Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 25 of 125
Found at i:4674029 original size:26 final size:26
Alignment explanation
Indices: 4673987--4674067 Score: 83
Period size: 28 Copynumber: 3.0 Consensus size: 26
4673977 CATTGATTGA
4673987 ATTTAAATATTAATTTTAATAAAATTT
1 ATTTAAATA-TAATTTTAATAAAATTT
*
4674014 ATTTAAGATA-AATTTTTTTATAAAATTT
1 ATTTAA-ATATAA--TTTTAATAAAATTT
* * *
4674042 TTTTAATTATAATTATAATAAAATTT
1 ATTTAAATATAATTTTAATAAAATTT
4674068 TCAATCTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
26 14 0.31
27 8 0.18
28 23 0.51
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (26 bp):
ATTTAAATATAATTTTAATAAAATTT
Found at i:4690419 original size:15 final size:15
Alignment explanation
Indices: 4690401--4690434 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4690391 CCCAAAAGAA
4690401 AAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAC
*
4690416 AAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAC
4690431 AAAA
1 AAAA
4690435 TATTACACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAC
Found at i:4690419 original size:17 final size:18
Alignment explanation
Indices: 4690394--4690429 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4690384 ATAATCACCC
*
4690394 AAAAGAAAAAAAAA-AAA
1 AAAACAAAAAAAAACAAA
4690411 AAAACAAAAAAAAACAAA
1 AAAACAAAAAAAAACAAA
4690429 A
1 A
4690430 CAAAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.92, C:0.06, G:0.03, T:0.00
Consensus pattern (18 bp):
AAAACAAAAAAAAACAAA
Found at i:4692273 original size:13 final size:13
Alignment explanation
Indices: 4692255--4692295 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
4692245 TTATTGATTT
*
4692255 TTATTTTTATATA
1 TTATTTTAATATA
4692268 TTATTTTAATATA
1 TTATTTTAATATA
**
4692281 AAATTTTAATATA
1 TTATTTTAATATA
4692294 TT
1 TT
4692296 TAAGTAGATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTATTTTAATATA
Found at i:4692358 original size:18 final size:18
Alignment explanation
Indices: 4692332--4692366 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4692322 GTTTTTATTT
4692332 TATAAAAATTAAAAAATA
1 TATAAAAATTAAAAAATA
*
4692350 TATATAAATTAAAAAAT
1 TATAAAAATTAAAAAAT
4692367 TTAGTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATTAAAAAATA
Found at i:4696488 original size:29 final size:29
Alignment explanation
Indices: 4696451--4696509 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
4696441 AGTTATTAAA
*
4696451 TTTATAATTTAAGTA-TCATATTAAAAATT
1 TTTAAAATTTAAGTACT-ATATTAAAAATT
*
4696480 TTTAAAATTTAAGTACTATATTAAATATT
1 TTTAAAATTTAAGTACTATATTAAAAATT
4696509 T
1 T
4696510 CATTATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 26 0.96
30 1 0.04
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (29 bp):
TTTAAAATTTAAGTACTATATTAAAAATT
Found at i:4698598 original size:12 final size:12
Alignment explanation
Indices: 4698581--4698614 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4698571 TATTGAGACC
4698581 TTTTCTTTTCTT
1 TTTTCTTTTCTT
*
4698593 TTTTCTTTTTTT
1 TTTTCTTTTCTT
4698605 TTTTCATTTT
1 TTTTC-TTTT
4698615 TTGTCCAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:4701650 original size:10 final size:10
Alignment explanation
Indices: 4701637--4701664 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4701627 TCTCTGTTTT
4701637 ATTTTGTTCC
1 ATTTTGTTCC
4701647 ATTTTGTTCC
1 ATTTTGTTCC
4701657 ATTTTGTT
1 ATTTTGTT
4701665 TCTCCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.14, G:0.11, T:0.64
Consensus pattern (10 bp):
ATTTTGTTCC
Found at i:4701947 original size:35 final size:35
Alignment explanation
Indices: 4701907--4701974 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
4701897 TACCACAAAA
4701907 TGATGAAATTATACTTGTTTAGTACTAATTGATAC
1 TGATGAAATTATACTTGTTTAGTACTAATTGATAC
* * *
4701942 TGATGAAATTGTACTTGTTTGGTACTAGTTGAT
1 TGATGAAATTATACTTGTTTAGTACTAATTGAT
4701975 TGTTTCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.44
Consensus pattern (35 bp):
TGATGAAATTATACTTGTTTAGTACTAATTGATAC
Found at i:4719241 original size:23 final size:24
Alignment explanation
Indices: 4719206--4719251 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
4719196 ACATATGTTT
*
4719206 ATAAATATACAAATTTATTTATTC
1 ATAAATATACAAACTTATTTATTC
4719230 ATAAAT-TACAAACTTATTTATT
1 ATAAATATACAAACTTATTTATT
4719252 AAGAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATACAAACTTATTTATTC
Found at i:4723868 original size:15 final size:16
Alignment explanation
Indices: 4723850--4723908 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 16
4723840 TATTAAATTA
4723850 AATTTAA-ATTTAAAT
1 AATTTAATATTTAAAT
*
4723865 AATTTAATTTTTCAAAT
1 AATTTAATATTT-AAAT
* * *
4723882 AAATTAA-GTTTAAGT
1 AATTTAATATTTAAAT
*
4723897 ATTTTAATATTT
1 AATTTAATATTT
4723909 GATTTAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
15 15 0.44
16 9 0.26
17 10 0.29
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (16 bp):
AATTTAATATTTAAAT
Found at i:4723903 original size:32 final size:36
Alignment explanation
Indices: 4723830--4723904 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 36
4723820 TTTAAACTCG
*
4723830 TTTTAATTATTATTAAATTAAATTTAAATTTAAATA
1 TTTTAATTATTATCAAATTAAATTTAAATTTAAATA
* * *
4723866 ATTTAATT-TT-TCAAA-TAAA-TTAAGTTTAAGTA
1 TTTTAATTATTATCAAATTAAATTTAAATTTAAATA
4723898 TTTTAAT
1 TTTTAAT
4723905 ATTTGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 17 0.50
33 4 0.12
34 4 0.12
35 2 0.06
36 7 0.21
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (36 bp):
TTTTAATTATTATCAAATTAAATTTAAATTTAAATA
Found at i:4723930 original size:22 final size:22
Alignment explanation
Indices: 4723897--4723939 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4723887 AAGTTTAAGT
* *
4723897 ATTTTAATATTTGATTTAAATA
1 ATTTTAATATTTAATTAAAATA
4723919 ATTTATAA-ATTTAATTAAAAT
1 ATTT-TAATATTTAATTAAAAT
4723940 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAATATTTAATTAAAATA
Found at i:4723989 original size:38 final size:38
Alignment explanation
Indices: 4723911--4724008 Score: 94
Period size: 38 Copynumber: 2.6 Consensus size: 38
4723901 TAATATTTGA
* **
4723911 TTTAA-ATA-ATTTATAAATTTAATTAAAATTTTAAAT
1 TTTAATATATATTTATTAATTTAATTAAAAACTTAAAT
* * *
4723947 TTTAATATGTTTTTATTAATTTAATTAAAAACTT-ATT
1 TTTAATATATATTTATTAATTTAATTAAAAACTTAAAT
* *
4723984 GTTTAATTTATATATATTAATTTAA
1 -TTTAATATATATTTATTAATTTAA
4724009 ATATGAACTT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
36 5 0.10
37 4 0.08
38 40 0.82
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (38 bp):
TTTAATATATATTTATTAATTTAATTAAAAACTTAAAT
Found at i:4725604 original size:21 final size:20
Alignment explanation
Indices: 4725566--4725604 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4725556 ATATAATAAA
*
4725566 ATATTTTATTAAGTAAATTT
1 ATATTTTATTAAATAAATTT
*
4725586 ATATTTTTTTAAATCAAAT
1 ATATTTTATTAAAT-AAAT
4725605 ATAAAAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATTTTATTAAATAAATTT
Found at i:4725741 original size:2 final size:2
Alignment explanation
Indices: 4725734--4725762 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4725724 CCCTTAAAAA
4725734 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
4725763 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4725991 original size:68 final size:68
Alignment explanation
Indices: 4725877--4726008 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
4725867 ATACATACAA
* ** * *
4725877 TTGTCAATGACTTATTAAGGGAAGAAAGAGTCATAATTTATGAGTGGAAGGTCACTCTCATCTAT
1 TTGTCAATGACTTATTAAGGGAAGAAAGACTCATAATAAATAAGTGGAAGATCACTCTCATCTAT
4725942 TGT
66 TGT
* * * * * *
4725945 TTGTCATTGATTTATTATGTGAAGAAAGACTCATAATAAATAAGTGGAAGATCATTTTCATCTA
1 TTGTCAATGACTTATTAAGGGAAGAAAGACTCATAATAAATAAGTGGAAGATCACTCTCATCTA
4726009 AGATTCATAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.36
Consensus pattern (68 bp):
TTGTCAATGACTTATTAAGGGAAGAAAGACTCATAATAAATAAGTGGAAGATCACTCTCATCTAT
TGT
Found at i:4727326 original size:13 final size:14
Alignment explanation
Indices: 4727310--4727342 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
4727300 AATATTTTTA
4727310 TATTTAAATA-TTT
1 TATTTAAATAGTTT
4727323 TA-TTAAATAGTTT
1 TATTTAAATAGTTT
4727336 TATTTAA
1 TATTTAA
4727343 TTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 7 0.39
13 7 0.39
14 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TATTTAAATAGTTT
Found at i:4729347 original size:2 final size:2
Alignment explanation
Indices: 4729342--4729377 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
4729332 AAGCAGAAGA
4729342 AT 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 AT
4729378 GTTTGGTTAC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4737064 original size:27 final size:27
Alignment explanation
Indices: 4737031--4737118 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
4737021 CGTGATCTGC
*
4737031 GACGTCGAATTGATAATGGAGATCTAT
1 GACGTCGAATAGATAATGGAGATCTAT
* * * * *
4737058 GATGTCGGATAGGTGATGGTGATCTAT
1 GACGTCGAATAGATAATGGAGATCTAT
* * * *
4737085 GACGTCGGAA-AGGTGAGGGTGATCTAT
1 GACGTC-GAATAGATAATGGAGATCTAT
4737112 GACGTCG
1 GACGTCG
4737119 GATGGGTGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 48 0.94
28 2 0.04
ACGTcount: A:0.26, C:0.11, G:0.35, T:0.27
Consensus pattern (27 bp):
GACGTCGAATAGATAATGGAGATCTAT
Found at i:4737126 original size:27 final size:27
Alignment explanation
Indices: 4737051--4737127 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
4737041 TGATAATGGA
* *
4737051 GATCTATGATGTCGGATAGGTGATGGT
1 GATCTATGACGTCGGATAGGTGAGGGT
*
4737078 GATCTATGACGTCGGAAAGGTGAGGGT
1 GATCTATGACGTCGGATAGGTGAGGGT
*
4737105 GATCTATGACGTCGGATGGGTGA
1 GATCTATGACGTCGGATAGGTGA
4737128 TCGGGATCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.23, C:0.10, G:0.39, T:0.27
Consensus pattern (27 bp):
GATCTATGACGTCGGATAGGTGAGGGT
Found at i:4740065 original size:15 final size:16
Alignment explanation
Indices: 4740026--4740055 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4740016 GGACGATAAT
4740026 AATTTAAATTTGATTG
1 AATTTAAATTTGATTG
4740042 AATTT-AATTTGATT
1 AATTTAAATTTGATT
4740056 TTTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (16 bp):
AATTTAAATTTGATTG
Found at i:4740238 original size:11 final size:10
Alignment explanation
Indices: 4740202--4740239 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
4740192 AAAATTAATT
4740202 TAATTTT-AA
1 TAATTTTAAA
4740211 TAATTTTAATA
1 TAATTTTAA-A
4740222 TAATTTTAAA
1 TAATTTTAAA
4740232 TAGATTTT
1 TA-ATTTT
4740240 TATATAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.27
10 4 0.15
11 15 0.58
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
TAATTTTAAA
Found at i:4740243 original size:20 final size:19
Alignment explanation
Indices: 4740202--4740246 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
4740192 AAAATTAATT
4740202 TAATTTTAATAATTTTAATA
1 TAATTTTAATAATTTT-ATA
4740222 TAATTTTAAATAGATTTTTATA
1 TAATTTT-AATA-A-TTTTATA
4740244 TAA
1 TAA
4740247 AATAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.32
21 4 0.18
22 7 0.32
23 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATTTTAATAATTTTATA
Found at i:4740452 original size:11 final size:11
Alignment explanation
Indices: 4740436--4740468 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
4740426 CTGTATATTA
4740436 TAATTTTAAAT
1 TAATTTTAAAT
4740447 TAATTTTAAAT
1 TAATTTTAAAT
*
4740458 T-TTTTTAAAT
1 TAATTTTAAAT
4740468 T
1 T
4740469 TTTTTCTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TAATTTTAAAT
Found at i:4740465 original size:10 final size:10
Alignment explanation
Indices: 4740439--4740473 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4740429 TATATTATAA
*
4740439 TTTTAAATTAA
1 TTTTAAATT-T
4740450 TTTTAAATTT
1 TTTTAAATTT
4740460 TTTTAAATTT
1 TTTTAAATTT
4740470 TTTT
1 TTTT
4740474 CTCATCAACC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:4741323 original size:458 final size:458
Alignment explanation
Indices: 4740466--4741388 Score: 1846
Period size: 458 Copynumber: 2.0 Consensus size: 458
4740456 ATTTTTTTAA
4740466 ATTTTTTTCTCATCAACCGTTAGCCCAAAAATACAAGAGTTTTTAAGGATATCTTCATATTTGTC
1 ATTTTTTTCTCATCAACCGTTAGCCCAAAAATACAAGAGTTTTTAAGGATATCTTCATATTTGTC
4740531 GAAAGGGACAAAACTGATACGAGGTTGTTTTGGTTACATAGAGTTGCAAGTAACGATCGACTCCA
66 GAAAGGGACAAAACTGATACGAGGTTGTTTTGGTTACATAGAGTTGCAAGTAACGATCGACTCCA
4740596 AAGACAAGACAAAAGATTACATCCATTGGATCAGGAAATGATGCGTACTATGCTCTTATTATTAT
131 AAGACAAGACAAAAGATTACATCCATTGGATCAGGAAATGATGCGTACTATGCTCTTATTATTAT
4740661 TCAGGGAAAATATGCTTTTGTCGTTTCCATCTTATATGTGGATATTAAAGGAGATTTTTTAAAAC
196 TCAGGGAAAATATGCTTTTGTCGTTTCCATCTTATATGTGGATATTAAAGGAGATTTTTTAAAAC
4740726 TAAAAAATAAGTTTTTTTTTTTTTTAATCATCTTAGAAAATTTTGATGATTCATCCAGCAAAGAT
261 TAAAAAATAAGTTTTTTTTTTTTTTAATCATCTTAGAAAATTTTGATGATTCATCCAGCAAAGAT
4740791 ATTTCGTCATTTAGGAAAAAAAATTCGTCATTTATGTATGATACTGAAGATAATTAGGCTAATGA
326 ATTTCGTCATTTAGGAAAAAAAATTCGTCATTTATGTATGATACTGAAGATAATTAGGCTAATGA
4740856 TTTAAATATTTACAGAATTCAAAAAGGGATTGTTGAATTATTAAAGAAAATAAGTTATTTGATTT
391 TTTAAATATTTACAGAATTCAAAAAGGGATTGTTGAATTATTAAAGAAAATAAGTTATTTGATTT
4740921 TTT
456 TTT
4740924 ATTTTTTTCTCATCAACCGTTAGCCCAAAAATACAAGAGTTTTTAAGGATATCTTCATATTTGTC
1 ATTTTTTTCTCATCAACCGTTAGCCCAAAAATACAAGAGTTTTTAAGGATATCTTCATATTTGTC
4740989 GAAAGGGACAAAACTGATACGAGGTTGTTTTGGTTACATAGAGTTGCAAGTAACGATCGACTCCA
66 GAAAGGGACAAAACTGATACGAGGTTGTTTTGGTTACATAGAGTTGCAAGTAACGATCGACTCCA
4741054 AAGACAAGACAAAAGATTACATCCATTGGATCAGGAAATGATGCGTACTATGCTCTTATTATTAT
131 AAGACAAGACAAAAGATTACATCCATTGGATCAGGAAATGATGCGTACTATGCTCTTATTATTAT
4741119 TCAGGGAAAATATGCTTTTGTCGTTTCCATCTTATATGTGGATATTAAAGGAGATTTTTTAAAAC
196 TCAGGGAAAATATGCTTTTGTCGTTTCCATCTTATATGTGGATATTAAAGGAGATTTTTTAAAAC
4741184 TAAAAAATAAGTTTTTTTTTTTTTTAATCATCTTAGAAAATTTTGATGATTCATCCAGCAAAGAT
261 TAAAAAATAAGTTTTTTTTTTTTTTAATCATCTTAGAAAATTTTGATGATTCATCCAGCAAAGAT
4741249 ATTTCGTCATTTAGGAAAAAAAATTCGTCATTTATGTATGATACTGAAGATAATTAGGCTAATGA
326 ATTTCGTCATTTAGGAAAAAAAATTCGTCATTTATGTATGATACTGAAGATAATTAGGCTAATGA
4741314 TTTAAATATTTACAGAATTCAAAAAGGGATTGTTGAATTATTAAAGAAAATAAGTTATTTGATTT
391 TTTAAATATTTACAGAATTCAAAAAGGGATTGTTGAATTATTAAAGAAAATAAGTTATTTGATTT
4741379 TTT
456 TTT
4741382 ATTTTTT
1 ATTTTTT
4741389 ATTTTTTTTT
Statistics
Matches: 465, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
458 465 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (458 bp):
ATTTTTTTCTCATCAACCGTTAGCCCAAAAATACAAGAGTTTTTAAGGATATCTTCATATTTGTC
GAAAGGGACAAAACTGATACGAGGTTGTTTTGGTTACATAGAGTTGCAAGTAACGATCGACTCCA
AAGACAAGACAAAAGATTACATCCATTGGATCAGGAAATGATGCGTACTATGCTCTTATTATTAT
TCAGGGAAAATATGCTTTTGTCGTTTCCATCTTATATGTGGATATTAAAGGAGATTTTTTAAAAC
TAAAAAATAAGTTTTTTTTTTTTTTAATCATCTTAGAAAATTTTGATGATTCATCCAGCAAAGAT
ATTTCGTCATTTAGGAAAAAAAATTCGTCATTTATGTATGATACTGAAGATAATTAGGCTAATGA
TTTAAATATTTACAGAATTCAAAAAGGGATTGTTGAATTATTAAAGAAAATAAGTTATTTGATTT
TTT
Found at i:4745439 original size:24 final size:23
Alignment explanation
Indices: 4745393--4745503 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 23
4745383 TTCTATATTT
*
4745393 TTTCATTAATACAA-TTCATAATTG
1 TTTCATTTATACAAGTT-A-AATTG
*
4745417 TTTCATTTATACAAGTGACAATT-
1 TTTCATTTATACAAGTTA-AATTG
*
4745440 TGTTCATATATACAAGTTTAAATTG
1 T-TTCATTTATACAAG-TTAAATTG
* * *
4745465 TATCATTTACACAAGTCTAAAATTA
1 TTTCATTTATACAAGT-T-AAATTG
*
4745490 TTTTATTTATACAA
1 TTTCATTTATACAA
4745504 ATAAAAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
23 2 0.03
24 47 0.68
25 20 0.29
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (23 bp):
TTTCATTTATACAAGTTAAATTG
Found at i:4747916 original size:9 final size:10
Alignment explanation
Indices: 4747884--4747908 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4747874 CCCCCATTGT
4747884 ATTTAAAGTA
1 ATTTAAAGTA
4747894 ATTTAAAGTA
1 ATTTAAAGTA
4747904 ATTTA
1 ATTTA
4747909 CATAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTTAAAGTA
Found at i:4748657 original size:20 final size:22
Alignment explanation
Indices: 4748624--4748664 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
4748614 CAAAGACGAT
*
4748624 ATTTCTTATGTAAA-AAATATA
1 ATTTCTTATATAAACAAATATA
4748645 ATTT-TTATATAAACAAATAT
1 ATTTCTTATATAAACAAATAT
4748665 TATGTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTCTTATATAAACAAATATA
Found at i:4749992 original size:51 final size:51
Alignment explanation
Indices: 4749928--4750030 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
4749918 TTTTTGGGAT
4749928 TCTTTGTGTGTTAGGGTTTGATCTTATTGAAACACTAGAGTTTTTGATTAA
1 TCTTTGTGTGTTAGGGTTTGATCTTATTGAAACACTAGAGTTTTTGATTAA
4749979 TCTTTGTGTGTTAGGGTTTGATCTTATTGAAACACTAGAGTTTTTGATTAA
1 TCTTTGTGTGTTAGGGTTTGATCTTATTGAAACACTAGAGTTTTTGATTAA
4750030 T
1 T
4750031 GTTATTGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (51 bp):
TCTTTGTGTGTTAGGGTTTGATCTTATTGAAACACTAGAGTTTTTGATTAA
Found at i:4759659 original size:31 final size:32
Alignment explanation
Indices: 4759638--4759716 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 32
4759628 ATCATAAAAA
* * *
4759638 TATATTTTATATTTTTATA-AAAATAT-AAAT
1 TATATTATATAATTTTATATAAAATATAAAAA
*
4759668 TATAATATATAATTTTCATATAAAATATAATAAA
1 TATATTATATAATTTT-ATATAAAATATAA-AAA
4759702 TATA-TATA-AATTTTA
1 TATATTATATAATTTTA
4759717 ATATTTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
30 13 0.32
31 4 0.10
32 13 0.32
33 5 0.12
34 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
TATATTATATAATTTTATATAAAATATAAAAA
Found at i:4759714 original size:32 final size:31
Alignment explanation
Indices: 4759615--4759716 Score: 90
Period size: 31 Copynumber: 3.3 Consensus size: 31
4759605 TAATTACAAT
*
4759615 TAAA-TTTA-ATAAAATCATAA-AAATATATTT
1 TAAATTTTATATAAAAT-ATAATAAATATA-TA
*
4759645 TATATTTT-TATAAAA-AT-ATAAATTATAATA
1 TAAATTTTATATAAAATATAATAAA-TAT-ATA
4759675 TATAATTTTCATATAAAATATAATAAATATATA
1 TA-AATTTT-ATATAAAATATAATAAATATATA
4759708 TAAATTTTA
1 TAAATTTTA
4759717 ATATTTTGTA
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
28 1 0.02
29 5 0.08
30 9 0.15
31 16 0.27
32 6 0.10
33 12 0.20
34 5 0.08
35 5 0.08
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAATTTTATATAAAATATAATAAATATATA
Found at i:4761761 original size:19 final size:18
Alignment explanation
Indices: 4761730--4761765 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4761720 ACTAGTTTCA
4761730 GTCTTGCTGTTGATTTAT
1 GTCTTGCTGTTGATTTAT
*
4761748 GTCTGTGCTTTTGATTTA
1 GTCT-TGCTGTTGATTTA
4761766 CAGCTTCGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.11, C:0.11, G:0.22, T:0.56
Consensus pattern (18 bp):
GTCTTGCTGTTGATTTAT
Found at i:4771249 original size:10 final size:10
Alignment explanation
Indices: 4771228--4771257 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
4771218 TTCATAAATA
4771228 TATTTGATTTT
1 TATTT-ATTTT
4771239 TATTTATTTT
1 TATTTATTTT
4771249 TATTTATTT
1 TATTTATTT
4771258 ATTAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.74
11 5 0.26
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (10 bp):
TATTTATTTT
Found at i:4771289 original size:37 final size:36
Alignment explanation
Indices: 4771248--4771345 Score: 94
Period size: 36 Copynumber: 2.7 Consensus size: 36
4771238 TTATTTATTT
4771248 TTATTTATTTATTAAATTTAATAAAT-AATTTTAAATA
1 TTATTTATTTATTAAATTTAATAAATGAA--TTAAATA
* * *
4771285 TTATTTATATATT-CATTTATTAAATGAATTAAATA
1 TTATTTATTTATTAAATTTAATAAATGAATTAAATA
* * *
4771320 -TAATTATTTTATTAATTTTTATAAAT
1 TTATTTA-TTTATTAAATTTAATAAAT
4771346 TTATTTACTA
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
34 5 0.10
35 12 0.24
36 18 0.37
37 14 0.29
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (36 bp):
TTATTTATTTATTAAATTTAATAAATGAATTAAATA
Found at i:4771360 original size:11 final size:11
Alignment explanation
Indices: 4771344--4771401 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
4771334 ATTTTTATAA
4771344 ATTTATTTACT
1 ATTTATTTACT
4771355 ATTTATTTAAAACT
1 ATTTATTT---ACT
*
4771369 CATTTATTTATT
1 -ATTTATTTACT
*
4771381 ATTTATTTATT
1 ATTTATTTACT
*
4771392 ATTAATTTAC
1 ATTTATTTAC
4771402 ATAATATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
11 27 0.68
12 2 0.05
14 3 0.08
15 8 0.20
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTTACT
Found at i:4771399 original size:26 final size:26
Alignment explanation
Indices: 4771328--4771400 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
4771318 TATAATTATT
* *
4771328 TTATTAATTT-TTATAAATTTATTTA
1 TTATTTATTTATTATTAATTTATTTA
* ** * *
4771353 CTATTTATTTAAAACTCATTTATTTA
1 TTATTTATTTATTATTAATTTATTTA
4771379 TTATTTATTTATTATTAATTTA
1 TTATTTATTTATTATTAATTTA
4771401 CATAATATTA
Statistics
Matches: 35, Mismatches: 12, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
25 8 0.23
26 27 0.77
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TTATTTATTTATTATTAATTTATTTA
Found at i:4771472 original size:21 final size:21
Alignment explanation
Indices: 4771446--4771502 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
4771436 CTAATCATAT
*
4771446 TTTGAAGTTAATTTATATTTA
1 TTTGAAGTTTATTTATATTTA
4771467 TTTGAA-TTTATTTATATTTA
1 TTTGAAGTTTATTTATATTTA
4771487 TTT-AAGATTTATTTAT
1 TTTGAAG-TTTATTTAT
4771503 TTAAATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 16 0.48
21 15 0.45
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTGAAGTTTATTTATATTTA
Found at i:4771479 original size:4 final size:4
Alignment explanation
Indices: 4771461--4771564 Score: 56
Period size: 4 Copynumber: 25.8 Consensus size: 4
4771451 AGTTAATTTA
* *
4771461 TATT TATT TGAATT TATT TA-- TATT TATT TA-A GATT TATT TATT TAAATT
1 TATT TATT T--ATT TATT TATT TATT TATT TATT TATT TATT TATT T--ATT
* * * * *
4771510 TATT TAAT TA-T AATT TATT TA-T TATT CATT AATA TATT TATT TATAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT-T
4771557 ATATT TAT
1 -TATT TAT
4771565 GAATATATTA
Statistics
Matches: 77, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
2 2 0.03
3 6 0.08
4 56 0.73
5 2 0.03
6 11 0.14
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (4 bp):
TATT
Found at i:4771501 original size:15 final size:14
Alignment explanation
Indices: 4771481--4771532 Score: 77
Period size: 15 Copynumber: 3.6 Consensus size: 14
4771471 AATTTATTTA
4771481 TATTTATTTAAGATT
1 TATTTATTTAA-ATT
4771496 TATTTATTTAAATT
1 TATTTATTTAAATT
*
4771510 TATTTAATTATAATT
1 TATTTATTTA-AATT
4771525 TATTTATT
1 TATTTATT
4771533 ATTCATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.35
15 22 0.65
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTTATTTAAATT
Found at i:4771502 original size:25 final size:24
Alignment explanation
Indices: 4771472--4771563 Score: 91
Period size: 25 Copynumber: 3.8 Consensus size: 24
4771462 ATTTATTTGA
4771472 ATTTATTTATATTTATTTAAGATTT
1 ATTTATTTATATTTATTTAA-ATTT
*
4771497 ATTTATTTAAATTTATTT-AATTAT
1 ATTTATTTATATTTATTTAAATT-T
* *
4771521 AATTTATTTATTATTCA-TT-AATAT
1 -ATTTATTTA-TATTTATTTAAATTT
*
4771545 ATTTATTTATATATATTTA
1 ATTTATTTATATTTATTTA
4771564 TGAATATATT
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.07
23 14 0.25
24 3 0.05
25 31 0.55
26 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (24 bp):
ATTTATTTATATTTATTTAAATTT
Found at i:4771510 original size:21 final size:21
Alignment explanation
Indices: 4771456--4771511 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
4771446 TTTGAAGTTA
* *
4771456 ATTTATATTTATTTGA-ATTT
1 ATTTATATTAATTTAAGATTT
*
4771476 ATTTATATTTATTTAAGATTT
1 ATTTATATTAATTTAAGATTT
4771497 ATTTAT-TTAAATTTA
1 ATTTATATT-AATTTA
4771512 TTTAATTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (21 bp):
ATTTATATTAATTTAAGATTT
Found at i:4771516 original size:10 final size:10
Alignment explanation
Indices: 4771456--4771501 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
4771446 TTTGAAGTTA
*
4771456 ATTTATATTT
1 ATTTAAATTT
*
4771466 ATTTGAATTT
1 ATTTAAATTT
*
4771476 ATTTATATTT
1 ATTTAAATTT
4771486 ATTTAAGATTT
1 ATTTAA-ATTT
4771497 ATTTA
1 ATTTA
4771502 TTTAAATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 21 0.70
11 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:4771531 original size:19 final size:21
Alignment explanation
Indices: 4771507--4771553 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
4771497 ATTTATTTAA
*
4771507 ATTTATTTAATT-A-TAATTT
1 ATTTATTTAATTCATTAATAT
4771526 ATTTA-TT-ATTCATTAATAT
1 ATTTATTTAATTCATTAATAT
4771545 ATTTATTTA
1 ATTTATTTA
4771554 TATATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 3 0.13
18 3 0.13
19 15 0.65
20 2 0.09
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATTTAATTCATTAATAT
Found at i:4771560 original size:14 final size:14
Alignment explanation
Indices: 4771456--4771564 Score: 77
Period size: 14 Copynumber: 7.9 Consensus size: 14
4771446 TTTGAAGTTA
4771456 ATTTATATTTATTT
1 ATTTATATTTATTT
4771470 GAATTTAT-TTATATTT
1 --ATTTATATT-TATTT
*
4771486 ATTTAAGATTTATTT
1 ATTT-ATATTTATTT
*
4771501 ATTTAAATTTATTT
1 ATTTATATTTATTT
*
4771515 AATTATA---ATTT
1 ATTTATATTTATTT
*
4771526 ATTTATTATTCA-TT
1 ATTTA-TATTTATTT
*
4771540 A-ATATATTTATTT
1 ATTTATATTTATTT
*
4771553 ATATATATTTAT
1 ATTTATATTTAT
4771565 GAATATATTA
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
11 8 0.10
12 7 0.09
13 5 0.06
14 31 0.40
15 13 0.17
16 13 0.17
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (14 bp):
ATTTATATTTATTT
Found at i:4784757 original size:26 final size:28
Alignment explanation
Indices: 4784728--4784789 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 28
4784718 CCGACCTAAT
4784728 ATTATATAAAATTTTATT-TTTA-AT-TA
1 ATTATATAAAATTTT-TTATTTATATATA
*
4784754 ATTAT-TTAAATTTTTTATTTATATATA
1 ATTATATAAAATTTTTTATTTATATATA
*
4784781 TTTATATAA
1 ATTATATAA
4784790 TGATATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.07
25 12 0.41
26 7 0.24
27 6 0.21
28 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTATATAAAATTTTTTATTTATATATA
Found at i:4786126 original size:23 final size:21
Alignment explanation
Indices: 4786100--4786147 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 21
4786090 TATAATTATT
4786100 TTTAAAATATAATATTTAATAAA
1 TTTAAAATATAATATTT-AT-AA
* *
4786123 TTTAAATTTTAATATTTATAA
1 TTTAAAATATAATATTTATAA
4786144 TTTA
1 TTTA
4786148 TTTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAAAATATAATATTTATAA
Found at i:4789460 original size:12 final size:13
Alignment explanation
Indices: 4789426--4789465 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
4789416 ATTCTATTTA
4789426 AATATATTAAAAT
1 AATATATTAAAAT
*
4789439 -TTATATTAAAAT
1 AATATATTAAAAT
4789451 AATATA-TAAAA-
1 AATATATTAAAAT
4789462 AATA
1 AATA
4789466 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 4 0.17
12 16 0.67
13 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:4789746 original size:31 final size:31
Alignment explanation
Indices: 4789711--4789785 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
4789701 TAAAGATGCC
4789711 AATATTAAAAAATATTTTTTAAATATTTGAA
1 AATATTAAAAAATATTTTTTAAATATTTGAA
*
4789742 AATATTAAAAAATATTTTTTAAATATTTGAG
1 AATATTAAAAAATATTTTTTAAATATTTGAA
*
4789773 ATTATTAAAAAAT
1 AATATTAAAAAAT
4789786 TAATATTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (31 bp):
AATATTAAAAAATATTTTTTAAATATTTGAA
Found at i:4792552 original size:14 final size:14
Alignment explanation
Indices: 4792512--4792555 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4792502 TTTTATAAAA
*
4792512 AAATTATATATTAT
1 AAATTATATAATAT
*
4792526 AATTTATATTAATAT
1 AAATTATA-TAATAT
*
4792541 AAATTATGTAATAT
1 AAATTATATAATAT
4792555 A
1 A
4792556 TTTTTATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (14 bp):
AAATTATATAATAT
Found at i:4792584 original size:18 final size:19
Alignment explanation
Indices: 4792552--4792591 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4792542 AATTATGTAA
* *
4792552 TATATTTTTATAATTTTAT
1 TATATTTTTAAAATTATAT
4792571 TATA-TTTTAAAATTATAT
1 TATATTTTTAAAATTATAT
4792589 TAT
1 TAT
4792592 TTATATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTTAAAATTATAT
Found at i:4792606 original size:15 final size:15
Alignment explanation
Indices: 4792588--4792628 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
4792578 TAAAATTATA
4792588 TTATTTATATTGA-TT
1 TTATTTATATT-ATTT
4792603 TTATTTATATTATTT
1 TTATTTATATTATTT
4792618 TTATATTATAT
1 TTAT-TTATAT
4792629 CATCATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.04
15 17 0.71
16 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTTATATTATTT
Found at i:4809935 original size:2 final size:2
Alignment explanation
Indices: 4809930--4809960 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4809920 TGTGTGTGTG
4809930 TA TA TA 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 TA TA TA T
4809961 TGTCCGAATG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4813464 original size:24 final size:25
Alignment explanation
Indices: 4813436--4813492 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
4813426 AAATTTTAAA
*
4813436 TCATATTATCTTCGTATC-TTTTAT
1 TCATATTATCTTCGTATCATGTTAT
* *
4813460 TCATATTATTTTTGTATCATGTTAT
1 TCATATTATCTTCGTATCATGTTAT
4813485 T-ATATTAT
1 TCATATTAT
4813493 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.60
Consensus pattern (25 bp):
TCATATTATCTTCGTATCATGTTAT
Found at i:4813598 original size:24 final size:25
Alignment explanation
Indices: 4813557--4813616 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
4813547 TGATAATTTA
** * *
4813557 AAATATGATACGATAATATAATA-T
1 AAATATGATATAAAAATAAAATACT
4813581 AAATATGATATAAAAATAAAATACT
1 AAATATGATATAAAAATAAAATACT
4813606 -AA-ATGATATAA
1 AAATATGATATAA
4813617 TTTAAATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 9 0.29
24 21 0.68
25 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (25 bp):
AAATATGATATAAAAATAAAATACT
Found at i:4814347 original size:25 final size:23
Alignment explanation
Indices: 4814319--4814382 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
4814309 TTTGTTTATT
4814319 TAAATTTTAATTTAATTTTATATAA
1 TAAATTTTAATTTAA-TTTA-ATAA
*
4814344 TAAATATTTAAAGTTAATTTAATAA
1 TAAAT-TTT-AATTTAATTTAATAA
*
4814369 TAAAATATTAATTT
1 T-AAATTTTAATTT
4814383 TTATATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 4 0.12
25 12 0.36
26 11 0.33
27 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAATTTTAATTTAATTTAATAA
Found at i:4814453 original size:21 final size:19
Alignment explanation
Indices: 4814429--4814474 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
4814419 ATCATAATTG
*
4814429 ATATAATTTTAAATTAATAAA
1 ATATAATTTTAAAAT-AT-AA
*
4814450 ATATTATTTTAAAATATAA
1 ATATAATTTTAAAATATAA
4814469 ATATAA
1 ATATAA
4814475 AATATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATATAATTTTAAAATATAA
Found at i:4814803 original size:40 final size:39
Alignment explanation
Indices: 4814702--4814793 Score: 102
Period size: 39 Copynumber: 2.4 Consensus size: 39
4814692 TTTTATAAAT
* *
4814702 TATATTAAT-TTAA-TAAAATAAAAATATATTTTATATTTA
1 TATATTAATATAAATTAAAAT-ATAA-ATATTTTATATTTA
* *
4814741 TATATTAATATAAATTATAATATAAATATTTTATGTTT-
1 TATATTAATATAAATTAAAATATAAATATTTTATATTTA
4814779 TATA-TAATATAAATT
1 TATATTAATATAAATT
4814794 CACAAAATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
37 11 0.23
38 4 0.09
39 21 0.45
40 6 0.13
41 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (39 bp):
TATATTAATATAAATTAAAATATAAATATTTTATATTTA
Found at i:4815732 original size:29 final size:28
Alignment explanation
Indices: 4815672--4815732 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
4815662 ATAAAATATT
* * **
4815672 TAATAAAAATTTAAATTTTAAATTTTTT
1 TAATAAAAATTTAAATTATAAAATTTAA
*
4815700 TAATAAAGTATTTAAATTATAAAATTTAA
1 TAATAAA-AATTTAAATTATAAAATTTAA
4815729 TAAT
1 TAAT
4815733 TAATATAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TAATAAAAATTTAAATTATAAAATTTAA
Found at i:4815879 original size:19 final size:18
Alignment explanation
Indices: 4815841--4815891 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
4815831 AAATATCATA
* *
4815841 TTAAAATTTTTTTA-AAT
1 TTAAAAATTATTTATAAT
*
4815858 TTAAATATTATATTATAAT
1 TTAAAAATTAT-TTATAAT
4815877 TTAAAAATTATTTAT
1 TTAAAAATTATTTAT
4815892 GACATTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 8 0.29
18 7 0.25
19 13 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAAAATTATTTATAAT
Found at i:4825060 original size:2 final size:2
Alignment explanation
Indices: 4825055--4825085 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4825045 ATAGTGTGTC
4825055 TA TA TA 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 TA TA TA T
4825086 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4831382 original size:62 final size:64
Alignment explanation
Indices: 4831304--4831422 Score: 154
Period size: 64 Copynumber: 1.9 Consensus size: 64
4831294 TTTTTTTTTA
* *
4831304 GATTATTCAAGGCGTTTT-TG-TCAAAAAATGTATTGAATAAGCT-TATTTAATTTTTTATAAGG
1 GATTATTCAAGGCGTTTTCTGATAAAAAAATATATTGAATAAGCTCT-TTTAATTTTTTATAAGG
* * * *
4831366 GATTATTTAATGCGTTTTCTGATAAAAAAATATTTTGAATAATCTCTTTTAATTTTT
1 GATTATTCAAGGCGTTTTCTGATAAAAAAATATATTGAATAAGCTCTTTTAATTTTT
4831423 ATTAAAGGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 16 0.33
63 2 0.04
64 29 0.60
65 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.13, T:0.47
Consensus pattern (64 bp):
GATTATTCAAGGCGTTTTCTGATAAAAAAATATATTGAATAAGCTCTTTTAATTTTTTATAAGG
Found at i:4831759 original size:19 final size:20
Alignment explanation
Indices: 4831730--4831769 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
4831720 AGGATGGGAT
4831730 TATTCTTAATT-TAAATAATA
1 TATTCTTAATTATAAA-AATA
4831750 TATT-TTAATTATAAAAATA
1 TATTCTTAATTATAAAAATA
4831769 T
1 T
4831770 TAGAGTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TATTCTTAATTATAAAAATA
Found at i:4832327 original size:11 final size:11
Alignment explanation
Indices: 4832311--4832335 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4832301 TAATTTTAAT
4832311 CATCAATAAAG
1 CATCAATAAAG
4832322 CATCAATAAAG
1 CATCAATAAAG
4832333 CAT
1 CAT
4832336 ATTTTCATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.20, G:0.08, T:0.20
Consensus pattern (11 bp):
CATCAATAAAG
Found at i:4832551 original size:13 final size:13
Alignment explanation
Indices: 4832533--4832587 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
4832523 AAATCGTATC
*
4832533 ATTTTTATATCTT
1 ATTTTTATATCAT
4832546 ATTTTTATATCAT
1 ATTTTTATATCAT
4832559 A--TTTATATCAT
1 ATTTTTATATCAT
* * *
4832570 ATTATCATATTAT
1 ATTTTTATATCAT
4832583 ATTTT
1 ATTTT
4832588 AGATTGTTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 11 0.31
13 24 0.69
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTTTTATATCAT
Found at i:4832579 original size:24 final size:24
Alignment explanation
Indices: 4832529--4832586 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
4832519 TTTTAAATCG
* * * *
4832529 TATCATTTTTATATCTTATTTTTA
1 TATCATATTTATATCATATTATCA
4832553 TATCATATTTATATCATATTATCA
1 TATCATATTTATATCATATTATCA
*
4832577 TATTATATTT
1 TATCATATTT
4832587 TAGATTGTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (24 bp):
TATCATATTTATATCATATTATCA
Found at i:4833045 original size:17 final size:17
Alignment explanation
Indices: 4833023--4833060 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
4833013 TAATGTAACA
4833023 AATAAAAT-TTAAATTAT
1 AATAAAATATTAAA-TAT
*
4833040 AATAAAATATTTAATAT
1 AATAAAATATTAAATAT
4833057 AATA
1 AATA
4833061 CTTAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATAAAATATTAAATAT
Found at i:4833219 original size:30 final size:30
Alignment explanation
Indices: 4833150--4833240 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
4833140 TTTTTATTAC
* *
4833150 ATATTTAAATAAATTTTTAATTTTTAATTT
1 ATATTCAAATAAAATTTTAATTTTTAATTT
* **
4833180 ACACCCAAATAAAATTTTAATTTTTAATTT
1 ATATTCAAATAAAATTTTAATTTTTAATTT
* * * *
4833210 GTATTCAAATAAACTTATAAACTTTTAATTT
1 ATATTCAAATAAAATT-TTAATTTTTAATTT
4833241 TTTATTTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
30 36 0.75
31 12 0.25
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (30 bp):
ATATTCAAATAAAATTTTAATTTTTAATTT
Found at i:4843997 original size:16 final size:18
Alignment explanation
Indices: 4843978--4844010 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
4843968 TATAACTTAA
4843978 AATTTTA-ATT-TATATT
1 AATTTTATATTATATATT
4843994 AATTTTATATTATATAT
1 AATTTTATATTATATAT
4844011 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTTATATTATATATT
Found at i:4845001 original size:13 final size:13
Alignment explanation
Indices: 4844951--4844999 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 13
4844941 AATAATTTAA
4844951 AATATGATAAAAT
1 AATATGATAAAAT
4844964 AATATGATACGAATAT
1 AATATGATA--AA-AT
4844980 AATATGAATAAAA-
1 AATATG-ATAAAAT
4844993 AATATGA
1 AATATGA
4845000 ATGTGATAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
12 1 0.03
13 15 0.47
14 1 0.03
15 4 0.12
16 8 0.25
17 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.29
Consensus pattern (13 bp):
AATATGATAAAAT
Found at i:4845122 original size:16 final size:16
Alignment explanation
Indices: 4845103--4845135 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4845093 ATATAATTTT
4845103 TATATAAAATATAATA
1 TATATAAAATATAATA
*
4845119 TATATAAAATTTAATA
1 TATATAAAATATAATA
4845135 T
1 T
4845136 TTTATACGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATATAAAATATAATA
Found at i:4845242 original size:10 final size:9
Alignment explanation
Indices: 4845226--4845281 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
4845216 CCAATCATTT
4845226 TTTTTAATA
1 TTTTTAATA
4845235 TATTTTAATA
1 T-TTTTAATA
*
4845245 TTTTTGATA
1 TTTTTAATA
4845254 TTTTTATATA
1 TTTTTA-ATA
**
4845264 AATTTAA-A
1 TTTTTAATA
*
4845272 TTTTTTATA
1 TTTTTAATA
4845281 T
1 T
4845282 AATTTTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
8 5 0.14
9 16 0.43
10 16 0.43
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTAATA
Found at i:4845664 original size:13 final size:13
Alignment explanation
Indices: 4845646--4845670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4845636 ATTTAGATTC
4845646 TAATTTTTTTTAA
1 TAATTTTTTTTAA
4845659 TAATTTTTTTTA
1 TAATTTTTTTTA
4845671 TTGATAGATG
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TAATTTTTTTTAA
Found at i:4853275 original size:22 final size:23
Alignment explanation
Indices: 4853227--4853294 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 23
4853217 ATTTTTTTAT
* **
4853227 TTTTATATATTATTTTAATAAAAA
1 TTTTATATA-TATTTAAATAATTA
4853251 TTTTA-ATATATTTAAATAATTA
1 TTTTATATATATTTAAATAATTA
* *
4853273 TTTTATAAAAATTTAAA-AATTA
1 TTTTATATATATTTAAATAATTA
4853295 ATAAAATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 21 0.55
23 12 0.32
24 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTATATATATTTAAATAATTA
Found at i:4853302 original size:34 final size:34
Alignment explanation
Indices: 4853235--4853302 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
4853225 ATTTTTATAT
* * * *
4853235 ATTATTTTAATAAAAATTTTAATATATTTAAATA
1 ATTATTTTAATAAAAATTTAAAAATAATAAAATA
4853269 ATTATTTT-ATAAAAATTTAAAAATTAATAAAATA
1 ATTATTTTAATAAAAATTTAAAAA-TAATAAAATA
4853303 TATAATTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTATTTTAATAAAAATTTAAAAATAATAAAATA
Found at i:4854970 original size:14 final size:15
Alignment explanation
Indices: 4854939--4854983 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
4854929 AATTCGTTTA
*
4854939 TATTTGTTTATGATT
1 TATTTGTTTATAATT
4854954 TATTTGTTTA-AATT
1 TATTTGTTTATAATT
*
4854968 TATTTGATTATAATT
1 TATTTGTTTATAATT
4854983 T
1 T
4854984 GTTTATTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (15 bp):
TATTTGTTTATAATT
Found at i:4856147 original size:26 final size:26
Alignment explanation
Indices: 4856118--4856171 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
4856108 AACCATCACC
4856118 TGCATGAACAAAAAACCCTATGCGTA
1 TGCATGAACAAAAAACCCTATGCGTA
*
4856144 TGCATGAACCAAAAACCCTATGCGTA
1 TGCATGAACAAAAAACCCTATGCGTA
4856170 TG
1 TG
4856172 TCCTGGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (26 bp):
TGCATGAACAAAAAACCCTATGCGTA
Found at i:4858514 original size:21 final size:23
Alignment explanation
Indices: 4858490--4858534 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
4858480 ATCGATTAAA
4858490 TTTTATTAAAAT-ATTTT-ATAT
1 TTTTATTAAAATAATTTTAATAT
*
4858511 TTTTATTAATATAATTTTAATAT
1 TTTTATTAAAATAATTTTAATAT
4858534 T
1 T
4858535 CTTTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 11 0.52
22 5 0.24
23 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTATTAAAATAATTTTAATAT
Found at i:4858893 original size:27 final size:28
Alignment explanation
Indices: 4858852--4858914 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
4858842 ATTTTAAGTG
*
4858852 ATTATTAAAGGTATTTTTGAT-AAAAAA
1 ATTATTAAAGATATTTTTGATCAAAAAA
*
4858879 ATTATTAAAGATATTTTTGATCAAAAAT
1 ATTATTAAAGATATTTTTGATCAAAAAA
*
4858907 ATTTTTAA
1 ATTATTAA
4858915 TAATCACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (28 bp):
ATTATTAAAGATATTTTTGATCAAAAAA
Found at i:4858949 original size:15 final size:14
Alignment explanation
Indices: 4858921--4858948 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4858911 TTAATAATCA
4858921 CTTTAAATTTTTTT
1 CTTTAAATTTTTTT
4858935 CTTTAAATTTTTTT
1 CTTTAAATTTTTTT
4858949 TATAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
CTTTAAATTTTTTT
Found at i:4859020 original size:64 final size:63
Alignment explanation
Indices: 4858938--4859152 Score: 186
Period size: 64 Copynumber: 3.4 Consensus size: 63
4858928 TTTTTTTCTT
* * * **
4858938 TAAATTTTTTTTATAAAATTATTAAAAATATTTTTGATAAAAAATATCTTAAATAATTACTTCG
1 TAAATTTTTATGAAAAAATTATTAAAAATATTTTTGATAAAAAATATCTTAAATAATTA-TTTA
* * * * * *
4859002 TAAATTTTTATGAAAAAATTATTAAAGATATTTTTTATCAAAAATATTTTTAATAACTT-TTTT
1 TAAATTTTTATGAAAAAATTATTAAAAATATTTTTGATAAAAAATATCTTAAATAA-TTATTTA
** * * * * *
4859065 TAAATTTTT-T-TCAAAATTATTTAAGAAT-TTTTTGATAAAAAATACCTTGAGTAATAATTTTA
1 TAAATTTTTATGAAAAAATTA-TTAAAAATATTTTTGATAAAAAATATCTTAAATAATTA-TTTA
**
4859127 TAAAAATTTATGAAAAAATTATTAAA
1 TAAATTTTTATGAAAAAATTATTAAA
4859153 TGCGTTTTTT
Statistics
Matches: 118, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
60 1 0.01
61 27 0.23
62 17 0.14
63 16 0.14
64 55 0.47
65 2 0.02
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (63 bp):
TAAATTTTTATGAAAAAATTATTAAAAATATTTTTGATAAAAAATATCTTAAATAATTATTTA
Found at i:4859260 original size:63 final size:61
Alignment explanation
Indices: 4859182--4859398 Score: 192
Period size: 63 Copynumber: 3.5 Consensus size: 61
4859172 ATTAAATTTT
* * **
4859182 GATTATTTAATGTATTTTTTATAAAAGATACATTAAATACTTATTTCAAAAAATTTATAAAAA
1 GATTATTAAAAGTATTTTTTATAAAA-ATATTTTAAATACTTATTTCAAAAAATTTAT-AAAA
* * **
4859245 GATTATTAAAAGTATTTTTTGTTAAAAATATTTTTAATAATCTTATTAAAAAAAATTT-T-AAA
1 GATTATTAAAAGTATTTTTT-ATAAAAATATTTTAAAT-A-CTTATTTCAAAAAATTTATAAAA
* *
4859307 -ATTATTCAAAACG--TTTTTTATAAAAAATATTTTGAATAATTATTTCATAAAAATTTATAAAA
1 GATTATT-AAAA-GTATTTTTTAT-AAAAATATTTTAAATACTTATTTCA-AAAAATTTATAAAA
**
4859369 GAATTATTAAATTTATTTTTTATCAAAAAT
1 G-ATTATTAAAAGTATTTTTTAT-AAAAAT
4859399 TAAAACTGAT
Statistics
Matches: 125, Mismatches: 16, Indels: 25
0.75 0.10 0.15
Matches are distributed among these distances:
59 6 0.05
60 10 0.08
61 27 0.22
62 10 0.08
63 30 0.24
64 27 0.22
65 15 0.12
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (61 bp):
GATTATTAAAAGTATTTTTTATAAAAATATTTTAAATACTTATTTCAAAAAATTTATAAAA
Found at i:4860416 original size:2 final size:2
Alignment explanation
Indices: 4860384--4860456 Score: 87
Period size: 2 Copynumber: 37.0 Consensus size: 2
4860374 AGGATGGTAA
* * * *
4860384 AT AT AT CT AT AT CT AT AT CT AT AT CT 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 AT AT AT AT
4860426 AT AT AT AT AT AT AT AT ACT -T AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
4860457 GTTCACAATC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
1 2 0.03
2 57 0.95
3 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4860574 original size:2 final size:2
Alignment explanation
Indices: 4860567--4860612 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
4860557 GAGCCCCTCT
4860567 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CT- 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
4860609 -A TA T
1 TA TA T
4860613 GTTCACAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 2 0.05
2 38 0.93
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4860695 original size:156 final size:156
Alignment explanation
Indices: 4860411--4860723 Score: 626
Period size: 156 Copynumber: 2.0 Consensus size: 156
4860401 TCTATATCTA
4860411 TATATATATATATATATATATATATATATATACTTATATATAATATGTTCACAATCTCCCCATGA
1 TATATATATATATATATATATATATATATATACTTATATATAATATGTTCACAATCTCCCCATGA
4860476 AATTTAACCAAGACTTGTTGAACAACTGCCAGTCGCTTAGTATCTGGGATACGTGTGAATGTGCA
66 AATTTAACCAAGACTTGTTGAACAACTGCCAGTCGCTTAGTATCTGGGATACGTGTGAATGTGCA
4860541 TCAAACCTTGGCCTAGGAGCCCCTCT
131 TCAAACCTTGGCCTAGGAGCCCCTCT
4860567 TATATATATATATATATATATATATATATATACTTATATATAATATGTTCACAATCTCCCCATGA
1 TATATATATATATATATATATATATATATATACTTATATATAATATGTTCACAATCTCCCCATGA
4860632 AATTTAACCAAGACTTGTTGAACAACTGCCAGTCGCTTAGTATCTGGGATACGTGTGAATGTGCA
66 AATTTAACCAAGACTTGTTGAACAACTGCCAGTCGCTTAGTATCTGGGATACGTGTGAATGTGCA
4860697 TCAAACCTTGGCCTAGGAGCCCCTCT
131 TCAAACCTTGGCCTAGGAGCCCCTCT
4860723 T
1 T
4860724 CCAAGTAATG
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 157 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (156 bp):
TATATATATATATATATATATATATATATATACTTATATATAATATGTTCACAATCTCCCCATGA
AATTTAACCAAGACTTGTTGAACAACTGCCAGTCGCTTAGTATCTGGGATACGTGTGAATGTGCA
TCAAACCTTGGCCTAGGAGCCCCTCT
Found at i:4865952 original size:19 final size:20
Alignment explanation
Indices: 4865928--4865974 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
4865918 CCGAACGAAA
*
4865928 TTATATAAATTTTT-AGTTT
1 TTATATAAATTTTTAAATTT
*
4865947 TTATAT-ATTTTTTAAATTT
1 TTATATAAATTTTTAAATTT
4865966 TTATA-AAAT
1 TTATATAAAT
4865975 AAAATAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATATAAATTTTTAAATTT
Found at i:4867222 original size:16 final size:16
Alignment explanation
Indices: 4867201--4867251 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
4867191 GAGGTAATTA
4867201 AGTTGGTTGTTAGGGT
1 AGTTGGTTGTTAGGGT
*
4867217 AGTTGGTAGTTA----
1 AGTTGGTTGTTAGGGT
4867229 AGTTGGTTGTTAGGGT
1 AGTTGGTTGTTAGGGT
4867245 AGTTGGT
1 AGTTGGT
4867252 CTTTTCTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 11 0.38
16 18 0.62
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (16 bp):
AGTTGGTTGTTAGGGT
Found at i:4867229 original size:28 final size:28
Alignment explanation
Indices: 4867193--4867251 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
4867183 TATTAGGAGA
4867193 GGTAATTAAGTTGGTTGTTAGGGTAGTT
1 GGTAATTAAGTTGGTTGTTAGGGTAGTT
*
4867221 GGTAGTTAAGTTGGTTGTTAGGGTAGTT
1 GGTAATTAAGTTGGTTGTTAGGGTAGTT
4867249 GGT
1 GGT
4867252 CTTTTCTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (28 bp):
GGTAATTAAGTTGGTTGTTAGGGTAGTT
Found at i:4869018 original size:2 final size:2
Alignment explanation
Indices: 4869003--4869043 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
4868993 GATCGTACAT
4869003 TA TA TA -A TA CTA TA TA 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 TA TA TA TA TA TA TA TA T
4869044 TGAGTAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4871550 original size:35 final size:38
Alignment explanation
Indices: 4871509--4871595 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 38
4871499 TAATTTTTTA
4871509 TAAAATAAAAATAATA-ATTTTATATCAAAATA-TATT
1 TAAAATAAAAATAATATATTTTATATCAAAATATTATT
* * * *
4871545 T-AAAT-ATATTAA-ATTTTTTATATTAAAATATTATT
1 TAAAATAAAAATAATATATTTTATATCAAAATATTATT
4871580 TAAAATTAAAAATAAT
1 TAAAA-TAAAAATAAT
4871596 TAAAAATTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
33 1 0.03
34 19 0.49
35 9 0.23
36 4 0.10
37 1 0.03
38 5 0.13
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (38 bp):
TAAAATAAAAATAATATATTTTATATCAAAATATTATT
Found at i:4871616 original size:17 final size:17
Alignment explanation
Indices: 4871566--4871609 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
4871556 AATTTTTTAT
* *
4871566 ATTAAAATATTATTTAAA
1 ATTAAAA-ATAATTAAAA
4871584 ATTAAAAATAATTAAAA
1 ATTAAAAATAATTAAAA
4871601 ATTAAAAAT
1 ATTAAAAAT
4871610 CAATAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAAAATAATTAAAA
Found at i:4877421 original size:34 final size:34
Alignment explanation
Indices: 4877383--4877470 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 34
4877373 ATGACTTCTT
4877383 AAAAATGAATTTTTAAAAAATCATAAA-TTTTTTA
1 AAAAAT-AATTTTTAAAAAATCATAAACTTTTTTA
* *
4877417 AAAAATATATTTCTGAAAAATCATAAACTTTTTTA
1 AAAAATA-ATTTTTAAAAAATCATAAACTTTTTTA
* *
4877452 AAAAATATTTTTTCAAAAA
1 AAAAATAATTTTTAAAAAA
4877471 GTTATAATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.02
34 32 0.68
35 14 0.30
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (34 bp):
AAAAATAATTTTTAAAAAATCATAAACTTTTTTA
Found at i:4877581 original size:33 final size:34
Alignment explanation
Indices: 4877537--4877621 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
4877527 TAATCTGCTC
4877537 GAAATCTATTTCCA-AAAAAATTATGAATTTTTG
1 GAAATCTATTTCCAGAAAAAATTATGAATTTTTG
* * * *
4877570 GAAATCAATTTCTAGAAAAATTTATGATTTTTTG
1 GAAATCTATTTCCAGAAAAAATTATGAATTTTTG
* *
4877604 AAAATTTATTTCCAGAAA
1 GAAATCTATTTCCAGAAA
4877622 TTTATGTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 12 0.28
34 31 0.72
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.40
Consensus pattern (34 bp):
GAAATCTATTTCCAGAAAAAATTATGAATTTTTG
Found at i:4882852 original size:20 final size:19
Alignment explanation
Indices: 4882820--4882858 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
4882810 ACAAGTCGAA
4882820 TTAAATTTAAATATAAAAT
1 TTAAATTTAAATATAAAAT
* *
4882839 TTAATATTTTAATATCAAAT
1 TTAA-ATTTAAATATAAAAT
4882859 CAAATTATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATTTAAATATAAAAT
Found at i:4884060 original size:18 final size:19
Alignment explanation
Indices: 4884015--4884061 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
4884005 TTTTATTTAT
4884015 TAAAATTTAA-AAAATATA
1 TAAAATTTAATAAAATATA
*
4884033 TAAAAATTAATAAAA-ATA
1 TAAAATTTAATAAAATATA
*
4884051 TATAATTTAAT
1 TAAAATTTAAT
4884062 TCAATTTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATTTAATAAAATATA
Found at i:4894319 original size:49 final size:49
Alignment explanation
Indices: 4894247--4894342 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
4894237 GATGGAGCCC
4894247 ACAATCATAAACTTTAACTAGAATATCAGACTTATGCTAACATGCATAA
1 ACAATCATAAACTTTAACTAGAATATCAGACTTATGCTAACATGCATAA
4894296 ACAATCATAAACTTTAACTAGAATATCAGACTTATGCTAACATGCAT
1 ACAATCATAAACTTTAACTAGAATATCAGACTTATGCTAACATGCAT
4894343 CTGAAAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (49 bp):
ACAATCATAAACTTTAACTAGAATATCAGACTTATGCTAACATGCATAA
Found at i:4894367 original size:28 final size:28
Alignment explanation
Indices: 4894327--4894383 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
4894317 AATATCAGAC
4894327 TTATGCTAACATGCATCTGAAAAACAAA
1 TTATGCTAACATGCATCTGAAAAACAAA
4894355 TTATGCTAACATGCATCTGAAAAACAAA
1 TTATGCTAACATGCATCTGAAAAACAAA
4894383 T
1 T
4894384 AATTGCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.26
Consensus pattern (28 bp):
TTATGCTAACATGCATCTGAAAAACAAA
Found at i:4896145 original size:20 final size:19
Alignment explanation
Indices: 4896110--4896150 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
4896100 CGAATTGAAT
**
4896110 TATATATTTTTTAATTTATA
1 TATATATTTTAAAATTT-TA
4896130 TATATATTTTAAAATTTTA
1 TATATATTTTAAAATTTTA
4896149 TA
1 TA
4896151 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATATTTTAAAATTTTA
Found at i:4896207 original size:13 final size:13
Alignment explanation
Indices: 4896188--4896227 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
4896178 ATTTATTTAA
4896188 ATATATTAAAATT
1 ATATATTAAAATT
* *
4896201 TTATATTAAAATA
1 ATATATTAAAATT
*
4896214 ATATATAAAAATT
1 ATATATTAAAATT
4896227 A
1 A
4896228 AAAATCAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:4896232 original size:33 final size:32
Alignment explanation
Indices: 4896153--4896232 Score: 83
Period size: 33 Copynumber: 2.5 Consensus size: 32
4896143 ATTTTATAAA
* *
4896153 ATAAAAA-TAATAATTTTATATCAAAATTTAT
1 ATAAAAATTAAAAATTTTATATCAAAATATAT
* *
4896184 TTAAATATATT-AAAATTTTATATTAAAATAATAT
1 ATAAA-A-ATTAAAAATTTTATATCAAAAT-ATAT
4896218 ATAAAAATTAAAAAT
1 ATAAAAATTAAAAAT
4896233 CAATAAATCA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
31 4 0.10
32 4 0.10
33 23 0.59
34 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAAAAATTAAAAATTTTATATCAAAATATAT
Found at i:4896504 original size:24 final size:24
Alignment explanation
Indices: 4896476--4896524 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4896466 TTCAAATAGG
* * *
4896476 ATATAAAGATATAATATGAAAATA
1 ATATAAAGAAAAAATATAAAAATA
*
4896500 ATATAAATAAAAAATATAAAAATA
1 ATATAAAGAAAAAATATAAAAATA
4896524 A
1 A
4896525 CACGATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (24 bp):
ATATAAAGAAAAAATATAAAAATA
Found at i:4899904 original size:20 final size:17
Alignment explanation
Indices: 4899879--4899920 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 17
4899869 TATAATCGAA
4899879 TTATATATTTTTATTAATTT
1 TTATATA-TTTTA--AATTT
4899899 TTATATATTTTAAATTT
1 TTATATATTTTAAATTT
4899916 TTATA
1 TTATA
4899921 AAAAATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
19 5 0.23
20 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATATATTTTAAATTT
Found at i:4902999 original size:20 final size:20
Alignment explanation
Indices: 4902971--4903009 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4902961 TTATTTTAAA
4902971 ATTCATTTATATTTATTTAG
1 ATTCATTTATATTTATTTAG
*
4902991 ATTCGTTTATATTTATTTA
1 ATTCATTTATATTTATTTA
4903010 AGGTTTGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (20 bp):
ATTCATTTATATTTATTTAG
Found at i:4903097 original size:26 final size:26
Alignment explanation
Indices: 4903040--4903101 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
4903030 TTTGATTATA
* * *
4903040 ATTTATTTATTATTTATTAATATGTTC
1 ATTTATATA-TATTTATAAATATATTC
* *
4903067 GTTTATATATATTTATAAATATATTT
1 ATTTATATATATTTATAAATATATTC
4903093 ATTTA-ATAT
1 ATTTATATAT
4903102 TTATGAACGA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
25 4 0.14
26 18 0.62
27 7 0.24
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTATATATATTTATAAATATATTC
Found at i:4903105 original size:23 final size:23
Alignment explanation
Indices: 4903040--4903122 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
4903030 TTTGATTATA
* *
4903040 ATTTATTTATTATTTATTAATAT
1 ATTTATTTAATATTTATAAATAT
*
4903063 GTTCGT-TTATATATATTTATAAATAT
1 ATT--TATT-TA-ATATTTATAAATAT
**
4903089 ATTTATTTAATATTTATGAACGA-
1 ATTTATTTAATATTTAT-AAATAT
4903112 ATTTATTTAAT
1 ATTTATTTAAT
4903123 TTAATTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
23 21 0.44
24 8 0.17
25 5 0.10
26 14 0.29
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
ATTTATTTAATATTTATAAATAT
Found at i:4908417 original size:11 final size:11
Alignment explanation
Indices: 4908388--4908418 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4908378 AATCTCATAA
*
4908388 GAGATTTATTT
1 GAGATTTGTTT
4908399 GAGATTTGTTT
1 GAGATTTGTTT
4908410 GAGATTTGT
1 GAGATTTGT
4908419 CATATATTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:4914428 original size:19 final size:20
Alignment explanation
Indices: 4914388--4914430 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
4914378 TCGATTTTTA
4914388 AAAATATTATTTTTAAAATAT
1 AAAATATTATTTTT-AAATAT
4914409 AAAATATTATTTTT-AATAT
1 AAAATATTATTTTTAAATAT
4914428 AAA
1 AAA
4914431 TATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAATATTATTTTTAAATAT
Found at i:4914447 original size:16 final size:17
Alignment explanation
Indices: 4914421--4914452 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
4914411 AATATTATTT
4914421 TTAATATAAATATAAAA
1 TTAATATAAATATAAAA
4914438 TTAA-ATAAATATAAA
1 TTAATATAAATATAAA
4914453 TATATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:4918127 original size:11 final size:11
Alignment explanation
Indices: 4918104--4918133 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
4918094 AAATTTTAAA
4918104 TTATATT-TTT
1 TTATATTATTT
4918114 TTATATTATTT
1 TTATATTATTT
4918125 TTATATTAT
1 TTATATTAT
4918134 ATCGTATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.37
11 12 0.63
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATATTATTT
Found at i:4920660 original size:2 final size:2
Alignment explanation
Indices: 4920648--4920676 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4920638 ATCTTTCCTA
4920648 AT AT A- 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
4920677 TTTAACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4925162 original size:14 final size:15
Alignment explanation
Indices: 4925122--4925163 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
4925112 AGATTATAAT
*
4925122 TTATAAATA-AAAAA
1 TTATAAATATTAAAA
4925136 TTATAAATATTAAAA
1 TTATAAATATTAAAA
*
4925151 TT-TAAATCTTAAA
1 TTATAAATATTAAA
4925164 TTCAATCTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
TTATAAATATTAAAA
Found at i:4926085 original size:27 final size:27
Alignment explanation
Indices: 4926033--4926085 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
4926023 TCCTTTAGAA
* *
4926033 AGAGGGTTCATGTCGGGTCCGATTGAG
1 AGAGGGTTCATGTCAGGTCCCATTGAG
*
4926060 AGAGGGTTCATGTCAGGTCCCCTTGA
1 AGAGGGTTCATGTCAGGTCCCATTGA
4926086 TAATATCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (27 bp):
AGAGGGTTCATGTCAGGTCCCATTGAG
Found at i:4927845 original size:1 final size:1
Alignment explanation
Indices: 4927839--4927867 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4927829 CTCGCACTCT
4927839 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4927868 AACGCGCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:4929290 original size:2 final size:2
Alignment explanation
Indices: 4929283--4929324 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
4929273 AGCATCTCAA
*
4929283 AT AT AT AT AT AT AT CT 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 AT AT AT AT
4929325 GTACTTTCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4940707 original size:13 final size:14
Alignment explanation
Indices: 4940689--4940717 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4940679 TTTTTAGTTT
4940689 TTTTCTTTT-TTTG
1 TTTTCTTTTCTTTG
4940702 TTTTCTTTTCTTTG
1 TTTTCTTTTCTTTG
4940716 TT
1 TT
4940718 CATATTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTTCTTTTCTTTG
Found at i:4952475 original size:23 final size:22
Alignment explanation
Indices: 4952438--4952486 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
4952428 TCGAGATAAA
*
4952438 AAAATTATAATTATTAAAATTT
1 AAAATTATAAATATTAAAATTT
**
4952460 AAAATTATTAAATATTATTATTT
1 AAAATTA-TAAATATTAAAATTT
4952483 AAAA
1 AAAA
4952487 ATAACTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAAATTATAAATATTAAAATTT
Found at i:4956842 original size:15 final size:15
Alignment explanation
Indices: 4956822--4956851 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4956812 AAAGGAATTG
*
4956822 TAGTACCCAATTTTC
1 TAGTACCCAAATTTC
4956837 TAGTACCCAAATTTC
1 TAGTACCCAAATTTC
4956852 CACATCAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (15 bp):
TAGTACCCAAATTTC
Found at i:4961687 original size:15 final size:16
Alignment explanation
Indices: 4961662--4961694 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
4961652 TGGTGAAGAC
4961662 TTATTTGATGAATAAA
1 TTATTTGATGAATAAA
*
4961678 TTATTT-ATGAATTAA
1 TTATTTGATGAATAAA
4961693 TT
1 TT
4961695 TCTGAAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (16 bp):
TTATTTGATGAATAAA
Found at i:4963476 original size:120 final size:117
Alignment explanation
Indices: 4963109--4963507 Score: 416
Period size: 120 Copynumber: 3.4 Consensus size: 117
4963099 TTTTGTGCAG
* * *
4963109 GAAAAATTGATACTTTCAACTTTT-TTCCAAAATATTTTTTTTGTGGAAAGC-TTATTTTCAAGG
1 GAAAAATTGATACTTTCAACTTTTCCT-CAAAA-A-TATTTTT-TGGAAA-CTTTAATTTCAAGG
** ** *
4963172 AAAATTGATACTTTCAATTTTTTCCTAAAAATATTTTTGTTTTTGAAAACTTTAATTTCGA
61 AAAATTGATACTTTCAACCTTTT-CTAAAAA-AAATAT-TTTTTGAAAA-TTTAATTTCGA
* *** * *
4963233 GAAAAATTGATACTTTTAACTTTTCCTCAAAAAT-CCCTTT-GAAAATTT-ATCTTTAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAAT-TTCAAGGAAAA
***
4963295 TTGATACTTTCAACCTTTT-TTCCAAAAATATTTTTTGAAAATTTAATTTCGA
65 TTGATACTTTCAACCTTTTCTAAAAAAAATATTTTTTGAAAATTTAATTTCGA
4963347 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTTAATTTCAAGGAAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAAC-TTTAATTTCAAGGAAAA
* * **
4963412 TTGATACTTTCAA-CTTTTACTAAAAAAAAAATCATTTTTGAAAATTTATTTTTAA
65 TTGATACTTTCAACCTTTT-CTAAAAAAAATAT--TTTTTGAAAATTTAATTTCGA
* *
4963467 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
4963508 TGGAGATTTA
Statistics
Matches: 233, Mismatches: 31, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
114 44 0.19
115 13 0.06
116 12 0.05
117 29 0.12
118 11 0.05
119 33 0.14
120 58 0.25
121 2 0.01
122 1 0.00
123 1 0.00
124 28 0.12
125 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (117 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAAT
TGATACTTTCAACCTTTTCTAAAAAAAATATTTTTTGAAAATTTAATTTCGA
Done.