Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 47 of 109
Found at i:8273873 original size:24 final size:24
Alignment explanation
Indices: 8273846--8273935 Score: 74
Period size: 24 Copynumber: 3.6 Consensus size: 24
8273836 TATATATAGA
*
8273846 TATTTTTTATTACATAAA-ACTAAT
1 TATTTTTTATTA-ATAAATAATAAT
* * *
8273870 TATTATATATTAATAAATAATATT
1 TATTTTTTATTAATAAATAATAAT
* *
8273894 TATTTTTAATAAATATAAATAATAAT
1 TATTTTTTAT-TA-ATAAATAATAAT
*
8273920 TATTTATTACTTAATA
1 TATTTTTTA-TTAATA
8273936 TATTTATTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 7
0.72 0.17 0.10
Matches are distributed among these distances:
23 5 0.10
24 21 0.42
25 4 0.08
26 19 0.38
27 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (24 bp):
TATTTTTTATTAATAAATAATAAT
Found at i:8273893 original size:20 final size:20
Alignment explanation
Indices: 8273826--8273908 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 20
8273816 ATATTTCATT
* *
8273826 TTTATTATTTTATATATAGATA
1 TTTATTA-TTAATAAATA-ATA
*
8273848 TTTTTTATTACATAAAACTAAT-
1 TTTATTATTA-AT-AAA-TAATA
8273870 TATTATATATTAATAAATAATA
1 T-TTAT-TATTAATAAATAATA
*
8273892 TTTATTTTTAATAAATA
1 TTTATTATTAATAAATA
8273909 TAAATAATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
20 11 0.22
21 10 0.20
22 13 0.26
23 9 0.18
24 7 0.14
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (20 bp):
TTTATTATTAATAAATAATA
Found at i:8273900 original size:47 final size:46
Alignment explanation
Indices: 8273849--8273943 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 46
8273839 ATATAGATAT
* * *
8273849 TTTTTATTACATA-AAACTAATTATTATATATTAATAAATAATATTTA
1 TTTTTAATAAATATAAA-TAATAATTATATATTAATAAAT-ATATTTA
* * *
8273896 TTTTTAATAAATATAAATAATAATTATTTATTACTTAATATATTTA
1 TTTTTAATAAATATAAATAATAATTATATATTAATAAATATATTTA
8273942 TT
1 TT
8273944 AAAATATAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 9 0.22
47 29 0.71
48 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (46 bp):
TTTTTAATAAATATAAATAATAATTATATATTAATAAATATATTTA
Found at i:8275337 original size:16 final size:16
Alignment explanation
Indices: 8275316--8275349 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8275306 TAAATATACG
8275316 AATATAATATAAA-AAT
1 AATATAA-ATAAATAAT
8275332 AATATAAATAAATAAT
1 AATATAAATAAATAAT
8275348 AA
1 AA
8275350 ATTTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAAATAAATAAT
Found at i:8275361 original size:21 final size:22
Alignment explanation
Indices: 8275331--8275397 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
8275321 AATATAAAAA
8275331 TAATATAAATAAATAATAAATTT
1 TAATA-AAATAAATAATAAATTT
* *
8275354 TTA-AAAAT-TATAAATAAA-TT
1 TAATAAAATAAAT-AATAAATTT
* *
8275374 TAATAAAATAAAAAATATATTT
1 TAATAAAATAAATAATAAATTT
8275396 TA
1 TA
8275398 TATTTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
20 6 0.18
21 20 0.59
22 6 0.18
23 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAATAAAATAAATAATAAATTT
Found at i:8279391 original size:18 final size:18
Alignment explanation
Indices: 8279370--8279417 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
8279360 TATTAAAATA
*
8279370 TATATTTATATTATATTT
1 TATATTTATATTATATAT
**
8279388 TATATAAATATTATATAT
1 TATATTTATATTATATAT
8279406 TATAATTTATAT
1 TAT-ATTTATAT
8279418 CAAAATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTTATATTATATAT
Found at i:8279404 original size:25 final size:24
Alignment explanation
Indices: 8279371--8279417 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
8279361 ATTAAAATAT
*
8279371 ATATTTATATTATATTTTATATAA
1 ATATTTATATTATAATTTATATAA
8279395 ATATTATATATTATAATTTATAT
1 ATATT-TATATTATAATTTATAT
8279418 CAAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATTTATATTATAATTTATATAA
Found at i:8279514 original size:6 final size:6
Alignment explanation
Indices: 8279503--8279532 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8279493 TTATTTTTTA
*
8279503 TTATAT TTATAT TTATAT TTATAT TCATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT
8279533 CATATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
TTATAT
Found at i:8281164 original size:20 final size:20
Alignment explanation
Indices: 8281097--8281164 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
8281087 ATTAATAAAT
8281097 TTTATTA-TATTTGTAATTTA
1 TTTATTATTATTTGTAA-TTA
* ** *
8281117 TTTATT-TAATTAATAA-AA
1 TTTATTATTATTTGTAATTA
*
8281135 TTTTAATATTATTTGTAATTA
1 -TTTATTATTATTTGTAATTA
8281156 TTTATTATT
1 TTTATTATT
8281165 TTTAGTAAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
18 1 0.03
19 5 0.15
20 27 0.79
21 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTATTATTATTTGTAATTA
Found at i:8281174 original size:40 final size:39
Alignment explanation
Indices: 8281087--8281161 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
8281077 CAAATCAATC
*
8281087 ATTAAT-AAATTTTATTATATTTGTAATTTATTTATTTA
1 ATTAATAAAATTTTAATATATTTGTAATTTATTTATTTA
8281125 ATTAATAAAATTTTAATATTATTTGTAA-TTATTTATT
1 ATTAATAAAATTTTAATA-TATTTGTAATTTATTTATT
8281162 ATTTTTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 6 0.18
39 19 0.56
40 9 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.59
Consensus pattern (39 bp):
ATTAATAAAATTTTAATATATTTGTAATTTATTTATTTA
Found at i:8287353 original size:20 final size:18
Alignment explanation
Indices: 8287330--8287393 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
8287320 TCATATAAAA
8287330 ATATTAACATTTATATATTT
1 ATATTAA-ATTTAT-TATTT
* * **
8287350 ATATTATATTTTTTATAA
1 ATATTAAATTTATTATTT
8287368 ATATTAAATATTATTATTT
1 ATATTAAAT-TTATTATTT
8287387 ATATTAA
1 ATATTAA
8287394 TATAAAAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 11 0.31
19 18 0.51
20 6 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATTAAATTTATTATTT
Found at i:8287358 original size:13 final size:13
Alignment explanation
Indices: 8287340--8287396 Score: 50
Period size: 12 Copynumber: 4.6 Consensus size: 13
8287330 ATATTAACAT
8287340 TTATATATTTATA
1 TTATATATTTATA
*
8287353 TTATAT-TTTTTA
1 TTATATATTTATA
* *
8287365 -TAAATATTAAATA
1 TTATATATT-TATA
8287378 TTAT-TATTTATA
1 TTATATATTTATA
8287390 TTA-ATAT
1 TTATATAT
8287397 AAAAAATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
11 4 0.12
12 16 0.47
13 12 0.35
14 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:8291690 original size:18 final size:18
Alignment explanation
Indices: 8291667--8291702 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
8291657 CTTTATTTTT
8291667 GTAATGAGATACTAAAAA
1 GTAATGAGATACTAAAAA
*
8291685 GTAATGAGATGCTAAAAA
1 GTAATGAGATACTAAAAA
8291703 ATGTTATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (18 bp):
GTAATGAGATACTAAAAA
Found at i:8308034 original size:22 final size:23
Alignment explanation
Indices: 8308009--8308052 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
8307999 CAATTTATTA
8308009 ATTAAATTAATT-AAATTAAATC
1 ATTAAATTAATTAAAATTAAATC
*
8308031 ATTAATTTAATTAAAATTAAAT
1 ATTAAATTAATTAAAATTAAAT
8308053 TATGAACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAAATTAATTAAAATTAAATC
Found at i:8308526 original size:25 final size:27
Alignment explanation
Indices: 8308498--8308551 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
8308488 TATTTATTTT
*
8308498 AAATAAGAACTTATTT-AATA-AATAA
1 AAATAAAAACTTATTTAAATATAATAA
8308523 AAATAAAAACTTATTTAAATATAATAA
1 AAATAAAAACTTATTTAAATATAATAA
8308550 AA
1 AA
8308552 TAATAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.58
26 4 0.15
27 7 0.27
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAATAAAAACTTATTTAAATATAATAA
Found at i:8342199 original size:83 final size:83
Alignment explanation
Indices: 8342060--8342223 Score: 301
Period size: 83 Copynumber: 2.0 Consensus size: 83
8342050 TAATAATCCC
*
8342060 CTGTTACCCTGATATTAAAAACAAAAGCATTACATGAATGGTAGCTGTCCTACTTTCTCTTTTTG
1 CTGTTACCCTGATATTAAAAACAAAAGCATTACATGAATGCTAGCTGTCCTACTTTCTCTTTTTG
8342125 GATAATATTGTGATACCA
66 GATAATATTGTGATACCA
*
8342143 CTGTTACCCTGATATTAAAAACAAAAGCATTACATGAATGCTAGCTGTCCTACTTTCTTTTTTTG
1 CTGTTACCCTGATATTAAAAACAAAAGCATTACATGAATGCTAGCTGTCCTACTTTCTCTTTTTG
*
8342208 GATAGTATTGTGATAC
66 GATAATATTGTGATAC
8342224 TACCAAAAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (83 bp):
CTGTTACCCTGATATTAAAAACAAAAGCATTACATGAATGCTAGCTGTCCTACTTTCTCTTTTTG
GATAATATTGTGATACCA
Found at i:8346736 original size:51 final size:51
Alignment explanation
Indices: 8346639--8346737 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
8346629 TATACATCAA
** *
8346639 TTTTTTTAGTAACTTTTTTTAAGGTATATTATATTACTATTGCAATTTTTT
1 TTTTTTTAGTAACTTTTTTTAAGACATATTATATTACTATTACAATTTTTT
* **
8346690 TTTTGTTTA-TAACTTTTTTTAAGACATATTTTATTGTTATTACAATTT
1 TTTT-TTTAGTAACTTTTTTTAAGACATATTATATTACTATTACAATTT
8346738 CATTTTTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.90
52 4 0.10
ACGTcount: A:0.26, C:0.06, G:0.07, T:0.61
Consensus pattern (51 bp):
TTTTTTTAGTAACTTTTTTTAAGACATATTATATTACTATTACAATTTTTT
Found at i:8350801 original size:32 final size:32
Alignment explanation
Indices: 8350765--8350826 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
8350755 TCAACTTTGA
* *
8350765 TTTTAGTTGTTTCCCTATGCTCCTTTGCAAGC
1 TTTTAGTTATTCCCCTATGCTCCTTTGCAAGC
8350797 TTTTAGTTATTCCCCTATGCTCCTTTGCAA
1 TTTTAGTTATTCCCCTATGCTCCTTTGCAA
8350827 CCACCTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.47
Consensus pattern (32 bp):
TTTTAGTTATTCCCCTATGCTCCTTTGCAAGC
Found at i:8357660 original size:20 final size:22
Alignment explanation
Indices: 8357629--8357685 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 22
8357619 TATATTAAGT
*
8357629 ATTT-AATTTAAAATTAA-TTA
1 ATTTAAATATAAAATTAATTTA
8357649 ATTTTAAATA-AAAA--AATTTA
1 A-TTTAAATATAAAATTAATTTA
8357669 ATTTAAATATAAAATTA
1 ATTTAAATATAAAATTA
8357686 TAAGATATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 10 0.33
20 9 0.30
21 7 0.23
22 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTTAAATATAAAATTAATTTA
Found at i:8358818 original size:24 final size:24
Alignment explanation
Indices: 8358773--8358818 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
8358763 GGGATTTACG
*
8358773 GATAGCCAAGAGGGTCTGTTGACA
1 GATAGCCAAGAGGGGCTGTTGACA
*
8358797 GATAGCTAAGAGGGAGCT-TTGA
1 GATAGCCAAGAGGG-GCTGTTGA
8358819 TGGTGAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (24 bp):
GATAGCCAAGAGGGGCTGTTGACA
Found at i:8372124 original size:10 final size:10
Alignment explanation
Indices: 8372109--8372139 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
8372099 TTCTGCTATA
8372109 ATATATGTAT
1 ATATATGTAT
8372119 ATATATGTAT
1 ATATATGTAT
*
8372129 ATATATATAT
1 ATATATGTAT
8372139 A
1 A
8372140 AATTCAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (10 bp):
ATATATGTAT
Found at i:8392053 original size:3 final size:3
Alignment explanation
Indices: 8392045--8392086 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8392035 GTAAATAAAA
8392045 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8392087 TCCCGAACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8398950 original size:22 final size:21
Alignment explanation
Indices: 8398924--8398973 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
8398914 AAAGGTCGTC
8398924 ATAAAATT-TTTAAAAAAATTA
1 ATAAAATTATTTAAAAAAA-TA
*
8398945 ACTAAAATTATTTAAAATAATA
1 A-TAAAATTATTTAAAAAAATA
8398967 ATAAAAT
1 ATAAAAT
8398974 AAATATCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 10 0.38
23 9 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATTATTTAAAAAAATA
Found at i:8408387 original size:21 final size:23
Alignment explanation
Indices: 8408357--8408398 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
8408347 ACTAGAATAT
*
8408357 AATTACAT-AAATTTA-ATATAA
1 AATTAAATAAAATTTACATATAA
8408378 AATTAAATAAAATTTACATAT
1 AATTAAATAAAATTTACATAT
8408399 TATGAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (23 bp):
AATTAAATAAAATTTACATATAA
Found at i:8411321 original size:15 final size:15
Alignment explanation
Indices: 8411301--8411330 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
8411291 ACATCTTTCG
8411301 ACCTCAGCTACATAT
1 ACCTCAGCTACATAT
8411316 ACCTCAGCTACATAT
1 ACCTCAGCTACATAT
8411331 GAGTACGATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.27
Consensus pattern (15 bp):
ACCTCAGCTACATAT
Found at i:8425093 original size:26 final size:28
Alignment explanation
Indices: 8425056--8425114 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 28
8425046 TTTTTATAAA
*
8425056 TTTTAATTATAATTATAA-TAAAATT-T
1 TTTTAATCATAATTATAATTAAAATTAT
*
8425082 TTTTAATCATAATTATAATTATAATTAT
1 TTTTAATCATAATTATAATTAAAATTAT
8425110 TTTTA
1 TTTTA
8425115 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 17 0.59
27 6 0.21
28 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTTAATCATAATTATAATTAAAATTAT
Found at i:8429109 original size:23 final size:23
Alignment explanation
Indices: 8429004--8429109 Score: 88
Period size: 23 Copynumber: 4.5 Consensus size: 23
8428994 ATTTAGTTAT
*
8429004 TATTTATTTATTATTTA-AAAATA
1 TATTTATTTAATATTTATAAAA-A
* * *
8429027 TATTTATTTATTATTCATAAACA
1 TATTTATTTAATATTTATAAAAA
* *
8429050 TATTTACTTTTATATATTTGTAAATA
1 TATTTA--TTTA-ATATTTATAAAAA
* *
8429076 TATCTGTTTAATATTTATAAAAA
1 TATTTATTTAATATTTATAAAAA
*
8429099 AATTTATTTAA
1 TATTTATTTAA
8429110 CTTAAATAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
23 42 0.64
24 7 0.11
25 4 0.06
26 13 0.20
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TATTTATTTAATATTTATAAAAA
Found at i:8431138 original size:21 final size:21
Alignment explanation
Indices: 8431100--8431139 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8431090 TTAATAATTT
* **
8431100 TTAAAATTTAAATCTTAATCA
1 TTAAAATTAAAAAATTAATCA
8431121 TTAAAATTAAAAAATTAAT
1 TTAAAATTAAAAAATTAAT
8431140 ATTTTATCCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAAAATTAAAAAATTAATCA
Found at i:8433430 original size:18 final size:17
Alignment explanation
Indices: 8433405--8433455 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
8433395 ATTTGATATA
8433405 TTATTAAT-ATATAAATT
1 TTATTAATAAT-TAAATT
*
8433422 TTATATAATAATTATATT
1 TTAT-TAATAATTAAATT
*
8433440 TTATTAATAAGTAAAT
1 TTATTAATAATTAAAT
8433456 ATTAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 14 0.48
18 13 0.45
19 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (17 bp):
TTATTAATAATTAAATT
Found at i:8433437 original size:42 final size:40
Alignment explanation
Indices: 8433380--8433478 Score: 101
Period size: 42 Copynumber: 2.4 Consensus size: 40
8433370 TGCATTATAA
* *
8433380 TTAAAATAAATTTATATTTGA-TATATTATTAATATATAAATTT
1 TTAAAAT-AA-TTATATTTGATTA-ATAAGTAA-ATATAAATTT
* * *
8433423 TATATAATAATTATATTTTATTAATAAGTAAATATTAATTT
1 T-TAAAATAATTATATTTGATTAATAAGTAAATATAAATTT
8433464 TTAAAATAATTATAT
1 TTAAAATAATTATAT
8433479 AAAAAATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
40 13 0.27
41 10 0.21
42 15 0.31
43 5 0.10
44 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (40 bp):
TTAAAATAATTATATTTGATTAATAAGTAAATATAAATTT
Found at i:8435293 original size:14 final size:14
Alignment explanation
Indices: 8435274--8435311 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8435264 CTCGAATTTG
8435274 ATTTAATTTTATAA
1 ATTTAATTTTATAA
*
8435288 ATTTAATATT-TAA
1 ATTTAATTTTATAA
*
8435301 ATTTGATTTTA
1 ATTTAATTTTA
8435312 ATATTAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTTAATTTTATAA
Found at i:8435313 original size:19 final size:19
Alignment explanation
Indices: 8435289--8435346 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
8435279 ATTTTATAAA
8435289 TTTAATATTTAAATTTGAT
1 TTTAATATTTAAATTTGAT
*
8435308 TTTAATATTAAAATATT-AT
1 TTTAATATTTAAAT-TTGAT
* *
8435327 TTTTATATTTAAATCTGAT
1 TTTAATATTTAAATTTGAT
8435346 T
1 T
8435347 CAATTTGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 1 0.03
19 30 0.91
20 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTAATATTTAAATTTGAT
Found at i:8435453 original size:16 final size:16
Alignment explanation
Indices: 8435432--8435498 Score: 71
Period size: 16 Copynumber: 4.0 Consensus size: 16
8435422 AATATTTTTT
8435432 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
*
8435448 TAAAATAAATATATAAA
1 TAAAATAAAAATA-AAA
* *
8435465 TAACTATAAATATAAAA
1 TAA-AATAAAAATAAAA
*
8435482 TTAAATAAATAATAAAA
1 TAAAATAAA-AATAAAA
8435499 AATAATATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
16 17 0.40
17 17 0.40
18 9 0.21
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:8435504 original size:10 final size:11
Alignment explanation
Indices: 8435434--8435505 Score: 57
Period size: 10 Copynumber: 6.7 Consensus size: 11
8435424 TATTTTTTTA
8435434 AAATAA-AAAT
1 AAATAATAAAT
8435444 -AA-AATAAAAT
1 AAATAAT-AAAT
8435454 AAATATATAAAT
1 AAATA-ATAAAT
*
8435466 AACT-ATAAAT
1 AAATAATAAAT
8435476 ATAA-AATTAAAT
1 A-AATAA-TAAAT
8435488 AAATAATAAA-
1 AAATAATAAAT
8435498 AAATAATA
1 AAATAATA
8435506 TATATTGAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 18
0.72 0.03 0.25
Matches are distributed among these distances:
8 2 0.04
9 2 0.04
10 19 0.37
11 10 0.20
12 16 0.31
13 2 0.04
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.26
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:8439734 original size:22 final size:22
Alignment explanation
Indices: 8439709--8439778 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
8439699 TCTCTTTTAT
8439709 TTTTTTTTATTTTTTGTTTTGA
1 TTTTTTTTATTTTTTGTTTTGA
* *
8439731 TTTTATTTA--TTTTGTGTTGA
1 TTTTTTTTATTTTTTGTTTTGA
* *
8439751 TTTTTATGT-TTTTTTGTTTTAA
1 TTTTT-TTTATTTTTTGTTTTGA
8439773 TTTTTT
1 TTTTTT
8439779 ATGATATTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 14 0.36
21 3 0.08
22 22 0.56
ACGTcount: A:0.11, C:0.00, G:0.10, T:0.79
Consensus pattern (22 bp):
TTTTTTTTATTTTTTGTTTTGA
Found at i:8439800 original size:12 final size:12
Alignment explanation
Indices: 8439783--8439821 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
8439773 TTTTTTATGA
8439783 TATTATTGTTAT
1 TATTATTGTTAT
8439795 TATTATTGTTAT
1 TATTATTGTTAT
8439807 T-TTA-TGTTAT
1 TATTATTGTTAT
8439817 TATTA
1 TATTA
8439822 GTAATAATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.27
11 6 0.23
12 13 0.50
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (12 bp):
TATTATTGTTAT
Found at i:8440266 original size:18 final size:17
Alignment explanation
Indices: 8440239--8440274 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
8440229 ATGTTTATTT
8440239 AAAAAATATAAAAAATA
1 AAAAAATATAAAAAATA
*
8440256 AAAACAATATAAATAATA
1 AAAA-AATATAAAAAATA
8440274 A
1 A
8440275 TAATAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAATATAAAAAATA
Found at i:8444413 original size:20 final size:20
Alignment explanation
Indices: 8444348--8444414 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
8444338 CCAAAAAACT
*
8444348 AAAAACTAAAAATAAAATGA
1 AAAAAATAAAAATAAAATGA
** *
8444368 GCTAAAAT-AAAAT-AAATCA
1 -AAAAAATAAAAATAAAATGA
8444387 ATCAAAAATAAAAATAAAATGA
1 A--AAAAATAAAAATAAAATGA
8444409 AAAAAA
1 AAAAAA
8444415 GAAACCTTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
19 5 0.14
20 15 0.43
21 9 0.26
22 6 0.17
ACGTcount: A:0.73, C:0.06, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAAAATAAAAATAAAATGA
Found at i:8445259 original size:13 final size:13
Alignment explanation
Indices: 8445193--8445271 Score: 63
Period size: 13 Copynumber: 6.1 Consensus size: 13
8445183 GATATAAAAT
* *
8445193 ATATAATATAACA
1 ATATACTATAATA
8445206 ATAATACTATAAT-
1 AT-ATACTATAATA
* *
8445219 ATATTGCCAT-ATA
1 ATA-TACTATAATA
**
8445232 ATATACTATGTTA
1 ATATACTATAATA
8445245 ATATACTATAATA
1 ATATACTATAATA
*
8445258 ATATAATATAATA
1 ATATACTATAATA
8445271 A
1 A
8445272 AATAATAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
12 7 0.13
13 37 0.71
14 8 0.15
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.38
Consensus pattern (13 bp):
ATATACTATAATA
Found at i:8452352 original size:34 final size:34
Alignment explanation
Indices: 8452280--8452345 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
8452270 AAAAGCTTTC
*
8452280 TTTAAAGTTTCATTACCTCTAATTAGATGAGCCA
1 TTTAAAGTTTCATAACCTCTAATTAGATGAGCCA
* **
8452314 TTTAAAGTTTCATAACCTTTGGTTAGATGAGC
1 TTTAAAGTTTCATAACCTCTAATTAGATGAGC
8452346 TTTTTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.39
Consensus pattern (34 bp):
TTTAAAGTTTCATAACCTCTAATTAGATGAGCCA
Found at i:8452498 original size:41 final size:40
Alignment explanation
Indices: 8452442--8452602 Score: 182
Period size: 41 Copynumber: 3.9 Consensus size: 40
8452432 TCCTCTCAAA
8452442 CTTTTAAATTTAAAGTTTCATAGCCTCTAGTCAGATAAGC
1 CTTTTAAATTTAAAGTTTCATAGCCTCTAGTCAGATAAGC
* * * *
8452482 CTTTTAACATTTAAAGTTTTATAGCCTTTGGTTAGA-AGAGC
1 CTTTTAA-ATTTAAAGTTTCATAGCCTCTAGTCAGATA-AGC
* *
8452523 TTTTTCTTAAATTTTAAAGTTTCATAGCCTCTAGTCAGATGAGC
1 --CTT-TTAAA-TTTAAAGTTTCATAGCCTCTAGTCAGATAAGC
8452567 CTTTTAACATTTAAAGTTTCATAGTCCT-TAGTCAGA
1 CTTTTAA-ATTTAAAGTTTCATAG-CCTCTAGTCAGA
8452603 GGAGTTTTTA
Statistics
Matches: 101, Mismatches: 11, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
40 8 0.08
41 54 0.53
42 6 0.06
43 3 0.03
44 30 0.30
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (40 bp):
CTTTTAAATTTAAAGTTTCATAGCCTCTAGTCAGATAAGC
Found at i:8452882 original size:17 final size:16
Alignment explanation
Indices: 8452856--8452896 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
8452846 CTCCATTAAA
*
8452856 AAATATAATAATAAAAT
1 AAATAAAATAA-AAAAT
8452873 AAATAAAATAAAAAAT
1 AAATAAAATAAAAAAT
*
8452889 AAAGAAAA
1 AAATAAAA
8452897 AAAGTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (16 bp):
AAATAAAATAAAAAAT
Found at i:8453835 original size:26 final size:24
Alignment explanation
Indices: 8453804--8453865 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
8453794 TTTCTTTTTC
*
8453804 TTTTTTGTTTTGATTTTTACTTTGT
1 TTTTTTGTTTTGATTTTTA-TTTAT
*
8453829 TTATTTTGTGTTGATTTTTATTTAT
1 TT-TTTTGTTTTGATTTTTATTTAT
8453854 TTTGTTTGTTTT
1 TTT-TTTGTTTT
8453866 TTATTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.47
26 16 0.50
ACGTcount: A:0.10, C:0.02, G:0.13, T:0.76
Consensus pattern (24 bp):
TTTTTTGTTTTGATTTTTATTTAT
Found at i:8453868 original size:20 final size:21
Alignment explanation
Indices: 8453828--8453871 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
8453818 TTTTACTTTG
8453828 TTTATTTTGTGTTGATTTTTA
1 TTTATTTTGTGTTGATTTTTA
*
8453849 TTTATTTTGT-TTGTTTTTTA
1 TTTATTTTGTGTTGATTTTTA
8453869 TTT
1 TTT
8453872 TTTATGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.77
Consensus pattern (21 bp):
TTTATTTTGTGTTGATTTTTA
Found at i:8453892 original size:3 final size:3
Alignment explanation
Indices: 8453879--8453922 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
8453869 TTTTTTATGA
* *
8453879 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8453923 GTTATTACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8453927 original size:10 final size:12
Alignment explanation
Indices: 8453879--8453929 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
8453869 TTTTTTATGA
* *
8453879 TATTGTTATTAT
1 TATTATTATTGT
*
8453891 TATTATTATTAT
1 TATTATTATTGT
8453903 TATTATTATTGT
1 TATTATTATTGT
8453915 TATT-TTA-TGT
1 TATTATTATTGT
8453925 TATTA
1 TATTA
8453930 CTAGTAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
10 7 0.19
11 3 0.08
12 26 0.72
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TATTATTATTGT
Found at i:8455890 original size:23 final size:23
Alignment explanation
Indices: 8455846--8455890 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
8455836 TAATCTTTTC
* * *
8455846 TAAAAAGAAGAAAGAAGAAAAGT
1 TAAAAAAAAAAAAAAAGAAAAGT
*
8455869 TAAAAAAAAAAAAAAAGGAAAG
1 TAAAAAAAAAAAAAAAGAAAAG
8455891 AGAGATATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (23 bp):
TAAAAAAAAAAAAAAAGAAAAGT
Found at i:8458767 original size:26 final size:23
Alignment explanation
Indices: 8458710--8458759 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
8458700 ATTTTTTTAT
*
8458710 TAATTTTTTTATCATAATTATAA
1 TAATTTTTTAATCATAATTATAA
*
8458733 TGATTTTTTAATCATAATTATAA
1 TAATTTTTTAATCATAATTATAA
8458756 TAAT
1 TAAT
8458760 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATTTTTTAATCATAATTATAA
Found at i:8472895 original size:23 final size:22
Alignment explanation
Indices: 8472862--8472914 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8472852 TATTTTATGT
* * *
8472862 ATTTTTTTAT-TTTTTATTTAA
1 ATTTTGTTATATTTTAATTAAA
8472883 ATTTTGTTATATTTTAATTAAA
1 ATTTTGTTATATTTTAATTAAA
8472905 ATTTTAGTTA
1 ATTTT-GTTA
8472915 AATCGATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 9 0.33
22 14 0.52
23 4 0.15
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (22 bp):
ATTTTGTTATATTTTAATTAAA
Found at i:8491625 original size:25 final size:25
Alignment explanation
Indices: 8491597--8491646 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
8491587 ACTAGTATCA
*
8491597 TGGAATTTCTCTTGACCAAAATGCG
1 TGGAATTTCTCTCGACCAAAATGCG
8491622 TGGAATTTCTCTCGACCAAAATGCG
1 TGGAATTTCTCTCGACCAAAATGCG
8491647 CAGGCAACGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
TGGAATTTCTCTCGACCAAAATGCG
Found at i:8496694 original size:17 final size:16
Alignment explanation
Indices: 8496674--8496716 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
8496664 AATAATTTTA
8496674 AATTAAATATAAAAATT
1 AATTAAATATAAAAA-T
*
8496691 AATTAAAAATAAAAAT
1 AATTAAATATAAAAAT
8496707 AATTTAAATA
1 AA-TTAAATA
8496717 AATATTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTAAATATAAAAAT
Found at i:8503482 original size:3 final size:3
Alignment explanation
Indices: 8503474--8503507 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8503464 CTTTACCCTT
* *
8503474 CTC CTC CTC CTC CTC CTC CTC CGC CTC CCC CTC C
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC C
8503508 ACCACCAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.71, G:0.03, T:0.26
Consensus pattern (3 bp):
CTC
Found at i:8507727 original size:2 final size:2
Alignment explanation
Indices: 8507720--8507753 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8507710 GTACTCCTTA
8507720 AT AT AT 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 AT AT AT
8507754 GTTTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8521843 original size:22 final size:21
Alignment explanation
Indices: 8521818--8521862 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
8521808 ACTTATAAAT
8521818 ATAAATTTCATATAAAATTTAA
1 ATAAATTTCATAT-AAATTTAA
* *
8521840 ATAAATTTTATATAATTTTAA
1 ATAAATTTCATATAAATTTAA
8521861 AT
1 AT
8521863 TGTTATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAAATTTCATATAAATTTAA
Found at i:8521863 original size:17 final size:17
Alignment explanation
Indices: 8521841--8521873 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8521831 AAAATTTAAA
8521841 TAAATT-TTATATAATTT
1 TAAATTGTTAT-TAATTT
8521858 TAAATTGTTATTAATT
1 TAAATTGTTATTAATT
8521874 AATTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TAAATTGTTATTAATTT
Found at i:8522922 original size:29 final size:30
Alignment explanation
Indices: 8522845--8522974 Score: 99
Period size: 29 Copynumber: 4.4 Consensus size: 30
8522835 AGTTCATAAA
* * * *
8522845 TTTTATTATTGTATTTAAATTAATTTTTATAT
1 TTTTAATA-TGTATTCAAATAAATCTTTA-AT
*
8522877 TTTT-AT-TATATTCAAATAAATCTTTAAT
1 TTTTAATATGTATTCAAATAAATCTTTAAT
*
8522905 TTTTAATATGTATT-AAAT-AAGCTTTTAAT
1 TTTTAATATGTATTCAAATAAATC-TTTAAT
* * * *
8522934 GTTTAATTTGTATTCAAATAATTC-ATAAT
1 TTTTAATATGTATTCAAATAAATCTTTAAT
*
8522963 TTTTAATTTGTA
1 TTTTAATATGTA
8522975 CAAAAATAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 13
0.75 0.12 0.12
Matches are distributed among these distances:
28 9 0.11
29 55 0.69
30 9 0.11
31 3 0.04
32 4 0.05
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (30 bp):
TTTTAATATGTATTCAAATAAATCTTTAAT
Found at i:8523101 original size:28 final size:28
Alignment explanation
Indices: 8523015--8523101 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
8523005 TTTGTTTGAA
* *
8523015 ATAAAAACTTA-TTAGAATACAAATGAAAA
1 ATAAAAAATTATTTA-AATA-AAATGAAAT
* * * * *
8523044 ATTAAAAACTATTTTAATATAATAAAAT
1 ATAAAAAATTATTTAAATAAAATGAAAT
*
8523072 ATAAAAAATTATTTAAATAAAATGATAT
1 ATAAAAAATTATTTAAATAAAATGAAAT
8523100 AT
1 AT
8523102 TTCAAAATTT
Statistics
Matches: 44, Mismatches: 13, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
28 30 0.68
29 12 0.27
30 2 0.05
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (28 bp):
ATAAAAAATTATTTAAATAAAATGAAAT
Found at i:8532716 original size:20 final size:21
Alignment explanation
Indices: 8532688--8532744 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
8532678 TTAATTATTT
8532688 ATATATTTA-AATTTAAAAATA
1 ATAT-TTTATAATTTAAAAATA
* *
8532709 TTATTTTATATTTTAAAAATA
1 ATATTTTATAATTTAAAAATA
8532730 ATATTTTATTAATTT
1 ATATTTTA-TAATTT
8532745 CGAATCGGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.13
21 21 0.70
22 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATTTTATAATTTAAAAATA
Found at i:8536195 original size:39 final size:39
Alignment explanation
Indices: 8536152--8536228 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
8536142 AAAATTTATA
*
8536152 TTTAATTTATATTAATA-TTAAAAATATAACATATATATT
1 TTTAATTT-TATTAAAATTTAAAAATATAACATATATATT
* * *
8536191 TTTAATTTTATTAAAATTTTAAATTATAATATATATAT
1 TTTAATTTTATTAAAATTTAAAAATATAACATATATAT
8536229 ATATTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (39 bp):
TTTAATTTTATTAAAATTTAAAAATATAACATATATATT
Found at i:8550551 original size:19 final size:20
Alignment explanation
Indices: 8550513--8550553 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
8550503 TTTTATTTTA
8550513 TAAAATTTTAAAAAATATAT
1 TAAAATTTTAAAAAATATAT
*
8550533 TAAAATTTAATAAAAATATAT
1 TAAAATTTTA-AAAAATATAT
8550554 AATTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAATTTTAAAAAATATAT
Found at i:8555850 original size:10 final size:10
Alignment explanation
Indices: 8555837--8555866 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
8555827 TATATTTATT
8555837 TATTTTTAAA
1 TATTTTTAAA
8555847 TATTTTTAAA
1 TATTTTTAAA
*
8555857 TATTTATAAA
1 TATTTTTAAA
8555867 ATAAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:8559169 original size:31 final size:31
Alignment explanation
Indices: 8559134--8559196 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
8559124 CTTGCTTAGT
*
8559134 TTGTTGTACATGATGTACTAACCTTCATGTA
1 TTGTTGTACATGATGTACTAACCATCATGTA
8559165 TTGTTGTACATGATGTACTAACCATCATGTA
1 TTGTTGTACATGATGTACTAACCATCATGTA
8559196 T
1 T
8559197 CATGTTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (31 bp):
TTGTTGTACATGATGTACTAACCATCATGTA
Found at i:8572910 original size:93 final size:95
Alignment explanation
Indices: 8572790--8572984 Score: 297
Period size: 100 Copynumber: 2.0 Consensus size: 95
8572780 ATTATAATGC
*
8572790 ATATTTCAATTATCAAATTTAC-AAAAAAAA-AAAAAGGAATTAATGAAATTAAAATAAACCTTG
1 ATATTTAAATTATCAAATTTACAAAAAAAAAGAAAAAGGAATTAATGAAATTAAAATAAACCTTG
8572853 GATTGAATTAGCTTTAACAAGCTTG-GCACA
66 GATTGAATTAGCTTTAACAAGC-TGAGCACA
*
8572883 ATATTTAAATTATCAAATTTCCCAAAAAAAAAAAAAGAAAAAGGAATTAATGAAATTAAAATAAA
1 ATATTTAAATTATCAAATTT-----ACAAAAAAAAAGAAAAAGGAATTAATGAAATTAAAATAAA
8572948 CCTTGGATTGAATTAGCTTTAACAAGCTGAGCACA
61 CCTTGGATTGAATTAGCTTTAACAAGCTGAGCACA
8572983 AT
1 AT
8572985 CTTCAAGCAA
Statistics
Matches: 92, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
93 19 0.21
98 1 0.01
99 10 0.11
100 62 0.67
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.28
Consensus pattern (95 bp):
ATATTTAAATTATCAAATTTACAAAAAAAAAGAAAAAGGAATTAATGAAATTAAAATAAACCTTG
GATTGAATTAGCTTTAACAAGCTGAGCACA
Found at i:8580065 original size:21 final size:22
Alignment explanation
Indices: 8580008--8580074 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 22
8579998 TTTTAAAAAA
*
8580008 TAATATTTAATAAATATAAAATTT
1 TAATA-TTAATAAAT-TTAAATTT
*
8580032 TAATATTTA-AAATTTAAATTT
1 TAATATTAATAAATTTAAATTT
*
8580053 T-TTATTAATAAA-TTACAATTT
1 TAATATTAATAAATTTA-AATTT
8580074 T
1 T
8580075 CTTTGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 8 0.22
21 17 0.46
22 4 0.11
23 3 0.08
24 5 0.14
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATATTAATAAATTTAAATTT
Found at i:8582357 original size:9 final size:9
Alignment explanation
Indices: 8582345--8582373 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8582335 TTTATATAAT
8582345 AAAAAATTA
1 AAAAAATTA
8582354 AAAAAATTA
1 AAAAAATTA
8582363 AAAAAA-TA
1 AAAAAATTA
8582371 AAA
1 AAA
8582374 TGTAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATTA
Found at i:8589012 original size:30 final size:30
Alignment explanation
Indices: 8588944--8589012 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
8588934 ATTATCTTTT
*
8588944 AAAAAA-TTTATGTAAGACATTAAAAATTT
1 AAAAAATTTTATGTAAGACATTAAAAATTC
***
8588973 AAGTGATTTTATGTAAGATC-TTAAAAATTC
1 AAAAAATTTTATGTAAGA-CATTAAAAATTC
8589003 AAAAAATTTT
1 AAAAAATTTT
8589013 CATTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 3 0.10
30 27 0.87
31 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (30 bp):
AAAAAATTTTATGTAAGACATTAAAAATTC
Found at i:8589405 original size:10 final size:10
Alignment explanation
Indices: 8589390--8589422 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
8589380 TTATTTATTT
8589390 TTTTCACATA
1 TTTTCACATA
8589400 TTTTCACATA
1 TTTTCACATA
*
8589410 TTTT-TCATA
1 TTTTCACATA
8589419 TTTT
1 TTTT
8589423 GCATAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTCACATA
Found at i:8589717 original size:2 final size:2
Alignment explanation
Indices: 8589710--8589734 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8589700 CTAATTTGTT
8589710 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8589735 TCATATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8591575 original size:15 final size:15
Alignment explanation
Indices: 8591555--8591588 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8591545 ATATTTTAGC
8591555 AAATGAAATTAAATG
1 AAATGAAATTAAATG
* *
8591570 AAATGATATTTAATG
1 AAATGAAATTAAATG
8591585 AAAT
1 AAAT
8591589 ATAAATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
AAATGAAATTAAATG
Found at i:8591805 original size:16 final size:18
Alignment explanation
Indices: 8591774--8591813 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
8591764 TTATTTGATA
*
8591774 ATTATAATTGTAATATTT
1 ATTATAATTGTAATATAT
8591792 ATTA-AATT-TAATATAT
1 ATTATAATTGTAATATAT
8591808 ATTATA
1 ATTATA
8591814 TAATAACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (18 bp):
ATTATAATTGTAATATAT
Found at i:8592049 original size:21 final size:21
Alignment explanation
Indices: 8592024--8592073 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
8592014 TGAAATATGG
* *
8592024 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAACAAATA
* *
8592045 ATTTTAATTGTTTACCAAATA
1 ATTTTATTTGTTTAACAAATA
*
8592066 ACTTTATT
1 ATTTTATT
8592074 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTATTTGTTTAACAAATA
Found at i:8592807 original size:234 final size:234
Alignment explanation
Indices: 8592453--8592882 Score: 613
Period size: 234 Copynumber: 1.8 Consensus size: 234
8592443 TTTTCTACAA
8592453 ATTTAAGACTACAAATGTAATGTGTTATAAATTAATTTTTTTATTTTTTCAGTAACTTTTTTTTA
1 ATTTAAGACTACAAATGTAATGTGTTATAAA-TAATTTTTTTATTTTTTCAGTAACTTTTTTTTA
* ** *
8592518 AGGTATATTCTATTGTTATTACAAATTTTCTTTTATATAAATTTTTTCTAAGATATATTTGATTG
65 AGGTATATTATATTACTATTACAAATTTTCTTTTATATAAATTTTTTCAAAGATATATTTGATTG
* *
8592583 TTATTATAGTTTCATTCTTATGAAAAATATTTTTTTTTTCAA-TT-TTTTTTCTTTTTTCACATA
130 TTATTATAGTTTCATTCTTATGAAAAATA--ATTTTTTTCAATTTATTTTTTATTTTTTCACATA
8592646 TTTGCAAGATTACTAAAATGAATGTGTATTAATACTTATTTT
193 TTTGCAAGATTACTAAAATGAATGTGTATTAATACTTATTTT
* * *
8592688 ATTTAAGACTATAAATGTAATGTGTTATATAA-ATTTTTTTTATTTTTTTAGTAAC-TTTTTTTA
1 ATTTAAGACTACAAATGTAATGTGTTATA-AATAATTTTTTTATTTTTTCAGTAACTTTTTTTTA
* * *
8592751 AGGTATATTATATTACTATTGCAATTAATTTT-TTTATTTATAAA-TTTTT-AAAGATATATTTT
65 AGGTATATTATATTACTATTAC-A--AATTTTCTTT-TATATAAATTTTTTCAAAGATATATTTG
* *
8592813 ATTGTTATTATAGTTTCATTCTTATGAGAAATAATTTTTTTCAATTTATTTTTTATTTTTTCATA
126 ATTGTTATTATAGTTTCATTCTTATGAAAAATAATTTTTTTCAATTTATTTTTTATTTTTTCACA
8592878 TATTT
191 TATTT
8592883 TCTAATATTT
Statistics
Matches: 174, Mismatches: 14, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
232 10 0.06
233 28 0.16
234 85 0.49
235 36 0.21
236 15 0.09
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (234 bp):
ATTTAAGACTACAAATGTAATGTGTTATAAATAATTTTTTTATTTTTTCAGTAACTTTTTTTTAA
GGTATATTATATTACTATTACAAATTTTCTTTTATATAAATTTTTTCAAAGATATATTTGATTGT
TATTATAGTTTCATTCTTATGAAAAATAATTTTTTTCAATTTATTTTTTATTTTTTCACATATTT
GCAAGATTACTAAAATGAATGTGTATTAATACTTATTTT
Found at i:8592881 original size:19 final size:20
Alignment explanation
Indices: 8592848--8592899 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
8592838 GAGAAATAAT
* *
8592848 TTTTTTCAATTTATTTT-TTA
1 TTTTTTC-ATATATTTTCTAA
8592868 TTTTTTCATATATTTTCTAA
1 TTTTTTCATATATTTTCTAA
8592888 TATTTTTCATAT
1 T-TTTTTCATAT
8592900 TTTGTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 10 0.36
21 10 0.36
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTTCATATATTTTCTAA
Found at i:8592909 original size:21 final size:21
Alignment explanation
Indices: 8592843--8592910 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
8592833 CTTATGAGAA
* *
8592843 ATAATTTTTTTCAATTTATTTT
1 ATAATATTTTTC-ATATATTTT
*
8592865 -TTAT-TTTTTCATATATTTT
1 ATAATATTTTTCATATATTTT
*
8592884 CTAATATTTTTCATAT-TTTGT
1 ATAATATTTTTCATATATTT-T
8592905 ATAATA
1 ATAATA
8592911 ATTTAGTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.21
20 12 0.31
21 19 0.49
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (21 bp):
ATAATATTTTTCATATATTTT
Found at i:8600579 original size:63 final size:64
Alignment explanation
Indices: 8600512--8600633 Score: 201
Period size: 63 Copynumber: 1.9 Consensus size: 64
8600502 AGATGTTTGA
* * *
8600512 GGAGGTGAAGGAGTTGTGGGGAGCGGTGGGGAAGGAATAACCAATGCTGGT-GCTGGGGGATGC
1 GGAGGAGAAGGAGTTGTGGGGAGCGATGGGGAAGGAATAACCAATGATGGTGGCTGGGGGATGC
*
8600575 GGAGGAGCAGGAGTTGTGGGGAGCGATGGGGAAGGAATAACCAATGATGGTGGCTGGGG
1 GGAGGAGAAGGAGTTGTGGGGAGCGATGGGGAAGGAATAACCAATGATGGTGGCTGGGG
8600634 AGGAGGTGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
63 47 0.87
64 7 0.13
ACGTcount: A:0.24, C:0.09, G:0.51, T:0.16
Consensus pattern (64 bp):
GGAGGAGAAGGAGTTGTGGGGAGCGATGGGGAAGGAATAACCAATGATGGTGGCTGGGGGATGC
Found at i:8601566 original size:21 final size:21
Alignment explanation
Indices: 8601542--8601584 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
8601532 TATTTTTGAG
8601542 TAATTTAATTTATTGA-ACAAA
1 TAATTTAATTTATT-ACACAAA
8601563 TAATTTAATTTATTACACAAA
1 TAATTTAATTTATTACACAAA
8601584 T
1 T
8601585 TAAATTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (21 bp):
TAATTTAATTTATTACACAAA
Found at i:8612051 original size:23 final size:25
Alignment explanation
Indices: 8612002--8612052 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
8611992 CACCAAGCAC
*
8612002 ACTGACATAGAGAAAGAAAACTTAGAG
1 ACTGACATAAAGAAAGAAAA--TAGAG
8612029 ACTGACATAAAG-AAGAAAA-AGAG
1 ACTGACATAAAGAAAGAAAATAGAG
8612052 A
1 A
8612053 AGAAAATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.22
26 7 0.30
27 11 0.48
ACGTcount: A:0.57, C:0.10, G:0.22, T:0.12
Consensus pattern (25 bp):
ACTGACATAAAGAAAGAAAATAGAG
Found at i:8615616 original size:25 final size:25
Alignment explanation
Indices: 8615595--8615642 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8615585 AATAAAAGAT
* *
8615595 ATTACAATTATGATTGAAAAAAAAC
1 ATTACAATTATAATTAAAAAAAAAC
*
8615620 ATTATAATTATAATTAAAAAAAA
1 ATTACAATTATAATTAAAAAAAA
8615643 TTTTAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.31
Consensus pattern (25 bp):
ATTACAATTATAATTAAAAAAAAAC
Found at i:8618589 original size:2 final size:2
Alignment explanation
Indices: 8618582--8618612 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8618572 GATCACGACA
8618582 AT 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 AT A
8618613 AGATCCTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8624702 original size:3 final size:3
Alignment explanation
Indices: 8624694--8624720 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8624684 ATCCGATTCA
8624694 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
8624721 TATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8635281 original size:21 final size:21
Alignment explanation
Indices: 8635255--8635297 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
8635245 AATCTCTTGA
8635255 TACTGGTTCTGTTACTCAAGT
1 TACTGGTTCTGTTACTCAAGT
8635276 TACTGGTTCTGTTACTCAAGT
1 TACTGGTTCTGTTACTCAAGT
8635297 T
1 T
8635298 TATTACATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (21 bp):
TACTGGTTCTGTTACTCAAGT
Found at i:8635561 original size:2 final size:2
Alignment explanation
Indices: 8635554--8635578 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8635544 GTTAATTCCT
8635554 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
8635579 GTCTTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8637383 original size:3 final size:3
Alignment explanation
Indices: 8637375--8637419 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
8637365 CCTCGCTATT
8637375 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -ATA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA GAA
8637420 CATCTTCAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:8649088 original size:14 final size:14
Alignment explanation
Indices: 8649071--8649100 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8649061 CGCCTCACAA
8649071 GACAGAGGTGGTGT
1 GACAGAGGTGGTGT
8649085 GACAGAGGTGGTGT
1 GACAGAGGTGGTGT
8649099 GA
1 GA
8649101 ACCATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.07, G:0.50, T:0.20
Consensus pattern (14 bp):
GACAGAGGTGGTGT
Found at i:8649147 original size:43 final size:43
Alignment explanation
Indices: 8649084--8649170 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
8649074 AGAGGTGGTG
*
8649084 TGACAGAGGTGGTGTGAACCATTTTATACCCCAGTGACCCTCC
1 TGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCC
8649127 TGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCC
1 TGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCC
8649170 T
1 T
8649171 ATTATGTTCG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (43 bp):
TGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCC
Found at i:8649338 original size:127 final size:127
Alignment explanation
Indices: 8649107--8649361 Score: 474
Period size: 127 Copynumber: 2.0 Consensus size: 127
8649097 GTGAACCATT
*
8649107 TTATACCCCAGTGACCCTCCTGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCCTA
1 TTATACCCCAGTGACCCTCATGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCCTA
8649172 TTATGTTCGATGTGAGATTCAGAACTCTTCCTTAAGTCCGTGACATTCTCCCGCACCCAGCC
66 TTATGTTCGATGTGAGATTCAGAACTCTTCCTTAAGTCCGTGACATTCTCCCGCACCCAGCC
*
8649234 TTATACCCCAGTGACCCTCATGACAGAGGTGGTGTGAACCATTTTATACCCCAGTGACCCTCCTA
1 TTATACCCCAGTGACCCTCATGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCCTA
* *
8649299 TTATGTTCGATGTGAGATTCAGAACTCTTCCTTAGGTCCGTGACATTCTCTCGCACCCAGCC
66 TTATGTTCGATGTGAGATTCAGAACTCTTCCTTAAGTCCGTGACATTCTCCCGCACCCAGCC
8649361 T
1 T
8649362 CCGTGACGCC
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
127 124 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (127 bp):
TTATACCCCAGTGACCCTCATGACAGAGGTGGTGTAAACCATTTTATACCCCAGTGACCCTCCTA
TTATGTTCGATGTGAGATTCAGAACTCTTCCTTAAGTCCGTGACATTCTCCCGCACCCAGCC
Found at i:8653804 original size:20 final size:19
Alignment explanation
Indices: 8653766--8653805 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
8653756 TATAAAATTA
8653766 TAAATTTTTTAATTTTAAT
1 TAAATTTTTTAATTTTAAT
8653785 TAAATTTTATATAA-TTTAAT
1 TAAATTTT-T-TAATTTTAAT
8653805 T
1 T
8653806 TGATTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 8 0.42
21 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAATTTTTTAATTTTAAT
Found at i:8654240 original size:29 final size:29
Alignment explanation
Indices: 8654192--8654247 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
8654182 TTGAATTATT
8654192 TTATTTTTAAATAAATTTTTATATTTTTA
1 TTATTTTTAAATAAATTTTTATATTTTTA
* *
8654221 TTATATTTTAAA-AAGTTTTTATCTTTT
1 TTAT-TTTTAAATAAATTTTTATATTTT
8654248 AATTTGTATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (29 bp):
TTATTTTTAAATAAATTTTTATATTTTTA
Found at i:8664214 original size:24 final size:23
Alignment explanation
Indices: 8664179--8664223 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
8664169 ATAAATTTAT
*
8664179 ATTAATTAAATACTATGTAAATGA
1 ATTAATTAAATAATAT-TAAATGA
8664203 ATTAAGTT-AATAATATTAAAT
1 ATTAA-TTAAATAATATTAAAT
8664224 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (23 bp):
ATTAATTAAATAATATTAAATGA
Found at i:8664564 original size:13 final size:13
Alignment explanation
Indices: 8664546--8664570 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8664536 TTATGTTAAC
8664546 ACAAATTTAATTT
1 ACAAATTTAATTT
8664559 ACAAATTTAATT
1 ACAAATTTAATT
8664571 AGATTTAACG
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
ACAAATTTAATTT
Found at i:8664644 original size:30 final size:31
Alignment explanation
Indices: 8664581--8664645 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
8664571 AGATTTAACG
*
8664581 ATTCATATATTTATATTATATAAAACATTAAA
1 ATTCATATA-TTATATTATATAAAACATAAAA
* * *
8664613 ATTCATATA-TATATTATATTATATATAAAA
1 ATTCATATATTATATTATATAAAACATAAAA
8664643 ATT
1 ATT
8664646 ACGTATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 20 0.69
32 9 0.31
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTCATATATTATATTATATAAAACATAAAA
Found at i:8673476 original size:30 final size:32
Alignment explanation
Indices: 8673442--8673511 Score: 74
Period size: 35 Copynumber: 2.2 Consensus size: 32
8673432 TTTATATTAA
*
8673442 CAAATAATATTT-TATTA-AT-TTAAATCAAAT
1 CAAATAA-ATTTATATTATATATAAAATCAAAT
8673472 CAAATTAAATTTAAATATTATATATAAAATCAAAT
1 CAAA-TAAATTT--ATATTATATATAAAATCAAAT
8673507 CAAAT
1 CAAAT
8673512 TCAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
30 8 0.24
31 3 0.09
33 5 0.15
34 3 0.09
35 14 0.42
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (32 bp):
CAAATAAATTTATATTATATATAAAATCAAAT
Found at i:8677443 original size:17 final size:17
Alignment explanation
Indices: 8677417--8677454 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8677407 AATTGAATTA
* *
8677417 TATATTTTTTTAATTTT
1 TATATATTTTAAATTTT
8677434 TATATATTTTAAATTTT
1 TATATATTTTAAATTTT
8677451 TATA
1 TATA
8677455 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATATTTTAAATTTT
Found at i:8677848 original size:11 final size:11
Alignment explanation
Indices: 8677829--8677864 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
8677819 AATTTTTTGC
8677829 TTTTT-ATATA
1 TTTTTAATATA
8677839 TTTTTAATATAA
1 TTTTTAATAT-A
8677851 TTTTTAATATA
1 TTTTTAATATA
8677862 TTT
1 TTT
8677865 AAATAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 5 0.21
11 8 0.33
12 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:8677860 original size:21 final size:20
Alignment explanation
Indices: 8677829--8677881 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
8677819 AATTTTTTGC
*
8677829 TTTTTATATATTTTTAATATAA
1 TTTTTA-ATATATTTAA-ATAA
8677851 TTTTTAATATATTTAAATAA
1 TTTTTAATATATTTAAATAA
* *
8677871 ATTTAAATATA
1 TTTTTAATATA
8677882 AAATAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 13 0.46
21 9 0.32
22 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAATATATTTAAATAA
Found at i:8677939 original size:18 final size:18
Alignment explanation
Indices: 8677909--8677943 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8677899 TTTTAAAAAT
8677909 TTAAAAAATATATATAAA
1 TTAAAAAATATATATAAA
8677927 TTAATAAAA-ATATATAA
1 TTAA-AAAATATATATAA
8677944 TTCGATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAAATATATATAAA
Found at i:8680761 original size:20 final size:20
Alignment explanation
Indices: 8680736--8680776 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
8680726 CATTTAGATA
8680736 CGTGATGAATAAATTTATAT
1 CGTGATGAATAAATTTATAT
* *
8680756 CGTGATGAATGAATTTTTAT
1 CGTGATGAATAAATTTATAT
8680776 C
1 C
8680777 ATGTCATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (20 bp):
CGTGATGAATAAATTTATAT
Found at i:8682562 original size:26 final size:26
Alignment explanation
Indices: 8682533--8682593 Score: 61
Period size: 27 Copynumber: 2.3 Consensus size: 26
8682523 ATTTTTAATA
8682533 AAATTTTAAAAATTTT-ATTATTAAAT
1 AAATTTTAAAAATTTTAATTA-TAAAT
* **
8682559 AAATATTGATCAATTTTAATTATAAAT
1 AAAT-TTTAAAAATTTTAATTATAAAT
8682586 AATATTTT
1 AA-ATTTT
8682594 TTATATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 4 0.14
27 18 0.64
28 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (26 bp):
AAATTTTAAAAATTTTAATTATAAAT
Found at i:8690995 original size:43 final size:44
Alignment explanation
Indices: 8690934--8691021 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 44
8690924 TATTGCTTGA
*
8690934 AGCATTGCTTGAAGTAAAAATG-AAATTACCATTAAGACTTACC
1 AGCATTGCTCGAAGTAAAAATGAAAATTACCATTAAGACTTACC
*
8690977 AGCATTGCTCGAAGTAAAAATGAAAATTACCATTACGACTTACC
1 AGCATTGCTCGAAGTAAAAATGAAAATTACCATTAAGACTTACC
8691021 A
1 A
8691022 CTGTAAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
43 21 0.50
44 21 0.50
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (44 bp):
AGCATTGCTCGAAGTAAAAATGAAAATTACCATTAAGACTTACC
Found at i:8692896 original size:27 final size:27
Alignment explanation
Indices: 8692856--8692907 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
8692846 CTAATGCCCA
*
8692856 ATTACATGTCTAATTTTAGTTTTCCCG
1 ATTACATGTCTAATGTTAGTTTTCCCG
*
8692883 ATTACATGTGTAATGTTAGTTTTCC
1 ATTACATGTCTAATGTTAGTTTTCC
8692908 TTTTCCCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (27 bp):
ATTACATGTCTAATGTTAGTTTTCCCG
Found at i:8695316 original size:25 final size:25
Alignment explanation
Indices: 8695288--8695336 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
8695278 ACAGTTGATG
*
8695288 CTGATTCTCAGATTAAAGACGGTGT
1 CTGATTCTCAGATAAAAGACGGTGT
8695313 CTGATTCTCAGATAAAAGACGGTG
1 CTGATTCTCAGATAAAAGACGGTG
8695337 ACAAAGGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (25 bp):
CTGATTCTCAGATAAAAGACGGTGT
Found at i:8711837 original size:12 final size:13
Alignment explanation
Indices: 8711812--8711865 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 13
8711802 TTTATTAAAA
8711812 TTATTTATAATTT
1 TTATTTATAATTT
8711825 TTATTTA-AATTT
1 TTATTTATAATTT
* * *
8711837 TAAATTATAA-TA
1 TTATTTATAATTT
*
8711849 TT-TTTATATTTT
1 TTATTTATAATTT
8711861 TTATT
1 TTATT
8711866 CATATCAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
11 5 0.16
12 15 0.48
13 11 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTATAATTT
Found at i:8714633 original size:2 final size:2
Alignment explanation
Indices: 8714626--8714668 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8714616 TTAAGGCATT
8714626 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
8714668 A
1 A
8714669 AAATATCTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:8723721 original size:33 final size:33
Alignment explanation
Indices: 8723684--8723752 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
8723674 TCAACAATTC
* *
8723684 AACTGATCGTCAGCCCA-CGTTTTCAATCCACCT
1 AACTGATCATCAGCCCATC-TTGTCAATCCACCT
*
8723717 AACTGATCATCAGCCCATCTTGTCAATCCACTT
1 AACTGATCATCAGCCCATCTTGTCAATCCACCT
8723750 AAC
1 AAC
8723753 ACTTCAACTG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.35, G:0.10, T:0.28
Consensus pattern (33 bp):
AACTGATCATCAGCCCATCTTGTCAATCCACCT
Found at i:8728299 original size:34 final size:34
Alignment explanation
Indices: 8728260--8728329 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
8728250 GAAATGGGCT
8728260 CAGAAGAAAATAAAAAAGTTAATGAAAACCGCAA
1 CAGAAGAAAATAAAAAAGTTAATGAAAACCGCAA
* *
8728294 CAGAAGAAAATGAAAGAGTTAATGAAAACCGCAA
1 CAGAAGAAAATAAAAAAGTTAATGAAAACCGCAA
8728328 CA
1 CA
8728330 AGAGTTCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.11
Consensus pattern (34 bp):
CAGAAGAAAATAAAAAAGTTAATGAAAACCGCAA
Found at i:8734098 original size:10 final size:9
Alignment explanation
Indices: 8734072--8734097 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8734062 TGAAAAGTAT
8734072 AAAATTTTA
1 AAAATTTTA
8734081 AAAATTTTA
1 AAAATTTTA
8734090 AAAATTTT
1 AAAATTTT
8734098 TTTTTATATT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AAAATTTTA
Found at i:8734123 original size:15 final size:16
Alignment explanation
Indices: 8734102--8734165 Score: 64
Period size: 15 Copynumber: 4.2 Consensus size: 16
8734092 AATTTTTTTT
8734102 TATATTTATTAAATAAA
1 TATA-TTATTAAATAAA
8734119 TAT-TT-TT-AATAAA
1 TATATTATTAAATAAA
* *
8734132 TATATTAATAAA-AAT
1 TATATTATTAAATAAA
*
8734147 TTTATTATTAAATAAA
1 TATATTATTAAATAAA
8734163 TAT
1 TAT
8734166 CGATCATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
13 9 0.24
14 4 0.11
15 15 0.41
16 6 0.16
17 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATATTATTAAATAAA
Found at i:8734131 original size:13 final size:13
Alignment explanation
Indices: 8734103--8734149 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
8734093 ATTTTTTTTT
8734103 ATATTTATTAAATAA
1 ATATTT-TT-AATAA
8734118 ATATTTTTAATAA
1 ATATTTTTAATAA
*
8734131 ATA-TATTAATAA
1 ATATTTTTAATAA
*
8734143 AAATTTT
1 ATATTTT
8734150 ATTATTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
12 10 0.36
13 10 0.36
14 2 0.07
15 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATATTTTTAATAA
Found at i:8742654 original size:17 final size:17
Alignment explanation
Indices: 8742628--8742663 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
8742618 TTCTTGGGTC
8742628 TTAATCTCTTGTTA-GT
1 TTAATCTCTTGTTATGT
8742644 TTAATTCTCTTGTTATGT
1 TTAA-TCTCTTGTTATGT
8742662 TT
1 TT
8742664 TCTTATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 10 0.56
18 4 0.22
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (17 bp):
TTAATCTCTTGTTATGT
Found at i:8747362 original size:17 final size:17
Alignment explanation
Indices: 8747340--8747380 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
8747330 TTGTAGTGAA
8747340 TATATTAA-AATAAAAAT
1 TATATTAACAA-AAAAAT
8747357 TATATTAACAAAAAAAT
1 TATATTAACAAAAAAAT
*
8747374 TAAATTA
1 TATATTA
8747381 TTTAATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
TATATTAACAAAAAAAT
Found at i:8747688 original size:17 final size:17
Alignment explanation
Indices: 8747666--8747706 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8747656 AATTATTAAA
8747666 TATATTAA-AATAAAAAT
1 TATATTAACAA-AAAAAT
8747683 TATATTAACAAAAAAAT
1 TATATTAACAAAAAAAT
8747700 TAT-TTAA
1 TATATTAA
8747707 TATTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.17
17 17 0.74
18 2 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TATATTAACAAAAAAAT
Found at i:8751595 original size:2 final size:2
Alignment explanation
Indices: 8751588--8751612 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8751578 TTCTGCTATG
8751588 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8751613 GATTTATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8758223 original size:13 final size:14
Alignment explanation
Indices: 8758205--8758233 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8758195 ATGATCTAAA
8758205 TAAAATA-TATAAT
1 TAAAATATTATAAT
8758218 TAAAATATTATAAT
1 TAAAATATTATAAT
8758232 TA
1 TA
8758234 TATAAGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAATATTATAAT
Found at i:8764608 original size:29 final size:30
Alignment explanation
Indices: 8764559--8764627 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 30
8764549 AATTATATGT
8764559 TATTTTTTATTGATATGAAAA-TATAAAATA
1 TATTTTTTATT-ATATGAAAATTATAAAATA
* * *
8764589 TATTTTTTAATT-TATTAAAATTTTAAATTA
1 TATTTTTT-ATTATATGAAAATTATAAAATA
8764619 TATTATTTT
1 TATT-TTTT
8764628 TCATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 7 0.21
30 19 0.58
31 7 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (30 bp):
TATTTTTTATTATATGAAAATTATAAAATA
Found at i:8764635 original size:25 final size:24
Alignment explanation
Indices: 8764598--8764665 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
8764588 ATATTTTTTA
* *
8764598 ATTTATTAAAATTTTAAATTATATT
1 ATTT-TTATAATTTTAAATTATACT
**
8764623 ATTTTTCATAATTTTTATTTTATACT
1 ATTTTT-ATAA-TTTTAAATTATACT
8764649 ATTTTTATATATTTTAA
1 ATTTTTATA-ATTTTAA
8764666 CTGTATGGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.06
25 15 0.43
26 18 0.51
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTATAATTTTAAATTATACT
Found at i:8765889 original size:19 final size:19
Alignment explanation
Indices: 8765865--8765908 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8765855 TTGATAATTT
*
8765865 AAAATAT-AATATATTATGA
1 AAAATATAAATATAATAT-A
8765884 AAAATATAAATATAATATA
1 AAAATATAAATATAATATA
8765903 AAAATA
1 AAAATA
8765909 ATATAAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAATATAAATATAATATA
Found at i:8765913 original size:16 final size:17
Alignment explanation
Indices: 8765858--8765922 Score: 69
Period size: 16 Copynumber: 3.7 Consensus size: 17
8765848 TGTAAGTTTG
*
8765858 ATAATTTAAAATATAAT
1 ATAATATAAAATATAAT
*
8765875 ATATTATGAAAAATATAAAT
1 ATAATAT--AAAATAT-AAT
8765895 ATAATATAAAA-ATAAT
1 ATAATATAAAATATAAT
*
8765911 ATAAGATAAAAT
1 ATAATATAAAAT
8765923 TTTAATGAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 13 0.32
17 7 0.17
18 4 0.10
19 7 0.17
20 9 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
ATAATATAAAATATAAT
Found at i:8771949 original size:21 final size:20
Alignment explanation
Indices: 8771925--8771975 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
8771915 ATAAAATTTA
**
8771925 AATTTAATTTGATAATTATCT
1 AATTTAATTTGA-AATTAAAT
* *
8771946 AATTAAATTTGAATTTAAAT
1 AATTTAATTTGAAATTAAAT
8771966 AATTTAATTT
1 AATTTAATTT
8771976 ATCAATCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (20 bp):
AATTTAATTTGAAATTAAAT
Found at i:8772164 original size:24 final size:24
Alignment explanation
Indices: 8772111--8772167 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
8772101 CAATTCGAGT
* *
8772111 TCAAATTTAAATTCAAACATATAA
1 TCAAATTTAAAATCAAACATAGAA
* *
8772135 TTAAATTTAAAAT-AAATATGAGAA
1 TCAAATTTAAAATCAAACAT-AGAA
8772159 TCAAATTTA
1 TCAAATTTA
8772168 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
TCAAATTTAAAATCAAACATAGAA
Found at i:8772317 original size:7 final size:6
Alignment explanation
Indices: 8772220--8772313 Score: 70
Period size: 6 Copynumber: 15.7 Consensus size: 6
8772210 ATTTTTATTA
* ** * *
8772220 TAAA-T TAAATT TAAATT TAAAAAT TAAAAA TATA-T CAAATT TAAA-T
1 TAAATT TAAATT TAAATT T-AAATT TAAATT TAAATT TAAATT TAAATT
*
8772266 TAAATTT TAAATAA TAAATTT TAAA-T TAAATT TAAATT TAAATT TAAA
1 TAAA-TT TAAAT-T TAAA-TT TAAATT TAAATT TAAATT TAAATT TAAA
8772314 ATTTTTATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
5 16 0.22
6 37 0.51
7 18 0.25
8 1 0.01
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Done.