Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168049.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_30, 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: 11202444
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 44000 characters in sequence are not A, C, G, or T
File 61 of 64
Found at i:10302332 original size:24 final size:24
Alignment explanation
Indices: 10302300--10302352 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
10302290 AAATTATAAT
**
10302300 AAAAATTA-TAGTAATTGTAATTAA
1 AAAAATTATTA-TAATTACAATTAA
10302324 AAAAATTATTATAATTACAATTAA
1 AAAAATTATTATAATTACAATTAA
10302348 AAAAA
1 AAAAA
10302353 ATTTAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (24 bp):
AAAAATTATTATAATTACAATTAA
Found at i:10302581 original size:72 final size:72
Alignment explanation
Indices: 10302500--10302641 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 72
10302490 TAAGGAAGAA
* * * *
10302500 AAAAGTTGAATTTCGATTCTTAA-AAGGAAGCCAATAATAATAATTACACTACAAGAAAATGAAT
1 AAAAGTTGAATTTCGATTCTTAACAA-GAAACAAATAATAATAATTACACTAAAAGAAAATGAAC
10302564 ATTTAACG
65 ATTTAACG
10302572 AAAAGTTGAATTTCGATTCTTAACAAGAAACAAATAATAATAATTACACTAAAAGAAAATGAACA
1 AAAAGTTGAATTTCGATTCTTAACAAGAAACAAATAATAATAATTACACTAAAAGAAAATGAACA
10302637 TTTAA
66 TTTAA
10302642 TAACCCTATT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
72 63 0.97
73 2 0.03
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (72 bp):
AAAAGTTGAATTTCGATTCTTAACAAGAAACAAATAATAATAATTACACTAAAAGAAAATGAACA
TTTAACG
Found at i:10309584 original size:21 final size:22
Alignment explanation
Indices: 10309549--10309601 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10309539 ACCCGACCTG
10309549 AAAATTAATAAAATAATA-TTTTT
1 AAAA-TAA-AAAATAATATTTTTT
*
10309572 AAAATAAAAAATATTATTTTTT
1 AAAATAAAAAATAATATTTTTT
*
10309594 AATATAAA
1 AAAATAAA
10309602 TATAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATAAAAAATAATATTTTTT
Found at i:10309604 original size:19 final size:18
Alignment explanation
Indices: 10309553--10309604 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
10309543 GACCTGAAAA
*
10309553 TTAATAAAATAATATTTT
1 TTAATAAAATATTATTTT
*
10309571 TAAAATAAAAAATATTATTTT
1 T-TAAT--AAAATATTATTTT
10309592 TTAATATAAATAT
1 TTAATA-AAATAT
10309605 AAAATTATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 3 0.11
21 13 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAAAATATTATTTT
Found at i:10319111 original size:22 final size:22
Alignment explanation
Indices: 10319086--10319136 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
10319076 TGAAATTTTA
*
10319086 AAATTTGAACCAAAATCGA-ATC
1 AAATTTCAACCAAAATC-ATATC
*
10319108 AAATTTTCATCCAAAATCATATC
1 AAA-TTTCAACCAAAATCATATC
10319131 AAATTT
1 AAATTT
10319137 TCATATGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (22 bp):
AAATTTCAACCAAAATCATATC
Found at i:10319123 original size:23 final size:23
Alignment explanation
Indices: 10319095--10319140 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10319085 AAAATTTGAA
10319095 CCAAAATCGA-ATCAAATTTTCAT
1 CCAAAATC-ATATCAAATTTTCAT
10319118 CCAAAATCATATCAAATTTTCAT
1 CCAAAATCATATCAAATTTTCAT
10319141 ATGAGTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (23 bp):
CCAAAATCATATCAAATTTTCAT
Found at i:10319220 original size:12 final size:11
Alignment explanation
Indices: 10319203--10319252 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
10319193 TTAAAATTTT
10319203 TTATTTTATATA
1 TTATTTTA-ATA
10319215 TTATTTTAATA
1 TTATTTTAATA
*
10319226 TAATTTTTAATA
1 TTA-TTTTAATA
*
10319238 -TATTTAAATA
1 TTATTTTAATA
10319248 -TATTT
1 TTATTT
10319253 AAGTATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 12 0.35
11 6 0.18
12 16 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTTAATA
Found at i:10319263 original size:16 final size:16
Alignment explanation
Indices: 10319242--10319277 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
10319232 TTAATATATT
*
10319242 TAAATATATTTAAGTA
1 TAAATATATTTAAATA
10319258 TAAATATATTTAAATA
1 TAAATATATTTAAATA
10319274 TAAA
1 TAAA
10319278 ATAATTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAAATATATTTAAATA
Found at i:10320276 original size:21 final size:22
Alignment explanation
Indices: 10320252--10320300 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10320242 AAAATTTATA
10320252 TATTAAT-AATCATAATTTTTT
1 TATTAATAAATCATAATTTTTT
** *
10320273 TATTTTTAAATTATAATTTTTT
1 TATTAATAAATCATAATTTTTT
10320295 TATTAA
1 TATTAA
10320301 AAAAATACTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTAATAAATCATAATTTTTT
Found at i:10328667 original size:56 final size:56
Alignment explanation
Indices: 10328579--10328686 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 56
10328569 TTTCACCCTC
* *
10328579 AAAGTAATATTATACTACTCAGTGAAGGTTCAATTTTTGCTGTGTAATTGAGTCTT
1 AAAGTAATATTACACTACTCAGTGAAGCTTCAATTTTTGCTGTGTAATTGAGTCTT
*
10328635 AAAGTAATATTACACTACTTAGTGAAGCTTCAATTTTTGCTGTGTAATTGAG
1 AAAGTAATATTACACTACTCAGTGAAGCTTCAATTTTTGCTGTGTAATTGAG
10328687 GCTAATAAGT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (56 bp):
AAAGTAATATTACACTACTCAGTGAAGCTTCAATTTTTGCTGTGTAATTGAGTCTT
Found at i:10342646 original size:16 final size:16
Alignment explanation
Indices: 10342625--10342660 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10342615 TTAATATATT
*
10342625 TAAATAGATTTAAGTA
1 TAAATAGATTTAAATA
*
10342641 TAAATATATTTAAATA
1 TAAATAGATTTAAATA
10342657 TAAA
1 TAAA
10342661 ATAATTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAATAGATTTAAATA
Found at i:10343659 original size:21 final size:22
Alignment explanation
Indices: 10343635--10343683 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
10343625 AAAATTTATA
10343635 TATTAAT-AATCATAATTTTTT
1 TATTAATAAATCATAATTTTTT
** * *
10343656 TATTTTTAAATTATGATTTTTT
1 TATTAATAAATCATAATTTTTT
10343678 TATTAA
1 TATTAA
10343684 AAAAAACATA
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTAATAAATCATAATTTTTT
Found at i:10356887 original size:14 final size:14
Alignment explanation
Indices: 10356868--10356901 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10356858 GAGTGAATCA
10356868 AATTTAAAAAAAAT
1 AATTTAAAAAAAAT
* *
10356882 ATTTTAAAAATAAT
1 AATTTAAAAAAAAT
10356896 AATTTA
1 AATTTA
10356902 GTGTTATTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTTAAAAAAAAT
Found at i:10364250 original size:26 final size:26
Alignment explanation
Indices: 10364220--10364270 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
10364210 ATTTATTAGT
*
10364220 TTTTAATTTTAAAATTTT-ATATATTA
1 TTTTAA-TATAAAATTTTAATATATTA
10364246 TTTTAATATAAAATTTTAATATATT
1 TTTTAATATAAAATTTTAATATATT
10364271 TAAATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
TTTTAATATAAAATTTTAATATATTA
Found at i:10364261 original size:13 final size:13
Alignment explanation
Indices: 10364229--10364268 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
10364219 TTTTTAATTT
10364229 TAAAATTTT-ATA
1 TAAAATTTTAATA
**
10364241 TATTATTTTAATA
1 TAAAATTTTAATA
10364254 TAAAATTTTAATA
1 TAAAATTTTAATA
10364267 TA
1 TA
10364269 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 7 0.30
13 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAAATTTTAATA
Found at i:10364261 original size:33 final size:33
Alignment explanation
Indices: 10364224--10364293 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
10364214 ATTAGTTTTT
* *
10364224 AATTTTAAAAT-TTTATATATTATTTTAATATAA
1 AATTTTAAAATATTTAAATA-AATTTTAATATAA
* *
10364257 AATTTTAATATATTTAAATAAATTTTGATATAA
1 AATTTTAAAATATTTAAATAAATTTTAATATAA
10364290 AATT
1 AATT
10364294 ATTATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 25 0.78
34 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (33 bp):
AATTTTAAAATATTTAAATAAATTTTAATATAA
Found at i:10364276 original size:23 final size:25
Alignment explanation
Indices: 10364229--10364276 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
10364219 TTTTTAATTT
*
10364229 TAAAATTTTATATATTATTTTAATA
1 TAAAATTTTATATATTATTTAAATA
10364254 TAAAATTTTA-ATA-TATTTAAATA
1 TAAAATTTTATATATTATTTAAATA
10364277 AATTTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAAAATTTTATATATTATTTAAATA
Found at i:10372740 original size:2 final size:2
Alignment explanation
Indices: 10372733--10372768 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
10372723 GCATGCACAT
10372733 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10372769 AACAGACAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10373079 original size:16 final size:16
Alignment explanation
Indices: 10373058--10373122 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
10373048 TATATATTAT
10373058 TATTTATTTATTTTTA
1 TATTTATTTATTTTTA
10373074 TATTTA--TATTTTT-
1 TATTTATTTATTTTTA
* **
10373087 TA--AAAATA-TTTTA
1 TATTTATTTATTTTTA
*
10373100 TATTTATTTAATTTTA
1 TATTTATTTATTTTTA
10373116 TATTTAT
1 TATTTAT
10373123 ATTTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
11 1 0.03
12 4 0.10
13 6 0.15
14 7 0.18
15 3 0.08
16 18 0.46
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATTTATTTTTA
Found at i:10373139 original size:43 final size:42
Alignment explanation
Indices: 10373049--10373143 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
10373039 CTTAATATAT
* * **
10373049 ATATATTATTATTTATTTATTTTTATATTTATATTTTTTAAAA
1 ATATTTTA-TATTTATTTAATTTTATATTTATATTTTAAAAAA
10373092 ATATTTTATATTTATTTAATTTTATATTTATA-TTTAAAAATTA
1 ATATTTTATATTTATTTAATTTTATATTTATATTTTAAAAA--A
10373135 ATATTTTAT
1 ATATTTTAT
10373144 TAATTTCAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
41 6 0.13
42 23 0.50
43 17 0.37
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (42 bp):
ATATTTTATATTTATTTAATTTTATATTTATATTTTAAAAAA
Found at i:10376396 original size:20 final size:21
Alignment explanation
Indices: 10376373--10376415 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10376363 TTATAGAATT
10376373 AATTTT-ATTTTTTAAAATAA
1 AATTTTAATTTTTTAAAATAA
*
10376393 AATTTTAAATTTTTTATAATAA
1 AATTTT-AATTTTTTAAAATAA
10376415 A
1 A
10376416 TCGAGATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
22 14 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTTTAATTTTTTAAAATAA
Found at i:10377030 original size:20 final size:19
Alignment explanation
Indices: 10376992--10377031 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10376982 AATTCATGAA
* *
10376992 TTTAATTAATATTTTAAAT
1 TTTAATTAATATATCAAAT
10377011 TTTAATTATATATATCAAAT
1 TTTAATTA-ATATATCAAAT
10377031 T
1 T
10377032 GAATTTGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATTAATATATCAAAT
Found at i:10377310 original size:3 final size:3
Alignment explanation
Indices: 10377302--10377340 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10377292 TCAAAATGAT
*
10377302 TTA TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10377341 ATGACTCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:10378035 original size:22 final size:22
Alignment explanation
Indices: 10378001--10378053 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10377991 ATAATATAAC
10378001 ATAAATATAATATA-AAATTTTA
1 ATAAATATAATATATAAA-TTTA
* *
10378023 ATAATTATTATATATAAATTTA
1 ATAAATATAATATATAAATTTA
10378045 ATAAA-ATAA
1 ATAAATATAA
10378054 AAAATAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 3 0.12
22 20 0.77
23 3 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATAAATATAATATATAAATTTA
Found at i:10378661 original size:15 final size:15
Alignment explanation
Indices: 10378638--10378702 Score: 51
Period size: 15 Copynumber: 4.2 Consensus size: 15
10378628 CAGTATAAAT
* *
10378638 ATTATTAAATAATTA
1 ATTAATAAATAATAA
10378653 ATTAATAAATTAA-AA
1 ATTAATAAA-TAATAA
10378668 ATTAATTAAATAATCAA
1 ATTAA-TAAATAAT-AA
* * *
10378685 ATTCACATATAATAA
1 ATTAATAAATAATAA
10378700 ATT
1 ATT
10378703 TTAAAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
15 22 0.54
16 13 0.32
17 6 0.15
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAATAAATAATAA
Found at i:10383202 original size:15 final size:15
Alignment explanation
Indices: 10383182--10383216 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10383172 CACTTGCTGA
10383182 CACTGTAAACGCAGC
1 CACTGTAAACGCAGC
*
10383197 CACTGTGAACGCAGC
1 CACTGTAAACGCAGC
10383212 CACTG
1 CACTG
10383217 CTGCCATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.23, T:0.14
Consensus pattern (15 bp):
CACTGTAAACGCAGC
Found at i:10384140 original size:22 final size:22
Alignment explanation
Indices: 10384115--10384160 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10384105 TTTTGACTTT
10384115 AATTT-ATTTAATATTAAAATTA
1 AATTTGATTTAATA-TAAAATTA
**
10384137 AATTTGATTTTTTATAAAATTA
1 AATTTGATTTAATATAAAATTA
10384159 AA
1 AA
10384161 GTTTCATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
AATTTGATTTAATATAAAATTA
Found at i:10396494 original size:9 final size:9
Alignment explanation
Indices: 10396480--10396512 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
10396470 GTATTTATCA
10396480 TTTATTTTT
1 TTTATTTTT
10396489 TTTATTTTT
1 TTTATTTTT
10396498 TTTATTTTT
1 TTTATTTTT
*
10396507 TATATT
1 TTTATT
10396513 AATTTTTAAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTATTTTT
Found at i:10396518 original size:18 final size:18
Alignment explanation
Indices: 10396480--10396518 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10396470 GTATTTATCA
* **
10396480 TTTATTTTTTTTATTTTT
1 TTTATTTTTTATATTAAT
10396498 TTTATTTTTTATATTAAT
1 TTTATTTTTTATATTAAT
10396516 TTT
1 TTT
10396519 TAATTTACAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTATTTTTTATATTAAT
Found at i:10397067 original size:21 final size:21
Alignment explanation
Indices: 10397043--10397095 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
10397033 GGGATGATAA
10397043 TGATTCAATTTAGATCAAATT
1 TGATTCAATTTAGATCAAATT
* * *
10397064 TGATTCGATTTGGATCGAATT
1 TGATTCAATTTAGATCAAATT
* *
10397085 TTATTTAATTT
1 TGATTCAATTT
10397096 TTTTATATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (21 bp):
TGATTCAATTTAGATCAAATT
Found at i:10397239 original size:21 final size:23
Alignment explanation
Indices: 10397198--10397242 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10397188 TCGGTTTCGA
*
10397198 TTTAATTTATTAATTTATTATTT
1 TTTAATTTATTAATATATTATTT
10397221 TTTAATTT-TT-ATATATTATTT
1 TTTAATTTATTAATATATTATTT
10397242 T
1 T
10397243 AATATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 2 0.10
23 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTAATTTATTAATATATTATTT
Found at i:10397244 original size:19 final size:17
Alignment explanation
Indices: 10397211--10397245 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
10397201 AATTTATTAA
10397211 TTTATTATTTTTTAATT
1 TTTATTATTTTTTAATT
10397228 TTTATATATTATTTTAAT
1 TTTAT-TATT-TTTTAAT
10397246 ATAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTATTATTTTTTAATT
Found at i:10398175 original size:13 final size:13
Alignment explanation
Indices: 10398157--10398183 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10398147 CAGTGGATAA
10398157 AGAAGTACACGAC
1 AGAAGTACACGAC
10398170 AGAAGTACACGAC
1 AGAAGTACACGAC
10398183 A
1 A
10398184 CAGGGTCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.22, G:0.22, T:0.07
Consensus pattern (13 bp):
AGAAGTACACGAC
Found at i:10398748 original size:28 final size:31
Alignment explanation
Indices: 10398681--10398748 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 31
10398671 TTAACTTTAA
10398681 TAATATATCAATTAATTTAAAAGATAATCAATT
1 TAATA-ATCAATTAATTTAAAAGATAAT-AATT
* * *
10398714 CATTAATCAATT-TTTTAAAA-ATAAT-ATT
1 TAATAATCAATTAATTTAAAAGATAATAATT
10398742 TAATAAT
1 TAATAAT
10398749 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
28 8 0.27
30 5 0.17
31 7 0.23
32 7 0.23
33 3 0.10
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (31 bp):
TAATAATCAATTAATTTAAAAGATAATAATT
Found at i:10398753 original size:22 final size:22
Alignment explanation
Indices: 10398726--10398770 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10398716 TTAATCAATT
10398726 TTTTAAAA-ATAATATTTAATAA
1 TTTTAAAATATAATATTT-ATAA
*
10398748 TTTTAAAATTTAATATTTATAA
1 TTTTAAAATATAATATTTATAA
10398770 T
1 T
10398771 ATTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAATATAATATTTATAA
Found at i:10398774 original size:16 final size:17
Alignment explanation
Indices: 10398734--10398774 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
10398724 TTTTTTAAAA
10398734 ATAATATTTAATAATTT
1 ATAATATTTAATAATTT
*
10398751 -TAAAATTTAAT-ATTT
1 ATAATATTTAATAATTT
10398766 ATAATATTT
1 ATAATATTT
10398775 TTTATTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAATATTTAATAATTT
Found at i:10399193 original size:11 final size:11
Alignment explanation
Indices: 10399177--10399217 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
10399167 ATTCGATGAT
10399177 ATAATATAAAA
1 ATAATATAAAA
10399188 ATAATATGAATAA
1 ATAATAT-AA-AA
*
10399201 AAAATATAAAA
1 ATAATATAAAA
10399212 ATAATA
1 ATAATA
10399218 AAATTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 14 0.54
12 4 0.15
13 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:10401092 original size:23 final size:22
Alignment explanation
Indices: 10401039--10401099 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
10401029 AATTCGATTA
* *
10401039 AATA-AAAATATAAAAATAATT
1 AATATAAAATTTAATAATAATT
*
10401060 AATTTAAAATTTTAATAATAATT
1 AATATAAAA-TTTAATAATAATT
10401083 -ATATATAAATTTAATAA
1 AATATA-AAATTTAATAA
10401100 AATAAAAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
21 3 0.09
22 16 0.48
23 14 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAAAATTTAATAATAATT
Found at i:10401098 original size:22 final size:21
Alignment explanation
Indices: 10401039--10401099 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
10401029 AATTCGATTA
* * *
10401039 AATAAAAATATAAAAATAATT
1 AATATAAATTTAATAATAATT
*
10401060 AATTTAAAATTTTAATAATAATT
1 AATAT-AAA-TTTAATAATAATT
10401083 ATATATAAATTTAATAA
1 A-ATATAAATTTAATAA
10401100 AATAAAAAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.09
22 11 0.34
23 15 0.47
24 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
AATATAAATTTAATAATAATT
Found at i:10401185 original size:32 final size:32
Alignment explanation
Indices: 10401149--10401214 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
10401139 TATGACATGT
* *
10401149 AATTTTTATATAAGATATAATATTAATATATA
1 AATTTTAATATAAGATATAATATAAATATATA
*** *
10401181 AATTTTAATATTTTATATGATATAAATATATA
1 AATTTTAATATAAGATATAATATAAATATATA
10401213 AA
1 AA
10401215 AATAGAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (32 bp):
AATTTTAATATAAGATATAATATAAATATATA
Found at i:10401842 original size:18 final size:19
Alignment explanation
Indices: 10401819--10401859 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10401809 AATTGAATGA
*
10401819 TATATTTTTATTA-GTTTT
1 TATATTTTTATTACATTTT
*
10401837 TATATTTTTTTTACATTTT
1 TATATTTTTATTACATTTT
10401856 TATA
1 TATA
10401860 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TATATTTTTATTACATTTT
Found at i:10401920 original size:22 final size:22
Alignment explanation
Indices: 10401890--10401931 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10401880 TATATAAATC
*
10401890 TATTTAAAT-ATATTAAAAATTT
1 TATTAAAATAATA-TAAAAATTT
10401912 TATTAAAATAATATAAAAAT
1 TATTAAAATAATATAAAAAT
10401932 AAAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTAAAATAATATAAAAATTT
Found at i:10404409 original size:15 final size:15
Alignment explanation
Indices: 10404389--10404418 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10404379 ATGAACTAAG
10404389 ATAAAATATCTTCCC
1 ATAAAATATCTTCCC
10404404 ATAAAATATCTTCCC
1 ATAAAATATCTTCCC
10404419 TCTAATGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.27, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAAATATCTTCCC
Found at i:10405341 original size:20 final size:20
Alignment explanation
Indices: 10405312--10405349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10405302 AGTATTTCAT
10405312 AATAAAATAAA-TTTAAACA
1 AATAAAATAAACTTTAAACA
10405331 AATATAAATAAACTTTAAA
1 AATA-AAATAAACTTTAAA
10405350 ATAAAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAATAAACTTTAAACA
Found at i:10405433 original size:22 final size:22
Alignment explanation
Indices: 10405402--10405448 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
10405392 TATTAAAAAC
*
10405402 AAATAGTAAATGAACAACAAAT
1 AAATAATAAATGAACAACAAAT
* * *
10405424 AAATAATAAATTAATAATAAAT
1 AAATAATAAATGAACAACAAAT
10405446 AAA
1 AAA
10405449 CAAATTTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (22 bp):
AAATAATAAATGAACAACAAAT
Found at i:10405656 original size:2 final size:2
Alignment explanation
Indices: 10405651--10405692 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
10405641 TCTCTCTCTC
*
10405651 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10405692 T
1 T
10405693 CTTGATTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10412297 original size:13 final size:13
Alignment explanation
Indices: 10412279--10412303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10412269 TTAAATCATA
10412279 TTATTTTTATATT
1 TTATTTTTATATT
10412292 TTATTTTTATAT
1 TTATTTTTATAT
10412304 AATATTAATA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTTTATATT
Found at i:10412888 original size:14 final size:13
Alignment explanation
Indices: 10412868--10412905 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
10412858 TAAATATTAA
10412868 TTTTAATAAAATT
1 TTTTAATAAAATT
10412881 TATTTAATATAAATT
1 T-TTTAATA-AAATT
10412896 TTTT-ATAAAA
1 TTTTAATAAAA
10412906 AATTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 3 0.13
13 4 0.17
14 10 0.43
15 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTAATAAAATT
Found at i:10416822 original size:2 final size:2
Alignment explanation
Indices: 10416815--10416845 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10416805 ATGAGAGTGG
10416815 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
10416846 AACATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:10416888 original size:92 final size:92
Alignment explanation
Indices: 10416737--10416917 Score: 344
Period size: 92 Copynumber: 2.0 Consensus size: 92
10416727 ATATATGTAT
*
10416737 ACACACACACACACACACACACATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCAT
1 ACACACACACACACACAAACACATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCAT
10416802 GTCATGAGAGTGGACACACACACACAC
66 GTCATGAGAGTGGACACACACACACAC
*
10416829 ACACACACACACACACAAACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCAT
1 ACACACACACACACACAAACACATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCAT
10416894 GTCATGAGAGTGGACACACACACA
66 GTCATGAGAGTGGACACACACACA
10416918 TATATAAAAC
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.17
Consensus pattern (92 bp):
ACACACACACACACACAAACACATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCAT
GTCATGAGAGTGGACACACACACACAC
Found at i:10416919 original size:68 final size:68
Alignment explanation
Indices: 10416839--10416977 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
10416829 ACACACACAC
*
10416839 ACACACAAACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATATTCATGTCATGAGAG
1 ACACACAAACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATAGTCATGTCATGAGAG
10416904 TGG
66 TGG
*
10416907 ACACACACACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATAGTCATGTCATGAGAG
1 ACACACAAACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATAGTCATGTCATGAGAG
10416972 TGG
66 TGG
10416975 ACA
1 ACA
10416978 TACCCTTTCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (68 bp):
ACACACAAACATATATAAAACAAATGAGGGAATGGTCATTAAACTAGATAGTCATGTCATGAGAG
TGG
Found at i:10418162 original size:52 final size:52
Alignment explanation
Indices: 10418097--10418201 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
10418087 TGGACGAGAA
* * *
10418097 GACTTGAAAAAGAAGAATTTTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGAAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTT
* * * * *
10418149 GACTTGCAGAAGAAGAATTCTAAGAGAAAAAAGATTTTTAGTAGGCAAGTTT
1 GACTTGAAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTT
10418201 G
1 G
10418202 TATAGTTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.44, C:0.07, G:0.23, T:0.27
Consensus pattern (52 bp):
GACTTGAAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAGGCAAGTTT
Found at i:10421265 original size:22 final size:20
Alignment explanation
Indices: 10421237--10421298 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 20
10421227 TGATATTATT
10421237 TTTATTTTTTAAACTTATATA
1 TTTATTTTTTAAA-TTATATA
*
10421258 TTTAATTTTTAAAAATATTATATA
1 TTT-ATTTTT--TAA-ATTATATA
*
10421282 TTTATTTTGTAAATTAT
1 TTTATTTTTTAAATTAT
10421299 TAATAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
20 5 0.15
21 5 0.15
22 6 0.18
23 5 0.15
24 12 0.35
25 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTATTTTTTAAATTATATA
Found at i:10421793 original size:24 final size:24
Alignment explanation
Indices: 10421695--10421794 Score: 66
Period size: 24 Copynumber: 4.3 Consensus size: 24
10421685 AAAAAATATA
* *
10421695 AAAT-AAT-ATAATTTAAAATTTT
1 AAATAAATAATAATATATAATTTT
* *
10421717 -AAT-AATAATTATATATAAATTT
1 AAATAAATAATAATATATAATTTT
* * * *
10421739 AATTAAA-AATATATATTTCATATT
1 AAATAAATAATA-ATATATAATTTT
*
10421763 AATATAAATTATAATATATAATTTT
1 AA-ATAAATAATAATATATAATTTT
10421788 AAATAAA
1 AAATAAA
10421795 AAATTTAATA
Statistics
Matches: 57, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
21 6 0.11
22 11 0.19
23 5 0.09
24 17 0.30
25 15 0.26
26 3 0.05
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (24 bp):
AAATAAATAATAATATATAATTTT
Found at i:10423975 original size:19 final size:20
Alignment explanation
Indices: 10423951--10424004 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
10423941 TGTATTTATA
10423951 TTATATAAAATATTAA-AAT
1 TTATATAAAATATTAATAAT
* *
10423970 TTATAT-AATTATATAATATT
1 TTATATAAAATAT-TAATAAT
10423990 TTATATAAAA-ATTAA
1 TTATATAAAATATTAA
10424005 GTGTCGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 12 0.41
20 10 0.34
21 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAAATATTAATAAT
Found at i:10424109 original size:43 final size:43
Alignment explanation
Indices: 10424056--10424141 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
10424046 AAAAATTATG
10424056 TGTCGTATTTATCTTAGGTACTGTATTTTAGATTAATAAATCT
1 TGTCGTATTTATCTTAGGTACTGTATTTTAGATTAATAAATCT
10424099 TGTCGTATTTATCTTAGGTACTGTATTTTAGATTAATAAATCT
1 TGTCGTATTTATCTTAGGTACTGTATTTTAGATTAATAAATCT
10424142 GGTCACGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (43 bp):
TGTCGTATTTATCTTAGGTACTGTATTTTAGATTAATAAATCT
Found at i:10425731 original size:18 final size:18
Alignment explanation
Indices: 10425684--10425735 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
10425674 TAGATCAAAA
10425684 TTAAATTT-ATAATTTAT
1 TTAAATTTAATAATTTAT
**
10425701 TTAAAATAAAATAATATT-T
1 TT-AAATTTAATAAT-TTAT
10425720 TTAAATTTAATAATTT
1 TTAAATTTAATAATTT
10425736 TAATATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 4 0.14
18 14 0.50
19 8 0.29
20 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTAAATTTAATAATTTAT
Found at i:10437368 original size:22 final size:23
Alignment explanation
Indices: 10437294--10437370 Score: 70
Period size: 22 Copynumber: 3.3 Consensus size: 23
10437284 TATAATTTTT
10437294 ATTTTTATT-AAATTTATATATA
1 ATTTTTATTAAAATTTATATATA
* *
10437316 ATTTTTATTAAAATTTTAAATCATGTC
1 ATTTTTATTAAAA-TTT--AT-ATATA
10437343 ATTTTT-TTAAAATTCTATATAT-
1 ATTTTTATTAAAATT-TATATATA
10437365 ATTTTT
1 ATTTTT
10437371 GTTATATCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
22 15 0.33
23 6 0.13
24 5 0.11
25 2 0.04
26 9 0.20
27 9 0.20
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (23 bp):
ATTTTTATTAAAATTTATATATA
Found at i:10445004 original size:2 final size:2
Alignment explanation
Indices: 10444997--10445022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10444987 ATTTTCCCAC
10444997 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
10445023 AAACTACTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:10447650 original size:23 final size:24
Alignment explanation
Indices: 10447624--10447677 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
10447614 CAATTAATCG
* * *
10447624 ATTTTTTTATTTTA-TTTATTATA
1 ATTTTTATATATTATTTTAATATA
10447647 ATTTTTATATATTATTTTAATATA
1 ATTTTTATATATTATTTTAATATA
*
10447671 ATATTTA
1 ATTTTTA
10447678 ATACATTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTTATATATTATTTTAATATA
Found at i:10453345 original size:19 final size:20
Alignment explanation
Indices: 10453317--10453369 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
10453307 GATATAAAAA
*
10453317 TAAT-ATAATTTAAA-ATTT
1 TAATAATAATTTAAAGAATT
10453335 TAATAATAATTATAAATGAATT
1 TAATAATAATT-TAAA-GAATT
10453357 TAATAA-AATTTAA
1 TAATAATAATTTAA
10453370 TAAAATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.13
19 6 0.20
20 7 0.23
21 4 0.13
22 9 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
TAATAATAATTTAAAGAATT
Found at i:10453496 original size:39 final size:36
Alignment explanation
Indices: 10453413--10453505 Score: 89
Period size: 37 Copynumber: 2.5 Consensus size: 36
10453403 TATAATATGT
*
10453413 AATTTTTATATAAAATATAATAAATATATAAATTTT
1 AATTTTTATATAAAATATAATAAATATATAAATTTA
* *
10453449 AATATTTTATATAATATGAATACATAAGATAT-TATATTTA
1 AAT-TTTTATATAAAAT--ATA-ATAA-ATATATAAATTTA
* *
10453489 AATTTTTAAAAAAAATA
1 AATTTTTATATAAAATA
10453506 CTGTACCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
36 3 0.07
37 13 0.28
39 13 0.28
40 13 0.28
41 4 0.09
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (36 bp):
AATTTTTATATAAAATATAATAAATATATAAATTTA
Found at i:10459222 original size:22 final size:22
Alignment explanation
Indices: 10459194--10459239 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
10459184 TGGAGATAGG
10459194 ATAAAACTCATTGCACGACTTC
1 ATAAAACTCATTGCACGACTTC
*
10459216 ATAAAACTCGTTGCACGACTTC
1 ATAAAACTCATTGCACGACTTC
10459238 AT
1 AT
10459240 GCATACAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (22 bp):
ATAAAACTCATTGCACGACTTC
Found at i:10467395 original size:13 final size:14
Alignment explanation
Indices: 10467369--10467406 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
10467359 TTTAAATAAG
10467369 AAATAAAAATAATAT
1 AAAT-AAAATAATAT
*
10467384 GAATAAAA-AATAT
1 AAATAAAATAATAT
10467397 AAATAAAATA
1 AAATAAAATA
10467407 TAATTTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 12 0.60
14 5 0.25
15 3 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAAAATAATAT
Found at i:10467929 original size:3 final size:3
Alignment explanation
Indices: 10467921--10467968 Score: 87
Period size: 3 Copynumber: 15.7 Consensus size: 3
10467911 TTTTTAACAT
10467921 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
10467967 TT
1 TT
10467969 GACAATGAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10470699 original size:29 final size:29
Alignment explanation
Indices: 10470659--10470715 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
10470649 TTATAAAATA
*
10470659 TTTAATATGATATTTAAATTTA-AAATTTT
1 TTTAATAAGATATTT-AATTTATAAATTTT
10470688 TTTAATAAGATATTTAATTTATAAATTT
1 TTTAATAAGATATTTAATTTATAAATTT
10470716 ATTAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTAATAAGATATTTAATTTATAAATTTT
Found at i:10470857 original size:29 final size:30
Alignment explanation
Indices: 10470811--10470879 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
10470801 AATTAACAAA
10470811 TTTATAATTCAAACATCATATTAAAAATTT
1 TTTATAATTCAAACATCATATTAAAAATTT
* * * *
10470841 TTTA-AATTTAAATATCATTTTAAATATTT
1 TTTATAATTCAAACATCATATTAAAAATTT
*
10470870 TAATATAATT
1 T-TTATAATT
10470880 TAAAAACCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 22 0.69
30 6 0.19
31 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTATAATTCAAACATCATATTAAAAATTT
Found at i:10472761 original size:2 final size:2
Alignment explanation
Indices: 10472754--10472781 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10472744 AAATGGCTTT
10472754 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10472782 CACACACACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10473332 original size:24 final size:24
Alignment explanation
Indices: 10473292--10473338 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10473282 AATAATTTAA
* * *
10473292 AATATAATATGATAATACGATATG
1 AATATAATATAAAAATAAGATATG
10473316 AATATAATATAAAAATAAGATAT
1 AATATAATATAAAAATAAGATAT
10473339 AAAAGTGATA
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:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (24 bp):
AATATAATATAAAAATAAGATATG
Found at i:10478374 original size:26 final size:25
Alignment explanation
Indices: 10478338--10478399 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 25
10478328 GTTATGTTGA
* *
10478338 TAAGAATGAATATTTCGCTTGTAAG
1 TAAGATTGAATATTTCGATTGTAAG
* *
10478363 TAAGATTTGAATATTTCGATTTTAAT
1 TAAGA-TTGAATATTTCGATTGTAAG
10478389 TAAGATTGAAT
1 TAAGATTGAAT
10478400 TCGATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 11 0.34
26 21 0.66
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (25 bp):
TAAGATTGAATATTTCGATTGTAAG
Found at i:10488498 original size:14 final size:14
Alignment explanation
Indices: 10488457--10488505 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
10488447 CAATTATTGA
*
10488457 ATTAATTGAATTAT
1 ATTAATTGAATTTT
*
10488471 ATTATATT-ATTTTT
1 ATTA-ATTGAATTTT
10488485 ATTAATTGAATTTT
1 ATTAATTGAATTTT
*
10488499 TTTAATT
1 ATTAATT
10488506 TCAAAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 3 0.10
14 23 0.79
15 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (14 bp):
ATTAATTGAATTTT
Found at i:10492436 original size:2 final size:2
Alignment explanation
Indices: 10492429--10492462 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10492419 CTACTTAATG
10492429 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
10492463 TGAGAAAGAA
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:10495413 original size:16 final size:16
Alignment explanation
Indices: 10495389--10495455 Score: 50
Period size: 16 Copynumber: 4.4 Consensus size: 16
10495379 TTTTAATTAA
*
10495389 TTATTTAATTATATAT
1 TTATATAATTATATAT
* *
10495405 TTATATAATGATATTT
1 TTATATAATTATATAT
*
10495421 TTAAAT-ATT-TATAT
1 TTATATAATTATATAT
* * *
10495435 TTAAAAAATAATAT-T
1 TTATATAATTATATAT
10495450 TTATAT
1 TTATAT
10495456 TAAAAAAATA
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
14 9 0.23
15 9 0.23
16 21 0.54
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (16 bp):
TTATATAATTATATAT
Found at i:10495449 original size:20 final size:21
Alignment explanation
Indices: 10495424--10495465 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10495414 GATATTTTTA
*
10495424 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTAAAAAAAT
10495444 AATATTTTATATTAAAAAAAT
1 AATATTTTATATTAAAAAAAT
10495465 A
1 A
10495466 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATATTTTATATTAAAAAAAT
Found at i:10495465 original size:18 final size:20
Alignment explanation
Indices: 10495423--10495471 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
10495413 TGATATTTTT
10495423 AAATA-TTTATATTTAAAAA
1 AAATATTTTATATTTAAAAA
10495442 ATAATATTTTATA-TT-AAAA
1 A-AATATTTTATATTTAAAAA
10495461 AAATATTTTAT
1 AAATATTTTAT
10495472 TAATTTCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 6 0.21
21 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTTTATATTTAAAAA
Found at i:10500496 original size:11 final size:11
Alignment explanation
Indices: 10500472--10500501 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10500462 TCAAGTAAGT
10500472 AAAATTTG-AA
1 AAAATTTGAAA
10500482 AAAATTTGAAA
1 AAAATTTGAAA
10500493 AAAATTTGA
1 AAAATTTGA
10500502 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.30
Consensus pattern (11 bp):
AAAATTTGAAA
Found at i:10502312 original size:5 final size:5
Alignment explanation
Indices: 10502302--10502344 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
10502292 TTTAAATATG
*
10502302 ATAAT ATAAT ATAAAA ATAAT ATAAAT ATAAAT ATAAT ATAAT
1 ATAAT ATAAT AT-AAT ATAAT AT-AAT AT-AAT ATAAT ATAAT
10502345 TAAAATTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 19 0.56
6 15 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:10502329 original size:6 final size:6
Alignment explanation
Indices: 10502294--10502431 Score: 67
Period size: 6 Copynumber: 23.5 Consensus size: 6
10502284 TAAATAATTT
*
10502294 TAAATA TGATAATA T-AATA TAAAAA T-AATA TAAATA TAAATA T-AATA
1 TAAATA T-A-AATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
* * * * * * ** *
10502341 TAATTA -AAATT TTAATA AAAAT- TAAAAA TACATA TTTTATA TTAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA -TAAATA TAAATA
**
10502388 TAAAT- TATAATA TATAAT- TTTATA TAAATA T-AATA TAAATA TAA
1 TAAATA TA-AATA TA-AATA TAAATA TAAATA TAAATA TAAATA TAA
10502432 GAATTATTAA
Statistics
Matches: 99, Mismatches: 21, Indels: 24
0.69 0.15 0.17
Matches are distributed among these distances:
5 29 0.29
6 54 0.55
7 11 0.11
8 5 0.05
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.40
Consensus pattern (6 bp):
TAAATA
Found at i:10502338 original size:28 final size:31
Alignment explanation
Indices: 10502285--10502343 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 31
10502275 TATTTATATT
*
10502285 AAATAATTTTAAATATGATAATATAATATAA
1 AAATAATTATAAATATGATAATATAATATAA
10502316 AAATAA-TATAAATAT-A-AATATAATATAA
1 AAATAATTATAAATATGATAATATAATATAA
10502344 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.44
29 1 0.04
30 8 0.30
31 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
AAATAATTATAAATATGATAATATAATATAA
Found at i:10502340 original size:11 final size:11
Alignment explanation
Indices: 10502304--10502431 Score: 79
Period size: 11 Copynumber: 11.6 Consensus size: 11
10502294 TAAATATGAT
10502304 AATATAATATA
1 AATATAATATA
*
10502315 AAAATAATATA
1 AATATAATATA
10502326 AATATAA-ATA
1 AATATAATATA
10502336 TAATATAAT-TAA
1 -AATATAATAT-A
* *
10502348 AATTTTAATAAA
1 AA-TATAATATA
10502360 AAT-TAA-A-A
1 AATATAATATA
* * *
10502368 ATACATATTTTA
1 A-ATATAATATA
*
10502380 TAT-TAATATA
1 AATATAATATA
10502390 AATTATAATATA
1 AA-TATAATATA
* *
10502402 TAATTTTATATA
1 -AATATAATATA
10502414 AATATAATATA
1 AATATAATATA
10502425 AATATAA
1 AATATAA
10502432 GAATTATTAA
Statistics
Matches: 89, Mismatches: 16, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
8 2 0.02
9 2 0.02
10 14 0.16
11 45 0.51
12 24 0.27
13 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATAATATA
Found at i:10502386 original size:30 final size:30
Alignment explanation
Indices: 10502352--10502417 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
10502342 AATTAAAATT
10502352 TTAATAAAAATTAAAAATACAT-ATTTTATA
1 TTAATAAAAATT-AAAATACATAATTTTATA
* * *
10502382 TTAATATAAATTATAATATATAATTTTATA
1 TTAATAAAAATTAAAATACATAATTTTATA
*
10502412 TAAATA
1 TTAATA
10502418 TAATATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAATAAAAATTAAAATACATAATTTTATA
Found at i:10502418 original size:30 final size:28
Alignment explanation
Indices: 10502304--10502431 Score: 108
Period size: 28 Copynumber: 4.7 Consensus size: 28
10502294 TAAATATGAT
* **
10502304 AATATAATATAA-AAATAATATAAATATA
1 AATATAATATAATATATAAT-TTTATATA
*
10502332 AATATAATATAAT-TAAAATTTTA-ATA
1 AATATAATATAATATATAATTTTATATA
* * *
10502358 AAAATTAA-A-AATACAT-ATTTTATATT
1 AATA-TAATATAATATATAATTTTATATA
10502384 AATATAAATTATAATATATAATTTTATATA
1 AATAT-AA-TATAATATATAATTTTATATA
10502414 AATATAATATAA-ATATAA
1 AATATAATATAATATATAA
10502432 GAATTATTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
25 10 0.12
26 15 0.19
27 11 0.14
28 22 0.28
29 8 0.10
30 14 0.17
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (28 bp):
AATATAATATAATATATAATTTTATATA
Found at i:10502429 original size:17 final size:17
Alignment explanation
Indices: 10502302--10502431 Score: 87
Period size: 17 Copynumber: 7.9 Consensus size: 17
10502292 TTTAAATATG
*
10502302 ATAATAT-AATATAAAA
1 ATAATATAAATATAAAT
10502318 ATAATATAAATATAAAT
1 ATAATATAAATATAAAT
*
10502335 ATAATATAATTA-AAATT
1 ATAATATAAATATAAA-T
* * *
10502352 TTAATAAAAAT-TAAAA
1 ATAATATAAATATAAAT
* *
10502368 ATACATAT---TTTATAT
1 ATA-ATATAAATATAAAT
10502383 -TAATATAAATTATAATAT
1 ATAATATAAA-TATAA-AT
**
10502401 ATAAT-TTTATATAAAT
1 ATAATATAAATATAAAT
10502417 ATAATATAAATATAA
1 ATAATATAAATATAA
10502432 GAATTATTAA
Statistics
Matches: 86, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
13 4 0.05
14 3 0.03
15 3 0.03
16 19 0.22
17 49 0.57
18 4 0.05
19 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATATAAATATAAAT
Found at i:10514550 original size:22 final size:21
Alignment explanation
Indices: 10514525--10514589 Score: 52
Period size: 22 Copynumber: 3.3 Consensus size: 21
10514515 TCATGAATTT
10514525 TTAAATTTAATGTGTAATAATA
1 TTAAATTTAAT-TGTAATAATA
*
10514547 TT-AA-GTAATTGT-AT--T-
1 TTAAATTTAATTGTAATAATA
*
10514562 TTAAATTTTATATGTAATAATA
1 TTAAATTTAAT-TGTAATAATA
10514584 TTAAAT
1 TTAAAT
10514590 AAAAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 14
0.66 0.06 0.28
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 3 0.09
18 5 0.15
19 5 0.15
20 4 0.12
21 3 0.09
22 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (21 bp):
TTAAATTTAATTGTAATAATA
Found at i:10514609 original size:37 final size:37
Alignment explanation
Indices: 10514523--10514601 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
10514513 GTTCATGAAT
* * * ***
10514523 TTTTAAATTTAATGTGTAATAATATTAAGTAATTGTA
1 TTTTAAATTTTATATGTAATAATATTAAATAAAAATA
10514560 TTTTAAATTTTATATGTAATAATATTAAATAAAAATA
1 TTTTAAATTTTATATGTAATAATATTAAATAAAAATA
10514597 TTTTA
1 TTTTA
10514602 TGTTTTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.49
Consensus pattern (37 bp):
TTTTAAATTTTATATGTAATAATATTAAATAAAAATA
Found at i:10515410 original size:13 final size:13
Alignment explanation
Indices: 10515370--10515411 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
10515360 AAAAATCAAG
*
10515370 AATCAAATTCTCATA
1 AATCAAATT-ACA-A
10515385 AATCAAA-TACAA
1 AATCAAATTACAA
10515397 AATCAAATTACAA
1 AATCAAATTACAA
10515410 AA
1 AA
10515412 AATAAGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 8 0.32
13 9 0.36
14 1 0.04
15 7 0.28
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.24
Consensus pattern (13 bp):
AATCAAATTACAA
Found at i:10515591 original size:24 final size:24
Alignment explanation
Indices: 10515564--10515614 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
10515554 ACAAGACAGC
10515564 TGAATAGTCATCCATAACAGGTCA
1 TGAATAGTCATCCATAACAGGTCA
10515588 TGAATAGTCATCCATAACAGGTCA
1 TGAATAGTCATCCATAACAGGTCA
10515612 TGA
1 TGA
10515615 CTTTAGAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
TGAATAGTCATCCATAACAGGTCA
Found at i:10519347 original size:44 final size:44
Alignment explanation
Indices: 10519263--10519347 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
10519253 CAAGAGACCC
** *
10519263 ATTATTTTAAAATATATTAAATATTTAAAATATCTGAAAATCTT
1 ATTATTTTAAAATATATTAAATATTTAAAATAAATAAAAATCTT
*
10519307 ATTATTTTAAATATATTTTAAA-A-TTAAAATCAAATAAAAAT
1 ATTATTTTAAA-ATATATTAAATATTTAAAAT-AAATAAAAAT
10519348 AAATTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
43 7 0.20
44 19 0.54
45 9 0.26
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.44
Consensus pattern (44 bp):
ATTATTTTAAAATATATTAAATATTTAAAATAAATAAAAATCTT
Found at i:10521875 original size:26 final size:24
Alignment explanation
Indices: 10521845--10521893 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10521835 GTAAAATATT
*
10521845 AAAATTAATTATATTATATTTTATAA
1 AAAATT-A-TATATTATAATTTATAA
*
10521871 AAAATTATGTATTATAATTTATA
1 AAAATTATATATTATAATTTATA
10521894 TTGATATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 1 0.05
26 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AAAATTATATATTATAATTTATAA
Found at i:10525728 original size:2 final size:2
Alignment explanation
Indices: 10525723--10525752 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10525713 CTTAATCCTA
*
10525723 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10525753 TTTCTGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10526380 original size:192 final size:194
Alignment explanation
Indices: 10526048--10526428 Score: 572
Period size: 192 Copynumber: 2.0 Consensus size: 194
10526038 CCTGGTTGCC
* *
10526048 TAAAAGAAGAGCGTCTGTCATAATTAAAAAAAAAAAAATTCTATTTATTCTCAGAATTGATGATT
1 TAAAAGAAGAGCG-CTGTCATAATT-AAAAAAAAAAAATTCTACTTATTCTCAGAATTGAAGATT
* *
10526113 TTGATAATTATCTGCTCATCTTTTCCGTGGGATCAACACCGCAATCTATGGGCGGCAAGCATAGA
64 TTGATAATTATCTGCTCATCTTTTCCGTGGGATCAACAACACAATCTATGGGCGGCAAGCATAGA
* *
10526178 AAATACATGATTTGTGGTTTGATGTTTCTCTTTATTAGTTAATCGAAGTAACCTTTCTTTATTAG
129 AAAGACATGATTTGGGGTTTGATGTTTCTCTTTATTAGTTAATCGAAGTAACCTTTCTTTATTAG
10526243 T
194 T
*
10526244 TAAAAGAAGAGTC-CTGGTCATAATT-AAAAAAAAAAA-T-TACTTATTCTCATAATTGAAGATT
1 TAAAAGAAGAG-CGCT-GTCATAATTAAAAAAAAAAAATTCTACTTATTCTCAGAATTGAAGATT
* * * * *
10526305 TTGTTAATTATCTGCTCATTTTTTCCGTGGGATCAGCAACACAATCTATGGGCGGTATGCATAGA
64 TTGATAATTATCTGCTCATCTTTTCCGTGGGATCAACAACACAATCTATGGGCGGCAAGCATAGA
* *
10526370 AAAGACATGATTTGGGGTTTGATGTTTCTCTTTATTAGTTAATGGAAGTAACTTTTCTT
129 AAAGACATGATTTGGGGTTTGATGTTTCTCTTTATTAGTTAATCGAAGTAACCTTTCTT
10526429 GTTTGTCGTC
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
192 134 0.79
193 1 0.01
194 11 0.07
195 2 0.01
196 20 0.12
197 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (194 bp):
TAAAAGAAGAGCGCTGTCATAATTAAAAAAAAAAAATTCTACTTATTCTCAGAATTGAAGATTTT
GATAATTATCTGCTCATCTTTTCCGTGGGATCAACAACACAATCTATGGGCGGCAAGCATAGAAA
AGACATGATTTGGGGTTTGATGTTTCTCTTTATTAGTTAATCGAAGTAACCTTTCTTTATTAGT
Found at i:10526666 original size:23 final size:23
Alignment explanation
Indices: 10526640--10526693 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 23
10526630 TGTTTGATAC
10526640 ATATA-ATAATATAAATTATTAAA
1 ATATATATAATATAAATTA-TAAA
10526663 ATATAAATATAATATAAATTATAAA
1 ATAT--ATATAATATAAATTATAAA
10526688 ATATAT
1 ATATAT
10526694 TTAGTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.21
25 9 0.32
26 13 0.46
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATATATAATATAAATTATAAA
Found at i:10526678 original size:11 final size:12
Alignment explanation
Indices: 10526645--10526686 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 12
10526635 GATACATATA
10526645 ATAATATAAATT
1 ATAATATAAATT
10526657 ATTAAAATATAAA-T
1 A-T--AATATAAATT
10526671 ATAATATAAATT
1 ATAATATAAATT
10526683 ATAA
1 ATAA
10526687 AATATATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
11 8 0.31
12 6 0.23
13 2 0.08
14 2 0.08
15 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATAATATAAATT
Found at i:10526747 original size:18 final size:18
Alignment explanation
Indices: 10526726--10526774 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 18
10526716 CACGTTTATA
10526726 TAATATTATATTAAATAT
1 TAATATTATATTAAATAT
*
10526744 TAATATTA-A-TATA-AT
1 TAATATTATATTAAATAT
10526759 TAAT-TTAT-TTAAATAT
1 TAATATTATATTAAATAT
10526775 GATATGAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
14 3 0.12
15 9 0.35
16 5 0.19
17 1 0.04
18 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATATTATATTAAATAT
Found at i:10526840 original size:27 final size:26
Alignment explanation
Indices: 10526800--10526875 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
10526790 AATATACATT
*
10526800 AATAGATATGATTAATATAATATATAG
1 AATA-ATATGATTAAAATAATATATAG
* * *
10526827 AATATATATAATTAACATGAATATATAT
1 AATA-ATATGATTAAAAT-AATATATAG
*
10526855 AAGAATATGATTAAAATAATA
1 AATAATATGATTAAAATAATA
10526876 AATAATTATA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.10
27 26 0.63
28 11 0.27
ACGTcount: A:0.55, C:0.01, G:0.08, T:0.36
Consensus pattern (26 bp):
AATAATATGATTAAAATAATATATAG
Found at i:10527456 original size:20 final size:21
Alignment explanation
Indices: 10527433--10527474 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
10527423 TCGATATGAG
10527433 TAAATATAAA-ATAT-ATTTTT
1 TAAA-ATAAATATATAATTTTT
10527453 TAAAATAAATATATAATTTTT
1 TAAAATAAATATATAATTTTT
10527474 T
1 T
10527475 TATGTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 8 0.40
21 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAAATAAATATATAATTTTT
Found at i:10527458 original size:21 final size:21
Alignment explanation
Indices: 10527434--10527474 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10527424 CGATATGAGT
10527434 AAATATAAAATAT-ATTTTTTA
1 AAATA-AAAATATAATTTTTTA
*
10527455 AAATAAATATATAATTTTTT
1 AAATAAAAATATAATTTTTT
10527475 TATGTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATAAAAATATAATTTTTTA
Found at i:10528303 original size:13 final size:13
Alignment explanation
Indices: 10528285--10528335 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
10528275 TTAAATCGTA
10528285 TTATATTATATTT
1 TTATATTATATTT
*
10528298 TTATATT-T-TAT
1 TTATATTATATTT
* * *
10528309 TTATATCATGTTA
1 TTATATTATATTT
10528322 TTATATTATATTT
1 TTATATTATATTT
10528335 T
1 T
10528336 AAATTATCAA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
11 8 0.28
12 2 0.07
13 19 0.66
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (13 bp):
TTATATTATATTT
Found at i:10529326 original size:14 final size:13
Alignment explanation
Indices: 10529307--10529352 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 13
10529297 ATTAAAAGAA
10529307 TTTATTAATTAGTT
1 TTTATTAATTA-TT
*
10529321 TTTATTATTTA-T
1 TTTATTAATTATT
*
10529333 TAT-TTAATTATT
1 TTTATTAATTATT
10529345 TTTATTAA
1 TTTATTAA
10529353 AAAAATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
11 6 0.23
12 6 0.23
13 4 0.15
14 10 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (13 bp):
TTTATTAATTATT
Found at i:10529349 original size:21 final size:21
Alignment explanation
Indices: 10529306--10529350 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10529296 AATTAAAAGA
*
10529306 ATTTATTAATTAGTTTTTATT
1 ATTTATTAATTAATTTTTATT
*
10529327 ATTTATTATTTAATTATTT-TT
1 ATTTATTAATTAATT-TTTATT
10529348 ATT
1 ATT
10529351 AAAAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTTATTAATTAATTTTTATT
Found at i:10530851 original size:3 final size:3
Alignment explanation
Indices: 10530845--10530882 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
10530835 TTTTTTAAAG
*
10530845 AAT AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10530883 CAACAACAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10531117 original size:40 final size:39
Alignment explanation
Indices: 10531064--10531426 Score: 261
Period size: 40 Copynumber: 9.2 Consensus size: 39
10531054 TTTTTTAAAG
* * * *
10531064 TAAATTTGAAAGGCTCATCTCACCAGAGATAACGAACTT
1 TAAATTTAAAAGGCTCATTTAACCAGAGGTAACGAACTT
* * *
10531103 TAAATATTAAAAGGCT-ATTTTTA-CAGAAGGCAATGAACTT
1 TAAAT-TTAAAAGGCTCA-TTTAACCAG-AGGTAACGAACTT
* * * * * **
10531143 TAAATTCAAAAGGGCTCATTTAATCAAATGCAATAAACTT
1 TAAATTTAAAA-GGCTCATTTAACCAGAGGTAACGAACTT
* * *
10531183 TAAATGTTAAGAA-GCTC-TTCTCATCAGAGGCAACGAACTT
1 TAAAT-TTAA-AAGGCTCATT-TAACCAGAGGTAACGAACTT
* * * * *
10531223 TAAATTCAAAAGGGCTCTTTTAACTAAAGGTAACAAACTT
1 TAAATTTAAAA-GGCTCATTTAACCAGAGGTAACGAACTT
* *
10531263 TAAATGTTAAAAGGCTCATTTAACCAAAGGTAACAAACTT
1 TAAAT-TTAAAAGGCTCATTTAACCAGAGGTAACGAACTT
* *
10531303 TAAATGTTAAAAGGCTCATTTAACCAAAGGTAACAAACTT
1 TAAAT-TTAAAAGGCTCATTTAACCAGAGGTAACGAACTT
* * * * * *
10531343 TAAATTCAAAA-GCTCCTTTAACCAAATGCAATGAACTT
1 TAAATTTAAAAGGCTCATTTAACCAGAGGTAACGAACTT
* * *
10531381 TAAATATTAAAAGGCTCCA-CTAACCAGAGGCAATGAACTT
1 TAAAT-TTAAAAGGCT-CATTTAACCAGAGGTAACGAACTT
10531421 TAAATT
1 TAAATT
10531427 GCTCATTTAA
Statistics
Matches: 270, Mismatches: 38, Indels: 32
0.79 0.11 0.09
Matches are distributed among these distances:
38 29 0.11
39 30 0.11
40 195 0.72
41 14 0.05
42 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (39 bp):
TAAATTTAAAAGGCTCATTTAACCAGAGGTAACGAACTT
Found at i:10531279 original size:120 final size:117
Alignment explanation
Indices: 10531064--10531425 Score: 365
Period size: 120 Copynumber: 3.0 Consensus size: 117
10531054 TTTTTTAAAG
* * * * * *
10531064 TAAAT-TTGAAAGGCTCATCTCACCAGAGATAACGAACTTTAAATATTAAAAGGCTATTTTTACA
1 TAAATGTTAAAAGGCTCTTCTCACCAGAGGTAACGAACTTTAAAT-TCAAAAGGCTCTTTTAACA
* * * *
10531128 GAAGGCAATGAACTTTAAATTCAAAAGGGCTCATTTAATCAAATGCAATAAACTT
65 -AAGGCAATGAACTTTAAATTTAAAA-GGCTCATTTAACCAAAGGCAACAAACTT
* *
10531183 TAAATGTTAAGAA-GCTCTTCTCATCAGAGGCAACGAACTTTAAATTCAAAAGGGCTCTTTTAAC
1 TAAATGTTAA-AAGGCTCTTCTCACCAGAGGTAACGAACTTTAAATTCAAAA-GGCTCTTTTAAC
* ** *
10531247 TAAAGGTAACAAACTTTAAATGTTAAAAGGCTCATTTAACCAAAGGTAACAAACTT
64 -AAAGGCAATGAACTTTAAAT-TTAAAAGGCTCATTTAACCAAAGGCAACAAACTT
* * * *
10531303 TAAATGTTAAAAGGCTCATT-TAACCAAAGGTAACAAACTTTAAATTCAAAA-GCTCCTTTAACC
1 TAAATGTTAAAAGGCTC-TTCTCACCAGAGGTAACGAACTTTAAATTCAAAAGGCTCTTTTAA-C
* * * **
10531366 AAATGCAATGAACTTTAAATATTAAAAGGCTCCA-CTAACCAGAGGCAATGAACTT
64 AAAGGCAATGAACTTTAAAT-TTAAAAGGCT-CATTTAACCAAAGGCAACAAACTT
10531421 TAAAT
1 TAAAT
10531426 TGCTCATTTA
Statistics
Matches: 202, Mismatches: 32, Indels: 19
0.80 0.13 0.08
Matches are distributed among these distances:
118 56 0.28
119 15 0.07
120 121 0.60
121 10 0.05
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (117 bp):
TAAATGTTAAAAGGCTCTTCTCACCAGAGGTAACGAACTTTAAATTCAAAAGGCTCTTTTAACAA
AGGCAATGAACTTTAAATTTAAAAGGCTCATTTAACCAAAGGCAACAAACTT
Found at i:10531604 original size:38 final size:38
Alignment explanation
Indices: 10531546--10531631 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
10531536 AAGGCTCTTA
* * * **
10531546 AAATTAAAAAACTCCACTGACTAGAGGCAATAAACTTT
1 AAATTCAAAAACTCCACTGACCAAAGAAAATAAACTTT
* * *
10531584 AAATTCAAAACCTCCTCTGACCAAAGAAAATGAACTTT
1 AAATTCAAAAACTCCACTGACCAAAGAAAATAAACTTT
10531622 AAATTCAAAA
1 AAATTCAAAA
10531632 GGCTAAGAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.49, C:0.20, G:0.08, T:0.23
Consensus pattern (38 bp):
AAATTCAAAAACTCCACTGACCAAAGAAAATAAACTTT
Found at i:10543534 original size:24 final size:23
Alignment explanation
Indices: 10543488--10543551 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
10543478 AAAGAATTTA
10543488 TTAATTAATTTTTATTATGATTATT
1 TTAA-TAATTTTTATTATGATTA-T
*
10543513 TTAA-AATTTTTATTATTTATTAT
1 TTAATAATTTTTATTA-TGATTAT
*
10543536 TTAATTATTTTTATTA
1 TTAATAATTTTTATTA
10543552 AAAAATTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 16 0.46
24 15 0.43
25 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TTAATAATTTTTATTATGATTAT
Found at i:10543671 original size:3 final size:3
Alignment explanation
Indices: 10543663--10543698 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10543653 CAAAATATCA
10543663 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
10543699 TACATTGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10544522 original size:52 final size:51
Alignment explanation
Indices: 10544466--10544567 Score: 116
Period size: 51 Copynumber: 2.0 Consensus size: 51
10544456 AAAGATCCCC
* * * *
10544466 AGATTTC-GATGGCTGAAAAATTTAATGGTAATAAAAAAATTTAAATTTTTTT
1 AGATTTCAG-TGGC-GAAAAATTCAACGGTAATAAAAAAATTCAAACTTTTTT
* **
10544518 AGATTTCAGTGTCGAAAAATTCAACGGTCGTAAAAAAATTCAAACTTTTT
1 AGATTTCAGTGGCGAAAAATTCAACGGTAATAAAAAAATTCAAACTTTTT
10544568 CAATTTTCGA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
51 31 0.74
52 10 0.24
53 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (51 bp):
AGATTTCAGTGGCGAAAAATTCAACGGTAATAAAAAAATTCAAACTTTTTT
Found at i:10545357 original size:11 final size:11
Alignment explanation
Indices: 10545337--10545407 Score: 54
Period size: 11 Copynumber: 6.1 Consensus size: 11
10545327 GATTTTTTTT
*
10545337 ATTTAATTTAA
1 ATTTAAATTAA
10545348 A-TTAAATTTAA
1 ATTTAAA-TTAA
*
10545359 ATATTAAATATAT
1 AT-TTAAAT-TAA
* *
10545372 ATATATATTAA
1 ATTTAAATTAA
10545383 ATTTAAATTAA
1 ATTTAAATTAA
10545394 ATTTTAAATCTAA
1 A-TTTAAAT-TAA
10545407 A
1 A
10545408 AATAAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 4 0.09
11 18 0.38
12 12 0.26
13 13 0.28
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTTAAATTAA
Found at i:10545358 original size:6 final size:6
Alignment explanation
Indices: 10545337--10545407 Score: 51
Period size: 6 Copynumber: 12.2 Consensus size: 6
10545327 GATTTTTTTT
* * * *
10545337 ATTT-A ATTTAA A-TTAA ATTTAA ATATTAA ATATAT ATATAT A-TTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA ATTTAA
*
10545383 ATTTAA A-TTAA ATTTTAA ATCTAA A
1 ATTTAA ATTTAA A-TTTAA ATTTAA A
10545408 AATAAAAAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
5 17 0.31
6 27 0.49
7 11 0.20
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:10545503 original size:12 final size:12
Alignment explanation
Indices: 10545492--10545543 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 12
10545482 TTAATTATTT
10545492 TATTATAAATT-
1 TATTATAAATTA
10545503 TATT-TAAA-TA
1 TATTATAAATTA
*
10545513 TATTAAAAATTA
1 TATTATAAATTA
*
10545525 TATTA-AAATAA
1 TATTATAAATTA
10545536 TATT-TAAA
1 TATTATAAA
10545544 AAATTAATGA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
9 1 0.03
10 8 0.23
11 19 0.54
12 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TATTATAAATTA
Found at i:10545549 original size:25 final size:22
Alignment explanation
Indices: 10545492--10545545 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
10545482 TTAATTATTT
* *
10545492 TATTATAAATT-TATTTAAATA
1 TATTAAAAATTATATTAAAATA
10545513 TATTAAAAATTATATTAAAATAA
1 TATTAAAAATTATATTAAAAT-A
10545536 TATTTAAAAA
1 TA-TTAAAAA
10545546 ATTAATGAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.36
22 8 0.29
23 3 0.11
24 7 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATTAAAAATTATATTAAAATA
Found at i:10545557 original size:33 final size:32
Alignment explanation
Indices: 10545477--10545557 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
10545467 TAATTTTTTT
* * *
10545477 AAAAATTAATTATTTTATTATAAATTTATTTA
1 AAAAATTAATAATTATATTATAAATATATTTA
* *
10545509 AATATATTAAAAATTATATTA-AAATAATATTTA
1 AA-AAATTAATAATTATATTATAAAT-ATATTTA
10545542 AAAAATTAATGAATTA
1 AAAAATTAAT-AATTA
10545558 ATATGAACTG
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
32 12 0.31
33 27 0.69
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (32 bp):
AAAAATTAATAATTATATTATAAATATATTTA
Found at i:10547626 original size:2 final size:2
Alignment explanation
Indices: 10547619--10547643 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10547609 CCCAGTTGGT
10547619 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
10547644 GTGTGTGTGT
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:10549349 original size:18 final size:18
Alignment explanation
Indices: 10549308--10549365 Score: 89
Period size: 18 Copynumber: 3.2 Consensus size: 18
10549298 AATTAAAATT
10549308 AATATATTTTATTAAAAA
1 AATATATTTTATTAAAAA
10549326 ATATATATTTTATTAAAAA
1 A-ATATATTTTATTAAAAA
* *
10549345 AATATATGTTAATAAAAA
1 AATATATTTTATTAAAAA
10549363 AAT
1 AAT
10549366 TTAAATATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 19 0.51
19 18 0.49
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AATATATTTTATTAAAAA
Found at i:10549897 original size:22 final size:22
Alignment explanation
Indices: 10549861--10549902 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10549851 TATTTTTTAA
*
10549861 AATATTATTTTAATAAGATTTTT
1 AATATTATTTAAAT-AGATTTTT
10549884 AATA-TATTTAAATAGATTT
1 AATATTATTTAAATAGATTT
10549903 ATATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
AATATTATTTAAATAGATTTTT
Found at i:10549951 original size:18 final size:20
Alignment explanation
Indices: 10549928--10549969 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
10549918 ATTTTTATTT
10549928 TATAAAAT-TTAA-AAAATA
1 TATAAAATATTAATAAAATA
10549946 TAT-AAATATTAATAAAATA
1 TATAAAATATTAATAAAATA
10549965 TATAA
1 TATAA
10549970 TTCGGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 9 0.43
20 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATAAAATATTAATAAAATA
Found at i:10556305 original size:2 final size:2
Alignment explanation
Indices: 10556298--10556343 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
10556288 ATCTGATAAT
*
10556298 TA TA TA TA T- TA TA -A TA TA -A TA TA TA AA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10556337 TA TA TA T
1 TA TA TA T
10556344 GATTTCATGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:10556853 original size:30 final size:30
Alignment explanation
Indices: 10556800--10556859 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10556790 GATATGAATC
* *
10556800 TGAATCAATTTTTTTAAAATTAATTTGATT
1 TGAATCAATTTTATTAAAATTAATTCGATT
*
10556830 TGAATCGAATTTTATT-AATTTAATTCGATT
1 TGAATC-AATTTTATTAAAATTAATTCGATT
10556860 CATCGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (30 bp):
TGAATCAATTTTATTAAAATTAATTCGATT
Found at i:10558014 original size:8 final size:8
Alignment explanation
Indices: 10557990--10558027 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
10557980 CGGTTTATTG
*
10557990 ATTTTTAA
1 ATTTTAAA
10557998 ATTTT-AA
1 ATTTTAAA
10558005 ATTTTAAA
1 ATTTTAAA
10558013 ATTTTAAA
1 ATTTTAAA
10558021 ATTTTAA
1 ATTTTAA
10558028 TTTAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTTTAAA
Found at i:10558014 original size:15 final size:16
Alignment explanation
Indices: 10557990--10558027 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10557980 CGGTTTATTG
*
10557990 ATTTTTAAATTTT-AA
1 ATTTTAAAATTTTAAA
10558005 ATTTTAAAATTTTAAA
1 ATTTTAAAATTTTAAA
10558021 ATTTTAA
1 ATTTTAA
10558028 TTTAATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAAAATTTTAAA
Done.