Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 177 of 208
Found at i:56058645 original size:294 final size:291
Alignment explanation
Indices: 56058114--56058672 Score: 874
Period size: 294 Copynumber: 1.9 Consensus size: 291
56058104 ATGAAGTTGG
*
56058114 TTTATTTTGCAATTAAGACCAACAAAGACATGACAGGATAGGAGATAACAAAAAGGAGGGGGTCT
1 TTTATTTTGCAATTAAGACCAACAAAGACATGACAGGATAGGAGATAACAAAAAGGAGGGAGTCT
* *
56058179 TTGGGTCATATTTTTACCCTAGTTTGCTCTATTAGAAAAGTGTTAATTGCATCAACAATCTCTAA
66 TTGGGTCATATTTTTACCCTAGTTTGCTCTATTAGAAAAGAGTTAATTACATCAACAATCTCTAA
* *
56058244 ATTATGACTATCAATTTAAATTGGTCCCCAAACTTCAAATTATTTTAATTATATCTCCAAATTAT
131 ATTATGACCATCAATTTAAATTGGTCCCCAAACTTCAAATTATTCTAATTATATCTCCAAATTAT
* *
56058309 CGATACTGTATCAATCAAGTCCTTTTGTTATTACAGTCACATATCAAATCTTACATAGCTAAATT
196 CGATACTATATCAATCAAGTCCTTTTGTTATTACAATCACATATC-AATCTTACATAGCTAAATT
56058374 TAAAATCACATATCAAGTCCTTTTGGTTTGCA
260 TAAAATCACATATCAAGTCCTTTTGGTTTGCA
*
56058406 TTTATTTTGCAATTAAGACCAACAAAGACATGACAGGATAGGAGATAACTTACATAAA-G-GTGA
1 TTTATTTTGCAATTAAGACCAACAAAGACATGACAGGATAGGAGATAAC--A-A-AAAGGAGGGA
*
56058469 GTCTTTGGGTCATATTTTTACCCTGGTTTGCTCTATTAGAAAAGAGTTAATTACATCAAGC-ATC
62 GTCTTTGGGTCATATTTTTACCCTAGTTTGCTCTATTAGAAAAGAGTTAATTACATCAA-CAATC
* * * * *
56058533 TTTAAATTGTGACCATCAATTTCAATTGGTCCCCAAACTTTAGATTATTCTAATTATAT-TCTCA
126 TCTAAATTATGACCATCAATTTAAATTGGTCCCCAAACTTCAAATTATTCTAATTATATCTC-CA
* * *
56058597 ATTTATCGGTACTATATCAATCGAGTCCTTTTGTTATTACAATCACATATCAATCTTACATAGCT
190 AATTATCGATACTATATCAATCAAGTCCTTTTGTTATTACAATCACATATCAATCTTACATAGCT
56058662 AAATTTAAAAT
255 AAATTTAAAAT
56058673 GAAAATTTTA
Statistics
Matches: 244, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
292 49 0.20
293 27 0.11
294 162 0.66
295 3 0.01
296 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (291 bp):
TTTATTTTGCAATTAAGACCAACAAAGACATGACAGGATAGGAGATAACAAAAAGGAGGGAGTCT
TTGGGTCATATTTTTACCCTAGTTTGCTCTATTAGAAAAGAGTTAATTACATCAACAATCTCTAA
ATTATGACCATCAATTTAAATTGGTCCCCAAACTTCAAATTATTCTAATTATATCTCCAAATTAT
CGATACTATATCAATCAAGTCCTTTTGTTATTACAATCACATATCAATCTTACATAGCTAAATTT
AAAATCACATATCAAGTCCTTTTGGTTTGCA
Found at i:56060962 original size:23 final size:24
Alignment explanation
Indices: 56060923--56060967 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
56060913 ATTTGTAGTA
*
56060923 ATAATAACATGATAATG-ATAAAC
1 ATAATAAAATGATAATGTATAAAC
56060946 ATAATAAAAT-ATGAATGTATAA
1 ATAATAAAATGAT-AATGTATAA
56060968 TAATATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 13 0.68
24 4 0.21
ACGTcount: A:0.58, C:0.04, G:0.09, T:0.29
Consensus pattern (24 bp):
ATAATAAAATGATAATGTATAAAC
Found at i:56061116 original size:4 final size:4
Alignment explanation
Indices: 56061109--56061191 Score: 50
Period size: 4 Copynumber: 21.2 Consensus size: 4
56061099 TAAAATGCAC
* ** **
56061109 AATA AATA AA-A AACA AATA AAT- TTTA AATA AA-A AGGA AAT- AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
*
56061153 AGTA AATA AATCA AATCA AATA AA-A TAATA AATA AATA A
1 AATA AATA AAT-A AAT-A AATA AATA -AATA AATA AATA A
56061192 TAATAATAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
3 10 0.16
4 42 0.68
5 10 0.16
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:56061201 original size:20 final size:20
Alignment explanation
Indices: 56061146--56061218 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
56061136 ATAAAAAGGA
56061146 AATAATAAGTAAATAAATCAAAT
1 AATAATAA-T-AATAAAT-AAAT
56061169 CAAATAA-AATAATAAATAAAT
1 --AATAATAATAATAAATAAAT
*
56061190 AATAATAATAATACATAAA-
1 AATAATAATAATAAATAAAT
56061209 AATGAATAAT
1 AAT-AATAAT
56061219 CAAGAAAGGG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
19 8 0.18
20 18 0.40
21 4 0.09
22 7 0.16
23 1 0.02
24 2 0.04
25 5 0.11
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAATAATAATAAATAAAT
Found at i:56061216 original size:17 final size:16
Alignment explanation
Indices: 56061145--56061218 Score: 57
Period size: 17 Copynumber: 4.6 Consensus size: 16
56061135 AATAAAAAGG
56061145 AAATAATAAGTAAAT--
1 AAATAATAA-TAAATAA
*
56061160 AAATCA-AATCAAAT-A
1 AAATAATAAT-AAATAA
56061175 AAATAATAAATAAATAA
1 AAATAAT-AATAAATAA
* *
56061192 TAATAATAATACATAA
1 AAATAATAATAAATAA
56061208 AAATGAATAAT
1 AAAT-AATAAT
56061219 CAAGAAAGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
13 1 0.02
14 6 0.12
15 10 0.21
16 15 0.31
17 16 0.33
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATAATAATAAATAA
Found at i:56062044 original size:14 final size:15
Alignment explanation
Indices: 56062019--56062047 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56062009 AACCAAGATC
56062019 ATTTAGCATATATAT
1 ATTTAGCATATATAT
56062034 ATTTA-CATATATAT
1 ATTTAGCATATATAT
56062048 GACTCGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTAGCATATATAT
Found at i:56063610 original size:14 final size:14
Alignment explanation
Indices: 56063570--56063619 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
56063560 TTCTTTTACT
56063570 TTTTATTTAC-TTA
1 TTTTATTTACTTTA
*
56063583 CTTTACTTTACTTTA
1 TTTTA-TTTACTTTA
*
56063598 TTTTATTTGCTTTA
1 TTTTATTTACTTTA
56063612 TTTT-TTTA
1 TTTTATTTA
56063620 ATTACTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.23
14 17 0.55
15 7 0.23
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTATTTACTTTA
Found at i:56065326 original size:44 final size:44
Alignment explanation
Indices: 56065278--56065966 Score: 563
Period size: 44 Copynumber: 15.6 Consensus size: 44
56065268 TCTACTCCGT
* * * *
56065278 TGCAACCTCAGAGAGATGAGTTTTGTAGCTTTAATCTGCTTCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
* *
56065322 TGCAACTTCA-AGGAGATAAGATTTGCTATCTTCAATCTGCTCCAC
1 TGCAACTTCAGA-GAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
* * * *
56065367 TACCACTTCAGGGAAATAAGATTTGTAG-TTGTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTT-TAATCTGCTCCAC
* * *
56065411 TGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCT-CAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
* * * * *
56065455 AGCCATTTCAGAGAAATAAGATTTGTAG-TTCTAATTTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTT-TAATCTGCTCCAC
* * *
56065499 TACAACTTCAG-GAAGATAAGATTTATAGCTTTAATCTACTCCAC
1 TGCAACTTCAGAG-AGATAAGATTTGTAGCTTTAATCTGCTCCAC
* * * * * * *
56065543 TACAGCTTCA-A-AGATAAGATTTATGGTTTTAGTCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
* * *
56065585 TACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
* * * * * * * **
56065630 TGTAATTTTAGGGAGATAAGATTTGTGGCTTTAATATACTTTAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
* *
56065674 TGCAACTTCAGAGAGATAAGATTTGATATCTTTAATCTGCTCTAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
* *
56065719 TGCAACTTCA-AGGAGATAAGATTTGCTATCTTCAATCTGCTCCAC
1 TGCAACTTCAGA-GAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
** * * * * *
56065764 TGTGACTTTAG-GAAGATAAGATTTGCTATCTTCAATCTGTTCTAC
1 TGCAACTTCAGAG-AGATAAGATTTG-TAGCTTTAATCTGCTCCAC
* * * * * * *
56065809 TACGACTTCAGGGAGAAAAGATTTGCTATCTTCAATATGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTG-TAGCTTTAATCTGCTCCAC
** * *
56065854 TGTGACTTCAGGGAGATAAGATTTGT-GGTCTTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCT-TTAATCTGCTCCAC
* * *
56065898 TACAACTTCAGAGAGATAGGATTTGTGGCTTTAATCTGCTCCAC
1 TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
* *
56065942 CGCAACTTCA-AGGAGATAATATTTG
1 TGCAACTTCAGA-GAGATAAGATTTG
56065967 CCACAATAAC
Statistics
Matches: 521, Mismatches: 102, Indels: 44
0.78 0.15 0.07
Matches are distributed among these distances:
42 37 0.07
43 16 0.03
44 233 0.45
45 232 0.45
46 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TGCAACTTCAGAGAGATAAGATTTGTAGCTTTAATCTGCTCCAC
Found at i:56065375 original size:45 final size:45
Alignment explanation
Indices: 56065310--56065967 Score: 516
Period size: 45 Copynumber: 14.8 Consensus size: 45
56065300 TTGTAGCTTT
*
56065310 AATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
* * * *
56065355 AATCTGCTCCACTACCACTTCAGGGAAATAAGATTTG-TAGT-TGT-
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTA-TCT-TC
*
56065399 AATCTGCTCCACTGCAACTT-TAGAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTC
* * * * *
56065444 AATCTGCT-CACAGCCATTTC-AGAGAAATAAGATTTG-TA-GTTC
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTC
* * * * *
56065486 TAATTTGCTCCACTACAACTTC-AGGAAGATAAGATTT-ATAGCTTT
1 -AATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGCTATCTTC
* * * *
56065531 AATCTACTCCACTACAGCTTCAA--AGATAAGATTTATGGT-T-TT-
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGA-TT-TGCTATCTTC
* * *
56065573 AGTCTGCTCTACTACAACTTC-AGAGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTC
* * * * ** *
56065618 AATCTGCTCCACTGTAATTTTAGGGAGATAAGATTTG-TGGCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
* * ** * *
56065662 AATATACTTTACTGCAACTTC-AGAGAGATAAGATTTGATATCTTT
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTC
*
56065707 AATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
** *
56065752 AATCTGCTCCACTGTGACTT-TAGGAAGATAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTTGCTATCTTC
* * * * * *
56065797 AATCTGTTCTACTACGACTTCAGGGAGAAAAGATTTGCTATCTTC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
* ** * *
56065842 AATATGCTCCACTGTGACTTCAGGGAGATAAGATTTG-TGGTCTT-
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCT-ATCTTC
* * ** *
56065886 AATCTGCTCCACTACAACTTC-AGAGAGATAGGATTTG-TGGCTTT
1 AATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGCTATCTTC
* *
56065930 AATCTGCTCCACCGCAACTTCAAGGAGATAATATTTGC
1 AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGC
56065968 CACAATAACT
Statistics
Matches: 493, Mismatches: 87, Indels: 66
0.76 0.13 0.10
Matches are distributed among these distances:
41 1 0.00
42 31 0.06
43 24 0.05
44 204 0.41
45 228 0.46
46 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (45 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTC
Found at i:56065404 original size:89 final size:87
Alignment explanation
Indices: 56065299--56065967 Score: 595
Period size: 89 Copynumber: 7.5 Consensus size: 87
56065289 AGAGATGAGT
*
56065299 TTTGTAGCTTTAATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGCTATCTTCAATCTGCTC
1 TTTGTAG-TTTAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTTGCTATCTTCAATCTGCTC
*
56065364 CACTACCACTTCAGGGAAATAAGA
64 CACTACAACTTCAGGGAAATAAGA
*
56065388 TTTGTAGTTGTAATCTGCTCCACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATCTGCT-
1 TTTGTAGTT-TAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTTGCTATCTTCAATCTGCTC
* * *
56065452 CAC-AGCCATTTCAGAGAAATAAGA
64 CACTA-CAACTTCAGGGAAATAAGA
* * * * * *
56065476 TTTGTAGTTCTAATTTGCTCCACTACAACTTCAGGAAGATAAGATTT-ATAGCTTTAATCTACTC
1 TTTGTAGTT-TAATCTGCTCCACTGCAACTTCAGG-AGATAAGATTTGCTATCTTCAATCTGCTC
*
56065540 CACTACAGCTTCA---AAGATAAGA
64 CACTACAACTTCAGGGAA-ATAAGA
* * * * *
56065562 TTTATGGTTTTAGTCTGCTCTACTACAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTGCTC
1 TTTGTAG-TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTTGCTATCTTCAATCTGCTC
** * * *
56065627 CACTGTAATTTTAGGGAGATAAGA
64 CACTACAACTTCAGGGAAATAAGA
* * * ** * *
56065651 TTTGTGGCTTTAATATACTTTACTGCAACTTCAGAGAGATAAGATTTGATATCTTTAATCTGCTC
1 TTTGTAG-TTTAATCTGCTCCACTGCAACTTCAG-GAGATAAGATTTGCTATCTTCAATCTGCTC
* * * *
56065716 TACTGCAACTTCAAGGAGATAAGA
64 CACTACAACTTCAGGGAAATAAGA
** * *
56065740 TTTGCTA-TCTTCAATCTGCTCCACTGTGACTTTAGGAAGATAAGATTTGCTATCTTCAATCTGT
1 TTTG-TAGT-TT-AATCTGCTCCACTGCAACTTCAGG-AGATAAGATTTGCTATCTTCAATCTGC
* *
56065804 TCTACTACGACTTCAGGGAGAA-AAGA
62 TCCACTACAACTTCAGGGA-AATAAGA
* ** *
56065830 TTTGCTA-TCTTCAATATGCTCCACTGTGACTTCAGGGAGATAAGATTTG-TGGTCTT-AATCTG
1 TTTG-TAGT-TT-AATCTGCTCCACTGCAACTTCA-GGAGATAAGATTTGCT-ATCTTCAATCTG
* * *
56065892 CTCCACTACAACTTCAGAGAGATAGGA
61 CTCCACTACAACTTCAGGGAAATAAGA
* * *
56065919 TTTGTGGCTTTAATCTGCTCCACCGCAACTTCAAGGAGATAATATTTGC
1 TTTGTAG-TTTAATCTGCTCCACTGCAACTTC-AGGAGATAAGATTTGC
56065968 CACAATAACT
Statistics
Matches: 481, Mismatches: 74, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
85 2 0.00
86 43 0.09
87 38 0.08
88 106 0.22
89 178 0.37
90 111 0.23
91 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (87 bp):
TTTGTAGTTTAATCTGCTCCACTGCAACTTCAGGAGATAAGATTTGCTATCTTCAATCTGCTCCA
CTACAACTTCAGGGAAATAAGA
Found at i:56071596 original size:25 final size:25
Alignment explanation
Indices: 56071568--56071630 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
56071558 TTAAATTTGT
*
56071568 ATAATAATATTGATATTAAATAAAA
1 ATAATAATATTAATATTAAATAAAA
56071593 ATAACT-ATATTAATATTAAATAAAA
1 ATAA-TAATATTAATATTAAATAAAA
56071618 ATACATAAATATT
1 ATA-AT-AATATT
56071631 TTCAACTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 26 0.79
26 2 0.06
27 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.37
Consensus pattern (25 bp):
ATAATAATATTAATATTAAATAAAA
Found at i:56077429 original size:165 final size:165
Alignment explanation
Indices: 56077187--56077527 Score: 601
Period size: 165 Copynumber: 2.1 Consensus size: 165
56077177 TACTTCCCTT
* *
56077187 AGACTTTGGAGTAGACATTTGGATGCTACTTGTCGGTCTTGGATTATATCTTCCAACTGCGAGCA
1 AGACTTTGGAGTAGACATTTGGATGCCACTTGTCGGTCCTGGATTATATCTTCCAACTGCGAGCA
* * *
56077252 GCTCTTTATCTTCAAAGTATGCAATTGCCCAAGGCTATTAGCAACTGACATTGGGAAGATATATT
66 ACTATTTATCTTCAAAGTATGCAATTGCCCAAGCCTATTAGCAACTGACATTGGGAAGATATATT
*
56077317 TCAAATTATTGCATCTCTCTCTTTCAACAATCTTC
131 TCAAATTATTGCATCTCTCTATTTCAACAATCTTC
* *
56077352 AGACTTTGGAGTAGACATTTGTATGCCACTTGTCGGTCCTGGATTATATCTTCCAATTGCGAGCA
1 AGACTTTGGAGTAGACATTTGGATGCCACTTGTCGGTCCTGGATTATATCTTCCAACTGCGAGCA
*
56077417 ACTATTTATCTTCAAAGTATGCAATTGCCCAAGCCTATTAGCTACTGACATTGGGAAGATATATT
66 ACTATTTATCTTCAAAGTATGCAATTGCCCAAGCCTATTAGCAACTGACATTGGGAAGATATATT
56077482 TCAAATTATTGCATCTCTCTATTTCAACAATCTTC
131 TCAAATTATTGCATCTCTCTATTTCAACAATCTTC
56077517 AGACTTTGGAG
1 AGACTTTGGAG
56077528 GCTTAAATAA
Statistics
Matches: 167, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
165 167 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (165 bp):
AGACTTTGGAGTAGACATTTGGATGCCACTTGTCGGTCCTGGATTATATCTTCCAACTGCGAGCA
ACTATTTATCTTCAAAGTATGCAATTGCCCAAGCCTATTAGCAACTGACATTGGGAAGATATATT
TCAAATTATTGCATCTCTCTATTTCAACAATCTTC
Found at i:56081313 original size:14 final size:15
Alignment explanation
Indices: 56081256--56081305 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
56081246 AAAACTAGGG
* *
56081256 TTTTTAAAACATTTA
1 TTTTTAAAATATTCA
56081271 TTTTTAAAATATTCA
1 TTTTTAAAATATTCA
56081286 TTTCTTAAAATATTCA
1 TTT-TTAAAATATTCA
56081302 TTTT
1 TTTT
56081306 AAATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTTAAAATATTCA
Found at i:56084623 original size:162 final size:162
Alignment explanation
Indices: 56084421--56084793 Score: 559
Period size: 162 Copynumber: 2.3 Consensus size: 162
56084411 TATATTGCGA
* * * * * * *
56084421 GCAACTCTTTTAACTTCAAATTATGCAATTACCCAAGGCTATTAGCAATAGACATTGGGAAGAGA
1 GCAACTC-TTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGA
* *
56084486 TACTTCAAATTATCACAGTTTT-TAACTTCTATTTCCCTTAAACTTTGGAGGCTTATGCACGGCA
65 TACTTCAAATTATCACA-TTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCACGGCA
*
56084550 CTTGTGAGTCTTGGATTATGCCTTCTAAGCTCCG
129 CTTGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
56084584 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
* * * * *
56084649 ACTTTAAATTATCGCATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGTATGGCAGT
66 ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCACGGCACT
*
56084714 TGTGGGTCTTGGATTATGCCTTCCAAGCTCCG
131 TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
* *
56084746 ACAACTTTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
1 GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAAC
56084794 TAGGAAGATA
Statistics
Matches: 191, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
161 4 0.02
162 180 0.94
163 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (162 bp):
GCAACTCTTTATCTTCAAAGTATGCAATTGCTCAAGGCTATTAGCAACAGACAGTGAGAAGAGAT
ACTTCAAATTATCACATTTTGGAACTTCTATTTCCCTTAAACTTTAGAGGCTTATGCACGGCACT
TGTGAGTCTTGGATTATGCCTTCCAAGCTCCG
Found at i:56092291 original size:7 final size:7
Alignment explanation
Indices: 56092272--56092311 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
56092262 CTGTCATATA
56092272 TATAGATT
1 TATAGA-T
56092280 TATAGAT
1 TATAGAT
56092287 TATAGAT
1 TATAGAT
56092294 TATAGAT
1 TATAGAT
*
56092301 GATAGAT
1 TATAGAT
56092308 TATA
1 TATA
56092312 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (7 bp):
TATAGAT
Found at i:56098705 original size:43 final size:43
Alignment explanation
Indices: 56098657--56098800 Score: 141
Period size: 43 Copynumber: 3.3 Consensus size: 43
56098647 ACGTCGCTAA
56098657 CTTTAGCGGCA-TTTATG-TGAAAAACGCCGCTAAAGATCATGAC
1 CTTTAGCGGCACTTTA-GAT-AAAAACGCCGCTAAAGATCATGAC
* * * *
56098700 CTTTAGCGGCACTTTAGATACAAATGCCGCTAAAGATCGTGAG
1 CTTTAGCGGCACTTTAGATAAAAACGCCGCTAAAGATCATGAC
* ** * * *
56098743 CTTTAGCGGCGCTTTAGCCACAAATGCCGCTAAAGAAT-ATGAT
1 CTTTAGCGGCACTTTAGATAAAAACGCCGCTAAAG-ATCATGAC
*
56098786 CTTCAGCGGCACTTT
1 CTTTAGCGGCACTTT
56098801 TCCACAAACA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
43 80 0.92
44 7 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCACTTTAGATAAAAACGCCGCTAAAGATCATGAC
Found at i:56104400 original size:24 final size:24
Alignment explanation
Indices: 56104355--56104400 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
56104345 ATAAATTTTT
*
56104355 TTTTATTTCATTCTTATTTTTGTA
1 TTTTATTTCATTCTTATATTTGTA
*
56104379 TTTTATTT-TTTCTTATAATTTG
1 TTTTATTTCATTCTTAT-ATTTG
56104401 GTCCTATCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTATTTCATTCTTATATTTGTA
Found at i:56104752 original size:22 final size:21
Alignment explanation
Indices: 56104726--56104782 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
56104716 ACCCTTAAAA
* *
56104726 CCCTAAATCCTTAGCTCTTAAC
1 CCCTAAA-CCTTAACTCATAAC
* *
56104748 CCCTAACCCCCTAACTCATAAC
1 CCCTAA-ACCTTAACTCATAAC
56104770 CCCTAAACCTTAA
1 CCCTAAACCTTAA
56104783 ATCCCAACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.32, C:0.42, G:0.02, T:0.25
Consensus pattern (21 bp):
CCCTAAACCTTAACTCATAAC
Found at i:56104797 original size:21 final size:20
Alignment explanation
Indices: 56104767--56104807 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
56104757 CCTAACTCAT
*
56104767 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
56104788 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
56104808 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:56105019 original size:25 final size:25
Alignment explanation
Indices: 56104973--56105020 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56104963 TATATGAAAT
* **
56104973 TATTTAATATATAAATTTAAAAACA
1 TATTTAAAATATAAATAAAAAAACA
56104998 TATTTAAAATATAAATAAAAAAA
1 TATTTAAAATATAAATAAAAAAA
56105021 TTAATCTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
TATTTAAAATATAAATAAAAAAACA
Found at i:56105101 original size:30 final size:30
Alignment explanation
Indices: 56105061--56105135 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
56105051 CATGAAACCT
* *
56105061 TAAACTCTAAATCCT-TAACTCTTAACCCC
1 TAAACCCTAAATCCTATAACTCCTAACCCC
56105090 TAAAACCCTAAAT-CTATAACTCCTAACCCC
1 T-AAACCCTAAATCCTATAACTCCTAACCCC
*
56105120 TAAACCTTAAATCCTA
1 TAAACCCTAAATCCTA
56105136 ACCCGACCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 13 0.32
30 27 0.68
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (30 bp):
TAAACCCTAAATCCTATAACTCCTAACCCC
Found at i:56105134 original size:21 final size:22
Alignment explanation
Indices: 56105095--56105139 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
56105085 ACCCCTAAAA
* *
56105095 CCCTAAATCTATAACTCCTAAC
1 CCCTAAACCTATAAATCCTAAC
56105117 CCCTAAACCT-TAAATCCTAAC
1 CCCTAAACCTATAAATCCTAAC
56105138 CC
1 CC
56105140 GACCTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (22 bp):
CCCTAAACCTATAAATCCTAAC
Found at i:56105300 original size:7 final size:7
Alignment explanation
Indices: 56105288--56105321 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
56105278 TAACTGATCT
56105288 TAACCCC
1 TAACCCC
56105295 TAACCCC
1 TAACCCC
56105302 TAACCCC
1 TAACCCC
*
56105309 TAGCCCC
1 TAACCCC
56105316 TAACCC
1 TAACCC
56105322 ATAAACCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.26, C:0.56, G:0.03, T:0.15
Consensus pattern (7 bp):
TAACCCC
Found at i:56106218 original size:41 final size:41
Alignment explanation
Indices: 56106061--56106218 Score: 246
Period size: 41 Copynumber: 3.9 Consensus size: 41
56106051 TTTTATTATT
*
56106061 ATTAGCGGCGCTT-TTCAAAAACGCCGCTAAAGGCTAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * * ** *
56106101 ATTAGCGGCGCTTTTTTAAAAATGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
56106142 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
56106183 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
56106219 CCAAAAACTC
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 13 0.12
41 92 0.88
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:56106402 original size:41 final size:40
Alignment explanation
Indices: 56106279--56106406 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 40
56106269 TTCAGAAAAT
* * *
56106279 GCCGCTAATGCT-TATTTTTAGTGGCGTTTTCGGAGAAGC
1 GCCGCTAATGCTCTATTTTTAGTGGCGTTTTTGTAAAAGC
** * *
56106318 GCCGCTAATGCTCTACCTTTAGCGGCGTTTTTATAAAAGC
1 GCCGCTAATGCTCTATTTTTAGTGGCGTTTTTGTAAAAGC
* **
56106358 GCCGCTAATGCTCGATTTTTAGTGGCGTTTTTTGTCCAAGC
1 GCCGCTAATGCTCTATTTTTAGTGGCG-TTTTTGTAAAAGC
56106399 GCCGCTAA
1 GCCGCTAA
56106407 AAACGCTGCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 12 0.16
40 43 0.59
41 18 0.25
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (40 bp):
GCCGCTAATGCTCTATTTTTAGTGGCGTTTTTGTAAAAGC
Found at i:56108800 original size:22 final size:22
Alignment explanation
Indices: 56108775--56108817 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56108765 TATTCTCTTT
56108775 AAAT-TAACATTAATATAAAATA
1 AAATGTAA-ATTAATATAAAATA
*
56108797 AAATGTAAATTAATTTAAAAT
1 AAATGTAAATTAATATAAAAT
56108818 TTTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATGTAAATTAATATAAAATA
Found at i:56109662 original size:23 final size:23
Alignment explanation
Indices: 56109635--56109689 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
56109625 AAGCTTATTG
56109635 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
56109658 TTGAGTTTTGAAGAGTAGTGTAC
1 TTGAGTTTTGAAGAGTAGTGTAC
* *
56109681 CTGCGTTTT
1 TTGAGTTTT
56109690 CGCATGCACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.42
Consensus pattern (23 bp):
TTGAGTTTTGAAGAGTAGTGTAC
Found at i:56110648 original size:2 final size:2
Alignment explanation
Indices: 56110641--56110667 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
56110631 AGTGGTTGCA
56110641 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
56110668 AGAAACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:56111367 original size:162 final size:162
Alignment explanation
Indices: 56111129--56111475 Score: 631
Period size: 162 Copynumber: 2.1 Consensus size: 162
56111119 TTGGGAACAA
*
56111129 CTCTCTATCGTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
*
56111194 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGACATTGGAAGCTTATGGTTGATACTTGTG
*
56111259 AGTCTTGGATTATTTCTTCCATTCCAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
56111291 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
1 CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
* *
56111356 CAACTTATTGCATTTTGTGACTTGTACTTCCCTTAGACATTGGAAGCTTATGGTTGATACTTGTG
66 CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGACATTGGAAGCTTATGGTTGATACTTGTG
*
56111421 AATCTTGGATTATTTCTTCCATTCTAAAGCAC
131 AATCTTGGATTATTTCTTCCATTCCAAAGCAC
*
56111453 CTCTCTATCCTCAGAGTTTGCAA
1 CTCTCTATCATCAGAGTTTGCAA
56111476 ATTGGGCGCG
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 178 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (162 bp):
CTCTCTATCATCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTT
CAACTTATTGCATTCTGTGACTCGTACTTCCCTTAGACATTGGAAGCTTATGGTTGATACTTGTG
AATCTTGGATTATTTCTTCCATTCCAAAGCAC
Found at i:56120744 original size:3 final size:3
Alignment explanation
Indices: 56120736--56120760 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56120726 CCATAATTCA
56120736 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
56120761 GAATATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56121162 original size:21 final size:22
Alignment explanation
Indices: 56121136--56121187 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
56121126 AGTGAATAAA
*
56121136 ACGACACACGAGGTGCCTG-AT
1 ACGACACACAAGGTGCCTGAAT
56121157 ACGACACACAAGGTGCCTGAAAT
1 ACGACACACAAGGTGCCTG-AAT
56121180 ACGACACA
1 ACGACACA
56121188 TAAAGTGTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 18 0.64
23 10 0.36
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.12
Consensus pattern (22 bp):
ACGACACACAAGGTGCCTGAAT
Found at i:56121181 original size:23 final size:21
Alignment explanation
Indices: 56121136--56121201 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
56121126 AGTGAATAAA
*
56121136 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAGGTGCCTGAT
56121157 ACGACACACAAGGTGCCTGAAAT
1 ACGACACACAAGGTGCCTG--AT
* * *
56121180 ACGACACATAAAGTGTCTGAT
1 ACGACACACAAGGTGCCTGAT
56121201 A
1 A
56121202 TGCGACATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 21 0.54
23 18 0.46
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (21 bp):
ACGACACACAAGGTGCCTGAT
Found at i:56121207 original size:23 final size:23
Alignment explanation
Indices: 56121155--56121223 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
56121145 GAGGTGCCTG
* * * *
56121155 ATACGACACACAAGGTGCCTGAA
1 ATACGACACATAAAGTGTCTGAT
56121178 ATACGACACATAAAGTGTCTGAT
1 ATACGACACATAAAGTGTCTGAT
* * *
56121201 ATGCGACATATAAAGTGTTTGAT
1 ATACGACACATAAAGTGTCTGAT
56121224 CGAAAAAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (23 bp):
ATACGACACATAAAGTGTCTGAT
Found at i:56121738 original size:5 final size:5
Alignment explanation
Indices: 56121728--56121772 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
56121718 TTATGTTTTA
*
56121728 TATAT TATAT TATAT TATAT TATAT TATAT TGTAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
56121773 AAATTAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:56122944 original size:23 final size:23
Alignment explanation
Indices: 56122916--56123028 Score: 133
Period size: 23 Copynumber: 5.0 Consensus size: 23
56122906 GGCCTTGCCG
* *
56122916 ATCAGGCACTTTATGTGTCGCAT
1 ATCAGGCACCTTATGTGTCGTAT
* *
56122939 CTCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
**
56122962 ATCAGGCACCTCGTGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
**
56122985 ATCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACCTTATGTGTCGTAT
56123007 -TCAGGCA-CTTATGTGTCGTAT
1 ATCAGGCACCTTATGTGTCGTAT
56123028 A
1 A
56123029 CTGATCAGGT
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.12
21 8 0.10
22 1 0.01
23 61 0.76
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.35
Consensus pattern (23 bp):
ATCAGGCACCTTATGTGTCGTAT
Found at i:56124515 original size:18 final size:18
Alignment explanation
Indices: 56124478--56124513 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56124468 ATTATTTATC
*
56124478 TAATAAATATCTTTTAAA
1 TAATAAATATCTCTTAAA
56124496 TAATAAATATCTACTTAA
1 TAATAAATATCT-CTTAA
56124514 TATACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAATATCTCTTAAA
Found at i:56126233 original size:18 final size:18
Alignment explanation
Indices: 56126207--56126252 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
56126197 TTACATTTGA
56126207 TTTAGTTTTT-ATTTAATT
1 TTTA-TTTTTAATTTAATT
*
56126225 TTTATTTTTAATTTTATT
1 TTTATTTTTAATTTAATT
56126243 TTTGATTTTT
1 TTT-ATTTTT
56126253 CCCAAAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 5 0.20
18 14 0.56
19 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
TTTATTTTTAATTTAATT
Found at i:56126239 original size:12 final size:12
Alignment explanation
Indices: 56126218--56126251 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
56126208 TTAGTTTTTA
56126218 TTTAATTTTTATT
1 TTTAA-TTTTATT
56126231 TTTAATTTTATT
1 TTTAATTTTATT
*
56126243 TTTGATTTT
1 TTTAATTTT
56126252 TCCCAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTAATTTTATT
Found at i:56128325 original size:25 final size:24
Alignment explanation
Indices: 56128280--56128329 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
56128270 TCCACTAACT
*
56128280 TGTTTTAAGTTATTTTATTATATTA
1 TGTTTTAAGTTATTATATTAT-TTA
*
56128305 TGTTTTATGTTATTA-ATTTATTTA
1 TGTTTTAAGTTATTATA-TTATTTA
56128329 T
1 T
56128330 TTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (24 bp):
TGTTTTAAGTTATTATATTATTTA
Found at i:56129327 original size:21 final size:19
Alignment explanation
Indices: 56129301--56129354 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
56129291 AGCTCAATTT
56129301 GGTATCAATACTTGGGGTTAA
1 GGTATCAATACTT--GGTTAA
* *
56129322 GGTATCAATACATTGTTTAG
1 GGTATCAATAC-TTGGTTAA
56129342 GGTATCAATACTT
1 GGTATCAATACTT
56129355 TGATCCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 2 0.07
20 15 0.50
21 11 0.37
22 2 0.07
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (19 bp):
GGTATCAATACTTGGTTAA
Found at i:56129542 original size:17 final size:18
Alignment explanation
Indices: 56129510--56129545 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
56129500 CAAATTTATA
*
56129510 AAGTTTTATTTCAAAAAC
1 AAGTTTTATCTCAAAAAC
56129528 AAGTTTTA-CTCAAAAAC
1 AAGTTTTATCTCAAAAAC
56129545 A
1 A
56129546 TTATTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (18 bp):
AAGTTTTATCTCAAAAAC
Found at i:56130470 original size:28 final size:28
Alignment explanation
Indices: 56130425--56130494 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 28
56130415 CAAATATAAT
56130425 AAATATATGTTTTTTATT-TTTTAAATTTTA
1 AAATA-AT-TTTTTTATTATTTT-AATTTTA
*
56130455 AAATAATTTTTTTATTATTTTATTTTTA
1 AAATAATTTTTTTATTATTTTAATTTTA
*
56130483 AAATAAATTTTT
1 AAATAATTTTTT
56130495 AGTGTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 26 0.70
29 6 0.16
30 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
AAATAATTTTTTTATTATTTTAATTTTA
Found at i:56130502 original size:27 final size:28
Alignment explanation
Indices: 56130450--56130505 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
56130440 ATTTTTTAAA
* *
56130450 TTTTAAAATAATTTTTTTATTATTTTAT
1 TTTTAAAATAATATTTTTAGTATTTTAT
*
56130478 TTTTAAAATAA-ATTTTTAGTGTTTTAT
1 TTTTAAAATAATATTTTTAGTATTTTAT
56130505 T
1 T
56130506 AAAAGAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (28 bp):
TTTTAAAATAATATTTTTAGTATTTTAT
Found at i:56132955 original size:11 final size:11
Alignment explanation
Indices: 56132939--56132963 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56132929 AAAAGCTATG
56132939 AAAATAAAATA
1 AAAATAAAATA
56132950 AAAATAAAATA
1 AAAATAAAATA
56132961 AAA
1 AAA
56132964 TATGTATATG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:56132992 original size:20 final size:20
Alignment explanation
Indices: 56132958--56133004 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
56132948 TAAAAATAAA
** *
56132958 ATAAAATATGTATATGTATT
1 ATAAAATATACATATATATT
56132978 ATAAAATATACATATATATT
1 ATAAAATATACATATATATT
*
56132998 TTAAAAT
1 ATAAAAT
56133005 TATAGAACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (20 bp):
ATAAAATATACATATATATT
Found at i:56138631 original size:45 final size:45
Alignment explanation
Indices: 56138581--56138684 Score: 181
Period size: 45 Copynumber: 2.3 Consensus size: 45
56138571 GGGTAATAAT
56138581 TTTCTCAATTCAATTTATAACAAATTACACAATCATACATCACCA
1 TTTCTCAATTCAATTTATAACAAATTACACAATCATACATCACCA
*
56138626 TTTCTCAATTCAATTTATAACAAATTACACAATCGTACATCACCA
1 TTTCTCAATTCAATTTATAACAAATTACACAATCATACATCACCA
* *
56138671 ATTATCAATTCAAT
1 TTTCTCAATTCAAT
56138685 CATTCATTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.41, C:0.23, G:0.01, T:0.35
Consensus pattern (45 bp):
TTTCTCAATTCAATTTATAACAAATTACACAATCATACATCACCA
Found at i:56139613 original size:25 final size:24
Alignment explanation
Indices: 56139568--56139617 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
56139558 TCCACTAACT
*
56139568 TGTTTTATGTTATTTTATTATATTA
1 TGTTTTATGTTATTATATTAT-TTA
56139593 TGTTTTATGTTATTA-ATTTATTTA
1 TGTTTTATGTTATTATA-TTATTTA
56139617 T
1 T
56139618 TTGAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (24 bp):
TGTTTTATGTTATTATATTATTTA
Found at i:56144265 original size:42 final size:42
Alignment explanation
Indices: 56144218--56144303 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
56144208 TCAAGGTGTC
*
56144218 GGTGGTCAAAGTCCATTTTGTGACAGTGGGTATGTTGCACGT
1 GGTGGTCAAAGTCCATTTTGTGACAGTGGGTATGTAGCACGT
* *
56144260 GGTGGTCAAAGTCCATTTTGTTATAGTGGGTATGTAGCACGT
1 GGTGGTCAAAGTCCATTTTGTGACAGTGGGTATGTAGCACGT
56144302 GG
1 GG
56144304 GCCATATCGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.13, G:0.34, T:0.34
Consensus pattern (42 bp):
GGTGGTCAAAGTCCATTTTGTGACAGTGGGTATGTAGCACGT
Found at i:56146124 original size:27 final size:27
Alignment explanation
Indices: 56146082--56146143 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
56146072 CTCATCATTC
56146082 TTCTTCATTATCACCGGTACAACAAAG
1 TTCTTCATTATCACCGGTACAACAAAG
* *
56146109 TTCTTCATTATGACCGGTTCAACAAAG
1 TTCTTCATTATCACCGGTACAACAAAG
56146136 TTCTTCAT
1 TTCTTCAT
56146144 CAGATGGTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.35
Consensus pattern (27 bp):
TTCTTCATTATCACCGGTACAACAAAG
Found at i:56155278 original size:18 final size:17
Alignment explanation
Indices: 56155255--56155307 Score: 79
Period size: 18 Copynumber: 3.0 Consensus size: 17
56155245 ATATATTATG
*
56155255 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
56155273 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
56155290 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
56155308 TTAATAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 5 0.15
18 28 0.85
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:56155317 original size:18 final size:18
Alignment explanation
Indices: 56155157--56155317 Score: 56
Period size: 18 Copynumber: 9.1 Consensus size: 18
56155147 GAACTTTATC
*
56155157 AAATTATATATT-TTATT
1 AAATTATATATTATAATT
56155174 AAATTATAT-TTAATAA-T
1 AAATTATATATT-ATAATT
** *
56155191 ATTTTATTAAATTAT-ATT
1 AAATTA-TATATTATAATT
* * *
56155209 TAATAATA-ATTAT-TTT
1 AAATTATATATTATAATT
*
56155225 AAATTATATTTTATAGTATT
1 AAATTATATATTATA--ATT
*
56155245 ATATATTATGAT-TT-T-AGT
1 A-A-ATTAT-ATATTATAATT
*
56155263 AAATTCATATATT-TTATT
1 AAATT-ATATATTATAATT
* *
56155281 AAATTATATATTTTTATT
1 AAATTATATATTATAATT
56155299 AAATTATAT-TTAATAATT
1 AAATTATATATT-ATAATT
56155317 A
1 A
56155318 TGTTAAAATA
Statistics
Matches: 110, Mismatches: 17, Indels: 33
0.69 0.11 0.21
Matches are distributed among these distances:
16 20 0.18
17 36 0.33
18 38 0.35
19 2 0.02
20 3 0.03
21 2 0.02
22 7 0.06
23 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (18 bp):
AAATTATATATTATAATT
Found at i:56155506 original size:39 final size:41
Alignment explanation
Indices: 56155452--56155555 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 41
56155442 TCCTTATGCT
* *
56155452 ATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC-C
1 ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACAC
*
56155491 ATTACGCCTCTATTCCATTCCATTCAACCAAACAAAAGAATTACAT
1 ATTACGCCTC---T--ATTCCATTCAACCAAACAAAAGAATTACAC
56155537 ATTACGCCTCTATTCCATT
1 ATTACGCCTCTATTCCATT
56155556 ACGGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
39 9 0.16
41 8 0.15
42 1 0.02
43 1 0.02
44 23 0.42
45 3 0.05
46 10 0.18
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
ATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTACAC
Found at i:56155530 original size:44 final size:46
Alignment explanation
Indices: 56155463--56155555 Score: 154
Period size: 44 Copynumber: 2.1 Consensus size: 46
56155453 TTACACCTCT
*
56155463 ATTCCATTCAACCAAACACAAGAA-TAC-CATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACACATTACGCCTCTATTCC
*
56155507 ATTCCATTCAACCAAACAAAAGAATTACATATTACGCCTCTATTCC
1 ATTCCATTCAACCAAACAAAAGAATTACACATTACGCCTCTATTCC
56155553 ATT
1 ATT
56155556 ACGGCTCTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 23 0.51
45 3 0.07
46 19 0.42
ACGTcount: A:0.38, C:0.30, G:0.04, T:0.28
Consensus pattern (46 bp):
ATTCCATTCAACCAAACAAAAGAATTACACATTACGCCTCTATTCC
Found at i:56155558 original size:16 final size:16
Alignment explanation
Indices: 56155537--56155567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56155527 AGAATTACAT
56155537 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
56155553 ATTACGGCTCTATTC
1 ATTACGCCTCTATTC
56155568 TAATACTGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:56157590 original size:27 final size:29
Alignment explanation
Indices: 56157518--56157590 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 29
56157508 AATATTTTTA
56157518 TTATTTTATTGTTTTAAAAAATTAATAATAT
1 TTATTTTA--GTTTTAAAAAATTAATAATAT
* *
56157549 TAATATATTATTTTTAAAAAA-TAATAAT-T
1 T--TATTTTAGTTTTAAAAAATTAATAATAT
56157578 TTATTTTAGTTTT
1 TTATTTTAGTTTT
56157591 TAATATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
27 10 0.28
29 2 0.06
30 7 0.19
31 11 0.31
33 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (29 bp):
TTATTTTAGTTTTAAAAAATTAATAATAT
Found at i:56160422 original size:41 final size:41
Alignment explanation
Indices: 56160360--56160442 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
56160350 TTCATCTAAG
*
56160360 TAAGAAATGAGATTCAATTGAAGTTAACAATGAAGAATGCT
1 TAAGAAATAAGATTCAATTGAAGTTAACAATGAAGAATGCT
* * *
56160401 TAAGAAATAAGATTCAGTTGAAGTTAAGAATGAGGAATGCT
1 TAAGAAATAAGATTCAATTGAAGTTAACAATGAAGAATGCT
56160442 T
1 T
56160443 TTAATGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.28
Consensus pattern (41 bp):
TAAGAAATAAGATTCAATTGAAGTTAACAATGAAGAATGCT
Found at i:56164925 original size:15 final size:14
Alignment explanation
Indices: 56164901--56164939 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
56164891 AAAAGAGGAC
56164901 AAAAAGTAATAATA
1 AAAAAGTAATAATA
56164915 AAAATAGTAATAATA
1 AAAA-AGTAATAATA
*
56164930 GCAAAAGTAA
1 -AAAAAGTAA
56164940 GTAAAACTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 15 0.68
16 3 0.14
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (14 bp):
AAAAAGTAATAATA
Found at i:56164989 original size:3 final size:3
Alignment explanation
Indices: 56164981--56165030 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
56164971 AAGAAAGGGA
56164981 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
56165029 AA
1 AA
56165031 AAGAACAAAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56170133 original size:12 final size:13
Alignment explanation
Indices: 56170116--56170147 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
56170106 AAAAAATCAA
56170116 CAAAAATATGGTG
1 CAAAAATATGGTG
56170129 CAAAAATATGGTG
1 CAAAAATATGGTG
56170142 CAAAAA
1 CAAAAA
56170148 CACAACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (13 bp):
CAAAAATATGGTG
Found at i:56170917 original size:162 final size:162
Alignment explanation
Indices: 56170683--56171186 Score: 864
Period size: 162 Copynumber: 3.1 Consensus size: 162
56170673 AACAGCTCAG
* *
56170683 TATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAACT
1 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAATT
* * *
56170748 GATTGCATTCTCTGACTAGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTGAGTCT
66 TATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTGAGTCT
*
56170813 TGGATTATTTCTTCCATTCCAAAGCAGCTCTC
131 TGGATTATTTCTTCCATTCCAAAGCAACTCTC
**
56170845 TATCTTCAGAGTTTGCAATTTTCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAATT
1 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAATT
* * * *
56170910 TATTGCATTTTGTGACTTGTAATTCCCTTAGGCATCGCAAGCTTATGGTTGATACTTGTGAGTCT
66 TATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTGAGTCT
*
56170975 TGAATTATTTCTTCCATTCCAAAGCAACTCTC
131 TGGATTATTTCTTCCATTCCAAAGCAACTCTC
*
56171007 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACGTTGGGAAGAGAAATTTCAATT
1 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAATT
*
56171072 TATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACCTGTGAGTCT
66 TATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTGAGTCT
*
56171137 TGGATTATTTCTTCCATTCCAAAGCACCTCTC
131 TGGATTATTTCTTCCATTCCAAAGCAACTCTC
56171169 TATCTTCAGAGTTTGCAA
1 TATCTTCAGAGTTTGCAA
56171187 ATTGGGCGCA
Statistics
Matches: 319, Mismatches: 23, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
162 319 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (162 bp):
TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGGAAGAGAAATTTCAATT
TATTGCATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATACTTGTGAGTCT
TGGATTATTTCTTCCATTCCAAAGCAACTCTC
Found at i:56179230 original size:41 final size:41
Alignment explanation
Indices: 56179184--56179267 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
56179174 TGCCAAACTG
*
56179184 CTGTAGTACTTTCTTCAAAAACTGCTTCTGAGACAAACCAA
1 CTGTAGTAATTTCTTCAAAAACTGCTTCTGAGACAAACCAA
*
56179225 CTGTAGTAATTTCTTCAAAAACTGCTTCTGAGACAAACTAA
1 CTGTAGTAATTTCTTCAAAAACTGCTTCTGAGACAAACCAA
56179266 CT
1 CT
56179268 CTTCCATGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.31
Consensus pattern (41 bp):
CTGTAGTAATTTCTTCAAAAACTGCTTCTGAGACAAACCAA
Found at i:56187736 original size:26 final size:26
Alignment explanation
Indices: 56187707--56187759 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56187697 ATTAAATAGG
56187707 TTAGAAAAGAAAAATAAATAAATACA
1 TTAGAAAAGAAAAATAAATAAATACA
56187733 TTAGAAAAGAAAAATAAATAAATACA
1 TTAGAAAAGAAAAATAAATAAATACA
56187759 T
1 T
56187760 ATATATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.21
Consensus pattern (26 bp):
TTAGAAAAGAAAAATAAATAAATACA
Found at i:56187873 original size:3 final size:3
Alignment explanation
Indices: 56187858--56187932 Score: 64
Period size: 3 Copynumber: 24.3 Consensus size: 3
56187848 ATAAGAAAAC
* * * *
56187858 ATA ATA CTA ATA ATA ATG TTA ATGA AT- ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
56187903 A-A GATA ATA ATA ATA ATA ACTGA ATA ATA A
1 ATA -ATA ATA ATA ATA ATA A-T-A ATA ATA A
56187933 AATTGCTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 3 0.05
3 47 0.81
4 6 0.10
5 2 0.03
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:56189494 original size:26 final size:27
Alignment explanation
Indices: 56189442--56189499 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
56189432 CAATATAACA
** *
56189442 AAAATATATGTGTATATATGTAAATTAT
1 AAAATATATGTACATATAAGT-AATTAT
56189470 AAAATATATGTACATATAAGT-ATTAT
1 AAAATATATGTACATATAAGTAATTAT
56189496 AAAA
1 AAAA
56189500 ATGTATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
28 18 0.67
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAATATATGTACATATAAGTAATTAT
Found at i:56189557 original size:44 final size:45
Alignment explanation
Indices: 56189508--56189594 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 45
56189498 AAATGTATAG
*
56189508 ATGTATGCATA-TA-TTTTAAGACTATAAAATATATGGAAGAATAT
1 ATGTATGCATACTAGTTTTAAG-CTACAAAATATATGGAAGAATAT
* * *
56189552 ATGTATGTATACGTAGTTTTAAGTTACAAAATATATGTAAGAA
1 ATGTATGCATAC-TAGTTTTAAGCTACAAAATATATGGAAGAA
56189595 AAATGTAGGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 10 0.28
46 19 0.53
47 7 0.19
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.37
Consensus pattern (45 bp):
ATGTATGCATACTAGTTTTAAGCTACAAAATATATGGAAGAATAT
Found at i:56189699 original size:23 final size:25
Alignment explanation
Indices: 56189673--56189719 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 25
56189663 TAAGAAGATT
* *
56189673 TATGATGAAA-TTAA-ATATTAATA
1 TATGAAGAAACTTAATATAATAATA
56189696 TATGAAGAAACTTAATATAATAAT
1 TATGAAGAAACTTAATATAATAAT
56189720 GCATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (25 bp):
TATGAAGAAACTTAATATAATAATA
Found at i:56189778 original size:3 final size:3
Alignment explanation
Indices: 56189770--56189803 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
56189760 TTTAAAACAG
* *
56189770 AAT AAT AAT AAT AAT GAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
56189804 TTTTGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:56193947 original size:18 final size:19
Alignment explanation
Indices: 56193893--56193950 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
56193883 TTTTCCAGAA
56193893 AAATTGTTTTTACATATAT
1 AAATTGTTTTTACATATAT
* * * *
56193912 TAA-TATATTTATATATATT
1 AAATTGTTTTTACATATA-T
56193931 AAATTGTTTTTACATATAT
1 AAATTGTTTTTACATATAT
56193950 A
1 A
56193951 GTAATGATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
18 11 0.38
19 7 0.24
20 11 0.38
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AAATTGTTTTTACATATAT
Found at i:56197427 original size:25 final size:25
Alignment explanation
Indices: 56197378--56197427 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
56197368 AAGAGAAGAT
*
56197378 GAAGAACGGAAGAAGGAAAATGAAC
1 GAAGAACGGAAGAACGAAAATGAAC
56197403 GAAGAACGGAAGAACGAGAAA-GAAC
1 GAAGAACGGAAGAACGA-AAATGAAC
56197428 CTTACCTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 20 0.87
26 3 0.13
ACGTcount: A:0.56, C:0.10, G:0.32, T:0.02
Consensus pattern (25 bp):
GAAGAACGGAAGAACGAAAATGAAC
Found at i:56199333 original size:18 final size:18
Alignment explanation
Indices: 56199310--56199345 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56199300 AAAGAAAATT
56199310 ATCTTTGATTACATACTC
1 ATCTTTGATTACATACTC
56199328 ATCTTTGATTACATACTC
1 ATCTTTGATTACATACTC
56199346 TGTGTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (18 bp):
ATCTTTGATTACATACTC
Found at i:56201986 original size:20 final size:21
Alignment explanation
Indices: 56201961--56201999 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
56201951 TTAAGATATA
*
56201961 AATAAACATA-TATAAATAGT
1 AATAAACAGATTATAAATAGT
56201981 AATAAACAGATTATAAATA
1 AATAAACAGATTATAAATA
56202000 AATAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (21 bp):
AATAAACAGATTATAAATAGT
Found at i:56202522 original size:21 final size:22
Alignment explanation
Indices: 56202489--56202530 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
56202479 ATCTGAGAAT
*
56202489 ATTTTAATTTTTATAATTAATAA
1 ATTTTAA-TTTTACAATTAATAA
56202512 ATTTTAA-TTTACAATTAAT
1 ATTTTAATTTTACAATTAAT
56202531 TTTTACAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTTAATTTTACAATTAATAA
Found at i:56202871 original size:28 final size:28
Alignment explanation
Indices: 56202839--56202905 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
56202829 TTAATATATA
*
56202839 AATATTTTATTATTTTTAAAAAATTAAT
1 AATATTTTATTATTTTTAAAAAAATAAT
* *
56202867 AATA-TTAACATATTTTTAAAAAAATAAT
1 AATATTTTA-TTATTTTTAAAAAAATAAT
**
56202895 TTTATTTTATT
1 AATATTTTATT
56202906 TTTAATATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
27 3 0.10
28 24 0.80
29 3 0.10
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (28 bp):
AATATTTTATTATTTTTAAAAAAATAAT
Found at i:56205671 original size:24 final size:24
Alignment explanation
Indices: 56205644--56205717 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
56205634 AAGAAACAAT
*
56205644 TTTTTATATTTACGTTCTGTAATG
1 TTTTTATATTTACATTCTGTAATG
* * *
56205668 TTTTTCATATTAACATTAT-TGATG
1 TTTTT-ATATTTACATTCTGTAATG
* * *
56205692 TTTCTAAATTTACCTTCTGTAATG
1 TTTTTATATTTACATTCTGTAATG
56205716 TT
1 TT
56205718 AGAGTTAGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
23 9 0.24
24 19 0.50
25 10 0.26
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.55
Consensus pattern (24 bp):
TTTTTATATTTACATTCTGTAATG
Found at i:56205671 original size:25 final size:25
Alignment explanation
Indices: 56205643--56205717 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 25
56205633 AAAGAAACAA
*
56205643 TTTTTTATATTTACGTTCTGTAATG
1 TTTTTTATATTTACATTCTGTAATG
* * * *
56205668 TTTTTCATATTAACATTAT-TGATG
1 TTTTTTATATTTACATTCTGTAATG
* * *
56205692 -TTTCTAAATTTACCTTCTGTAATG
1 TTTTTTATATTTACATTCTGTAATG
56205716 TT
1 TT
56205718 AGAGTTAGTT
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
23 12 0.33
24 8 0.22
25 16 0.44
ACGTcount: A:0.24, C:0.11, G:0.09, T:0.56
Consensus pattern (25 bp):
TTTTTTATATTTACATTCTGTAATG
Found at i:56207752 original size:11 final size:11
Alignment explanation
Indices: 56207730--56207802 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 11
56207720 TTTTATTTTT
56207730 TATTTTTAAAAA
1 TATTTTT-AAAA
56207742 TATTTTTAAAA
1 TATTTTTAAAA
*
56207753 TACTTTTTTTAAAC
1 TA---TTTTTAAAA
56207767 T-TTTTT----
1 TATTTTTAAAA
56207773 TATTTTTAAAA
1 TATTTTTAAAA
56207784 TATTTTTAAAA
1 TATTTTTAAAA
56207795 TACTTTTT
1 TA-TTTTT
56207803 TTAATTTTTA
Statistics
Matches: 51, Mismatches: 1, Indels: 18
0.73 0.01 0.26
Matches are distributed among these distances:
6 1 0.02
7 5 0.10
10 5 0.10
11 19 0.37
12 12 0.24
14 9 0.18
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:56207777 original size:31 final size:31
Alignment explanation
Indices: 56207742--56207813 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
56207732 TTTTTAAAAA
**
56207742 TATTTTTAAAATACTTTTTTTAA-ACTTTTTT
1 TATTTTTAAAATA-TTTTTAAAATACTTTTTT
56207773 TATTTTTAAAATATTTTTAAAATACTTTTTT
1 TATTTTTAAAATATTTTTAAAATACTTTTTT
56207804 TAATTTTTAA
1 T-ATTTTTAA
56207814 TTTTTTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 7 0.19
31 22 0.59
32 8 0.22
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (31 bp):
TATTTTTAAAATATTTTTAAAATACTTTTTT
Found at i:56207784 original size:42 final size:43
Alignment explanation
Indices: 56207725--56207806 Score: 157
Period size: 42 Copynumber: 1.9 Consensus size: 43
56207715 ATATTTTTTA
56207725 TTTTTTATTTTTAAAAATATTTTTAAAATACTTTTTTTAAACT
1 TTTTTTATTTTTAAAAATATTTTTAAAATACTTTTTTTAAACT
56207768 TTTTTTATTTTT-AAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTTATTTTTAAAAATATTTTTAAAATACTTTTTTTAA
56207807 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
42 27 0.69
43 12 0.31
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (43 bp):
TTTTTTATTTTTAAAAATATTTTTAAAATACTTTTTTTAAACT
Found at i:56209089 original size:62 final size:64
Alignment explanation
Indices: 56208959--56209089 Score: 148
Period size: 62 Copynumber: 2.1 Consensus size: 64
56208949 CAAGTTATTA
* * *
56208959 AAATAACTAAAAAAAACAAATAACATGAAAGTAGGGAAATTATATATTAAAATAAAAATTTTAT
1 AAATAACTAAAAAAAACAAATAACATGAAAGTAGAGAAATTACATATTAAAATAAAAATTATAT
* *
56209023 -AATAACT-AAAAAAACAAATAACATGAAA-TA-AGTAA-TACATA-TAGAATGAAAAACTTCAT
1 AAATAACTAAAAAAAACAAATAACATGAAAGTAGAGAAATTACATATTAAAAT-AAAAA-TT-AT
56209082 AT
63 AT
56209084 AAATAA
1 AAATAA
56209090 TAGTATATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
58 5 0.09
59 10 0.17
60 5 0.09
61 5 0.09
62 26 0.45
63 7 0.12
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.24
Consensus pattern (64 bp):
AAATAACTAAAAAAAACAAATAACATGAAAGTAGAGAAATTACATATTAAAATAAAAATTATAT
Found at i:56209296 original size:17 final size:17
Alignment explanation
Indices: 56209276--56209314 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
56209266 TGTGTACATA
56209276 TATAAAAAATAGTATTG
1 TATAAAAAATAGTATTG
* *
56209293 TAT-AAGAATATTATTG
1 TATAAAAAATAGTATTG
56209309 TATAAA
1 TATAAA
56209315 TCTTTAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (17 bp):
TATAAAAAATAGTATTG
Found at i:56209370 original size:18 final size:16
Alignment explanation
Indices: 56209347--56209382 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
56209337 AAGTGGATTT
56209347 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
56209365 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
56209381 TA
1 TA
56209383 TATATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:56209549 original size:15 final size:15
Alignment explanation
Indices: 56209531--56209567 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
56209521 ATAACCAAAT
*
56209531 ATAATAATAATATAA
1 ATAATAATAAAATAA
*
56209546 ATAATAATAAAATTA
1 ATAATAATAAAATAA
56209561 ATAATAA
1 ATAATAA
56209568 ATTAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAATAATAAAATAA
Found at i:56209550 original size:12 final size:12
Alignment explanation
Indices: 56209528--56209566 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
56209518 AATATAACCA
56209528 AATAT-AATAAT
1 AATATAAATAAT
56209539 AATATAAATAAT
1 AATATAAATAAT
56209551 AATA-AAATTAAT
1 AATATAAA-TAAT
56209563 AATA
1 AATA
56209567 AATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATATAAATAAT
Found at i:56209567 original size:12 final size:12
Alignment explanation
Indices: 56209535--56209572 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
56209525 CCAAATATAA
56209535 TAATAATATAAA-
1 TAATAATA-AAAT
56209547 TAATAATAAAAT
1 TAATAATAAAAT
56209559 TAATAAT-AAAT
1 TAATAATAAAAT
56209570 TAA
1 TAA
56209573 AATTAAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATAATAAAAT
Found at i:56210847 original size:8 final size:8
Alignment explanation
Indices: 56210827--56210875 Score: 68
Period size: 8 Copynumber: 6.4 Consensus size: 8
56210817 CCACCTCCAC
56210827 CTCCACCGA
1 CTCCA-CGA
56210836 -TCCACGA
1 CTCCACGA
56210843 CTCCACGA
1 CTCCACGA
56210851 --CCACGA
1 CTCCACGA
56210857 CTCCACGA
1 CTCCACGA
56210865 CTCCACGA
1 CTCCACGA
56210873 CTC
1 CTC
56210876 AACGGTGCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.16
7 3 0.08
8 28 0.76
ACGTcount: A:0.24, C:0.51, G:0.12, T:0.12
Consensus pattern (8 bp):
CTCCACGA
Found at i:56210847 original size:22 final size:22
Alignment explanation
Indices: 56210821--56210870 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
56210811 CCACCTCCAC
*
56210821 CTCCACCTCCACCGA-TCCACGA
1 CTCCACCACCA-CGACTCCACGA
*
56210843 CTCCACGACCACGACTCCACGA
1 CTCCACCACCACGACTCCACGA
56210865 CTCCAC
1 CTCCAC
56210871 GACTCAACGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.24, C:0.54, G:0.10, T:0.12
Consensus pattern (22 bp):
CTCCACCACCACGACTCCACGA
Found at i:56211066 original size:17 final size:17
Alignment explanation
Indices: 56211044--56211111 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
56211034 ACAAACAGTA
56211044 GATGTATAATTTCATTT
1 GATGTATAATTTCATTT
*
56211061 GATGTATAATTTCTTTT
1 GATGTATAATTTCATTT
* * *
56211078 GGTTGGATTATTTTTCATTT
1 -GATGTA-TA-ATTTCATTT
56211098 GATGTATAATTTCA
1 GATGTATAATTTCA
56211112 GATATTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
17 21 0.52
18 6 0.15
19 6 0.15
20 7 0.17
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (17 bp):
GATGTATAATTTCATTT
Found at i:56212827 original size:21 final size:21
Alignment explanation
Indices: 56212790--56212840 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
56212780 ACAATGATTA
*
56212790 ATCTTCAA-TCGAAAATCACT
1 ATCTTCAATTCAAAAATCACT
56212810 ATCTTCAATTCAAAAATCACT
1 ATCTTCAATTCAAAAATCACT
56212831 ATCTTCAATT
1 ATCTTCAATT
56212841 GTCCGCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (21 bp):
ATCTTCAATTCAAAAATCACT
Found at i:56214932 original size:165 final size:162
Alignment explanation
Indices: 56214689--56215033 Score: 510
Period size: 165 Copynumber: 2.1 Consensus size: 162
56214679 AACAGTTCTT
* *
56214689 TATCCTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGCAAGAGAAATTTCAACT
1 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGCAAGAGAAATTTCAAAT
* * * *
56214754 TATTACATTCTGTGACTTGTACTTCCCTTAGGCATTGGAAGCTTATGGTTGATGATACTTGTGAG
66 CATTACATTCTGTGACTTGTACTTCCCTCAGGCATTGAAAGCTTATGG-T--TGATACTCGTGAG
* * *
56214819 TCTTGAATTATTTCTTTCATTCCAAAGCATCTCTC
128 TCTTGAATTATTTCTTCCATTACAAAGCACCTCTC
* * * * *
56214854 TATCTTTAGGGTTTGCAATTTCCCAAGACTATTAGCAATACACATTGGGAAGAGAAATTTCAAAT
1 TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGCAAGAGAAATTTCAAAT
* *
56214919 CATTACTTTCTGTGACTTGTATTTCCCTCAGGCATTGAAAGCTTATGGTTGATACTCGTGAGTCT
66 CATTACATTCTGTGACTTGTACTTCCCTCAGGCATTGAAAGCTTATGGTTGATACTCGTGAGTCT
*
56214984 TGGATTATTTCTTCCATTACAAAGCACCTCTC
131 TGAATTATTTCTTCCATTACAAAGCACCTCTC
56215016 TATCTTCAGAGTTTGCAA
1 TATCTTCAGAGTTTGCAA
56215034 ATTGGGCACA
Statistics
Matches: 161, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 59 0.37
164 1 0.01
165 101 0.63
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (162 bp):
TATCTTCAGAGTTTGCAATTGCCCAAGACTATTAGCAACACACATTGGCAAGAGAAATTTCAAAT
CATTACATTCTGTGACTTGTACTTCCCTCAGGCATTGAAAGCTTATGGTTGATACTCGTGAGTCT
TGAATTATTTCTTCCATTACAAAGCACCTCTC
Found at i:56216813 original size:21 final size:21
Alignment explanation
Indices: 56216789--56216829 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56216779 TGGATAAGTT
56216789 TCCCTCTTTTGAAACCACATA
1 TCCCTCTTTTGAAACCACATA
**
56216810 TCCCTCTTTTGGTACCACAT
1 TCCCTCTTTTGAAACCACAT
56216830 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.37
Consensus pattern (21 bp):
TCCCTCTTTTGAAACCACATA
Found at i:56227987 original size:18 final size:18
Alignment explanation
Indices: 56227950--56227985 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
56227940 ATTATTTATC
*
56227950 TAATAAATATCTTTTAAA
1 TAATAAATATCTCTTAAA
56227968 TAATAAATATCTACTTAA
1 TAATAAATATCT-CTTAA
56227986 TATACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAAATATCTCTTAAA
Found at i:56232776 original size:21 final size:19
Alignment explanation
Indices: 56232750--56232803 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
56232740 AGCTCAATTC
56232750 GGTATCAATACTTGGGGTTAA
1 GGTATCAATACTT--GGTTAA
* *
56232771 GGTATCAATACCTTGTTTAG
1 GGTATCAATA-CTTGGTTAA
56232791 GGTATCAATACTT
1 GGTATCAATACTT
56232804 TGATCCCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 14 0.47
21 10 0.33
22 3 0.10
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (19 bp):
GGTATCAATACTTGGTTAA
Found at i:56236573 original size:3 final size:3
Alignment explanation
Indices: 56236559--56236618 Score: 75
Period size: 3 Copynumber: 19.3 Consensus size: 3
56236549 TAATTTTGTA
* * *
56236559 ATT ATA ATT ATT ATT ATTT ATT ATT ATT ATA ATT ATT ATT GTCT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
56236606 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
56236619 GTGTAAGTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 44 0.90
4 5 0.10
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:56236588 original size:25 final size:25
Alignment explanation
Indices: 56236559--56236618 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
56236549 TAATTTTGTA
*
56236559 ATTATAATTATTATTATTTATTATT
1 ATTATAATTATTATTATCTATTATT
*
56236584 ATTATAATTATTATTGTCTATTATT
1 ATTATAATTATTATTATCTATTATT
*
56236609 ATTATTATTA
1 ATTATAATTA
56236619 GTGTAAGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
ATTATAATTATTATTATCTATTATT
Found at i:56240194 original size:23 final size:23
Alignment explanation
Indices: 56240150--56240197 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
56240140 CCCGTCGGTT
56240150 AAAACTAGTTATTTTTCCTTTTAA
1 AAAACTAGTTATTTTT-CTTTTAA
*
56240174 AAAATCTAGTTCTTTTT-TTTTAA
1 AAAA-CTAGTTATTTTTCTTTTAA
56240197 A
1 A
56240198 GTAATGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (23 bp):
AAAACTAGTTATTTTTCTTTTAA
Found at i:56242954 original size:16 final size:16
Alignment explanation
Indices: 56242933--56242967 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
56242923 CCTTTTGGGT
56242933 CCATTCCATATCACTA
1 CCATTCCATATCACTA
*
56242949 CCATTCTATATCACTA
1 CCATTCCATATCACTA
56242965 CCA
1 CCA
56242968 ATTGGCCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.31
Consensus pattern (16 bp):
CCATTCCATATCACTA
Found at i:56248018 original size:23 final size:23
Alignment explanation
Indices: 56247992--56248037 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
56247982 TTTTTCAATC
*
56247992 TTTTATAGTCAAAGAATTCAAAT
1 TTTTATAGTCAAAGAACTCAAAT
56248015 TTTTATAGTCAAAGAACTCAAAT
1 TTTTATAGTCAAAGAACTCAAAT
56248038 AATCATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
TTTTATAGTCAAAGAACTCAAAT
Found at i:56248083 original size:12 final size:13
Alignment explanation
Indices: 56248066--56248097 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
56248056 AAAAAATCAA
56248066 CAAAAATATGGTG
1 CAAAAATATGGTG
56248079 CAAAAATATGGTG
1 CAAAAATATGGTG
56248092 CAAAAA
1 CAAAAA
56248098 CACAACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (13 bp):
CAAAAATATGGTG
Found at i:56258448 original size:23 final size:23
Alignment explanation
Indices: 56258422--56258470 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
56258412 GACACACGAG
56258422 GTGCCTAAAATACGACACATAAA
1 GTGCCTAAAATACGACACATAAA
* * * *
56258445 GTGCCTGATATATGACATATAAA
1 GTGCCTAAAATACGACACATAAA
56258468 GTG
1 GTG
56258471 TCTGATCGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.24
Consensus pattern (23 bp):
GTGCCTAAAATACGACACATAAA
Found at i:56260824 original size:13 final size:13
Alignment explanation
Indices: 56260789--56260824 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
56260779 TTAGTTTTTA
56260789 TTTAATTTTTATT
1 TTTAATTTTTATT
*
56260802 TTTAAATTTTATT
1 TTTAATTTTTATT
*
56260815 TTTGATTTTT
1 TTTAATTTTT
56260825 CCTAAAACTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTAATTTTTATT
Found at i:56262871 original size:25 final size:24
Alignment explanation
Indices: 56262826--56262875 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
56262816 TCCACTAACT
*
56262826 TGTTTTAAGTTATTTTATTATATTA
1 TGTTTTAAGTTATTATATTAT-TTA
*
56262851 TGTTTTATGTTATTA-ATTTATTTA
1 TGTTTTAAGTTATTATA-TTATTTA
56262875 T
1 T
56262876 TTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (24 bp):
TGTTTTAAGTTATTATATTATTTA
Found at i:56264087 original size:17 final size:18
Alignment explanation
Indices: 56264054--56264090 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
56264044 TCAAATTTAT
*
56264054 CAAGTTTTATTTCAAAAA
1 CAAGTTTTATCTCAAAAA
56264072 CAAGTTTTA-CTCAAAAA
1 CAAGTTTTATCTCAAAAA
56264089 CA
1 CA
56264091 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
CAAGTTTTATCTCAAAAA
Found at i:56264177 original size:7 final size:7
Alignment explanation
Indices: 56264165--56264199 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
56264155 ACATTACATC
56264165 TAAATAT
1 TAAATAT
56264172 TAAATAT
1 TAAATAT
56264179 TAAATAT
1 TAAATAT
*
56264186 TAAAAAT
1 TAAATAT
*
56264193 AAAATAT
1 TAAATAT
56264200 AAACATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (7 bp):
TAAATAT
Found at i:56264202 original size:13 final size:14
Alignment explanation
Indices: 56264166--56264212 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
56264156 CATTACATCT
* *
56264166 AAATATTAAATATT
1 AAATATTAAAAATA
56264180 AAATATTAAAAATA
1 AAATATTAAAAATA
*
56264194 AAATA-TAAACATA
1 AAATATTAAAAATA
*
56264207 TAATAT
1 AAATAT
56264213 ACAATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATATTAAAAATA
Found at i:56272044 original size:18 final size:19
Alignment explanation
Indices: 56272010--56272047 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
56272000 ACAGAACACG
56272010 TAAAAAAATTATTAAAATTA
1 TAAAAAAATTA-TAAAATTA
56272030 TAAAAAAATTA-AAAATTA
1 TAAAAAAATTATAAAATTA
56272048 ATTGTAACAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAAAATTATAAAATTA
Found at i:56273722 original size:41 final size:41
Alignment explanation
Indices: 56273657--56273753 Score: 140
Period size: 41 Copynumber: 2.4 Consensus size: 41
56273647 ATAACTGGGT
* **
56273657 CTACTCACACAAGCTGTCAATCAAGACATAGCTACACGGTG
1 CTACTCACACAAGCTATCAATCAAGACATAGCTACACAATG
* * *
56273698 CTGCTCACACAAGCTATCAGTCAAGACGTAGCTACACAATG
1 CTACTCACACAAGCTATCAATCAAGACATAGCTACACAATG
56273739 CTACTCACACAAGCT
1 CTACTCACACAAGCT
56273754 TTAAAGTAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (41 bp):
CTACTCACACAAGCTATCAATCAAGACATAGCTACACAATG
Found at i:56281393 original size:73 final size:73
Alignment explanation
Indices: 56281274--56281424 Score: 302
Period size: 73 Copynumber: 2.1 Consensus size: 73
56281264 GTAATTTGTC
56281274 TTTATATATAATATTTAGAAAAATACTTGCAAATAAAAGATTCAAACCCAAAATATTTATTATAT
1 TTTATATATAATATTTAGAAAAATACTTGCAAATAAAAGATTCAAACCCAAAATATTTATTATAT
56281339 TATAATCA
66 TATAATCA
56281347 TTTATATATAATATTTAGAAAAATACTTGCAAATAAAAGATTCAAACCCAAAATATTTATTATAT
1 TTTATATATAATATTTAGAAAAATACTTGCAAATAAAAGATTCAAACCCAAAATATTTATTATAT
56281412 TATAATCA
66 TATAATCA
56281420 TTTAT
1 TTTAT
56281425 TTTTCAACTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.38
Consensus pattern (73 bp):
TTTATATATAATATTTAGAAAAATACTTGCAAATAAAAGATTCAAACCCAAAATATTTATTATAT
TATAATCA
Found at i:56281578 original size:19 final size:19
Alignment explanation
Indices: 56281546--56281592 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
56281536 ATTAAATTAA
56281546 AAAATTATAATGAAATATAT
1 AAAATTATAATGAAATAT-T
*
56281566 AAAATTAT-TTGAAATATT
1 AAAATTATAATGAAATATT
*
56281584 AAAAATATA
1 AAAATTATA
56281593 TTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.33
19 8 0.33
20 8 0.33
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATTATAATGAAATATT
Found at i:56286170 original size:21 final size:22
Alignment explanation
Indices: 56286129--56286184 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
56286119 GAGTAGTTGA
56286129 AAAACAAAAAT-AATATAAAAT
1 AAAACAAAAATAAATATAAAAT
*
56286150 AAAACAAAAATAAAT-TCAAAT
1 AAAACAAAAATAAATATAAAAT
* *
56286171 GAAATAAAAATAAA
1 AAAACAAAAATAAA
56286185 AATACCCTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
21 28 0.90
22 3 0.10
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (22 bp):
AAAACAAAAATAAATATAAAAT
Found at i:56297968 original size:36 final size:37
Alignment explanation
Indices: 56297920--56297989 Score: 124
Period size: 36 Copynumber: 1.9 Consensus size: 37
56297910 CGTGCTAATT
*
56297920 TAAAATTTAATAAGCTAGTTATTAGTTTAAGGAAATA
1 TAAAATTTAATAAGCTAATTATTAGTTTAAGGAAATA
56297957 TAAAA-TTAATAAGCTAATTATTAGTTTAAGGAA
1 TAAAATTTAATAAGCTAATTATTAGTTTAAGGAA
56297990 TAATAGGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 27 0.84
37 5 0.16
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (37 bp):
TAAAATTTAATAAGCTAATTATTAGTTTAAGGAAATA
Found at i:56303598 original size:9 final size:9
Alignment explanation
Indices: 56303584--56303620 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56303574 TATAGTTTGA
56303584 TATTCGAAT
1 TATTCGAAT
56303593 TATTCGAAT
1 TATTCGAAT
*
56303602 TATTCGAGT
1 TATTCGAAT
56303611 TATTCGAAT
1 TATTCGAAT
56303620 T
1 T
56303621 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:56303961 original size:22 final size:23
Alignment explanation
Indices: 56303935--56303979 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
56303925 AGTTATCTCC
56303935 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
56303957 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
56303980 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:56303984 original size:22 final size:23
Alignment explanation
Indices: 56303935--56303989 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
56303925 AGTTATCTCC
*
56303935 AAATCAAATC-TCTAAGATTACA
1 AAATCATATCTTCTAAGATTACA
56303957 AAATCATATCTTCTAAGATTAC-
1 AAATCATATCTTCTAAGATTACA
*
56303979 ATATCATATCT
1 AAATCATATCT
56303990 AAAATTGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.35
Consensus pattern (23 bp):
AAATCATATCTTCTAAGATTACA
Found at i:56305513 original size:41 final size:41
Alignment explanation
Indices: 56305411--56305514 Score: 111
Period size: 41 Copynumber: 2.6 Consensus size: 41
56305401 GAGCTTTCTG
* ** * **
56305411 CCTAGCAGGCTT-TTGCCGGTGAATTATATCAGGCTTTATG
1 CCTAGCAGGCTTATTGCCGGTGTACCATAACAGGCTTTACA
* **
56305451 CCTAGCAGACTTAACGCCGGTGTACCATAACAGGCTTTACA
1 CCTAGCAGGCTTATTGCCGGTGTACCATAACAGGCTTTACA
*
56305492 CCTAGCAGGCTTATTGTCGGTGT
1 CCTAGCAGGCTTATTGCCGGTGT
56305515 TTCATATTAA
Statistics
Matches: 50, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
40 11 0.22
41 39 0.78
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (41 bp):
CCTAGCAGGCTTATTGCCGGTGTACCATAACAGGCTTTACA
Found at i:56310356 original size:23 final size:24
Alignment explanation
Indices: 56310310--56310356 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
56310300 AAGTTTAGGT
*
56310310 TTCAAAATGAGAACATAGGTATAA
1 TTCAAAATGAGAACATAGGAATAA
56310334 TTCAAAA-GAGAA-ATCAGGAATAA
1 TTCAAAATGAGAACAT-AGGAATAA
56310357 GGGTAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.57
24 7 0.33
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (24 bp):
TTCAAAATGAGAACATAGGAATAA
Found at i:56316735 original size:3 final size:3
Alignment explanation
Indices: 56316729--56316756 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
56316719 TTTTGAAGAA
56316729 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG G
56316757 CGGCCGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.68, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:56330070 original size:26 final size:23
Alignment explanation
Indices: 56330028--56330079 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 23
56330018 AAAAGTTTCT
56330028 TATATATTTTAAAATTTATTTTATA
1 TATATATTTTAAAA-TT-TTTTATA
* *
56330053 TATATTATTTTCACATTTTTTATA
1 TATA-TATTTTAAAATTTTTTATA
56330077 TAT
1 TAT
56330080 TTTAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 6 0.25
26 8 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATATTTTAAAATTTTTTATA
Found at i:56339711 original size:18 final size:18
Alignment explanation
Indices: 56339688--56339724 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
56339678 TGCATCTAAT
*
56339688 AAACACTTTGGCGACAAA
1 AAACACTTTGGAGACAAA
56339706 AAACACTTTGGAGACAAA
1 AAACACTTTGGAGACAAA
56339724 A
1 A
56339725 GCATTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.19, G:0.16, T:0.16
Consensus pattern (18 bp):
AAACACTTTGGAGACAAA
Found at i:56341735 original size:18 final size:18
Alignment explanation
Indices: 56341694--56341738 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
56341684 AGCTATAAAT
*
56341694 ATTATTAAATTTTAATAA
1 ATTATTAAATATTAATAA
*
56341712 AATATTAAATATTACA-AA
1 ATTATTAAATATTA-ATAA
56341730 ATTATTAAA
1 ATTATTAAA
56341739 AATGAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTATTAAATATTAATAA
Found at i:56341874 original size:20 final size:19
Alignment explanation
Indices: 56341810--56341875 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
56341800 ATATAAAATT
* *
56341810 TTATAAAGTTGTAAGAAAA
1 TTATAAAATTGTAAAAAAA
* *
56341829 TTATACAAAATGTAAAGAAA
1 TTATA-AAATTGTAAAAAAA
*
56341849 -TATAAATTTCGTAAAAAAA
1 TTATAAAATT-GTAAAAAAA
56341868 TTATAAAA
1 TTATAAAA
56341876 ATTATTGTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
18 3 0.08
19 17 0.47
20 16 0.44
ACGTcount: A:0.58, C:0.03, G:0.09, T:0.30
Consensus pattern (19 bp):
TTATAAAATTGTAAAAAAA
Done.