Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 42 of 84
Found at i:9878105 original size:18 final size:17
Alignment explanation
Indices: 9878062--9878107 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
9878052 AATGTCATGT
**
9878062 AATAAAATATTAAAATA
1 AATAAAATAACAAAATA
9878079 AATATAAATAACAAAATAA
1 AATA-AAATAACAAAAT-A
9878098 AATAAAATAA
1 AATAAAATAA
9878108 TTTATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAAATAACAAAATA
Found at i:9881598 original size:2 final size:2
Alignment explanation
Indices: 9881591--9881625 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
9881581 CTGAAGTACA
*
9881591 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9881626 CCTTTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9882150 original size:23 final size:23
Alignment explanation
Indices: 9882124--9882173 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
9882114 ATTTGATCAC
*
9882124 TAATAATTTTGATGAAGTCGTAT
1 TAATAACTTTGATGAAGTCGTAT
* *
9882147 TAATAACTTTGATGAGGTTGTAT
1 TAATAACTTTGATGAAGTCGTAT
9882170 TAAT
1 TAAT
9882174 TGCATTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (23 bp):
TAATAACTTTGATGAAGTCGTAT
Found at i:9884228 original size:19 final size:22
Alignment explanation
Indices: 9884206--9884253 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
9884196 TTTTCTTTCG
9884206 ATGATATAA-TT-TTTTTTT-A
1 ATGATATAACTTATTTTTTTGA
*
9884225 ATGATACAACTTATTTTTTTGA
1 ATGATATAACTTATTTTTTTGA
9884247 ATGATAT
1 ATGATAT
9884254 TTGATATCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 8 0.33
20 2 0.08
21 7 0.29
22 7 0.29
ACGTcount: A:0.33, C:0.04, G:0.08, T:0.54
Consensus pattern (22 bp):
ATGATATAACTTATTTTTTTGA
Found at i:9891263 original size:10 final size:10
Alignment explanation
Indices: 9891248--9891272 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9891238 GTTTGAACTC
9891248 AATTTGTTTA
1 AATTTGTTTA
9891258 AATTTGTTTA
1 AATTTGTTTA
9891268 AATTT
1 AATTT
9891273 AATTTATTAA
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
AATTTGTTTA
Found at i:9892226 original size:18 final size:17
Alignment explanation
Indices: 9892203--9892241 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
9892193 TTTATTTTTA
9892203 TAAATTATAATAAAAAAT
1 TAAATTATAA-AAAAAAT
* *
9892221 TAAATTTTAAAAAATAT
1 TAAATTATAAAAAAAAT
9892238 TAAA
1 TAAA
9892242 GTACAAAGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAATTATAAAAAAAAT
Found at i:9892235 original size:28 final size:29
Alignment explanation
Indices: 9892180--9892235 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
9892170 TTAAATGAAA
** * *
9892180 ATAATATAAAAATTTTATTTTTATAAATT
1 ATAATATAAAAATTAAATTTTAAAAAATT
9892209 ATAATA-AAAAATTAAATTTTAAAAAAT
1 ATAATATAAAAATTAAATTTTAAAAAAT
9892236 ATTAAAGTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATAATATAAAAATTAAATTTTAAAAAATT
Found at i:9896544 original size:6 final size:7
Alignment explanation
Indices: 9896522--9896554 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
9896512 AAAAAATTAC
9896522 TTTATTAT
1 TTTATT-T
9896530 TTTATTT
1 TTTATTT
9896537 TTTATTT
1 TTTATTT
9896544 TTTATTT
1 TTTATTT
9896551 TTTA
1 TTTA
9896555 AGAATAGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:9902062 original size:30 final size:30
Alignment explanation
Indices: 9902026--9902095 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
9902016 TTCTAAATCT
9902026 TTTATTTTCA-ATAAGTTGAACCATTAAACA
1 TTTATTTTCATATAA-TTGAACCATTAAACA
* * * *
9902056 TTTATTTTTATCTAATTGAACCCTTAAATA
1 TTTATTTTCATATAATTGAACCATTAAACA
9902086 TTTATTTTCA
1 TTTATTTTCA
9902096 CTCAATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 31 0.91
31 3 0.09
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (30 bp):
TTTATTTTCATATAATTGAACCATTAAACA
Found at i:9905229 original size:6 final size:6
Alignment explanation
Indices: 9905174--9905268 Score: 51
Period size: 6 Copynumber: 16.3 Consensus size: 6
9905164 ATCTTTGTTT
* * *
9905174 TATTT- TATTTCA TATTT- TA-TTA TTATTTA GACTTA TCTTT- TA-TT-
1 TATTTA TATTT-A TATTTA TATTTA -TATTTA TATTTA TATTTA TATTTA
* * *
9905218 TATTTA TATTTA TATTTTTA TATTTA TCTTTT TATTTA TTTTTA T-TTTA
1 TATTTA TATTTA TA--TTTA TATTTA TATTTA TATTTA TATTTA TATTTA
9905267 TA
1 TA
9905269 ATTTTATGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
4 6 0.09
5 15 0.22
6 34 0.49
7 8 0.12
8 6 0.09
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (6 bp):
TATTTA
Found at i:9905237 original size:14 final size:14
Alignment explanation
Indices: 9905220--9905275 Score: 59
Period size: 13 Copynumber: 4.4 Consensus size: 14
9905210 CTTTTATTTA
9905220 TTTATATTTATATT
1 TTTATATTTATATT
*
9905234 TTTATATTTAT-CT
1 TTTATATTTATATT
9905247 TTT-TA-TT-TATT
1 TTTATATTTATATT
*
9905258 TTTAT-TTTATAAT
1 TTTATATTTATATT
9905271 TTTAT
1 TTTAT
9905276 GATATATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.17
12 5 0.14
13 12 0.34
14 11 0.31
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATATTTATATT
Found at i:9905255 original size:36 final size:36
Alignment explanation
Indices: 9905171--9905275 Score: 122
Period size: 36 Copynumber: 2.8 Consensus size: 36
9905161 CCAATCTTTG
*
9905171 TTTTATTTTATTTCATATTTTATTATTATTTAGACTTATC
1 TTTTA-TTTATTT-ATATTTTA-TATT-TTTATACTTATC
*
9905211 TTTTATTTATTTATA-TTTATATTTTTATATTTATC
1 TTTTATTTATTTATATTTTATATTTTTATACTTATC
* *
9905246 TTTTTATTTATTTTTATTTTATAATTTTAT
1 -TTTTATTTATTTATATTTTATATTTTTAT
9905276 GATATATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
35 10 0.17
36 18 0.31
37 16 0.27
38 3 0.05
39 7 0.12
40 5 0.08
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (36 bp):
TTTTATTTATTTATATTTTATATTTTTATACTTATC
Found at i:9906202 original size:30 final size:29
Alignment explanation
Indices: 9906162--9906249 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 29
9906152 TTTTATTACA
* *
9906162 ATCAACTAAATT-CTAAATCTTTTATTTTTT
1 ATCAATTAAATTACTAAAT-ATTTA-TTTTT
*
9906192 ATCAATTAAATTATTAAATATTTATTTTT
1 ATCAATTAAATTACTAAATATTTATTTTT
* **
9906221 ATTCGATTAAATTTGTAAATATTTATTTT
1 A-TCAATTAAATTACTAAATATTTATTTT
9906250 CATTTAATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 6 0.12
30 39 0.78
31 5 0.10
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (29 bp):
ATCAATTAAATTACTAAATATTTATTTTT
Found at i:9906249 original size:29 final size:30
Alignment explanation
Indices: 9906182--9906266 Score: 86
Period size: 30 Copynumber: 2.8 Consensus size: 30
9906172 TTCTAAATCT
*
9906182 TTTATTTTTTATCAATTAAATTATTAAATA
1 TTTATTTTATATCAATTAAATTATTAAATA
*
9906212 TTTATTTT-TATTCGATTAAATT-TGTAAATA
1 TTTATTTTATA-TCAATTAAATTAT-TAAATA
*
9906242 TTTATTTTCAT-TTAATTAAAATTAT
1 TTTATTTT-ATATCAATT-AAATTAT
9906267 AATTGAATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
29 3 0.07
30 36 0.78
31 5 0.11
32 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (30 bp):
TTTATTTTATATCAATTAAATTATTAAATA
Found at i:9906260 original size:30 final size:30
Alignment explanation
Indices: 9906193--9906266 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
9906183 TTATTTTTTA
*
9906193 TCAATTAAATTATTAAATATTTATTTTTAT
1 TCAATTAAATTATTAAATATTTATTTTCAT
*
9906223 TCGATTAAATT-TGTAAATATTTATTTTCAT
1 TCAATTAAATTAT-TAAATATTTATTTTCAT
*
9906253 TTAATTAAAATTAT
1 TCAATT-AAATTAT
9906267 AATTGAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 30 0.81
31 5 0.14
32 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (30 bp):
TCAATTAAATTATTAAATATTTATTTTCAT
Found at i:9906790 original size:28 final size:27
Alignment explanation
Indices: 9906754--9906819 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
9906744 TATATATCAA
* *
9906754 ATTAT-TTAATAAATTTATAATTTAAAT
1 ATTATATTAAAAAATTT-TAAATTAAAT
9906781 ATTATATTAAAAAAATTTTAAATTAAAT
1 ATTATATT-AAAAAATTTTAAATTAAAT
*
9906809 ATTACATTAAA
1 ATTATATTAAA
9906820 TATATCTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTATATTAAAAAATTTTAAATTAAAT
Found at i:9906946 original size:35 final size:35
Alignment explanation
Indices: 9906895--9906961 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
9906885 ATATTGGGAA
9906895 AAAAAAAACAAAGAAATTTGTGGTTCATGTTGCTC
1 AAAAAAAACAAAGAAATTTGTGGTTCATGTTGCTC
*
9906930 AAAAAAAACAACGAAATTTGTGGTTCATGTTG
1 AAAAAAAACAAAGAAATTTGTGGTTCATGTTG
9906962 GTCACTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.43, C:0.10, G:0.18, T:0.28
Consensus pattern (35 bp):
AAAAAAAACAAAGAAATTTGTGGTTCATGTTGCTC
Found at i:9907495 original size:20 final size:19
Alignment explanation
Indices: 9907455--9907497 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
9907445 TGAATGCTTA
*
9907455 ATTTTTTATTTTATTTAAT
1 ATTTTTTATTTTATATAAT
9907474 ATTTTATTATTTTATGAT-AT
1 ATTTT-TTATTTTAT-ATAAT
9907494 ATTT
1 ATTT
9907498 ATCCTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTTTTATTTTATATAAT
Found at i:9907526 original size:29 final size:27
Alignment explanation
Indices: 9907491--9907549 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
9907481 TATTTTATGA
*
9907491 TATATTTATCCTCATTTTATCTTTATTAT
1 TATATTTATACTCA-TTTATCTTTATT-T
* *
9907520 TATATTTATATTTATTTATCTTTATTT
1 TATATTTATACTCATTTATCTTTATTT
9907547 TAT
1 TAT
9907550 TTGAATTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 12 0.44
29 11 0.41
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.66
Consensus pattern (27 bp):
TATATTTATACTCATTTATCTTTATTT
Found at i:9907543 original size:6 final size:5
Alignment explanation
Indices: 9907458--9907551 Score: 50
Period size: 6 Copynumber: 17.6 Consensus size: 5
9907448 ATGCTTAATT
** * *
9907458 TTTTA TTTTA TTTAATA TTTTA --TTA TTTTA TGATA TATTTA TCCTCA
1 TTTTA TTTTA TTT--TA TTTTA TTTTA TTTTA TTTTA T-TTTA T-TTTA
9907505 TTTTA TCTTTA TTATTA TATTTA TATTTA -TTTA TCTTTA TTTTA TTT
1 TTTTA T-TTTA TT-TTA T-TTTA T-TTTA TTTTA T-TTTA TTTTA TTT
9907552 GAATTCTTAG
Statistics
Matches: 70, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
3 3 0.04
4 4 0.06
5 28 0.40
6 29 0.41
7 6 0.09
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (5 bp):
TTTTA
Found at i:9907591 original size:13 final size:13
Alignment explanation
Indices: 9907573--9907602 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9907563 TATCTTTTTA
*
9907573 TTTATTTTTATTT
1 TTTATTTTTATCT
9907586 TTTATTTTTATCT
1 TTTATTTTTATCT
9907599 TTTA
1 TTTA
9907603 AAAAAGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTTTATCT
Found at i:9908564 original size:18 final size:19
Alignment explanation
Indices: 9908541--9908579 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9908531 GGTTAGAAAT
9908541 AAAATAAAAT-AAAATCAA
1 AAAATAAAATGAAAATCAA
*
9908559 AAAATAAAATGAAAATGAA
1 AAAATAAAATGAAAATCAA
9908578 AA
1 AA
9908580 TGGAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.77, C:0.03, G:0.05, T:0.15
Consensus pattern (19 bp):
AAAATAAAATGAAAATCAA
Found at i:9908952 original size:12 final size:11
Alignment explanation
Indices: 9908937--9908966 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
9908927 GAAAAAACCT
9908937 AAAAAATTCAA
1 AAAAAATTCAA
9908948 AAAAAATTCAA
1 AAAAAATTCAA
9908959 ATAAAAAT
1 A-AAAAAT
9908967 AAAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:9909833 original size:119 final size:119
Alignment explanation
Indices: 9909628--9909938 Score: 320
Period size: 119 Copynumber: 2.6 Consensus size: 119
9909618 ACCAGAATCG
* * * * * * * * *
9909628 AGTCAAGATCAAAAAGGAATGATCGAGACGAAACCACAAATTATAAGAAACGATCTGAATTAAAC
1 AGTCGAGATCAAAAATGAATGATCGAGACGGAACCATAAATTATAAGAAATGATCTGGACTGAGC
** * * * **
9909693 CAAGATCAAGTGACTGGGATAAAATCACGA-GTCTAAATAAAGTGACCAAGACCA
66 CAAGATCAAACGACCGAGATAAAATCA-GAGGTCAAAATAAAGCAACCAAGACCA
* * * *
9909747 AGTCGAGGTTAAAAATGAATGATCGAGACGGAACCATAAATCATAAGGAATGATCTGGACTGAGC
1 AGTCGAGATCAAAAATGAATGATCGAGACGGAACCATAAATTATAAGAAATGATCTGGACTGAGC
* * * * * *
9909812 TAGGATCAAACGACCGAGATAAAATCATAGGTCAAAATAAAGCAACCAGGATCG
66 CAAGATCAAACGACCGAGATAAAATCAGAGGTCAAAATAAAGCAACCAAGACCA
* * * *
9909866 AGTCGAGATCGAAATTGAATGATCGGGA-TGAACCCATAAATTATAAGAAATGATCTGGACTGAG
1 AGTCGAGATCAAAAATGAATGATCGAGACGGAA-CCATAAATTATAAGAAATGATCTGGACTGAG
9909930 CCAAGATCA
65 CCAAGATCA
9909939 GGTGATGTAA
Statistics
Matches: 154, Mismatches: 36, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
118 4 0.03
119 150 0.97
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (119 bp):
AGTCGAGATCAAAAATGAATGATCGAGACGGAACCATAAATTATAAGAAATGATCTGGACTGAGC
CAAGATCAAACGACCGAGATAAAATCAGAGGTCAAAATAAAGCAACCAAGACCA
Found at i:9910457 original size:84 final size:84
Alignment explanation
Indices: 9910316--9910486 Score: 333
Period size: 84 Copynumber: 2.0 Consensus size: 84
9910306 ACACACTTTT
*
9910316 TATGATTTTGTTCAATTATTAATCATTATCCCAATTTAAAAGCATGAAGATGCAAGTTATGCATT
1 TATGATTTTGTTCAATTATTAATCATTATCCCAATTTAAAAGCATGAAGATACAAGTTATGCATT
9910381 TTTACCATTCATGACAAAA
66 TTTACCATTCATGACAAAA
9910400 TATGATTTTGTTCAATTATTAATCATTATCCCAATTTAAAAGCATGAAGATACAAGTTATGCATT
1 TATGATTTTGTTCAATTATTAATCATTATCCCAATTTAAAAGCATGAAGATACAAGTTATGCATT
9910465 TTTACCATTCATGACAAAA
66 TTTACCATTCATGACAAAA
9910484 TAT
1 TAT
9910487 AAAGAAGGAA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (84 bp):
TATGATTTTGTTCAATTATTAATCATTATCCCAATTTAAAAGCATGAAGATACAAGTTATGCATT
TTTACCATTCATGACAAAA
Found at i:9910844 original size:9 final size:9
Alignment explanation
Indices: 9910829--9910866 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
9910819 TCTCTTTCTC
9910829 TTTTT-TTT
1 TTTTTATTT
*
9910837 TGTTT-TTT
1 TTTTTATTT
9910845 TTTTTATTT
1 TTTTTATTT
9910854 TTTTTATTT
1 TTTTTATTT
9910863 TTTT
1 TTTT
9910867 AATCAAGCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 11 0.41
9 16 0.59
ACGTcount: A:0.05, C:0.00, G:0.03, T:0.92
Consensus pattern (9 bp):
TTTTTATTT
Found at i:9910866 original size:12 final size:12
Alignment explanation
Indices: 9910829--9910858 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9910819 TCTCTTTCTC
*
9910829 TTTTTTTTTGTT
1 TTTTTTTTTATT
9910841 TTTTTTTTTATT
1 TTTTTTTTTATT
9910853 TTTTTT
1 TTTTTT
9910859 ATTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.03, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTATT
Found at i:9911478 original size:32 final size:32
Alignment explanation
Indices: 9911437--9911501 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
9911427 TAGAGCGTTG
9911437 AATTATGGTACTTGATCTTGAACTAAACACAT
1 AATTATGGTACTTGATCTTGAACTAAACACAT
9911469 AATTATGGTACTTGATCTTGAACTAAACACAT
1 AATTATGGTACTTGATCTTGAACTAAACACAT
9911501 A
1 A
9911502 CTTCTTGCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (32 bp):
AATTATGGTACTTGATCTTGAACTAAACACAT
Found at i:9912653 original size:28 final size:27
Alignment explanation
Indices: 9912635--9912690 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
9912625 TCATCTTCTT
*
9912635 TCAATTCTGAGATGATCATTAATTCCTC
1 TCAATTCTGAGATAATCA-TAATTCCTC
9912663 TCAATTCTGAGATAATCATTAATTCCTC
1 TCAATTCTGAGATAATCA-TAATTCCTC
9912691 ATCCAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (27 bp):
TCAATTCTGAGATAATCATAATTCCTC
Found at i:9921115 original size:10 final size:9
Alignment explanation
Indices: 9921096--9921128 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
9921086 AGTGGCAGAG
9921096 TTTTTTTAT
1 TTTTTTTAT
9921105 TTTTATTTAT
1 TTTT-TTTAT
9921115 TTTTTTTAT
1 TTTTTTTAT
9921124 TTTTT
1 TTTTT
9921129 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:9921181 original size:18 final size:19
Alignment explanation
Indices: 9921160--9921203 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
9921150 AATGGGTTAG
*
9921160 AAATAAAATAAAATTA-AA
1 AAATAAAATAAAAATAGAA
9921178 AAATAAAATAAAAATAGAA
1 AAATAAAATAAAAATAGAA
9921197 AAA-AAAA
1 AAATAAAA
9921204 ACCTGCGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (19 bp):
AAATAAAATAAAAATAGAA
Found at i:9921613 original size:11 final size:10
Alignment explanation
Indices: 9921575--9921611 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
9921565 CAGAAAACTT
*
9921575 AAAAAAAACC
1 AAAAAAATCC
*
9921585 CAAAAAATCC
1 AAAAAAATCC
9921595 AAAAAAATCC
1 AAAAAAATCC
9921605 AAAAAAA
1 AAAAAAA
9921612 ATTCTCAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.76, C:0.19, G:0.00, T:0.05
Consensus pattern (10 bp):
AAAAAAATCC
Found at i:9922034 original size:12 final size:12
Alignment explanation
Indices: 9922004--9922042 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
9921994 CAGATTGAGC
*
9922004 AAAAAAGAAAAT
1 AAAAAATAAAAT
9922016 AAAAAATAAAAT
1 AAAAAATAAAAT
9922028 AAAAAATAACAAT
1 AAAAAATAA-AAT
9922041 AA
1 AA
9922043 TAATGGTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 20 0.80
13 5 0.20
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:9922046 original size:3 final size:3
Alignment explanation
Indices: 9922020--9922106 Score: 92
Period size: 3 Copynumber: 30.3 Consensus size: 3
9922010 GAAAATAAAA
* ** *
9922020 AAT AA- AAT AA- AA- AAT AAC AAT AAT AAT GGT AAT AAT AAT AAC AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
9922064 AAG CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
9922107 TTATTATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
2 8 0.11
3 63 0.89
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:9922111 original size:3 final size:3
Alignment explanation
Indices: 9922105--9922154 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9922095 ATAATAATAA
9922105 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9922153 TA
1 TA
9922155 AAAGGATCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9923150 original size:25 final size:25
Alignment explanation
Indices: 9923116--9923166 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
9923106 ATTTCTTAAG
*
9923116 ATTTGCTATATTAAAATACTTGGTA
1 ATTTCCTATATTAAAATACTTGGTA
9923141 ATTTCCTATATTAAAATACTTGGTA
1 ATTTCCTATATTAAAATACTTGGTA
9923166 A
1 A
9923167 CACAAAATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (25 bp):
ATTTCCTATATTAAAATACTTGGTA
Found at i:9924592 original size:62 final size:64
Alignment explanation
Indices: 9924490--9924612 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 64
9924480 ATTTTTTAAG
*
9924490 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATAATG-GAAGGTTTTAAAATTTTA
1 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACAT-ATGAGAAGGTTGTAAAATTTTA
* **
9924554 AAAAATAA-TTTTATAAAT-AAAAATAAAATTTTACCAACATATGAGAAGGTTGTAAAATT
1 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATATGAGAAGGTTGTAAAATT
9924613 ACAAAAATTG
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
61 3 0.06
62 34 0.63
63 9 0.17
64 8 0.15
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (64 bp):
AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATATGAGAAGGTTGTAAAATTTTA
Found at i:9924619 original size:62 final size:64
Alignment explanation
Indices: 9924490--9924634 Score: 179
Period size: 62 Copynumber: 2.3 Consensus size: 64
9924480 ATTTTTTAAG
* **
9924490 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATAATGGAAGGTTTTAAAATTTTA
1 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATAATGGAAGGTTGTAAAATTACA
* **
9924554 AAAAATAA-TTTTATAAAT-AAAAATAAAATTTTACCAACAT-ATGAGAAGGTTGTAAAATTACA
1 AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATAATG-GAAGGTTGTAAAATTACA
* *
9924616 AAAATTGATCTTTTAAAAA
1 AAAAATAAT-TTTTAAAAA
9924635 ATAAGTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
61 3 0.04
62 41 0.59
63 9 0.13
64 16 0.23
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (64 bp):
AAAAATAATTTTTAAAAATAAAAAATAAAACCTTACCAACATAATGGAAGGTTGTAAAATTACA
Found at i:9927442 original size:13 final size:13
Alignment explanation
Indices: 9927410--9927443 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
9927400 TTCATTTTCC
*
9927410 TATTATATATCTT
1 TATTATTTATCTT
9927423 TATTATTTATCTT
1 TATTATTTATCTT
*
9927436 TTTTATTT
1 TATTATTT
9927444 TATTTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
TATTATTTATCTT
Found at i:9929091 original size:15 final size:15
Alignment explanation
Indices: 9929071--9929100 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9929061 CCATTTTTTT
9929071 TAAGGACCCTTAGTC
1 TAAGGACCCTTAGTC
*
9929086 TAAGGACCTTTAGTC
1 TAAGGACCCTTAGTC
9929101 AAGCTTATAA
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:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (15 bp):
TAAGGACCCTTAGTC
Found at i:9930160 original size:20 final size:21
Alignment explanation
Indices: 9930130--9930185 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
9930120 ATGCCCAATC
9930130 TTTGTTTATTT-TATTTCATAT
1 TTTGTTTATTTATATTT-ATAT
9930151 TTTG-TTATTTATATTTATAT
1 TTTGTTTATTTATATTTATAT
9930171 TTAT-TTATATTTATA
1 TT-TGTT-TATTTATA
9930186 ATTTTATGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 8 0.26
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTGTTTATTTATATTTATAT
Found at i:9930175 original size:10 final size:10
Alignment explanation
Indices: 9930134--9930184 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
9930124 CCAATCTTTG
9930134 TTTAT-TTTA
1 TTTATATTTA
9930143 TTTCATATTT-
1 TTT-ATATTTA
9930153 TGTTAT-TTATA
1 T-TTATATT-TA
9930164 TTTATATTTA
1 TTTATATTTA
9930174 TTTATATTTA
1 TTTATATTTA
9930184 T
1 T
9930185 AATTTTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
9 5 0.14
10 23 0.64
11 8 0.22
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTATATTTA
Found at i:9930185 original size:16 final size:15
Alignment explanation
Indices: 9930134--9930184 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
9930124 CCAATCTTTG
9930134 TTTATTTTATTTCATA
1 TTTATTTTATTT-ATA
*
9930150 TTT-TGTTATTTATA
1 TTTATTTTATTTATA
9930164 TTTATATTTATTTATA
1 TTTAT-TTTATTTATA
9930180 TTTAT
1 TTTAT
9930185 AATTTTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 6 0.19
15 8 0.26
16 17 0.55
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTATTTATA
Found at i:9930701 original size:14 final size:14
Alignment explanation
Indices: 9930677--9930730 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
9930667 TTCAGTTCTT
9930677 TTATA-TATAATTA
1 TTATAGTATAATTA
9930690 TTATAGTATAATTAA
1 TTATAGTATAATT-A
*
9930705 TTA-ATTATAATTTA
1 TTATAGTATAA-TTA
*
9930719 TTATTGTATAAT
1 TTATAGTATAAT
9930731 ATCCATTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 5 0.15
14 18 0.53
15 11 0.32
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (14 bp):
TTATAGTATAATTA
Found at i:9949658 original size:12 final size:12
Alignment explanation
Indices: 9949637--9949666 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9949627 CTTCATCCCT
*
9949637 TCATCATCATCA
1 TCATCCTCATCA
9949649 TCATCCTCATCA
1 TCATCCTCATCA
9949661 TCATCC
1 TCATCC
9949667 AAATTTAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.40, G:0.00, T:0.33
Consensus pattern (12 bp):
TCATCCTCATCA
Found at i:9951802 original size:21 final size:21
Alignment explanation
Indices: 9951776--9951818 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9951766 GAGTTATGAA
*
9951776 TTGGACTACTAAATGCAGTAT
1 TTGGACTACTAAACGCAGTAT
9951797 TTGGACTACTAAACGCAGTAT
1 TTGGACTACTAAACGCAGTAT
9951818 T
1 T
9951819 CGGCAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (21 bp):
TTGGACTACTAAACGCAGTAT
Found at i:9956670 original size:15 final size:15
Alignment explanation
Indices: 9956645--9956682 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
9956635 ACATATATAA
9956645 TTTCATTTCATTTATT
1 TTTCATTTCATTT-TT
9956661 TTTC-TTTCATTTTT
1 TTTCATTTCATTTTT
9956675 TTTCATTT
1 TTTCATTT
9956683 ATTAATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
15 11 0.52
16 4 0.19
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCATTTCATTTTT
Found at i:9969000 original size:12 final size:12
Alignment explanation
Indices: 9968983--9969027 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
9968973 ATTTATTTAT
9968983 TATTTATGAATA
1 TATTTATGAATA
*
9968995 TATTTATTTATATA
1 TATTTA-TGA-ATA
9969009 TATTTATGAATA
1 TATTTATGAATA
9969021 TATTTAT
1 TATTTAT
9969028 TTAATATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 16 0.55
13 4 0.14
14 9 0.31
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (12 bp):
TATTTATGAATA
Found at i:9969001 original size:23 final size:23
Alignment explanation
Indices: 9968973--9969053 Score: 99
Period size: 23 Copynumber: 3.4 Consensus size: 23
9968963 TTTGATTATA
9968973 ATTTATTTATTATTTATGAATAT
1 ATTTATTTATTATTTATGAATAT
9968996 ATTTATTTATATATATTTATGAATAT
1 ATTTA-TT-TAT-TATTTATGAATAT
* ** *
9969022 ATTTATTTAATATTTAAAAATAA
1 ATTTATTTATTATTTATGAATAT
9969045 ATTTATTTA
1 ATTTATTTA
9969054 ATTTTATTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
23 24 0.47
24 4 0.08
25 5 0.10
26 18 0.35
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTTATTTATTATTTATGAATAT
Found at i:9969062 original size:49 final size:47
Alignment explanation
Indices: 9968961--9969069 Score: 121
Period size: 49 Copynumber: 2.3 Consensus size: 47
9968951 AGTTTAAATT
* * ** *
9968961 TATTTGATTATAATTTATTTATTATTTATGAATATATTTATTTATATA
1 TATTTGAATAT-ATTTATTTAATATTTAAAAATAAATTTATTTATATA
*
9969009 TATTTATGAATATATTTATTTAATATTTAAAAATAAATTTATTTA-ATTT
1 TA-TT-TGAATATATTTATTTAATATTTAAAAATAAATTTATTTATA-TA
9969058 TATTTGAATATA
1 TATTTGAATATA
9969070 AATAAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
47 8 0.15
48 5 0.10
49 33 0.63
50 6 0.12
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (47 bp):
TATTTGAATATATTTATTTAATATTTAAAAATAAATTTATTTATATA
Found at i:9969072 original size:26 final size:25
Alignment explanation
Indices: 9968953--9969070 Score: 81
Period size: 26 Copynumber: 4.8 Consensus size: 25
9968943 TATTTGTTAG
* *
9968953 TTTAAATTTATTTGATTATAATTTA
1 TTTAATTTTATTTGAATATAATTTA
*
9968978 TTT-ATTATT-TATGAATAT-ATTTA
1 TTTAATT-TTATTTGAATATAATTTA
*
9969001 TTTATATATATT-TATGAATAT-ATTTA
1 TTTA-AT-T-TTATTTGAATATAATTTA
* *
9969027 TTTAA---TATTTAAAAATAAATTTA
1 TTTAATTTTATTTGAATAT-AATTTA
9969050 TTTAATTTTATTTGAATATAA
1 TTTAATTTTATTTGAATATAA
9969071 ATAAATTATG
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
20 1 0.01
21 6 0.08
23 18 0.24
24 9 0.12
25 10 0.13
26 31 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (25 bp):
TTTAATTTTATTTGAATATAATTTA
Found at i:9976367 original size:27 final size:24
Alignment explanation
Indices: 9976330--9976384 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
9976320 ATTTAATAAA
*
9976330 TTTTAATAAAAATTTTATATAGATATT
1 TTTTAAAAAAAATTTTA-AT--ATATT
9976357 TTTT-AAAAAAATTTTAATATATT
1 TTTTAAAAAAAATTTTAATATATT
9976380 TTTTA
1 TTTTA
9976385 TCATTGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 9 0.35
25 2 0.08
26 11 0.42
27 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTTAAAAAAAATTTTAATATATT
Found at i:9976445 original size:20 final size:19
Alignment explanation
Indices: 9976422--9976462 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
9976412 TATAATAAAT
* *
9976422 TATATTTTTAATATTTTTCA
1 TATATTATTAAT-CTTTTCA
9976442 TATATTATTAATCTTTTCA
1 TATATTATTAATCTTTTCA
9976461 TA
1 TA
9976463 AATACTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTATTAATCTTTTCA
Found at i:9976513 original size:11 final size:12
Alignment explanation
Indices: 9976490--9976528 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
9976480 AATTTAAATT
9976490 TTTTTATTAAAA
1 TTTTTATTAAAA
9976502 TTTTTATTAAATCA
1 TTTTTATTAAA--A
9976516 TTTTTAATTAAAA
1 TTTTT-ATTAAAA
9976529 ATTTCATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 11 0.46
13 1 0.04
14 6 0.25
15 6 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTTATTAAAA
Found at i:9976538 original size:26 final size:27
Alignment explanation
Indices: 9976489--9976539 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
9976479 CAATTTAAAT
* * *
9976489 TTTTTTATTAAAATTTTTATTAAATCA
1 TTTTTAATTAAAAATTTCATTAAATCA
9976516 TTTTTAATTAAAAATTTCA-TAAAT
1 TTTTTAATTAAAAATTTCATTAAAT
9976540 TTCACTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
TTTTTAATTAAAAATTTCATTAAATCA
Found at i:9980866 original size:16 final size:18
Alignment explanation
Indices: 9980832--9980890 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
9980822 TGTTTTTTAA
*
9980832 ATAAAAAATATGATATTT
1 ATAAAAAATATAATATTT
9980850 ATAAAAAATA-AAT-TTT
1 ATAAAAAATATAATATTT
9980866 AATCAAATAAATACT-ATATTT
1 -AT-AAA-AAATA-TAATATTT
9980887 ATAA
1 ATAA
9980891 TGTTAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 13 0.38
19 7 0.21
20 4 0.12
21 3 0.09
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAAAAAATATAATATTT
Found at i:9981588 original size:1 final size:1
Alignment explanation
Indices: 9981584--9981618 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
9981574 AACCAAAAGC
9981584 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9981619 CTGCATTCGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9988528 original size:371 final size:370
Alignment explanation
Indices: 9987551--9988548 Score: 1818
Period size: 370 Copynumber: 2.7 Consensus size: 370
9987541 CTAGTTACAG
*
9987551 TGTCACGGACCTAAGGGGGAGTTCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
9987616 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGAG
66 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGAG
9987681 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCGG
131 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCGG
9987746 AA-GGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
196 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
*
9987810 GGTATCAGAGCCAGCCCTATACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTG
261 GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTG
* * *
9987875 GCCGGCCTCCGTGACGAGGGCGTCGCAAGGTTGGGTGCGGGAGAA
326 GCCAGCCTCCGTGACGAGGGCGTCACAAGGTTGGCTGCGGGAGAA
* *
9987920 TGTCACGGACCCAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCACTGGGGTAT
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
* * *
9987985 AAAAGGATTCACACCACCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGGG
66 AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGAG
*
9988050 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGACGAAAGGCTGATCTGGGACGCCGG
131 GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCGG
*
9988115 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTAAGTCTCGACCCGTGACAAGT
196 AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
* *
9988180 GGTATTAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTTGAGGGAGGTAGGCAGGGTG
261 GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTG
9988245 GCCAGCCTCCGTGACGAGGGCGTCACAAGGTTGGCTGCGGGAGAA
326 GCCAGCCTCCGTGACGAGGGCGTCACAAGGTTGGCTGCGGGAGAA
*
9988290 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAGAAGTCCCTGGGGTA
1 TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGA-AGGTCCCTGGGGTA
* *
9988355 TAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGTCTTTTGTAGGATAAAACCGTGAGGCCAGA
65 TAAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGA
9988420 GGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCG
130 GGGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCG
*
9988485 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCAACCCGTGACAA
195 GAAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAA
9988549 CAGCCCAATG
Statistics
Matches: 602, Mismatches: 25, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
369 190 0.32
370 214 0.36
371 198 0.33
ACGTcount: A:0.24, C:0.26, G:0.34, T:0.17
Consensus pattern (370 bp):
TGTCACGGACCTAAGGGGGAGTCCTGAATCCCACATCGAACATAATAGGAAGGTCCCTGGGGTAT
AAAAGGGTTCACACCATCTCCGCCTTGTGAGGCGCCTTTTGTAGGACAAAACCGTGAGGCCAGAG
GGGCCAGAGCGGACAATACCTCACAAGGGTGTGAACCGTGGCGAAAGGCTGATCTGGGACGCCGG
AAGGGTGAATGCCCGGGTCCCGGAGCCGCGCGGGTTCGGAGCTTGAGTCTCGACCCGTGACAAGT
GGTATCAGAGCCAGCCCTAAACCGTTCGATCCACGCCAAGCACCTCGAGGGAGGTAGGCAGGGTG
GCCAGCCTCCGTGACGAGGGCGTCACAAGGTTGGCTGCGGGAGAA
Found at i:9995014 original size:22 final size:22
Alignment explanation
Indices: 9994965--9995017 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9994955 AATGAGTAAA
9994965 TAAAAATT-AAAAATTATAATC
1 TAAAAATTAAAAAATTATAATC
*
9994986 -AATAAATTAAAAAATT-TTATC
1 TAA-AAATTAAAAAATTATAATC
9995007 GTAAAAATTAA
1 -TAAAAATTAA
9995018 TTGTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.07
21 9 0.33
22 14 0.52
23 2 0.07
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
TAAAAATTAAAAAATTATAATC
Found at i:9995037 original size:10 final size:11
Alignment explanation
Indices: 9995022--9995051 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
9995012 AATTAATTGT
9995022 ATAAAATTTTA
1 ATAAAATTTTA
9995033 A-AAAATTTTA
1 ATAAAATTTTA
9995043 ATAAAATTT
1 ATAAAATTT
9995052 GATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
ATAAAATTTTA
Found at i:9995126 original size:28 final size:28
Alignment explanation
Indices: 9995072--9995141 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
9995062 TTAAATTAAT
9995072 ATTTT-TTAAT-AA-AAATATTAATAAA
1 ATTTTATTAATAAATAAATATTAATAAA
* *
9995097 ATTTTATTAATAAATAAATATTGATCAA
1 ATTTTATTAATAAATAAATATTAATAAA
9995125 ATTTTAATT-ATAAATAA
1 ATTTT-ATTAATAAATAA
9995142 TTTTTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.13
26 5 0.13
27 2 0.05
28 24 0.62
29 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (28 bp):
ATTTTATTAATAAATAAATATTAATAAA
Found at i:10001355 original size:54 final size:53
Alignment explanation
Indices: 10001297--10001659 Score: 244
Period size: 54 Copynumber: 6.7 Consensus size: 53
10001287 GTGAGGGAAG
* * *
10001297 CATTACTGGAAGTCAGATTCCTAGAAGGGAATCAACCCCAACTTCTGAAGGGAT
1 CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAACCTC-ACTTCTGAAGGGAT
* * **
10001351 CATTACTGG-AGATCAAATTTCTACAAGGGAATTAACCTTCACCCCTGATA-GGAT
1 CATTACTGGAAG-TCAAATTTCTAGAAGGGAATCAACC-TCACTTCTGA-AGGGAT
* * * **
10001405 CATTACTGGAAATCAAACTTT-GAGAAAGGAATCAACCTTCACCCCTGATA-GGAT
1 CATTACTGGAAGTCAAA-TTTCTAGAAGGGAATCAACC-TCACTTCTGA-AGGGAT
* * ** *
10001459 CATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCTTTGCTTCT--AGTGGCGT
1 CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAA-CCTCACTTCTGAAG-GG-AT
* * *
10001513 CATTACTGG-AGATCAAATTTCTAGAAGGGAATCAACTTCTGCTTCTGATGGGAT
1 CATTACTGGAAG-TCAAATTTCTAGAAGGGAATCAACCTC-ACTTCTGAAGGGAT
* * *
10001567 CATTACTGGAAACGT--AATTACTAGAAGGGAATCAA-CTGCCATTTCTGATGGGAT
1 CATTACTGG-AA-GTCAAATTTCTAGAAGGGAATCAACCT--CACTTCTGAAGGGAT
* * * * *
10001621 CGTTTCTAGAAATCAACTTTCTAGAAGGGAAAT-AACCTC
1 CATTACTGGAAGTCAAATTTCTAGAAGGG-AATCAACCTC
10001660 TGCTAATGAT
Statistics
Matches: 252, Mismatches: 34, Indels: 47
0.76 0.10 0.14
Matches are distributed among these distances:
51 1 0.00
52 1 0.00
53 15 0.06
54 216 0.86
55 15 0.06
56 3 0.01
57 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (53 bp):
CATTACTGGAAGTCAAATTTCTAGAAGGGAATCAACCTCACTTCTGAAGGGAT
Found at i:10001516 original size:108 final size:108
Alignment explanation
Indices: 10001347--10001602 Score: 270
Period size: 108 Copynumber: 2.4 Consensus size: 108
10001337 ACTTCTGAAG
* * *
10001347 GGATCATTACTGGAGATCAAATTTCTACAAGGGAATTAACCTTCACCCCTGATAGGATCATTACT
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTTCACCCCTGATAGGATCATTACT
10001412 GGAAATCAAACTTT-GAGAAAGGAATCAACCTTC-ACCCCTGATA
66 GGAAATCAAA-TTTCGAGAAAGGAATCAA-CTTCTACCCCTGATA
* ** ** *
10001455 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAGCTTTGCTTCT-AGT-GGCGTCATTA
1 GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTTCACCCCTGA-TAGG-ATCATTA
* * * * ** *
10001518 CTGGAGATCAAATTTCTAGAAGGGAATCAACTTCTGCTTCTGATG
64 CTGGAAATCAAATTTCGAGAAAGGAATCAACTTCTACCCCTGATA
* *
10001563 GGATCATTACTGGAAA-CGTAATTACTAGAAGGGAATCAAC
1 GGATCATTACTGGAAATC-AAATTTCTAGAAGGGAATCAAC
10001603 TGCCATTTCT
Statistics
Matches: 124, Mismatches: 19, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
107 11 0.09
108 113 0.91
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (108 bp):
GGATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAACCTTCACCCCTGATAGGATCATTACT
GGAAATCAAATTTCGAGAAAGGAATCAACTTCTACCCCTGATA
Found at i:10001600 original size:162 final size:162
Alignment explanation
Indices: 10001350--10001651 Score: 371
Period size: 162 Copynumber: 1.9 Consensus size: 162
10001340 TCTGAAGGGA
*
10001350 TCATTACTGGAGATCAAATTTCTACAAGGGAATTAACCTTCACCCCTGATAGGATCATTACTGGA
1 TCATTACTGGAGATCAAATTTCTACAAGGGAATCAACCTTCACCCCTGATAGGATCATTACTGGA
* *
10001415 AATCAAACTTTGAGAAAGGAATCAACCT-TCACCCCTGATAGGATCATTACTGGAAATCAAATTT
66 AATCAAACTTTGAGAAAGGAATCAA-CTGCCACCCCTGATAGGATCATTACTAGAAATCAAATTT
10001479 CTAGAAGGGAATCAAGCTTTGCTTCTAGTGGCG
130 CTAGAAGGGAATCAAGCTTTGCTTCTAGTGGCG
* * ** *
10001512 TCATTACTGGAGATCAAATTTCTAGAAGGGAATCAA-CTTCTGCTTCTGATGGGATCATTACTGG
1 TCATTACTGGAGATCAAATTTCTACAAGGGAATCAACCTTC-ACCCCTGATAGGATCATTACTGG
* * *** * * * *
10001576 AAA-CGTAA-TTACT-AGAAGGGAATCAACTGCCATTTCTGATGGGATCGTTTCTAGAAATCAAC
65 AAATC-AAACTT--TGAGAAAGGAATCAACTGCCACCCCTGATAGGATCATTACTAGAAATCAAA
10001638 TTTCTAGAAGGGAA
127 TTTCTAGAAGGGAA
10001652 ATAACCTCTG
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
161 9 0.08
162 108 0.92
163 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (162 bp):
TCATTACTGGAGATCAAATTTCTACAAGGGAATCAACCTTCACCCCTGATAGGATCATTACTGGA
AATCAAACTTTGAGAAAGGAATCAACTGCCACCCCTGATAGGATCATTACTAGAAATCAAATTTC
TAGAAGGGAATCAAGCTTTGCTTCTAGTGGCG
Found at i:10004459 original size:34 final size:34
Alignment explanation
Indices: 10004416--10004484 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10004406 AATCAGAAAT
10004416 TACAGTTACTTAACAAAGAAGAAGAAGATAACAA
1 TACAGTTACTTAACAAAGAAGAAGAAGATAACAA
10004450 TACAGTTACTTAACAAAGAAGAAGAAGATAACAA
1 TACAGTTACTTAACAAAGAAGAAGAAGATAACAA
10004484 T
1 T
10004485 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (34 bp):
TACAGTTACTTAACAAAGAAGAAGAAGATAACAA
Found at i:10012820 original size:26 final size:25
Alignment explanation
Indices: 10012779--10012829 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
10012769 ATTTTAATAA
10012779 AATTAAATTAATATAAATTTT-TTTT
1 AATTAAATTAATAT-AATTTTATTTT
10012804 AATTATAATT-ATAATAATTTTATTTT
1 AATTA-AATTAAT-ATAATTTTATTTT
10012830 CTTTGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AATTAAATTAATATAATTTTATTTT
Found at i:10012829 original size:30 final size:31
Alignment explanation
Indices: 10012795--10012861 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
10012785 ATTAATATAA
*
10012795 ATTTTTTTTAATTATAATTATAATAATTTT-
1 ATTTTTTTTAATCATAATTATAATAATTTTC
* * * *
10012825 ATTTTCTTTGATCATAATTATATTATTTTTC
1 ATTTTTTTTAATCATAATTATAATAATTTTC
10012856 ATTTTT
1 ATTTTT
10012862 ATTTTTAGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (31 bp):
ATTTTTTTTAATCATAATTATAATAATTTTC
Found at i:10019144 original size:95 final size:96
Alignment explanation
Indices: 10018968--10019165 Score: 355
Period size: 95 Copynumber: 2.1 Consensus size: 96
10018958 TTTCTTGGAC
10018968 CATC-CAAATATGACCTAATTTTGTAAAGTAGCAGATCATTGGCTTTCAAAGTTCATCCTAATTT
1 CATCTCAAATATGACCTAATTTTGTAAAGTAGCAGATCATTGGCTTTCAAAGTTCATCCTAATTT
*
10019032 GTTTCTGAATTGCTGGAAGCCTTCATTATTT
66 GTTTCTGAATTGCTGGAAACCTTCATTATTT
*
10019063 CATCTCAATTATGACCTAATTTTGT-AAGTAGCAGATCATTGGCTTTCAAAGTTCATCCTAATTT
1 CATCTCAAATATGACCTAATTTTGTAAAGTAGCAGATCATTGGCTTTCAAAGTTCATCCTAATTT
*
10019127 GTTTCTGAATTGTTGGAAACCTTCATTATTT
66 GTTTCTGAATTGCTGGAAACCTTCATTATTT
10019158 CATCTCAA
1 CATCTCAA
10019166 GTATTGTTGT
Statistics
Matches: 99, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
95 80 0.81
96 19 0.19
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (96 bp):
CATCTCAAATATGACCTAATTTTGTAAAGTAGCAGATCATTGGCTTTCAAAGTTCATCCTAATTT
GTTTCTGAATTGCTGGAAACCTTCATTATTT
Found at i:10037867 original size:2 final size:2
Alignment explanation
Indices: 10037860--10037890 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10037850 TAGTTGGTAA
*
10037860 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10037891 AGTTTACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10041807 original size:26 final size:27
Alignment explanation
Indices: 10041778--10041851 Score: 98
Period size: 26 Copynumber: 2.7 Consensus size: 27
10041768 TTTATTTTTA
10041778 TTTTATAAAT-TAATATTAA-ATAAATT
1 TTTTATAAATAT-ATATTAATATAAATT
*
10041804 TTTTATAAATATATATTAATATATATT
1 TTTTATAAATATATATTAATATAAATT
*
10041831 TTTTAATAAAAATATATTAAT
1 TTTT-ATAAATATATATTAAT
10041852 TTTAATTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.40
27 11 0.26
28 15 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTTATAAATATATATTAATATAAATT
Found at i:10041845 original size:28 final size:27
Alignment explanation
Indices: 10041790--10041899 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 27
10041780 TTATAAATTA
* * *
10041790 ATATTAAATAAATT-TTTTATAAATAT
1 ATATTAAATATATTATTTAATAAAAAT
*
10041816 ATATTAATATATATTTTTTAATAAAAAT
1 ATATTAA-ATATATTATTTAATAAAAAT
* *
10041844 ATATT-AAT-T-TTAATTAATTTAAAAT
1 ATATTAAATATATTATTTAA-TAAAAAT
*
10041869 A-A-TAATTTATATTATTTAATAAAAAT
1 ATATTAA-ATATATTATTTAATAAAAAT
10041895 ATATT
1 ATATT
10041900 TATTAAAATA
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
23 1 0.02
24 8 0.12
25 9 0.14
26 17 0.26
27 15 0.23
28 16 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATTAAATATATTATTTAATAAAAAT
Found at i:10041850 original size:14 final size:14
Alignment explanation
Indices: 10041808--10041851 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
10041798 TAAATTTTTT
10041808 ATAAATATATATTA
1 ATAAATATATATTA
* * *
10041822 ATATATATTTTTTA
1 ATAAATATATATTA
*
10041836 ATAAAAATATATTA
1 ATAAATATATATTA
10041850 AT
1 AT
10041852 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAAATATATATTA
Found at i:10041882 original size:23 final size:24
Alignment explanation
Indices: 10041825--10041902 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
10041815 TATATTAATA
*
10041825 TATATTTTTTAATAAAAATATATT
1 TATATTATTTAATAAAAATATATT
* * * *
10041849 AATTTTAATTAATTTAAAATAATAATT
1 TATATTATTTAA-TAAAAAT-AT-ATT
10041876 TATATTATTTAATAAAAATATATT
1 TATATTATTTAATAAAAATATATT
10041900 TAT
1 TAT
10041903 TAAAATATAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
24 14 0.33
25 8 0.19
26 8 0.19
27 12 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATTATTTAATAAAAATATATT
Found at i:10041909 original size:20 final size:20
Alignment explanation
Indices: 10041862--10041928 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
10041852 TTTAATTAAT
* *
10041862 TTAAAATAATAATTTATATTA
1 TTAAAATAAAAATATAT-TTA
*
10041883 TT-TAATAAAAATATATTTA
1 TTAAAATAAAAATATATTTA
*
10041902 TTAAAATATAAAA-ATATATA
1 TTAAAATA-AAAATATATTTA
10041922 -TAAAATA
1 TTAAAATA
10041929 TGAACACAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 12 0.31
20 21 0.54
21 6 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAATAAAAATATATTTA
Found at i:10042715 original size:22 final size:23
Alignment explanation
Indices: 10042683--10042725 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
10042673 CTTTTCATTA
10042683 TTTAAAATTTTTAATT-TAATAT
1 TTTAAAATTTTTAATTATAATAT
* *
10042705 TTTAAATTTTTTTATTATAAT
1 TTTAAAATTTTTAATTATAAT
10042726 TCACTCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTAAAATTTTTAATTATAATAT
Found at i:10042801 original size:21 final size:21
Alignment explanation
Indices: 10042764--10042803 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10042754 AATATATATT
*
10042764 TTATTATTAATTTTAATTTCA
1 TTATTATTAATTATAATTTCA
10042785 TTATTA-TAATTAATAATTT
1 TTATTATTAATT-ATAATTT
10042804 TATCTTCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTATTATTAATTATAATTTCA
Found at i:10045089 original size:13 final size:13
Alignment explanation
Indices: 10045073--10045097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10045063 TTAATGGTAA
10045073 AAATAAAATTAAT
1 AAATAAAATTAAT
10045086 AAATAAAATTAA
1 AAATAAAATTAA
10045098 AATTATTGGT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAAATTAAT
Found at i:10045293 original size:16 final size:16
Alignment explanation
Indices: 10045242--10045300 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 16
10045232 TATTTTAATT
10045242 TTTATTGTAATAATAAA
1 TTTATT-TAATAATAAA
* *
10045259 TTTTATTTAATTATTAA
1 -TTTATTTAATAATAAA
10045276 TTTA-TTATATAATAAA
1 TTTATTTA-ATAATAAA
10045292 TTTTATTTA
1 -TTTATTTA
10045301 GAAAATGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 3 0.09
16 10 0.29
17 12 0.35
18 9 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTATTTAATAATAAA
Found at i:10047329 original size:18 final size:16
Alignment explanation
Indices: 10047306--10047339 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
10047296 ATTTTTGTGC
10047306 AAAGAAATGTTTGATTGT
1 AAAGAAAT-TTT-ATTGT
10047324 AAAGAAATTTTATTGT
1 AAAGAAATTTTATTGT
10047340 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
AAAGAAATTTTATTGT
Found at i:10062590 original size:145 final size:145
Alignment explanation
Indices: 10062327--10062616 Score: 580
Period size: 145 Copynumber: 2.0 Consensus size: 145
10062317 ATTCCTGGTT
10062327 TCCTAAAGTCCAAATTAAACTCGAGTGCTTTGTTTGTATGCATCATGTCAATTGAGTCGGATGGG
1 TCCTAAAGTCCAAATTAAACTCGAGTGCTTTGTTTGTATGCATCATGTCAATTGAGTCGGATGGG
10062392 CTGAACAATTCAAGACACTCAGTGTGGAAACCCGCACCTAACCTAGGAATTATTGTTTGTTTTAA
66 CTGAACAATTCAAGACACTCAGTGTGGAAACCCGCACCTAACCTAGGAATTATTGTTTGTTTTAA
10062457 CCCGAAGGTCTCACG
131 CCCGAAGGTCTCACG
10062472 TCCTAAAGTCCAAATTAAACTCGAGTGCTTTGTTTGTATGCATCATGTCAATTGAGTCGGATGGG
1 TCCTAAAGTCCAAATTAAACTCGAGTGCTTTGTTTGTATGCATCATGTCAATTGAGTCGGATGGG
10062537 CTGAACAATTCAAGACACTCAGTGTGGAAACCCGCACCTAACCTAGGAATTATTGTTTGTTTTAA
66 CTGAACAATTCAAGACACTCAGTGTGGAAACCCGCACCTAACCTAGGAATTATTGTTTGTTTTAA
10062602 CCCGAAGGTCTCACG
131 CCCGAAGGTCTCACG
10062617 ATTTTATTCC
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 145 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (145 bp):
TCCTAAAGTCCAAATTAAACTCGAGTGCTTTGTTTGTATGCATCATGTCAATTGAGTCGGATGGG
CTGAACAATTCAAGACACTCAGTGTGGAAACCCGCACCTAACCTAGGAATTATTGTTTGTTTTAA
CCCGAAGGTCTCACG
Found at i:10062824 original size:91 final size:91
Alignment explanation
Indices: 10062669--10062844 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 91
10062659 TTCTGCATAT
* * *
10062669 ATACCATAGCAAATCCTCACAATTTCCCAATGTGGGATCAGGGTGTCACACTCAAAGGACACAAA
1 ATACCATAGAAAATCCTCACAATTTCACAATGTAGGATCAGGGTGTCACACTCAAAGGACACAAA
10062734 CATAAAACCTTCTATTGTCTTTTTTC
66 CATAAAACCTTCTATTGTCTTTTTTC
* *
10062760 ATACCATAGAAAATCCTCACAATTTCACAATGTAGGAT-TGGAGTGTCACACTTAAAGGACACAA
1 ATACCATAGAAAATCCTCACAATTTCACAATGTAGGATCAGG-GTGTCACACTCAAAGGACACAA
10062824 ACATAAAACCTTCTATTGTCT
65 ACATAAAACCTTCTATTGTCT
10062845 CCTCAGTTGC
Statistics
Matches: 79, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
90 2 0.03
91 77 0.97
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (91 bp):
ATACCATAGAAAATCCTCACAATTTCACAATGTAGGATCAGGGTGTCACACTCAAAGGACACAAA
CATAAAACCTTCTATTGTCTTTTTTC
Found at i:10064999 original size:10 final size:10
Alignment explanation
Indices: 10064986--10065015 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10064976 TCGAGGTTTT
10064986 TATATTTTAA
1 TATATTTTAA
10064996 TATATTTTAA
1 TATATTTTAA
10065006 T-TATTTTAA
1 TATATTTTAA
10065015 T
1 T
10065016 TAATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:10065012 original size:9 final size:9
Alignment explanation
Indices: 10064988--10065017 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10064978 GAGGTTTTTA
10064988 TATTTTAAT
1 TATTTTAAT
10064997 ATATTTTAAT
1 -TATTTTAAT
10065007 TATTTTAAT
1 TATTTTAAT
10065016 TA
1 TA
10065018 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:10067046 original size:46 final size:45
Alignment explanation
Indices: 10066996--10067085 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 45
10066986 ATAAATAAAT
* *
10066996 TATTTAAAATATTTTTAT-TCAAAAAATACTTTCAATAATCTATTTA
1 TATTTAAAATATTTTTATAT-AAAAAACACTTTAAATAAT-TATTTA
** *
10067042 TATTTAAGGTATTTTTGTATAAAAAACACTTTAAATAATTATTT
1 TATTTAAAATATTTTTATATAAAAAACACTTTAAATAATTATTT
10067086 TAGATTTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
45 5 0.13
46 32 0.84
47 1 0.03
ACGTcount: A:0.42, C:0.07, G:0.03, T:0.48
Consensus pattern (45 bp):
TATTTAAAATATTTTTATATAAAAAACACTTTAAATAATTATTTA
Found at i:10069028 original size:20 final size:22
Alignment explanation
Indices: 10069000--10069042 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
10068990 TATATGTATT
*
10069000 TTTTGTTATTTATA-TTTTTCA
1 TTTTGTTATTTAAAGTTTTTCA
10069021 TTTT-TTATTTAAAGTTTTTCA
1 TTTTGTTATTTAAAGTTTTTCA
10069042 T
1 T
10069043 ATAACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (22 bp):
TTTTGTTATTTAAAGTTTTTCA
Found at i:10070995 original size:14 final size:14
Alignment explanation
Indices: 10070976--10071010 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
10070966 ATGCTACATA
10070976 TATATATATATATG
1 TATATATATATATG
* *
10070990 TATATATATGTTTG
1 TATATATATATATG
10071004 TATATAT
1 TATATAT
10071011 GGGGCTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (14 bp):
TATATATATATATG
Found at i:10077796 original size:33 final size:32
Alignment explanation
Indices: 10077725--10077796 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 32
10077715 GTTTAATTTT
* *
10077725 TTTGTTGATGTAATAAATATACAAATATAATA
1 TTTGTTGATATAATAAATATACAAAAATAATA
*
10077757 TATTGTTGATATAATAAATATATAAAAATAAATA
1 T-TTGTTGATATAATAAATATACAAAAAT-AATA
10077791 TTTGTT
1 TTTGTT
10077797 TAATTTTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.43
Consensus pattern (32 bp):
TTTGTTGATATAATAAATATACAAAAATAATA
Found at i:10077842 original size:24 final size:25
Alignment explanation
Indices: 10077815--10077871 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
10077805 TTTAAATAAT
* * * *
10077815 ATAAATTATTTGAAATTAAT-TTGA
1 ATAAATTATGTAAAATAAATATTAA
*
10077839 ATAAAATATGTAAAATAAATATTAA
1 ATAAATTATGTAAAATAAATATTAA
10077864 ATAAATTA
1 ATAAATTA
10077872 AATTAAGAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (25 bp):
ATAAATTATGTAAAATAAATATTAA
Found at i:10082010 original size:6 final size:6
Alignment explanation
Indices: 10081981--10082049 Score: 70
Period size: 6 Copynumber: 11.2 Consensus size: 6
10081971 TTTCTCTTCA
* *
10081981 TTTTCT TTTTAT TTTT-T TAATTTAT TTTTAT TTTGTAT TTTACAT TTTTA-
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTAT
10082031 TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT T
10082050 ATTTTATATA
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
5 7 0.13
6 31 0.57
7 14 0.26
8 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:10082054 original size:25 final size:25
Alignment explanation
Indices: 10081980--10082056 Score: 79
Period size: 25 Copynumber: 3.1 Consensus size: 25
10081970 TTTTCTCTTC
* *
10081980 ATTTTCTTTTTATTTTT-TTAATTT
1 ATTTTATTTTTATTTTTATTATTTT
*
10082004 ATTTTTATTTTGTA-TTTTA-CATTTTT
1 A-TTTTATTTT-TATTTTTATTA-TTTT
10082030 ATTTTATTTTTATTTTTATTATTTT
1 ATTTTATTTTTATTTTTATTATTTT
10082055 AT
1 AT
10082057 ATATGTATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
24 3 0.07
25 33 0.77
26 7 0.16
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (25 bp):
ATTTTATTTTTATTTTTATTATTTT
Found at i:10082223 original size:21 final size:21
Alignment explanation
Indices: 10082165--10082242 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
10082155 TTTTTTTTTT
*
10082165 TCTGTTAATATTTATGTAA-TTA
1 TCTGTTAAT-TTT-TTTAATTTA
10082187 TCTGTT-ATTTAATTTTAATTTA
1 TCTGTTAATTT--TTTTAATTTA
*
10082209 TCTGTTAATTTTTTTGATTTA
1 TCTGTTAATTTTTTTAATTTA
*
10082230 TCTGATTTATTTT
1 TCTG-TTAATTTT
10082243 CGTTTGATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 2 0.04
21 19 0.40
22 23 0.48
23 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.63
Consensus pattern (21 bp):
TCTGTTAATTTTTTTAATTTA
Found at i:10083132 original size:11 final size:11
Alignment explanation
Indices: 10083088--10083220 Score: 63
Period size: 11 Copynumber: 12.5 Consensus size: 11
10083078 TTTTTTTTGA
10083088 ATTTATTTATTT
1 ATTT-TTTATTT
10083100 ATTTGTTTATTT
1 ATTT-TTTATTT
*
10083112 -GTTTTT-TTT
1 ATTTTTTATTT
10083121 ATTTTTTATTT
1 ATTTTTTATTT
**
10083132 A--TTAGA-TT
1 ATTTTTTATTT
*
10083140 A-TGTTTATTT
1 ATTTTTTATTT
*
10083150 AATATTCTT-TTT
1 -AT-TTTTTATTT
*
10083162 A-TCTTTATTT
1 ATTTTTTATTT
10083172 -TATTTTTATTT
1 AT-TTTTTATTT
10083183 -TTGTTTTACTTT
1 ATT-TTTTA-TTT
*
10083195 TTTTTTTATTT
1 ATTTTTTATTT
10083206 -TTTTTTATTT
1 ATTTTTTATTT
10083216 ATTTT
1 ATTTT
10083221 CAATTTTTTT
Statistics
Matches: 94, Mismatches: 13, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
8 3 0.03
9 11 0.12
10 24 0.26
11 29 0.31
12 22 0.23
13 5 0.05
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.77
Consensus pattern (11 bp):
ATTTTTTATTT
Found at i:10083150 original size:4 final size:4
Alignment explanation
Indices: 10083088--10083134 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
10083078 TTTTTTTTGA
* * *
10083088 ATTT ATTT ATTT ATTT GTTT ATTT GTTTT TTTT ATTT -TTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT ATTT ATTT ATT
10083135 AGATTATGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 3 0.08
4 31 0.84
5 3 0.08
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:10083178 original size:6 final size:6
Alignment explanation
Indices: 10083157--10083215 Score: 56
Period size: 5 Copynumber: 10.5 Consensus size: 6
10083147 TTTAATATTC
* *
10083157 TTTTTA TCTTTA -TTTTA TTTTTA TTTTT- GTTTTA CTTTTT- TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA
10083203 -TTTT- TTTTTA TTT
1 TTTTTA TTTTTA TTT
10083216 ATTTTCAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
5 21 0.49
6 18 0.42
7 4 0.09
ACGTcount: A:0.12, C:0.03, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:10083179 original size:17 final size:17
Alignment explanation
Indices: 10083113--10083215 Score: 79
Period size: 17 Copynumber: 6.1 Consensus size: 17
10083103 TGTTTATTTG
10083113 TTTT-TTTTATTTTTTAT
1 TTTTATTTTA-TTTTTAT
** *
10083130 TTATTAGATTATGTTTA-
1 TT-TTATTTTATTTTTAT
* * *
10083147 TTTAATATTCTTTTTAT
1 TTTTATTTTATTTTTAT
*
10083164 CTTTATTTTATTTTTAT
1 TTTTATTTTATTTTTAT
*
10083181 TTTTGTTTTACTTTTT-T
1 TTTTATTTTA-TTTTTAT
10083198 TTTTATTTT-TTTTTAT
1 TTTTATTTTATTTTTAT
10083214 TT
1 TT
10083216 ATTTTCAATT
Statistics
Matches: 67, Mismatches: 14, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
15 5 0.07
16 13 0.19
17 34 0.51
18 12 0.18
19 3 0.04
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATTTTATTTTTAT
Found at i:10083206 original size:10 final size:10
Alignment explanation
Indices: 10083165--10083230 Score: 69
Period size: 11 Copynumber: 6.1 Consensus size: 10
10083155 TCTTTTTATC
10083165 TTTATTTTATT
1 TTTATTTT-TT
10083176 TTTATTTTTGT
1 TTTATTTTT-T
10083187 TTTACTTTTTTT
1 TTTA--TTTTTT
10083199 TTTATTTTTT
1 TTTATTTTTT
10083209 TTTATTTATTT
1 TTTATTT-TTT
**
10083220 TCAATTTTTT
1 TTTATTTTTT
10083230 T
1 T
10083231 GTTTCATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
10 18 0.37
11 21 0.43
12 5 0.10
13 5 0.10
ACGTcount: A:0.14, C:0.03, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:10083420 original size:117 final size:117
Alignment explanation
Indices: 10083293--10083610 Score: 381
Period size: 117 Copynumber: 2.7 Consensus size: 117
10083283 GAAAAAATTG
* *
10083293 AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGTTTTTGAGGAAAAATTGAAAGTAT
1 AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAA-GATTTTTGAGGAAAAGTTGAAAGTAT
* * * *
10083358 CAATTTTCTTTGAAAATCAAAGTTTCCAAAAAAT-ATTTTTGGGGAAAAGTTA
65 CAATTTTCTCTCAAAATCAAAGTTTCAAAAAAATAATTTTTGAGGAAAAGTTA
* *
10083410 AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTTGGGGAAAAGTTGAAAGT
1 AAAGTATCAATTTTTCTTAAAAATAAATTTTC---AAAAAAGATTTTTGAGGAAAAGTTGAAAGT
* * *
10083475 ATCAATTTTC-CTCAAAATTAATGTTTCAAAAAAATAAATTTTTGAGGAAAAGTTG
63 ATCAATTTTCTCTCAAAATCAAAGTTTCAAAAAAAT-AATTTTTGAGGAAAAGTTA
* ** * * * * *
10083530 AAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAATATTTTGGA-GAACAGTTGAAAGTAT
1 AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAA-AAGATTTTTGAGGAAAAGTTGAAAGTAT
10083594 CAATTTTCTCTGCAAAA
65 CAATTTTCTCT-CAAAA
10083611 AAAAAAACAA
Statistics
Matches: 173, Mismatches: 20, Indels: 14
0.84 0.10 0.07
Matches are distributed among these distances:
117 59 0.34
118 29 0.17
119 36 0.21
120 49 0.28
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTGAGGAAAAGTTGAAAGTATC
AATTTTCTCTCAAAATCAAAGTTTCAAAAAAATAATTTTTGAGGAAAAGTTA
Found at i:10083449 original size:60 final size:58
Alignment explanation
Indices: 10083285--10083600 Score: 341
Period size: 60 Copynumber: 5.4 Consensus size: 58
10083275 TATTTTAAGA
* *** *
10083285 AAAAATTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGGGTTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGG
* * * *
10083343 AAAAATTGAAAGTATCAA-TTTTCTTTGAAAATCAAAGTTTCCAAAAAATATTTTTGGGG
1 AAAAGTTGAAAGTATCAATTTTTC-TTAAAAAT-AAATTTTCAAAAAAATATTTTTGGGG
* *
10083402 AAAAGTTAAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAAAGTTTTTTGGGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATA--TTTTTGGGG
* * * *
10083462 AAAAGTTGAAAGTATCAA-TTTTCCTCAAAATTAATGTTTCAAAAAAATAAATTTTTGAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAT-TTTCAAAAAAAT--ATTTTTGGGG
* ** * * * *
10083522 AAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTCAAAAGAATA-TTTTGGAG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGG
*
10083579 AACAGTTGAAAGTATCAATTTT
1 AAAAGTTGAAAGTATCAATTTT
10083601 CTCTGCAAAA
Statistics
Matches: 219, Mismatches: 30, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
57 32 0.15
58 40 0.18
59 57 0.26
60 79 0.36
61 10 0.05
62 1 0.00
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAATATTTTTGGGG
Found at i:10087554 original size:22 final size:19
Alignment explanation
Indices: 10087509--10087547 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
10087499 ACAATGGATG
*
10087509 AAAAATGAGAAAAAAGAAA
1 AAAAATGAGAAAAAAAAAA
10087528 AAAAATGATGAAAAAAAAAA
1 AAAAATGA-GAAAAAAAAAA
10087548 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (19 bp):
AAAAATGAGAAAAAAAAAA
Found at i:10087558 original size:17 final size:17
Alignment explanation
Indices: 10087509--10087606 Score: 76
Period size: 17 Copynumber: 5.8 Consensus size: 17
10087499 ACAATGGATG
10087509 AAAAATGAGAAAAAAGAAA
1 AAAAATGA-AAAAAA-AAA
**
10087528 AAAAATG--ATGAAAAA
1 AAAAATGAAAAAAAAAA
*
10087543 AAAAATTAAAAAAAAAA
1 AAAAATGAAAAAAAAAA
* *
10087560 AAGAAA-GAAAGAAGAAA
1 AA-AAATGAAAAAAAAAA
* **
10087577 AAAAATGAGAAAATGAA
1 AAAAATGAAAAAAAAAA
10087594 AAAAATGAAAAAA
1 AAAAATGAAAAAA
10087607 GAGATTCAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
15 9 0.15
16 6 0.10
17 37 0.60
18 3 0.05
19 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (17 bp):
AAAAATGAAAAAAAAAA
Found at i:10087582 original size:34 final size:36
Alignment explanation
Indices: 10087540--10087608 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
10087530 AAATGATGAA
*
10087540 AAAAAAAATTA-AAAA-AAAAAAA-GAAAGAAAGAAG
1 AAAAAAAATGAGAAAAGAAAAAAATGAAA-AAAGAAG
10087574 AAAAAAAATGAGAAAATGAAAAAAATGAAAAAAGA
1 AAAAAAAATGAGAAAA-GAAAAAAATGAAAAAAGA
10087609 GATTCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 10 0.33
35 4 0.13
37 12 0.40
38 4 0.13
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (36 bp):
AAAAAAAATGAGAAAAGAAAAAAATGAAAAAAGAAG
Found at i:10088907 original size:41 final size:41
Alignment explanation
Indices: 10088849--10089392 Score: 750
Period size: 41 Copynumber: 13.1 Consensus size: 41
10088839 ATGATTGTCA
*
10088849 AGGAGCAA-TTACTTTCCAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
10088889 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
10088930 AGGAGTAATTTACTTTCCAAAGTTGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * * * *
10088971 AGGAGCAATTTATTTTTCAAAGTCATGATGCCTTTGTTTAA
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
10089012 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
10089053 AGGAGCAATTTACTTTCCAAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCC-AAAGTCGTGGTGCCTCTGTTTAG
* *
10089095 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
10089136 AGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
10089177 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
10089219 AGGAGCATTTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
10089260 AGGAACAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * * *
10089302 AGGAGCAATTTATTTTTCCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAGCAATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
10089344 AGGAGCCATTTA-TGTCTCTCAAAGTCGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTACT-T-TC-CAAAGTCGTGGTGCCTCTGTTTAG
10089387 AGGAGC
1 AGGAGC
10089393 TTTGATCAAA
Statistics
Matches: 457, Mismatches: 39, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
40 9 0.02
41 267 0.58
42 152 0.33
43 29 0.06
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:10089116 original size:83 final size:82
Alignment explanation
Indices: 10088849--10089392 Score: 741
Period size: 83 Copynumber: 6.6 Consensus size: 82
10088839 ATGATTGTCA
* * *
10088849 AGGAGCAA-TTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
*
10088913 GTGGTGCCTCTGTTTAG
66 GTGATGCCTCTGTTTAG
* * * * * * *
10088930 AGGAGTAATTTACTTTCCAAAGTTGTGGTACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* * *
10088995 ATGATGCCTTTGTTTAA
66 GTGATGCCTCTGTTTAG
* *
10089012 AGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAAGT
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC-AAAGT
10089077 CGTGATGCCTCTGTTTAG
65 CGTGATGCCTCTGTTTAG
*
10089095 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* *
10089160 GTGGTGTCTCTGTTTAG
66 GTGATGCCTCTGTTTAG
* * *
10089177 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCATTTTATTTTTCAAAGT
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
*
10089242 CGTGGTGCCTCTGTTTAG
65 CGTGATGCCTCTGTTTAG
* *
10089260 AGGAACAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAG
1 AGGAGCAATTTA-TTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAG
*
10089325 TCGTTGA-GCCTCTGATTAG
64 TCG-TGATGCCTCTGTTTAG
* * * *
10089344 AGGAGCCATTTATGTCTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAT-T-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
10089393 TTTGATCAAA
Statistics
Matches: 419, Mismatches: 37, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
81 7 0.02
82 151 0.36
83 195 0.47
84 34 0.08
85 32 0.08
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (82 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
GTGATGCCTCTGTTTAG
Found at i:10089145 original size:124 final size:124
Alignment explanation
Indices: 10088849--10089392 Score: 790
Period size: 124 Copynumber: 4.4 Consensus size: 124
10088839 ATGATTGTCA
* * *
10088849 AGGAGCAA-TTACTTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* * * *
10088913 GTGGTGCCTCTGTTTAGAGGAGTAATTTA-CTTTCCAAAGTTGTGGTACCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGATGCCTCTGTTTAG
* * * *
10088971 AGGAGCAATTTATTTTTCAAAGTCATGATGCCTTTGTTTAAAGGAGCAATTTACTTTCCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
10089036 GTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAAAGTCGTGATGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCC-AAAGTCGTGATGCCTCTGTTTAG
*
10089095 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
* * * *
10089160 GTGGTGTCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
66 GTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGATGCCTCTGTTTAG
* * *
10089219 AGGAGCATTTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAACAATTTACTTTTTCAAAGT
1 AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGT
* *
10089284 CGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTTGA-GCCTCTGATTAG
65 CGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCG-TGATGCCTCTGTTTAG
* * * *
10089344 AGGAGCCATTTATGTCTCTCAAAGTCGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAT-T-TTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
10089393 TTTGATCAAA
Statistics
Matches: 385, Mismatches: 30, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
122 8 0.02
123 85 0.22
124 182 0.47
125 78 0.20
126 3 0.01
127 29 0.08
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.37
Consensus pattern (124 bp):
AGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
GTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAGTCGTGATGCCTCTGTTTAG
Found at i:10089422 original size:11 final size:10
Alignment explanation
Indices: 10089400--10089443 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
10089390 AGCTTTGATC
*
10089400 AAAAACAAAA
1 AAAAAGAAAA
10089410 AAAAAGAACAA
1 AAAAAGAA-AA
*
10089421 AAAAATAAAA
1 AAAAAGAAAA
*
10089431 AAAATGAAAA
1 AAAAAGAAAA
10089441 AAA
1 AAA
10089444 GTAAAAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:10089430 original size:21 final size:20
Alignment explanation
Indices: 10089400--10089443 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
10089390 AGCTTTGATC
10089400 AAAAACAAAAAAAAAGAACAA
1 AAAAACAAAAAAAAAGAA-AA
* *
10089421 AAAAATAAAAAAAATGAAAA
1 AAAAACAAAAAAAAAGAAAA
10089441 AAA
1 AAA
10089444 GTAAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.86, C:0.05, G:0.05, T:0.05
Consensus pattern (20 bp):
AAAAACAAAAAAAAAGAAAA
Found at i:10089632 original size:25 final size:23
Alignment explanation
Indices: 10089593--10089698 Score: 81
Period size: 26 Copynumber: 4.3 Consensus size: 23
10089583 TAAGTTTGTA
*
10089593 TATTTTTTTTCTTTTTCTCTTCATTT
1 TATTTTTATT-TTTTT-T-TTCATTT
10089619 TATTTTTATTTTTTTAATTT-ATTTT
1 TATTTTTATTTTTTT--TTTCA-TTT
*
10089644 TATTTTGTATTTTGTATTTTACATTT
1 TATTTT-TATTTT-T-TTTTTCATTT
*
10089670 TATTTTTATTTTTATTTT-ATTAT
1 TATTTTTATTTTTTTTTTCATT-T
10089693 TATTTT
1 TATTTT
10089699 ATATATGTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 17
0.76 0.06 0.19
Matches are distributed among these distances:
22 3 0.04
23 10 0.15
24 2 0.03
25 22 0.32
26 27 0.40
27 2 0.03
28 2 0.03
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.76
Consensus pattern (23 bp):
TATTTTTATTTTTTTTTTCATTT
Found at i:10089655 original size:32 final size:31
Alignment explanation
Indices: 10089616--10089687 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 31
10089606 TTTCTCTTCA
**
10089616 TTTTATTTT-TATTTTTTTAATTTATTTTTAT
1 TTTTATTTTGTA-TTTTACAATTTATTTTTAT
*
10089647 TTTGTATTTTGTATTTTACATTTTATTTTTAT
1 TTT-TATTTTGTATTTTACAATTTATTTTTAT
10089679 TTTTATTTT
1 TTTTATTTT
10089688 ATTATTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
31 9 0.25
32 25 0.69
33 2 0.06
ACGTcount: A:0.18, C:0.01, G:0.03, T:0.78
Consensus pattern (31 bp):
TTTTATTTTGTATTTTACAATTTATTTTTAT
Found at i:10089656 original size:7 final size:6
Alignment explanation
Indices: 10089616--10089738 Score: 85
Period size: 6 Copynumber: 19.7 Consensus size: 6
10089606 TTTCTCTTCA
*
10089616 TTTTAT TTTTAT TTTT-T TAATTTAT TTTTAT TTTGTAT TTTGTA- TTTTACA
1 TTTTAT TTTTAT TTTTAT T--TTTAT TTTTAT TTT-TAT TTT-TAT TTTTA-T
* *
10089667 TTTTAT TTTTAT TTTTA- TTTTAT TATTAT TTTATAT ATGTATAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -T-TTTAT TTTTAT
*
10089716 TTTCT-T TTATTAT TATTAT TTTT
1 TTT-TAT TT-TTAT TTTTAT TTTT
10089739 TATCTTAGAT
Statistics
Matches: 97, Mismatches: 7, Indels: 26
0.75 0.05 0.20
Matches are distributed among these distances:
5 13 0.13
6 53 0.55
7 24 0.25
8 6 0.06
9 1 0.01
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:10089718 original size:42 final size:41
Alignment explanation
Indices: 10089627--10089741 Score: 110
Period size: 42 Copynumber: 2.8 Consensus size: 41
10089617 TTTATTTTTA
* * * * *
10089627 TTTTTTTAATTTAT-TTTTATTTTGTATTTTGTATTTTACAT
1 TTTTTTTTATTTTTATTTTATTAT-TATTTTATATTGTACAT
*
10089668 TTTATTTTTATTTTTATTTTATTATTATTTTATATATGTATAT
1 TTT-TTTTTATTTTTATTTTATTATTATTTTATAT-TGTACAT
*
10089711 TTTTTTTT-CTTTTATTATTATTATT-TTTTAT
1 TTTTTTTTATTTTTATT-TTATTATTATTTTAT
10089742 CTTAGATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
41 16 0.25
42 31 0.49
43 16 0.25
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.75
Consensus pattern (41 bp):
TTTTTTTTATTTTTATTTTATTATTATTTTATATTGTACAT
Found at i:10089832 original size:22 final size:21
Alignment explanation
Indices: 10089789--10089898 Score: 68
Period size: 22 Copynumber: 5.1 Consensus size: 21
10089779 ATTTTTTTTC
*
10089789 CTGTTAATATTTATGTAA-TTAT
1 CTGTTAAT-TTT-TTTAATTTAT
10089811 CTGTT-ATTTAATTTTAATTTAT
1 CTGTTAATTT--TTTTAATTTAT
*
10089833 CTGTTAATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
* *
10089854 CTGATTTATTTTCGTTTGATTT-T
1 CTG-TTAATTTT--TTTAATTTAT
* *
10089877 -T-TTTATTTTTTTGATTTAT
1 CTGTTAATTTTTTTAATTTAT
10089896 CTG
1 CTG
10089899 GCTGAAAATT
Statistics
Matches: 75, Mismatches: 3, Indels: 21
0.76 0.03 0.21
Matches are distributed among these distances:
18 8 0.11
19 1 0.01
20 11 0.15
21 19 0.25
22 23 0.31
23 5 0.07
24 8 0.11
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (21 bp):
CTGTTAATTTTTTTAATTTAT
Found at i:10090746 original size:24 final size:25
Alignment explanation
Indices: 10090711--10090757 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
10090701 TTCAGGTTTT
10090711 TTTTTTTAATTTATTTATTTATTTG
1 TTTTTTTAATTTATTTATTTATTTG
*
10090736 TTTTTTT-ATTTTTTTATTTATT
1 TTTTTTTAATTTATTTATTTATT
10090758 AGATTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTTTTAATTTATTTATTTATTTG
Found at i:10090773 original size:4 final size:4
Alignment explanation
Indices: 10090719--10090757 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
10090709 TTTTTTTTTA
* * *
10090719 ATTT ATTT ATTT ATTT GTTT TTTT ATTT TTTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
10090758 AGATTAGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (4 bp):
ATTT
Found at i:10090812 original size:11 final size:10
Alignment explanation
Indices: 10090797--10090845 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
10090787 CTTTATTTAA
10090797 TTTTTATTTT
1 TTTTTATTTT
10090807 TGTTTTATTTT
1 T-TTTTATTTT
*
10090818 TCTTTA--TT
1 TTTTTATTTT
10090826 TTTTTATTTT
1 TTTTTATTTT
*
10090836 TATTTATTTT
1 TTTTTATTTT
10090846 CACTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 7 0.21
10 16 0.48
11 10 0.30
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:10090813 original size:18 final size:17
Alignment explanation
Indices: 10090796--10090845 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
10090786 TCTTTATTTA
10090796 ATTTTTATTT-TTGTTTT
1 ATTTTTATTTATT-TTTT
*
10090813 ATTTTTCTTTATTTTTTT
1 ATTTTTATTTA-TTTTTT
10090831 ATTTTTATTTATTTT
1 ATTTTTATTTATTTT
10090846 CACTTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.45
18 14 0.48
19 2 0.07
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (17 bp):
ATTTTTATTTATTTTTT
Found at i:10090813 original size:22 final size:23
Alignment explanation
Indices: 10090766--10090854 Score: 62
Period size: 22 Copynumber: 4.0 Consensus size: 23
10090756 TTAGATTAGG
* *
10090766 TTTATTTAA-TATTCTTTTTATC
1 TTTATTTAATTTTTATTTTTATC
*
10090788 TTTATTTAATTTTTATTTTTGT-
1 TTTATTTAATTTTTATTTTTATC
*
10090810 TTTATTT--TTCTTTATTTTTTTATT
1 TTTATTTAATT-TTTA--TTTTTATC
* *
10090834 TTTATTT-ATTTTCACTTTTAT
1 TTTATTTAATTTTTATTTTTAT
10090855 TTTGTTTCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
20 2 0.04
21 4 0.07
22 22 0.40
23 15 0.27
24 10 0.18
25 2 0.04
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (23 bp):
TTTATTTAATTTTTATTTTTATC
Found at i:10090823 original size:28 final size:28
Alignment explanation
Indices: 10090780--10090845 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
10090770 TTTAATATTC
*
10090780 TTTTTATCTTTATTTA-ATTTTTATTTT
1 TTTTTATTTTTATTTATATTTTTATTTT
* *
10090807 TGTTTTATTTTTCTTTATTTTTTTATTTT
1 T-TTTTATTTTTATTTATATTTTTATTTT
*
10090836 TATTTATTTT
1 TTTTTATTTT
10090846 CACTTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 21 0.64
29 11 0.33
ACGTcount: A:0.15, C:0.03, G:0.02, T:0.80
Consensus pattern (28 bp):
TTTTTATTTTTATTTATATTTTTATTTT
Found at i:10090851 original size:29 final size:30
Alignment explanation
Indices: 10090797--10090857 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
10090787 CTTTATTTAA
* *
10090797 TTTTTATTTTTGTTTTATTTTTC-TTTATT
1 TTTTTATTTTTGATTTATTTTACTTTTATT
10090826 TTTTTATTTTT-ATTTATTTTCACTTTTATT
1 TTTTTATTTTTGATTTATTTT-ACTTTTATT
10090856 TT
1 TT
10090858 GTTTCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 12 0.43
30 8 0.29
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.80
Consensus pattern (30 bp):
TTTTTATTTTTGATTTATTTTACTTTTATT
Found at i:10090862 original size:16 final size:15
Alignment explanation
Indices: 10090820--10090863 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
10090810 TTTATTTTTC
*
10090820 TTTATTTTTTT-ATT
1 TTTATTTTTTTCACT
10090834 TTTATTTATTTTCACT
1 TTTATTT-TTTTCACT
10090850 TTTATTTTGTTTCA
1 TTTATTTT-TTTCA
10090864 TTATTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 14 0.54
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTATTTTTTTCACT
Found at i:10090972 original size:59 final size:59
Alignment explanation
Indices: 10090901--10091224 Score: 331
Period size: 59 Copynumber: 5.5 Consensus size: 59
10090891 AAAAATATTT
10090901 TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATA
1 TTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATA
* * * * **
10090961 TTTTTTGGGAAAAGTTAAAAGTATCAATTTTCTTTAAAAAT--ATATTTTCAAAAAAGG
1 TTTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATA
* * * *
10091018 GTTTTTGAGGAAAAGTTGAAACTATCAATTTTCCTTGAAAATCAAAGTTTCCAAAAAATA
1 TTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATA
* * ** *
10091078 TTTTTGGGGAAAAGTTGAAAGTATCAATTTT-TTT-AAAA-AATAAATTTAAAAAAAAAA
1 TTTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCA-AAATTTCCAAAAAATA
* * * *
10091135 GTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCTTCG-AAATTAAAGTTT-CAAAAGAATA
1 TTTTTTGGG-AAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAA-AATA
* ** * *
10091194 -TTTTAGAAAAAATTTGACAGTATCAATTTTC
1 TTTTTTGGGAAAAGTTGAAAGTATCAATTTTC
10091225 CCTGCACAAA
Statistics
Matches: 218, Mismatches: 37, Indels: 21
0.79 0.13 0.08
Matches are distributed among these distances:
56 1 0.00
57 62 0.28
58 63 0.29
59 68 0.31
60 24 0.11
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (59 bp):
TTTTTTGGGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTCCAAAAAATA
Done.