATTCTTAT-TATTTTA-GGCTA
1 TTTTTT-TT-TTATATATTTTATGACTA
20239587 TTTTT
1 TTTTT
20239592 AGTTTATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.52
27 9 0.33
28 4 0.15
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTTTTTTATATATTTTATGACTA
Found at i:20239653 original size:14 final size:14
Alignment explanation
Indices: 20239611--20239660 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
20239601 TTGTATTGAT
20239611 TTTTTTAGTATTTTA
1 TTTTTTAGT-TTTTA
* *
20239626 TTATTATCATTTTTTA
1 TT-TT-TTAGTTTTTA
20239642 TTTTTTAGTTTTTA
1 TTTTTTAGTTTTTA
20239656 TTTTT
1 TTTTT
20239661 CTAATTTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
14 13 0.45
15 4 0.14
16 9 0.31
17 3 0.10
ACGTcount: A:0.18, C:0.02, G:0.04, T:0.76
Consensus pattern (14 bp):
TTTTTTAGTTTTTA
Found at i:20240929 original size:18 final size:16
Alignment explanation
Indices: 20240902--20240965 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 16
20240892 AAAGATGATC
20240902 AAAAAAAAGAAAAGGAA
1 AAAAAAAAGAAAA-GAA
20240919 AAAAGAAAAGAAAAGAA
1 AAAA-AAAAGAAAAGAA
*
20240936 AAAAATGAATGAAAAAGAA
1 AAAAA--AAAG-AAAAGAA
20240955 AATAAAAAAGA
1 AA-AAAAAAGA
20240966 GGACGAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 1 0.03
17 12 0.30
18 15 0.38
19 9 0.22
20 3 0.08
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.05
Consensus pattern (16 bp):
AAAAAAAAGAAAAGAA
Found at i:20240962 original size:12 final size:12
Alignment explanation
Indices: 20240904--20240965 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 12
20240894 AGATGATCAA
20240904 AAAAAAGAAAAGG
1 AAAAAAGAAAA-G
20240917 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
20240929 AAAAGAAAAAAATG
1 AAAA-AAGAAAA-G
*
20240943 AATGAAAAAGAAAAT
1 -A--AAAAAGAAAAG
20240958 AAAAAAGA
1 AAAAAAGA
20240966 GGACGAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
12 12 0.29
13 17 0.41
14 2 0.05
15 1 0.02
16 6 0.15
17 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:20242105 original size:41 final size:41
Alignment explanation
Indices: 20242042--20242122 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
20242032 ACGTGTTATC
*
20242042 TTTATTTTTTAAAAGCTGTGTGCCCCTATTTATGAGGAGCT
1 TTTACTTTTTAAAAGCTGTGTGCCCCTATTTATGAGGAGCT
* * *
20242083 TTTACTTTTTAAAAGTTTTGTGCCTCTATTTATGAGGAGC
1 TTTACTTTTTAAAAGCTGTGTGCCCCTATTTATGAGGAGC
20242123 ATTATTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.46
Consensus pattern (41 bp):
TTTACTTTTTAAAAGCTGTGTGCCCCTATTTATGAGGAGCT
Found at i:20242146 original size:37 final size:40
Alignment explanation
Indices: 20242047--20242195 Score: 132
Period size: 37 Copynumber: 3.8 Consensus size: 40
20242037 TTATCTTTAT
* * *
20242047 TTTTTAAAAGCTGTGTGCCCCTATTTATGAGGAGCTTTTAC
1 TTTTT-AAAGTTGTGTGCCTCTATTTATGAGGAGCTATTAC
*
20242088 TTTTTAAAAGTTTTGTGCCTCTATTTATGAGGAGC-ATTA-
1 TTTTT-AAAGTTGTGTGCCTCTATTTATGAGGAGCTATTAC
* * *
20242127 TTTTT-AAGTTGTGTACCTCTA-TTA-GAAAGAGCTTTTA-
1 TTTTTAAAGTTGTGTGCCTCTATTTATG-AGGAGCTATTAC
* * *
20242164 TTTTTAAA-TTGTATGCCTTTATTTTTGAGGAG
1 TTTTTAAAGTTGTGTGCCTCTATTTATGAGGAG
20242196 TTTATTCTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
35 1 0.01
36 8 0.09
37 32 0.36
38 8 0.09
39 6 0.07
40 3 0.03
41 32 0.36
ACGTcount: A:0.24, C:0.11, G:0.18, T:0.46
Consensus pattern (40 bp):
TTTTTAAAGTTGTGTGCCTCTATTTATGAGGAGCTATTAC
Found at i:20242482 original size:16 final size:15
Alignment explanation
Indices: 20242439--20242492 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
20242429 ATTTTATCCA
20242439 TATTTA-TATTTATCT
1 TATTTATTATTTAT-T
* *
20242454 TAATTATTCTTTATT
1 TATTTATTATTTATT
20242469 TATTTGATTATTTATT
1 TATTT-ATTATTTATT
*
20242485 TATCTATT
1 TATTTATT
20242493 CATTATCTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 13 0.41
16 19 0.59
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTTATTATTTATT
Found at i:20243516 original size:16 final size:16
Alignment explanation
Indices: 20243488--20243554 Score: 54
Period size: 16 Copynumber: 4.3 Consensus size: 16
20243478 AGCTAAACTG
*
20243488 GTTTT-TTTTTTATTT
1 GTTTTATTTATTATTT
*
20243503 GTTTTATCTT-TTA-TG
1 GTTTTAT-TTATTATTT
20243518 GATTTTATTTATT-TTT
1 G-TTTTATTTATTATTT
20243534 GTTTTATGTTATTATTT
1 GTTTTAT-TTATTATTT
20243551 -TTTT
1 GTTTT
20243555 TTCATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
15 15 0.35
16 23 0.53
17 5 0.12
ACGTcount: A:0.13, C:0.01, G:0.09, T:0.76
Consensus pattern (16 bp):
GTTTTATTTATTATTT
Found at i:20243523 original size:25 final size:24
Alignment explanation
Indices: 20243495--20243562 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
20243485 CTGGTTTTTT
*
20243495 TTTTATTTGTTTTATCTTTTATGGA
1 TTTTATTTATTTT-TCTTTTATGGA
*
20243520 TTTTATTTATTTTTGTTTTAT-G-
1 TTTTATTTATTTTTCTTTTATGGA
*
20243542 TTATTATTTTTTTTTCATTTT
1 TT-TTATTTATTTTTC-TTTT
20243563 TTTTAAATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 2 0.05
23 12 0.32
24 11 0.30
25 12 0.32
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTATTTATTTTTCTTTTATGGA
Found at i:20243562 original size:24 final size:24
Alignment explanation
Indices: 20243495--20243562 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
20243485 CTGGTTTTTT
*
20243495 TTTTATTTGTTTTATCTTTTATGGA
1 TTTTATTT-TTTTTTCTTTTATGGA
* *
20243520 TTTTATTTATTTTTGTTTTAT-G-
1 TTTTATTTTTTTTTCTTTTATGGA
20243542 TTATTATTTTTTTTTCATTTT
1 TT-TTATTTTTTTTTC-TTTT
20243563 TTTTAAATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 2 0.06
23 12 0.33
24 14 0.39
25 8 0.22
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTATTTTTTTTTCTTTTATGGA
Found at i:20245765 original size:25 final size:22
Alignment explanation
Indices: 20245724--20245788 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
20245714 GAGTTGGTTC
* *
20245724 TTTTTTTT-T-TTTGTATTTGT
1 TTTTTTTTATGTTTTTATTTAT
20245744 TTTATCTTTTATGGTTTTTATTTAT
1 TTT-T-TTTTAT-GTTTTTATTTAT
*
20245769 TTTTTTTTATGTTATTATTT
1 TTTTTTTTATGTTTTTATTT
20245789 TCTTTATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 13 0.35
23 7 0.19
24 1 0.03
25 12 0.32
ACGTcount: A:0.12, C:0.02, G:0.08, T:0.78
Consensus pattern (22 bp):
TTTTTTTTATGTTTTTATTTAT
Found at i:20251321 original size:32 final size:32
Alignment explanation
Indices: 20251272--20251332 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
20251262 TACATAAGAT
*
20251272 TATGATAAGATAGAATAAGATGATATTATAAA
1 TATGATAAGATAGAATAAGATCATATTATAAA
* *
20251304 TATGATTAGATTA-AATAATATCATATTAT
1 TATGATAAGA-TAGAATAAGATCATATTAT
20251333 CTTATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 23 0.92
33 2 0.08
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (32 bp):
TATGATAAGATAGAATAAGATCATATTATAAA
Found at i:20251441 original size:82 final size:82
Alignment explanation
Indices: 20251355--20251517 Score: 283
Period size: 82 Copynumber: 2.0 Consensus size: 82
20251345 GTGTGCAAAA
20251355 ATTAAGATAAGATAATTTATTTATTGGTCAAAATTATCTTTTCTT-AAAGTTTATATAATTTAAA
1 ATTAAGATAAGATAATTTATTTATTGGTCAAAATTAT-TTTTCTTCAAAGTTTATATAATTTAAA
20251419 TTATTGATATAATTTTTT
65 TTATTGATATAATTTTTT
** *
20251437 ATTAAGATTTGATAATTTATTTATTGGTCAAAATTATTTTTTTTCAAAGTTTATATAATTTAAAT
1 ATTAAGATAAGATAATTTATTTATTGGTCAAAATTATTTTTCTTCAAAGTTTATATAATTTAAAT
20251502 TATTGATATAATTTTT
66 TATTGATATAATTTTT
20251518 AAAGATATAA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
81 6 0.08
82 71 0.92
ACGTcount: A:0.37, C:0.03, G:0.07, T:0.53
Consensus pattern (82 bp):
ATTAAGATAAGATAATTTATTTATTGGTCAAAATTATTTTTCTTCAAAGTTTATATAATTTAAAT
TATTGATATAATTTTTT
Found at i:20251495 original size:43 final size:42
Alignment explanation
Indices: 20251366--20251498 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 42
20251356 TTAAGATAAG
*
20251366 ATAATTTATTTATTGGTCAAAATTATCTTTTCTTAAAGTTTAT
1 ATAATTTATTTATTGGTCAAAATTAT-TTTTATTAAAGTTTAT
* * * *
20251409 ATAATTTAAATTATTGAT-ATAA-T-TTTTTATT-AAGATTT-G
1 ATAATTT-ATTTATTGGTCAAAATTATTTTTATTAAAG-TTTAT
*
20251448 ATAATTTATTTATTGGTCAAAATTATTTTTTTTCAAAGTTTAT
1 ATAATTTATTTATTGGTCAAAATTATTTTTATT-AAAGTTTAT
20251491 ATAATTTA
1 ATAATTTA
20251499 AATTATTGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
38 8 0.11
39 13 0.18
40 10 0.14
41 8 0.11
42 4 0.06
43 21 0.29
44 8 0.11
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (42 bp):
ATAATTTATTTATTGGTCAAAATTATTTTTATTAAAGTTTAT
Found at i:20260837 original size:21 final size:21
Alignment explanation
Indices: 20260807--20260856 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
20260797 TAAGAACTTT
* *
20260807 TTTTTATTTTTTTATTATTTCTC
1 TTTTT-TTTTGTTATT-TTTCAC
*
20260830 TTTTTTTTTGTTCTTTTTCAC
1 TTTTTTTTTGTTATTTTTCAC
20260851 TTTTTT
1 TTTTTT
20260857 ACAATTTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 11 0.46
22 8 0.33
23 5 0.21
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTTTTGTTATTTTTCAC
Found at i:20261414 original size:26 final size:26
Alignment explanation
Indices: 20261354--20261414 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
20261344 TAGTGTTTAG
*
20261354 TTTGGTTCAAATTGGTTTTTTCCTTG
1 TTTGGTTCAAATTGGTTTTTTCCTTA
* *
20261380 TTCGATTCAAATTGGTTTTTTCCTTA
1 TTTGGTTCAAATTGGTTTTTTCCTTA
20261406 TTTGGTTCA
1 TTTGGTTCA
20261415 GATCTAGGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.15, C:0.13, G:0.16, T:0.56
Consensus pattern (26 bp):
TTTGGTTCAAATTGGTTTTTTCCTTA
Found at i:20263096 original size:21 final size:21
Alignment explanation
Indices: 20263032--20263097 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
20263022 GTTATCTTTG
*
20263032 TATTTTATTATAATTGTCTATT
1 TATTTTATT-TATTTGTCTATT
* * *
20263054 TA-TTTATTTGTTTGTTTGTT
1 TATTTTATTTATTTGTCTATT
*
20263074 TATTTTATTTATTTGACTATT
1 TATTTTATTTATTTGTCTATT
20263095 TAT
1 TAT
20263098 GTCTAATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 10 0.29
21 23 0.66
22 2 0.06
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (21 bp):
TATTTTATTTATTTGTCTATT
Found at i:20267660 original size:8 final size:7
Alignment explanation
Indices: 20267640--20267693 Score: 54
Period size: 7 Copynumber: 6.9 Consensus size: 7
20267630 GTAAAACAAG
20267640 AATGAAA
1 AATGAAA
20267647 AATGAAA
1 AATGAAA
20267654 AAGTGAAA
1 AA-TGAAA
20267662 AATGAAA
1 AATGAAA
20267669 AAGTAGAAAAA
1 AA-T-G--AAA
20267680 AATGGAAA
1 AAT-GAAA
20267688 AATGAA
1 AATGAA
20267694 GTGAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
7 19 0.46
8 14 0.34
9 1 0.02
10 2 0.05
11 5 0.12
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.13
Consensus pattern (7 bp):
AATGAAA
Found at i:20267662 original size:15 final size:15
Alignment explanation
Indices: 20267642--20267679 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
20267632 AAAACAAGAA
20267642 TGAAAAATGAAAAAG
1 TGAAAAATGAAAAAG
20267657 TGAAAAATGAAAAAG
1 TGAAAAATGAAAAAG
20267672 TAGAAAAA
1 T-GAAAAA
20267680 AATGGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.13
Consensus pattern (15 bp):
TGAAAAATGAAAAAG
Found at i:20267711 original size:21 final size:22
Alignment explanation
Indices: 20267651--20267733 Score: 59
Period size: 19 Copynumber: 3.8 Consensus size: 22
20267641 ATGAAAAATG
*
20267651 AAAAAGTGAAAAATGAAAAAGTAGA
1 AAAAAATGAAAAATG---AAGTAGA
20267676 AAAAAATGGAAAAATGAAGT-GA
1 AAAAAAT-GAAAAATGAAGTAGA
*
20267698 AAAAAAT-AAGAAATG-TG-A-A
1 AAAAAATGAA-AAATGAAGTAGA
*
20267717 AAAAAATTAAAAATGAA
1 AAAAAATGAAAAATGAA
20267734 AGAAAAGAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
19 13 0.26
20 5 0.10
21 5 0.10
22 9 0.18
23 4 0.08
25 6 0.12
26 8 0.16
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (22 bp):
AAAAAATGAAAAATGAAGTAGA
Found at i:20267989 original size:10 final size:10
Alignment explanation
Indices: 20267974--20268002 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
20267964 GGACATTATT
20267974 ATACCATTCA
1 ATACCATTCA
20267984 ATACCATTCA
1 ATACCATTCA
20267994 ATACCATTC
1 ATACCATTC
20268003 CTAATGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (10 bp):
ATACCATTCA
Found at i:20268115 original size:15 final size:15
Alignment explanation
Indices: 20268075--20268121 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20268065 TTGATTACCT
20268075 TTTTCTCAATTCACC
1 TTTTCTCAATTCACC
*
20268090 TTGTACT-AATT-ACC
1 TT-TTCTCAATTCACC
20268104 TTTCTCTCAATTCACC
1 TTT-TCTCAATTCACC
20268120 TT
1 TT
20268122 GTACTCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 1 0.04
14 7 0.27
15 10 0.38
16 8 0.31
ACGTcount: A:0.21, C:0.30, G:0.02, T:0.47
Consensus pattern (15 bp):
TTTTCTCAATTCACC
Found at i:20268137 original size:30 final size:30
Alignment explanation
Indices: 20268059--20268126 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
20268049 TAGACTCATT
* * *
20268059 CTTGTATTGATTACCTTTTTCTCAATTCAC
1 CTTGTACTAATTACCTTTCTCTCAATTCAC
20268089 CTTGTACTAATTACCTTTCTCTCAATTCAC
1 CTTGTACTAATTACCTTTCTCTCAATTCAC
20268119 CTTGTACT
1 CTTGTACT
20268127 CTTTTACTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.26, G:0.06, T:0.47
Consensus pattern (30 bp):
CTTGTACTAATTACCTTTCTCTCAATTCAC
Found at i:20268495 original size:79 final size:79
Alignment explanation
Indices: 20268364--20268511 Score: 228
Period size: 79 Copynumber: 1.9 Consensus size: 79
20268354 GTAGACATAA
*
20268364 CCTATGAGTTGTGATCAAATGATGGAAATAATGTGGATTAATGGACGAAATTTATTTTGAAATTG
1 CCTATGAGTTGTGATCAAATGATAGAAATAATGTGGATTAATGGACGAAATTTATTTTGAAATTG
20268429 TTAGTGCTGAAAAG
66 TTAGTGCTGAAAAG
* * *
20268443 CCTATGAGTTGTGATCAAATTATAGAAATAATGTGG-TTCAATTGAC-AGAATTTGTTTTGAAAT
1 CCTATGAGTTGTGATCAAATGATAGAAATAATGTGGATT-AATGGACGA-AATTTATTTTGAAAT
20268506 TGTTAG
64 TGTTAG
20268512 AGTTAAGATG
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
78 3 0.05
79 60 0.95
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (79 bp):
CCTATGAGTTGTGATCAAATGATAGAAATAATGTGGATTAATGGACGAAATTTATTTTGAAATTG
TTAGTGCTGAAAAG
Found at i:20269031 original size:24 final size:23
Alignment explanation
Indices: 20269003--20269178 Score: 101
Period size: 24 Copynumber: 7.6 Consensus size: 23
20268993 AGTTAAAAGT
20269003 AATAAGAATCTTTAAGGAATTTTA
1 AATAAGAATCTTTAA-GAATTTTA
*
20269027 AATAAGAATCCTTAAGAAGTTTTA
1 AATAAGAATCTTTAAGAA-TTTTA
* ** *
20269051 AATGAGAATCTTTGTTTGAGTTTTA
1 AATAAGAATC-TT-TAAGAATTTTA
* * * *
20269076 AATGAGAATTTTTAAGGAGTTTTG
1 AATAAGAATCTTTAA-GAATTTTA
* *
20269100 AATGAGAATCTTTAAGAAGTTTGA
1 AATAAGAATCTTTAAGAA-TTTTA
*
20269124 AATGAA-AATCTTT--GAGTTTTA
1 AAT-AAGAATCTTTAAGAATTTTA
* * * *
20269145 AGTGAGAATTTTTTAG--TTTTA
1 AATAAGAATCTTTAAGAATTTTA
*
20269166 AATAAGGATCTTT
1 AATAAGAATCTTT
20269179 GAATTTAGAC
Statistics
Matches: 119, Mismatches: 24, Indels: 21
0.73 0.15 0.13
Matches are distributed among these distances:
20 1 0.01
21 26 0.22
22 2 0.02
23 7 0.06
24 64 0.54
25 16 0.13
26 3 0.03
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.41
Consensus pattern (23 bp):
AATAAGAATCTTTAAGAATTTTA
Found at i:20269077 original size:25 final size:25
Alignment explanation
Indices: 20269007--20269159 Score: 126
Period size: 24 Copynumber: 6.4 Consensus size: 25
20268997 AAAAGTAATA
* *
20269007 AGAATC-TTTAAGGAATTTTAAATA
1 AGAATCTTTTAAGGAGTTTTAAATG
* *
20269031 AGAATC-CTTAAGAAGTTTTAAATG
1 AGAATCTTTTAAGGAGTTTTAAATG
**
20269055 AGAATCTTTGT-TTGAGTTTTAAATG
1 AGAATCTTT-TAAGGAGTTTTAAATG
*
20269080 AGAAT-TTTTAAGGAGTTTTGAATG
1 AGAATCTTTTAAGGAGTTTTAAATG
* *
20269104 AGAATC-TTTAAGAAGTTTGAAATG
1 AGAATCTTTTAAGGAGTTTTAAATG
* *
20269128 AAAATC-TTT---GAGTTTTAAGTG
1 AGAATCTTTTAAGGAGTTTTAAATG
*
20269149 AGAATTTTTTA
1 AGAATCTTTTA
20269160 GTTTTAAATA
Statistics
Matches: 103, Mismatches: 20, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
21 13 0.13
22 3 0.03
23 1 0.01
24 68 0.66
25 17 0.17
26 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.18, T:0.41
Consensus pattern (25 bp):
AGAATCTTTTAAGGAGTTTTAAATG
Found at i:20269090 original size:73 final size:69
Alignment explanation
Indices: 20269007--20269157 Score: 194
Period size: 73 Copynumber: 2.1 Consensus size: 69
20268997 AAAAGTAATA
* * *
20269007 AGAATCTTTAAGGAATTTTAAATAAGAATCCTTAAGAAGTTTTAAATGAGAATCTTTGTTTGAGT
1 AGAATTTTTAAGGAATTTTAAATAAGAATCCTTAAGAAGTTTGAAATGAAAATC----TTTGAGT
20269072 TTTAAATG
62 TTTAAATG
* * * *
20269080 AGAATTTTTAAGGAGTTTTGAATGAGAATCTTTAAGAAGTTTGAAATGAAAATCTTTGAGTTTTA
1 AGAATTTTTAAGGAATTTTAAATAAGAATCCTTAAGAAGTTTGAAATGAAAATCTTTGAGTTTTA
*
20269145 AGTG
66 AATG
20269149 AGAATTTTT
1 AGAATTTTT
20269158 TAGTTTTAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
69 23 0.33
73 47 0.67
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (69 bp):
AGAATTTTTAAGGAATTTTAAATAAGAATCCTTAAGAAGTTTGAAATGAAAATCTTTGAGTTTTA
AATG
Found at i:20269381 original size:109 final size:108
Alignment explanation
Indices: 20269161--20269390 Score: 302
Period size: 109 Copynumber: 2.1 Consensus size: 108
20269151 AATTTTTTAG
* * * * *
20269161 TTTTAAATAAGGATCTTTGAATTTAGACGTGAAACTCTAAAATTTATCGAATGCAAATCTTTGAA
1 TTTTAAATGAGAACCTTTGAATTTAAACGTGAAACTCTAAAATTTATCAAATGCAAATCTTTGAA
*
20269226 CTTGAATGAGAAGCTTTGAAATTTTGGATGTAAACCCCTAAATT
66 CTCGAATGAGAAGCTTTGAAATTTTGGATGTAAACCCCT-AATT
* * * **
20269270 TTTTTAATGAGAACCTTTGAATTTAAATGTGAAACTTTAAAATTTATCAAATGTGAATCTTTGAA
1 TTTTAAATGAGAACCTTTGAATTTAAACGTGAAACTCTAAAATTTATCAAATGCAAATCTTTGAA
* *
20269335 CTCGAATGAGAAGCTTTGAAATTTTGGATG-ACA-TCCTGAAGTT
66 CTCGAATGAGAAGCTTTGAAATTTTGGATGTAAACCCCT-AA-TT
20269378 TTTTAAATGAGAA
1 TTTTAAATGAGAA
20269391 ATATGGGATG
Statistics
Matches: 105, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
107 5 0.05
108 16 0.15
109 84 0.80
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (108 bp):
TTTTAAATGAGAACCTTTGAATTTAAACGTGAAACTCTAAAATTTATCAAATGCAAATCTTTGAA
CTCGAATGAGAAGCTTTGAAATTTTGGATGTAAACCCCTAATT
Found at i:20269435 original size:23 final size:23
Alignment explanation
Indices: 20269409--20269480 Score: 65
Period size: 22 Copynumber: 3.1 Consensus size: 23
20269399 TGTGAAACAC
20269409 TAAAATTTTTAAATTAGAATCTT
1 TAAAATTTTTAAATTAGAATCTT
* ** * *
20269432 TAAAATCTTGGAAGT-GAATCCT
1 TAAAATTTTTAAATTAGAATCTT
* *
20269454 TAAAATTTTTCAAATAAAAATCTT
1 TAAAATTTTT-AAATTAGAATCTT
20269478 TAA
1 TAA
20269481 CTTTTGGTGT
Statistics
Matches: 35, Mismatches: 12, Indels: 3
0.70 0.24 0.06
Matches are distributed among these distances:
22 14 0.40
23 13 0.37
24 8 0.23
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (23 bp):
TAAAATTTTTAAATTAGAATCTT
Found at i:20269676 original size:16 final size:16
Alignment explanation
Indices: 20269655--20269685 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20269645 AACTTGAAAA
*
20269655 TTCTTGTGAATCTAAG
1 TTCTTGCGAATCTAAG
20269671 TTCTTGCGAATCTAA
1 TTCTTGCGAATCTAA
20269686 AATTTTAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (16 bp):
TTCTTGCGAATCTAAG
Found at i:20269740 original size:16 final size:16
Alignment explanation
Indices: 20269699--20269761 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
20269689 TTTAAGAATC
*
20269699 AAATTCTTGA-GAAATT
1 AAATTCTT-ACGAATTT
* *
20269715 AAAATATTACGAATTT
1 AAATTCTTACGAATTT
* *
20269731 AAATTCTTACAAATATG
1 AAATTCTTACGAAT-TT
20269748 AAATTCTTACGAAT
1 AAATTCTTACGAAT
20269762 CTTTAATCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
15 1 0.03
16 22 0.59
17 14 0.38
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (16 bp):
AAATTCTTACGAATTT
Found at i:20270064 original size:19 final size:19
Alignment explanation
Indices: 20269981--20270138 Score: 111
Period size: 18 Copynumber: 8.7 Consensus size: 19
20269971 AATTTTGAAA
20269981 TTTTGCAAATCTTGAAATC
1 TTTTGCAAATCTTGAAATC
20270000 -TTTGCGAAA-CTT-ATAATC
1 TTTTGC-AAATCTTGA-AATC
* *
20270018 -TTTGCGAATCTTGGAA-C
1 TTTTGCAAATCTTGAAATC
**
20270035 CGTTGCAAATCTTGAAATC
1 TTTTGCAAATCTTGAAATC
* * *
20270054 TTTTGCGAATCTTAAAATT
1 TTTTGCAAATCTTGAAATC
*
20270073 TTTTGCAAACCTTTG-AATC
1 TTTTGCAAATC-TTGAAATC
*
20270092 TTTTACAAATCTTG-AATC
1 TTTTGCAAATCTTGAAATC
* *
20270110 TTATG--AATCTTTAAATC
1 TTTTGCAAATCTTGAAATC
*
20270127 -CTTGCAAATCTT
1 TTTTGCAAATCTT
20270139 TGATTTTCTT
Statistics
Matches: 108, Mismatches: 21, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
16 8 0.07
17 8 0.07
18 51 0.47
19 39 0.36
20 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (19 bp):
TTTTGCAAATCTTGAAATC
Found at i:20270159 original size:19 final size:19
Alignment explanation
Indices: 20270127--20270185 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
20270117 TCTTTAAATC
20270127 CTTGCAAATCTTTGATTTT
1 CTTGCAAATCTTTGATTTT
20270146 CTTGCGAAAT-TTTGATTTT
1 CTTGC-AAATCTTTGATTTT
* *
20270165 AATTGTAAATCTTTGAATTTT
1 -CTTGCAAATCTTTG-ATTTT
20270186 TTAGAGAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 18 0.53
20 11 0.32
21 5 0.15
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (19 bp):
CTTGCAAATCTTTGATTTT
Found at i:20270303 original size:20 final size:21
Alignment explanation
Indices: 20270224--20270303 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 21
20270214 TTTAAATTAA
*
20270224 AATTGAGAATATTTGAATTT-
1 AATTGAAAATATTTGAATTTC
* ** *
20270244 AATTGCAAACCTTTGAAATTC
1 AATTGAAAATATTTGAATTTC
** **
20270265 AAGTTGGGAATCCTTGAATTTC
1 AA-TTGAAAATATTTGAATTTC
20270287 AATTGAAAAT-TTTGAAT
1 AATTGAAAATATTTGAAT
20270304 AATTATTGTA
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 21 0.47
21 8 0.18
22 16 0.36
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.39
Consensus pattern (21 bp):
AATTGAAAATATTTGAATTTC
Found at i:20271061 original size:4 final size:4
Alignment explanation
Indices: 20271052--20271097 Score: 56
Period size: 4 Copynumber: 11.2 Consensus size: 4
20271042 ATCATGATTG
* * *
20271052 TTTA TTTA TTTA TTTA TTTG TTTA TTTTA TTTA TTTG TCTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA T
20271098 GTCTAATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
4 31 0.89
5 4 0.11
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:20271082 original size:17 final size:17
Alignment explanation
Indices: 20271056--20271095 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
20271046 TGATTGTTTA
20271056 TTTA-TTTATTTATTTG
1 TTTATTTTATTTATTTG
20271072 TTTATTTTATTTATTTG
1 TTTATTTTATTTATTTG
*
20271089 TCTATTT
1 TTTATTT
20271096 ATGTCTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (17 bp):
TTTATTTTATTTATTTG
Found at i:20274884 original size:27 final size:24
Alignment explanation
Indices: 20274822--20274896 Score: 73
Period size: 27 Copynumber: 3.0 Consensus size: 24
20274812 AATAAATCTT
*
20274822 TTATAATATA-A-AAATATATTTA
1 TTATAATATATATAAATATATATA
*
20274844 TTATACATAAATATAAATATATATA
1 TTATA-ATATATATAAATATATATA
*
20274869 TGCGTATAATATATATATATATATATA
1 T---TATAATATATATAAATATATATA
20274896 T
1 T
20274897 AAAGGACAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
22 5 0.12
23 4 0.09
24 1 0.02
25 11 0.26
27 18 0.42
28 4 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
TTATAATATATATAAATATATATA
Found at i:20278629 original size:25 final size:24
Alignment explanation
Indices: 20278595--20278642 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
20278585 ATACATGACA
20278595 TAGACTTAGAGCATAG-TTGGAGACT
1 TAGACTTAGA-CATAGATT-GAGACT
20278620 TAGACTTAGACATAGATTGAGAC
1 TAGACTTAGACATAGATTGAGAC
20278643 ATTTATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.27
Consensus pattern (24 bp):
TAGACTTAGACATAGATTGAGACT
Found at i:20279623 original size:2 final size:2
Alignment explanation
Indices: 20279616--20279644 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20279606 TAGAGTTGAA
20279616 AT AT 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 AT AT A
20279645 AAGGGAGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20279963 original size:25 final size:26
Alignment explanation
Indices: 20279912--20279969 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
20279902 AAACAGTAAC
*
20279912 AAAACTTACTATAACTACGATTGAAA
1 AAAAATTACTATAACTACGATTGAAA
* * *
20279938 AAAAATTATTATAGCTATGATT-AAA
1 AAAAATTACTATAACTACGATTGAAA
20279963 AAAAATT
1 AAAAATT
20279970 CATAGAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (26 bp):
AAAAATTACTATAACTACGATTGAAA
Found at i:20287907 original size:24 final size:24
Alignment explanation
Indices: 20287866--20287912 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20287856 AAATATGTTC
* *
20287866 ATCATGTCTAACTGGGTTAATCAT
1 ATCATGTCTAAATAGGTTAATCAT
*
20287890 ATCATGTCTAAATAGGTTGATCA
1 ATCATGTCTAAATAGGTTAATCA
20287913 CATTTAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (24 bp):
ATCATGTCTAAATAGGTTAATCAT
Found at i:20291280 original size:22 final size:22
Alignment explanation
Indices: 20291253--20291296 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20291243 AAAGGACTTA
20291253 ATATATTGATGAAATTAAGGAC
1 ATATATTGATGAAATTAAGGAC
20291275 ATATATTGATGAAATTAAGGAC
1 ATATATTGATGAAATTAAGGAC
20291297 CCTGGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (22 bp):
ATATATTGATGAAATTAAGGAC
Found at i:20298896 original size:8 final size:8
Alignment explanation
Indices: 20298885--20298928 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
20298875 TTAAAAAGTT
20298885 AAAAAAGC
1 AAAAAAGC
20298893 AAAAAAGC
1 AAAAAAGC
20298901 AAAAAAGC
1 AAAAAAGC
20298909 AAGAAAA--
1 AA-AAAAGC
20298916 AAAAAAGC
1 AAAAAAGC
20298924 AAAAA
1 AAAAA
20298929 GAAATTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 4 0.12
7 2 0.06
8 23 0.70
9 4 0.12
ACGTcount: A:0.80, C:0.09, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGC
Found at i:20298896 original size:16 final size:15
Alignment explanation
Indices: 20298885--20298932 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
20298875 TTAAAAAGTT
*
20298885 AAAAAAGCAAAAAAGC
1 AAAAAAGC-AAAAAGA
20298901 AAAAAAGCAAGAAA-A
1 AAAAAAGCAA-AAAGA
20298916 AAAAAAGCAAAAAGA
1 AAAAAAGCAAAAAGA
20298931 AA
1 AA
20298933 TTGATTGTCG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 3 0.10
15 15 0.52
16 11 0.38
ACGTcount: A:0.79, C:0.08, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAAGCAAAAAGA
Found at i:20299429 original size:28 final size:28
Alignment explanation
Indices: 20299387--20299462 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
20299377 AAAATTGATC
* * *
20299387 TCAAAATTAGAGATTCTTGGAGTTT-TA
1 TCAAATTTAGGGATTCTTGGACTTTATA
**
20299414 TCATAATTTAGGGATTCAAGGACTTTAATA
1 TCA-AATTTAGGGATTCTTGGACTTT-ATA
*
20299444 TCAAATTTAAGGATTCTTG
1 TCAAATTTAGGGATTCTTG
20299463 AATTTTTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
27 3 0.08
28 17 0.45
29 13 0.34
30 5 0.13
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (28 bp):
TCAAATTTAGGGATTCTTGGACTTTATA
Found at i:20299574 original size:19 final size:19
Alignment explanation
Indices: 20299550--20299593 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
20299540 CTTACTTGTT
*
20299550 AAACTTGGGGAAGCTTTAA
1 AAACTTAGGGAAGCTTTAA
*
20299569 AAACTTATGGAAGCTTTAA
1 AAACTTAGGGAAGCTTTAA
20299588 AAACTT
1 AAACTT
20299594 TGACTCTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (19 bp):
AAACTTAGGGAAGCTTTAA
Found at i:20311518 original size:20 final size:20
Alignment explanation
Indices: 20311493--20311530 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
20311483 CCAAGTAAAG
20311493 TAGAAAAGCTAGAGTTGTTT
1 TAGAAAAGCTAGAGTTGTTT
20311513 TAGAAAAGCTAGAGTTGT
1 TAGAAAAGCTAGAGTTGT
20311531 CTAAACATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (20 bp):
TAGAAAAGCTAGAGTTGTTT
Found at i:20313529 original size:19 final size:20
Alignment explanation
Indices: 20313507--20313555 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
20313497 AGGGTTTTAT
20313507 TTAGGGTTTTA-GATTTCAC
1 TTAGGGTTTTACGATTTCAC
* *
20313526 TTAGAG-TTTACGGTTTCAC
1 TTAGGGTTTTACGATTTCAC
*
20313545 TTAAGGTTTTA
1 TTAGGGTTTTA
20313556 TTTAGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.47
Consensus pattern (20 bp):
TTAGGGTTTTACGATTTCAC
Found at i:20313564 original size:12 final size:12
Alignment explanation
Indices: 20313549--20313590 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
20313539 TTTCACTTAA
20313549 GGTTTTATTTAG
1 GGTTTTATTTAG
*
20313561 GG-TTTAGTTAG
1 GGTTTTATTTAG
*
20313572 GGTTTCATTTAG
1 GGTTTTATTTAG
20313584 GGTTTTA
1 GGTTTTA
20313591 AAAATTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.17, C:0.02, G:0.29, T:0.52
Consensus pattern (12 bp):
GGTTTTATTTAG
Found at i:20313571 original size:11 final size:11
Alignment explanation
Indices: 20313552--20313588 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
20313542 CACTTAAGGT
20313552 TTTATTTAGGG
1 TTTATTTAGGG
*
20313563 TTTAGTTAGGG
1 TTTATTTAGGG
20313574 TTTCATTTAGGG
1 TTT-ATTTAGGG
20313586 TTT
1 TTT
20313589 TAAAAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.16, C:0.03, G:0.27, T:0.54
Consensus pattern (11 bp):
TTTATTTAGGG
Found at i:20316094 original size:71 final size:72
Alignment explanation
Indices: 20316017--20316211 Score: 205
Period size: 74 Copynumber: 2.7 Consensus size: 72
20316007 GAACCACAAA
* * * *
20316017 TCAAAAAATAAAGAATGACTGGGATTAAATCGCATG-TGAAAAAT-AAGAAATGACTAAGACTAA
1 TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAGTTAAAAAATAAAG-AATGACTAAGACTAA
20316080 ACTGTAAG
65 ACTGTAAG
* * * * *
20316088 TCAAAAAATAAAGAATGATTGTGACTAAACCGTAAGTTAAAAAATAAAGAATGACTAGGATTAAA
1 TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAGTTAAAAAATAAAGAATGACTAAGACTAAA
20316153 CTGTAAG
66 CTGTAAG
* * ** * * *
20316160 TCAATTAAATAAAAGAATAACTGAAACAAAACCACAAGTCAAAAAATAAAGA
1 TCAA-AAAAT-AAAGAATGACTGGGACTAAACCGCAAGTTAAAAAATAAAGA
20316212 CAGCTGTGAT
Statistics
Matches: 102, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
71 30 0.29
72 32 0.31
73 7 0.07
74 33 0.32
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (72 bp):
TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAGTTAAAAAATAAAGAATGACTAAGACTAAA
CTGTAAG
Found at i:20316105 original size:36 final size:36
Alignment explanation
Indices: 20316017--20316211 Score: 153
Period size: 36 Copynumber: 5.4 Consensus size: 36
20316007 GAACCACAAA
** * * * *
20316017 TCAAAAAATAAAGAATGACTGGGATTAAATCGCATG
1 TCAAAAAATAAAGAATGACTAAGACTAAACCGTAAG
* *
20316053 T-GAAAAAT-AAGAAATGACTAAGACTAAACTGTAAG
1 TCAAAAAATAAAG-AATGACTAAGACTAAACCGTAAG
* **
20316088 TCAAAAAATAAAGAATGATTGTGACTAAACCGTAAG
1 TCAAAAAATAAAGAATGACTAAGACTAAACCGTAAG
* * * *
20316124 TTAAAAAATAAAGAATGACTAGGATTAAACTGTAAG
1 TCAAAAAATAAAGAATGACTAAGACTAAACCGTAAG
* * * **
20316160 TCAATTAAATAAAAGAATAACTGAA-ACAAAACCACAAG
1 TCAA-AAAAT-AAAGAATGACT-AAGACTAAACCGTAAG
20316198 TCAAAAAATAAAGA
1 TCAAAAAATAAAGA
20316212 CAGCTGTGAT
Statistics
Matches: 124, Mismatches: 29, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
34 3 0.02
35 23 0.19
36 64 0.52
37 11 0.09
38 22 0.18
39 1 0.01
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (36 bp):
TCAAAAAATAAAGAATGACTAAGACTAAACCGTAAG
Found at i:20316153 original size:72 final size:71
Alignment explanation
Indices: 20316017--20316208 Score: 197
Period size: 72 Copynumber: 2.6 Consensus size: 71
20316007 GAACCACAAA
* * * *
20316017 TCAAAAAATAAAGAATGACTGGGATTAAATCGCATGTGAAAAATAAGAAATGACTAAGACTAAAC
1 TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAGTAAAAAATAAGAAATGACTAAGACTAAAC
20316082 TGTAAG
66 TGTAAG
* * * * *
20316088 TCAAAAAATAAAGAATGATTGTGACTAAACCGTAAGTTAAAAAATAA-AGAATGACTAGGATTAA
1 TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAG-TAAAAAATAAGA-AATGACTAAGACTAA
20316152 ACTGTAAG
64 ACTGTAAG
* * ** * *
20316160 TCAATTAAATAAAAGAATAACTGAAACAAAACCACAAGTCAAAAAATAA
1 TCAA-AAAAT-AAAGAATGACTGGGACTAAACCGCAAGT-AAAAAATAA
20316209 AGACAGCTGT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
71 31 0.31
72 34 0.34
73 5 0.05
74 29 0.29
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.21
Consensus pattern (71 bp):
TCAAAAAATAAAGAATGACTGGGACTAAACCGCAAGTAAAAAATAAGAAATGACTAAGACTAAAC
TGTAAG
Found at i:20316543 original size:36 final size:36
Alignment explanation
Indices: 20316503--20316583 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
20316493 GACAATTGAA
*
20316503 ATTAAATTGAAAATAAAAAAATAAAGAATGATCAAG
1 ATTAAATTGAAAATAAAAAAATAAAGAACGATCAAG
* * * * *
20316539 ATTAAACTGCAAGTCAAAAAATAAAGAACGATCGAG
1 ATTAAATTGAAAATAAAAAAATAAAGAACGATCAAG
*
20316575 ATTGAATTG
1 ATTAAATTG
20316584 CAAGTCAGGG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (36 bp):
ATTAAATTGAAAATAAAAAAATAAAGAACGATCAAG
Found at i:20316599 original size:36 final size:36
Alignment explanation
Indices: 20316518--20316590 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
20316508 ATTGAAAATA
*
20316518 AAAAAATAAAGAATGATCAAGATTAAACTGCAAGTC
1 AAAAAATAAAGAACGATCAAGATTAAACTGCAAGTC
* * *
20316554 AAAAAATAAAGAACGATCGAGATTGAATTGCAAGTC
1 AAAAAATAAAGAACGATCAAGATTAAACTGCAAGTC
20316590 A
1 A
20316591 GGGAATAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.53, C:0.11, G:0.16, T:0.19
Consensus pattern (36 bp):
AAAAAATAAAGAACGATCAAGATTAAACTGCAAGTC
Found at i:20316725 original size:36 final size:36
Alignment explanation
Indices: 20316620--20316725 Score: 95
Period size: 36 Copynumber: 2.9 Consensus size: 36
20316610 GACTGAGATG
* * ** *
20316620 TAAATTAAAAAATAAAGAATAATCATGATTGATCCA
1 TAAATCAAAAAATAAAGAATGATCGGGATTGAACCA
* ** * * * *
20316656 TAAGTCAACGAATAAAGGATGATTGGAACTGAACCA
1 TAAATCAAAAAATAAAGAATGATCGGGATTGAACCA
*
20316692 TAAATCAAAAAATAAAGAATGATGGGGATTGAAC
1 TAAATCAAAAAATAAAGAATGATCGGGATTGAAC
20316726 TACAGGTTGA
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.51, C:0.09, G:0.17, T:0.23
Consensus pattern (36 bp):
TAAATCAAAAAATAAAGAATGATCGGGATTGAACCA
Found at i:20316758 original size:36 final size:36
Alignment explanation
Indices: 20316718--20316817 Score: 105
Period size: 35 Copynumber: 2.8 Consensus size: 36
20316708 GAATGATGGG
20316718 GATTGAACTACAGGTTGAAAAATAAAAGAAAACCAA
1 GATTGAACTACAGGTTGAAAAATAAAAGAAAACCAA
* ** *
20316754 GATTG-AGTCACAAATTGAAAAAT-AAAGAAAACCGA
1 GATTGAACT-ACAGGTTGAAAAATAAAAGAAAACCAA
* * **
20316789 GATTGAACCATAGGTCAAAAAATAAAAGA
1 GATTGAACTACAGGTTGAAAAATAAAAGA
20316818 TGACTAGTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
35 27 0.54
36 23 0.46
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (36 bp):
GATTGAACTACAGGTTGAAAAATAAAAGAAAACCAA
Found at i:20323461 original size:15 final size:14
Alignment explanation
Indices: 20323441--20323495 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 14
20323431 AAAGGATACC
20323441 AAAAATTTTTTTTCT
1 AAAAATTTTTTTT-T
20323456 AAAAATTTTTTTTT
1 AAAAATTTTTTTTT
*
20323470 AAATCAATTTTTTTTA
1 AAA--AATTTTTTTTT
20323486 AAAAATTTTT
1 AAAAATTTTT
20323496 ATATAGTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 11 0.30
15 13 0.35
16 13 0.35
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (14 bp):
AAAAATTTTTTTTT
Found at i:20323957 original size:13 final size:13
Alignment explanation
Indices: 20323941--20323965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20323931 ACATATAGAG
20323941 TTTAGGGTTTTAT
1 TTTAGGGTTTTAT
20323954 TTTAGGGTTTTA
1 TTTAGGGTTTTA
20323966 GGTTTCACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.24, T:0.60
Consensus pattern (13 bp):
TTTAGGGTTTTAT
Found at i:20323988 original size:19 final size:18
Alignment explanation
Indices: 20323962--20323997 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
20323952 ATTTTAGGGT
20323962 TTTAGGTTTCACTTAGGC
1 TTTAGGTTTCACTTAGGC
20323980 TTTATGGTTTCACTTAGG
1 TTTA-GGTTTCACTTAGG
20323998 ATTTCATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (18 bp):
TTTAGGTTTCACTTAGGC
Found at i:20324296 original size:9 final size:10
Alignment explanation
Indices: 20324273--20324300 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
20324263 TATCTTTTTC
20324273 TTTTTTATTA
1 TTTTTTATTA
20324283 TTTTTTATTA
1 TTTTTTATTA
20324293 TTTTTTAT
1 TTTTTTAT
20324301 AAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:20327030 original size:25 final size:25
Alignment explanation
Indices: 20327002--20327055 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
20326992 CTCGTAATTG
* *
20327002 TTGGCTACTTAAGTGGTCAAAGTGC
1 TTGGCTACCTAAGTGATCAAAGTGC
*
20327027 TTGGCTACCTGAGTGATCAAAGTGC
1 TTGGCTACCTAAGTGATCAAAGTGC
20327052 TTGG
1 TTGG
20327056 TTTTGGATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (25 bp):
TTGGCTACCTAAGTGATCAAAGTGC
Found at i:20328579 original size:17 final size:18
Alignment explanation
Indices: 20328557--20328643 Score: 72
Period size: 20 Copynumber: 4.7 Consensus size: 18
20328547 GGTTGGGGTC
20328557 TAGG-TTAGGGTTTAAGG
1 TAGGTTTAGGGTTTAAGG
*
20328574 TAGGTTTGGGGTTTAAGG
1 TAGGTTTAGGGTTTAAGG
*
20328592 TTAGGGTTTAAGG-TTAAGG
1 -TA-GGTTTAGGGTTTAAGG
* *
20328611 TTTAGAGTTTAGGG-TCATGG
1 --TAG-GTTTAGGGTTTAAGG
20328631 TAGGTTTAGGGTT
1 TAGGTTTAGGGTT
20328644 AAAATTTAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.21
18 16 0.28
19 9 0.16
20 21 0.36
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (18 bp):
TAGGTTTAGGGTTTAAGG
Found at i:20328615 original size:20 final size:20
Alignment explanation
Indices: 20328586--20328732 Score: 83
Period size: 20 Copynumber: 7.6 Consensus size: 20
20328576 GGTTTGGGGT
20328586 TTAAGG-TTAGGGTTTAAGG
1 TTAAGGTTTAGGGTTTAAGG
* *
20328605 TTAAGGTTTAGAGTTTAGGG
1 TTAAGGTTTAGGGTTTAAGG
* * *
20328625 TCATGG--TA-GGTTTAGGG
1 TTAAGGTTTAGGGTTTAAGG
** * *
20328642 TTAAAATTTAAGGTTTACA-T
1 TTAAGGTTTAGGGTTTA-AGG
* * *
20328662 TTAGGGTCTA-GATTT-AGAG
1 TTAAGGTTTAGGGTTTAAG-G
* *
20328681 TCAAGGTTTAGGGTTTAAGT
1 TTAAGGTTTAGGGTTTAAGG
* *
20328701 TTAAGGTTTTGGGTTTTAGG
1 TTAAGGTTTAGGGTTTAAGG
20328721 TTAAGGTTTAGG
1 TTAAGGTTTAGG
20328733 ATTTCAATGG
Statistics
Matches: 92, Mismatches: 27, Indels: 17
0.68 0.20 0.12
Matches are distributed among these distances:
17 11 0.12
18 2 0.02
19 19 0.21
20 58 0.63
21 2 0.02
ACGTcount: A:0.25, C:0.03, G:0.31, T:0.41
Consensus pattern (20 bp):
TTAAGGTTTAGGGTTTAAGG
Found at i:20328702 original size:13 final size:13
Alignment explanation
Indices: 20328577--20328709 Score: 65
Period size: 13 Copynumber: 9.8 Consensus size: 13
20328567 TTTAAGGTAG
*
20328577 GTTTGGGGTTTAA
1 GTTTAGGGTTTAA
*
20328590 GGTTAGGGTTTAA
1 GTTTAGGGTTTAA
* *
20328603 GGTTAAGGTTTAGA
1 GTTTAGGGTTTA-A
*
20328617 GTTTAGGGTCATGGTAG
1 GTTTAGGGT--T--TAA
*
20328634 GTTTAGGGTTAAA
1 GTTTAGGGTTTAA
* *
20328647 ATTTAAGGTTTACA
1 GTTTAGGGTTTA-A
*
20328661 -TTTAGGGTCT-A
1 GTTTAGGGTTTAA
* *
20328672 GATTTAGAG-TCAA
1 G-TTTAGGGTTTAA
20328685 GGTTTAGGGTTTAA
1 -GTTTAGGGTTTAA
*
20328699 GTTTAAGGTTT
1 GTTTAGGGTTT
20328710 TGGGTTTTAG
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
11 1 0.01
13 63 0.70
14 13 0.14
15 1 0.01
16 1 0.01
17 9 0.10
18 2 0.02
ACGTcount: A:0.25, C:0.03, G:0.32, T:0.41
Consensus pattern (13 bp):
GTTTAGGGTTTAA
Found at i:20328780 original size:26 final size:26
Alignment explanation
Indices: 20328751--20328839 Score: 126
Period size: 26 Copynumber: 3.5 Consensus size: 26
20328741 GGTCGTTTAG
*
20328751 GGTTTAGGGTTTAAAGTTTCATGATT
1 GGTTTAAGGTTTAAAGTTTCATGATT
* *
20328777 GGTTT-AGGTTTAAGGTTTCATGGTT
1 GGTTTAAGGTTTAAAGTTTCATGATT
**
20328802 GGTTTAAGGTTTAGTGTTTCATGATT
1 GGTTTAAGGTTTAAAGTTTCATGATT
20328828 GGTTTAAGGTTT
1 GGTTTAAGGTTT
20328840 CATAAGTGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
25 22 0.39
26 34 0.61
ACGTcount: A:0.19, C:0.03, G:0.29, T:0.48
Consensus pattern (26 bp):
GGTTTAAGGTTTAAAGTTTCATGATT
Found at i:20328857 original size:19 final size:20
Alignment explanation
Indices: 20328835--20328879 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
20328825 ATTGGTTTAA
20328835 GGTTTCATAAG-TGGTTTTG
1 GGTTTCATAAGATGGTTTTG
* *
20328854 GG-TT-AGAAGATGGTTTTT
1 GGTTTCATAAGATGGTTTTG
20328872 GGTTTCAT
1 GGTTTCAT
20328880 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 5
0.71 0.11 0.18
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 4 0.20
20 1 0.05
ACGTcount: A:0.18, C:0.04, G:0.31, T:0.47
Consensus pattern (20 bp):
GGTTTCATAAGATGGTTTTG
Found at i:20328908 original size:19 final size:19
Alignment explanation
Indices: 20328884--20328966 Score: 91
Period size: 19 Copynumber: 4.5 Consensus size: 19
20328874 TTTCATGGGA
20328884 TTTAGGGTTTGAAGGGTAG
1 TTTAGGGTTTGAAGGGTAG
* *
20328903 TTTAGGGTTAGAA-GGTGG
1 TTTAGGGTTTGAAGGGTAG
** * *
20328921 TTTTTGGTTTCATGGG--G
1 TTTAGGGTTTGAAGGGTAG
20328938 TTTAGGGTTTGAAGGGTAG
1 TTTAGGGTTTGAAGGGTAG
20328957 TTTAGGGTTT
1 TTTAGGGTTT
20328967 CATGGTGGTT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
17 13 0.26
18 12 0.24
19 25 0.50
ACGTcount: A:0.17, C:0.01, G:0.40, T:0.42
Consensus pattern (19 bp):
TTTAGGGTTTGAAGGGTAG
Found at i:20328914 original size:54 final size:54
Alignment explanation
Indices: 20328848--20328965 Score: 209
Period size: 54 Copynumber: 2.2 Consensus size: 54
20328838 TTCATAAGTG
*
20328848 GTTTTGGGTTAGAAGATGGTTTTTGGTTTCATGGGATTTAGGGTTTGAAGGGTA
1 GTTTAGGGTTAGAAGATGGTTTTTGGTTTCATGGGATTTAGGGTTTGAAGGGTA
* *
20328902 GTTTAGGGTTAGAAGGTGGTTTTTGGTTTCATGGGGTTTAGGGTTTGAAGGGTA
1 GTTTAGGGTTAGAAGATGGTTTTTGGTTTCATGGGATTTAGGGTTTGAAGGGTA
20328956 GTTTAGGGTT
1 GTTTAGGGTT
20328966 TCATGGTGGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 61 1.00
ACGTcount: A:0.17, C:0.02, G:0.39, T:0.42
Consensus pattern (54 bp):
GTTTAGGGTTAGAAGATGGTTTTTGGTTTCATGGGATTTAGGGTTTGAAGGGTA
Found at i:20328929 original size:18 final size:18
Alignment explanation
Indices: 20328845--20328929 Score: 55
Period size: 18 Copynumber: 4.7 Consensus size: 18
20328835 GGTTTCATAA
20328845 GTGGTTTTGGGTTAGAAG
1 GTGGTTTTGGGTTAGAAG
* * ** *
20328863 ATGGTTTTTGGTTTCATG
1 GTGGTTTTGGGTTAGAAG
* * *
20328881 G-GATTTAGGGTTTGAAGG
1 GTGGTTTTGGGTTAGAA-G
* *
20328899 GTAGTTTAGGGTTAGAAG
1 GTGGTTTTGGGTTAGAAG
*
20328917 GTGGTTTTTGGTT
1 GTGGTTTTGGGTT
20328930 TCATGGGGTT
Statistics
Matches: 48, Mismatches: 17, Indels: 4
0.70 0.25 0.06
Matches are distributed among these distances:
17 10 0.21
18 26 0.54
19 12 0.25
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.44
Consensus pattern (18 bp):
GTGGTTTTGGGTTAGAAG
Found at i:20328941 original size:35 final size:37
Alignment explanation
Indices: 20328884--20328977 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 37
20328874 TTTCATGGGA
* * * *
20328884 TTTAGGGTTTGAAGGGTAGTTTAGGGTTAGAA-GGTGG
1 TTTAGGGTTT-CATGGTGGTTTAGGGTTAGAAGGGTAG
** *
20328921 TTTTTGGTTTCATGG-GGTTTAGGGTTTGAAGGGTAG
1 TTTAGGGTTTCATGGTGGTTTAGGGTTAGAAGGGTAG
20328957 TTTAGGGTTTCATGGTGGTTT
1 TTTAGGGTTTCATGGTGGTTT
20328978 GGGAGGGTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
35 13 0.28
36 20 0.43
37 13 0.28
ACGTcount: A:0.16, C:0.02, G:0.39, T:0.43
Consensus pattern (37 bp):
TTTAGGGTTTCATGGTGGTTTAGGGTTAGAAGGGTAG
Found at i:20331417 original size:22 final size:22
Alignment explanation
Indices: 20331349--20331418 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
20331339 GCAAAAGATC
*
20331349 TTAAAATTATGCCCGAAGGACT
1 TTAAAATTGTGCCCGAAGGACT
* ***
20331371 TTAAAGTTGTGCTTTAAGGACT
1 TTAAAATTGTGCCCGAAGGACT
* *
20331393 TTAAAATTGTGCCCGAATGATT
1 TTAAAATTGTGCCCGAAGGACT
20331415 TTAA
1 TTAA
20331419 GATAATACAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (22 bp):
TTAAAATTGTGCCCGAAGGACT
Found at i:20331439 original size:22 final size:22
Alignment explanation
Indices: 20331414--20331465 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
20331404 CCCGAATGAT
*
20331414 TTTAAGATAATACATGGAAGAC
1 TTTAAAATAATACATGGAAGAC
* * *
20331436 TTTAAAATTATTCTTGGAAGAC
1 TTTAAAATAATACATGGAAGAC
*
20331458 TTTGAAAT
1 TTTAAAAT
20331466 TGTTCCTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (22 bp):
TTTAAAATAATACATGGAAGAC
Found at i:20331466 original size:22 final size:22
Alignment explanation
Indices: 20331428--20331490 Score: 90
Period size: 22 Copynumber: 2.9 Consensus size: 22
20331418 AGATAATACA
*
20331428 TGGAAGACTTTAAAATTATTCT
1 TGGAAGACTTTAAAATTATTCC
* *
20331450 TGGAAGACTTTGAAATTGTTCC
1 TGGAAGACTTTAAAATTATTCC
*
20331472 TGAAAGACTTTAAAATTAT
1 TGGAAGACTTTAAAATTAT
20331491 GCCCAAAAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
TGGAAGACTTTAAAATTATTCC
Found at i:20331479 original size:44 final size:43
Alignment explanation
Indices: 20331431--20331581 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 43
20331421 TAATACATGG
* * *
20331431 AAGACTTTAAAATTATTCTTGGAAGACTTTGAAATTGTTCCTGA
1 AAGACTTTAAAATTATGCTTGGAAGACTTTGAAATTG-TACTAA
**** * * *
20331475 AAGACTTTAAAATTATGCCCAAAAGATTTTGAGATTATACTCAA
1 AAGACTTTAAAATTATGCTTGGAAGACTTTGAAATTGTACT-AA
* * *
20331519 AGGACTTTAAAATTGTGCTTGGAAGACTTTGAAATTGTGCTCAA
1 AAGACTTTAAAATTATGCTTGGAAGACTTTGAAATTGTACT-AA
*
20331563 AAGACTTTAAACTTATGCT
1 AAGACTTTAAAATTATGCT
20331582 AAGAGATTTT
Statistics
Matches: 83, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 3 0.04
44 80 0.96
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (43 bp):
AAGACTTTAAAATTATGCTTGGAAGACTTTGAAATTGTACTAA
Found at i:20331483 original size:88 final size:88
Alignment explanation
Indices: 20331389--20331580 Score: 244
Period size: 88 Copynumber: 2.2 Consensus size: 88
20331379 GTGCTTTAAG
* * * ** *
20331389 GACTTTAAAATTGTGCCCGAATGATTTTAAGATAATACATGGAA-GACTTTAAAATTATTCTTGG
1 GACTTTAAAATTATGCCCAAAAGATTTTAAGATAATAC-TCAAAGGACTTTAAAATTATGCTTGG
*
20331453 AAGACTTTGAAATTGTTCCT-GAAA
65 AAGACTTTGAAATTG-TCCTCAAAA
* * *
20331477 GACTTTAAAATTATGCCCAAAAGATTTTGAGATTATACTCAAAGGACTTTAAAATTGTGCTTGGA
1 GACTTTAAAATTATGCCCAAAAGATTTTAAGATAATACTCAAAGGACTTTAAAATTATGCTTGGA
*
20331542 AGACTTTGAAATTGTGCTCAAAA
66 AGACTTTGAAATTGTCCTCAAAA
*
20331565 GACTTTAAACTTATGC
1 GACTTTAAAATTATGC
20331581 TAAGAGATTT
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
87 6 0.07
88 84 0.93
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (88 bp):
GACTTTAAAATTATGCCCAAAAGATTTTAAGATAATACTCAAAGGACTTTAAAATTATGCTTGGA
AGACTTTGAAATTGTCCTCAAAA
Found at i:20331499 original size:22 final size:22
Alignment explanation
Indices: 20331474--20331581 Score: 99
Period size: 22 Copynumber: 4.9 Consensus size: 22
20331464 ATTGTTCCTG
*
20331474 AAAGACTTTAAAATTATGCCCA
1 AAAGACTTTAAAATTATGCTCA
* * * *
20331496 AAAGATTTTGAGATTATACTCA
1 AAAGACTTTAAAATTATGCTCA
* * **
20331518 AAGGACTTTAAAATTGTGCTTG
1 AAAGACTTTAAAATTATGCTCA
* * *
20331540 GAAGACTTTGAAATTGTGCTCA
1 AAAGACTTTAAAATTATGCTCA
*
20331562 AAAGACTTTAAACTTATGCT
1 AAAGACTTTAAAATTATGCT
20331582 AAGAGATTTT
Statistics
Matches: 64, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (22 bp):
AAAGACTTTAAAATTATGCTCA
Found at i:20331821 original size:40 final size:41
Alignment explanation
Indices: 20331755--20331978 Score: 129
Period size: 41 Copynumber: 5.5 Consensus size: 41
20331745 GGAAGACTTA
* ***
20331755 GAAATCATTTAAAAATTAAAGGTTTTATTGA-AGGTCTTTG
1 GAAATCATTTAAAAATTAAAGCTTTTACCCAGAGGTCTTTG
* ** *
20331795 GAAATCATTTAAAATTTTGAGCTTTTACCCAGAGGTTTTTG
1 GAAATCATTTAAAAATTAAAGCTTTTACCCAGAGGTCTTTG
* * * *
20331836 GAAATCATTCAAAAATGTAAA-ATTTTGCCC-GAAGGTC-TTA
1 GAAATCATTTAAAAAT-TAAAGCTTTTACCCAG-AGGTCTTTG
* * * * *
20331876 GAGATCATTCAAAATTTTAAGATTTTGA-CCAGAGGTCTTT-
1 GAAATCATTTAAAAATTAAAGCTTTT-ACCCAGAGGTCTTTG
* * * * *
20331916 GAGAATTATTTTAAAATCTAAAG-TTTTGCCTAGAGGTCTTTT
1 GA-AATCATTTAAAAAT-TAAAGCTTTTACCCAGAGGTCTTTG
* *
20331958 TAAATCATTCAAAAATGTAAA
1 GAAATCATTTAAAAAT-TAAA
20331979 ATTTTGGCTG
Statistics
Matches: 140, Mismatches: 33, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
39 3 0.02
40 55 0.39
41 75 0.54
42 7 0.05
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.38
Consensus pattern (41 bp):
GAAATCATTTAAAAATTAAAGCTTTTACCCAGAGGTCTTTG
Found at i:20331932 original size:81 final size:82
Alignment explanation
Indices: 20331667--20331971 Score: 200
Period size: 81 Copynumber: 3.8 Consensus size: 82
20331657 TTACTCAAAT
* ** * *
20331667 GTCTTTGGAAATCTTTCAAAAAAT-TAAAATTTCACTCGAAGGTC-TTAGAAAAT-ATTTTGAAA
1 GTCTTTGGAAATCATTC-AAAAATCTAAAATTTTGCCCGAAGGTCTTTAG-AAATCA--TTCAAA
** *
20331729 A-TTTAAGATTTTACCTGGAA
62 ATTTTAAGATTTTACCCAGAG
* * * * *** * *
20331749 GAC-TTAGAAATCATTTAAAAAT-TAAAGGTTTT-ATTGAAGGTCTTTGGAAATCATTTAAAATT
1 GTCTTTGGAAATCATTCAAAAATCTAAA-ATTTTGCCCGAAGGTCTTTAGAAATCATTCAAAATT
* *
20331811 TTGAGCTTTTACCCAGAG
65 TTAAGATTTTACCCAGAG
* * *
20331829 GTTTTTGGAAATCATTCAAAAATGTAAAATTTTGCCCGAAGGTC-TTAGAGATCATTCAAAATTT
1 GTCTTTGGAAATCATTCAAAAATCTAAAATTTTGCCCGAAGGTCTTTAGAAATCATTCAAAATTT
20331893 TAAGATTTTGA-CCAGAG
66 TAAGATTTT-ACCCAGAG
* ** * * **
20331910 GTCTTT-GAGAATTATTTTAAAATCTAAAGTTTTG-CCTAGAGGTCTTTTTAAATCATTCAAAA
1 GTCTTTGGA-AATCATTCAAAAATCTAAAATTTTGCCCGA-AGGTCTTTAGAAATCATTCAAAA
20331972 ATGTAAAATT
Statistics
Matches: 174, Mismatches: 38, Indels: 22
0.74 0.16 0.09
Matches are distributed among these distances:
79 6 0.03
80 42 0.24
81 98 0.56
82 28 0.16
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (82 bp):
GTCTTTGGAAATCATTCAAAAATCTAAAATTTTGCCCGAAGGTCTTTAGAAATCATTCAAAATTT
TAAGATTTTACCCAGAG
Found at i:20331973 original size:41 final size:39
Alignment explanation
Indices: 20331823--20332002 Score: 153
Period size: 41 Copynumber: 4.4 Consensus size: 39
20331813 GAGCTTTTAC
*
20331823 CCAGAGGTTTTTGGAAATCATTCAAAAATGTAAAATTTTG
1 CCAGAGGTCTTT-GAAATCATTCAAAAATGTAAAATTTTG
* * * * * *
20331863 CCCGAAGGTCTTAGAGATCATTCAAAATTTTAAGATTTTG
1 CCAG-AGGTCTTTGAAATCATTCAAAAATGTAAAATTTTG
* ** * *
20331903 ACCAGAGGTCTTTGAGAATTATTTTAAAATCTAAAGTTTTG
1 -CCAGAGGTCTTTGA-AATCATTCAAAAATGTAAAATTTTG
*
20331944 CCTAGAGGTCTTTTTAAATCATTCAAAAATGTAAAATTTTG
1 CC-AGAGGTC-TTTGAAATCATTCAAAAATGTAAAATTTTG
* * *
20331985 GCTGCAGGTCTTAGAAAT
1 CCAG-AGGTCTTTGAAAT
20332003 TGTGTGCTCA
Statistics
Matches: 107, Mismatches: 27, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
40 44 0.41
41 59 0.55
42 4 0.04
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (39 bp):
CCAGAGGTCTTTGAAATCATTCAAAAATGTAAAATTTTG
Found at i:20332072 original size:21 final size:22
Alignment explanation
Indices: 20332048--20332095 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
20332038 AGCTTGAAAT
*
20332048 CTTTTTACTTCAAAA-TTTTCA
1 CTTTTCACTTCAAAAGTTTTCA
*
20332069 CTTTTCATTTCAAAAGTTTTTCA
1 CTTTTCACTTCAAAAG-TTTTCA
20332092 CTTT
1 CTTT
20332096 GTGTTTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.25, C:0.19, G:0.02, T:0.54
Consensus pattern (22 bp):
CTTTTCACTTCAAAAGTTTTCA
Found at i:20332760 original size:22 final size:20
Alignment explanation
Indices: 20332718--20332762 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
20332708 TTTTTTATAT
*
20332718 TTTAAAACCACAAATCTCAA
1 TTTAAAACCACAAATCACAA
*
20332738 TTTAAAACCATATTAATCACAA
1 TTTAAAACCACA--AATCACAA
20332760 TTT
1 TTT
20332763 GGTTGTGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTAAAACCACAAATCACAA
Found at i:20332815 original size:10 final size:10
Alignment explanation
Indices: 20332800--20332837 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
20332790 GTTCTAATCG
*
20332800 TTTTGACTGA
1 TTTTGACTAA
20332810 TTTTGA-TCAA
1 TTTTGACT-AA
20332820 TTTTGACTAA
1 TTTTGACTAA
20332830 TTTTGACT
1 TTTTGACT
20332838 TTATTTGACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.53
Consensus pattern (10 bp):
TTTTGACTAA
Found at i:20333445 original size:30 final size:30
Alignment explanation
Indices: 20333409--20333468 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
20333399 AGTATTATCC
*
20333409 TTGTTTAGAATTTGAAATAAAATATTTTTT
1 TTGTTTAGAATCTGAAATAAAATATTTTTT
20333439 TTGTTTAGAATCTGAAATAAAATATTTTTT
1 TTGTTTAGAATCTGAAATAAAATATTTTTT
20333469 ACTTTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (30 bp):
TTGTTTAGAATCTGAAATAAAATATTTTTT
Found at i:20334319 original size:11 final size:10
Alignment explanation
Indices: 20334288--20334336 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
20334278 TATTATATAT
20334288 AAATTTATTA
1 AAATTTATTA
*
20334298 AAATATATTA
1 AAATTTATTA
20334308 AAATTGTATTA
1 AAATT-TATTA
* *
20334319 AAATAATATAA
1 AAAT-TTATTA
20334330 AAATTTA
1 AAATTTA
20334337 AATTTAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (10 bp):
AAATTTATTA
Found at i:20334319 original size:21 final size:21
Alignment explanation
Indices: 20334282--20334336 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
20334272 AATAATTATT
*
20334282 ATATATAAATTTATTAAAAT-
1 ATATAAAAATTTATTAAAATA
*
20334302 ATATTAAAATTGTATTAAAATA
1 ATATAAAAATT-TATTAAAATA
20334324 ATATAAAAATTTA
1 ATATAAAAATTTA
20334337 AATTTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.30
21 11 0.37
22 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATAAAAATTTATTAAAATA
Found at i:20335636 original size:15 final size:16
Alignment explanation
Indices: 20335618--20335654 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
20335608 TTATTTCTGG
*
20335618 TTATTTTATTT-TATT
1 TTATTTTATTTGAATT
20335633 TTA-TTTATTTGAATT
1 TTATTTTATTTGAATT
20335648 TTATTTT
1 TTATTTT
20335655 TATTAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 9 0.47
16 3 0.16
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTATTTTATTTGAATT
Done.