Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 25 of 105
Found at i:5035201 original size:18 final size:17
Alignment explanation
Indices: 5035178--5035234 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
5035168 TACCATACTG
*
5035178 TTTCAAACATTTTTATAT
1 TTTCAAA-ATTTTTAAAT
*
5035196 TTTCAAAATTTTCAAAAT
1 TTTCAAAATTTT-TAAAT
*
5035214 TTTCAAAATATTTTAGAT
1 TTTCAAAAT-TTTTAAAT
5035232 TTT
1 TTT
5035235 TTTAATTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 5 0.15
18 25 0.76
19 3 0.09
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTCAAAATTTTTAAAT
Found at i:5035208 original size:9 final size:9
Alignment explanation
Indices: 5035194--5035222 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
5035184 ACATTTTTAT
5035194 ATTTTCAAA
1 ATTTTCAAA
5035203 ATTTTCAAA
1 ATTTTCAAA
5035212 ATTTTCAAA
1 ATTTTCAAA
5035221 AT
1 AT
5035223 ATTTTAGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTTTCAAA
Found at i:5035347 original size:28 final size:27
Alignment explanation
Indices: 5035312--5035415 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
5035302 TTTTTGTATT
5035312 TTTATTAAAATTTTCAAAATGTTTTTGAA
1 TTTATTAAAATTTTCAAAAT-TTTTT-AA
** *
5035341 TTT-TTAAAATTAACATAATTTTTTAA
1 TTTATTAAAATTTTCAAAATTTTTTAA
*
5035367 TTTATTAAAATATTTC---ATTTTTTAT
1 TTTATTAAAAT-TTTCAAAATTTTTTAA
* * *
5035392 TTTTTTATAATTTTAAAAATTTTT
1 TTTATTAAAATTTTCAAAATTTTT
5035416 AAAAAAATTT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
24 3 0.05
25 17 0.28
26 5 0.08
27 18 0.30
28 15 0.25
29 3 0.05
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTATTAAAATTTTCAAAATTTTTTAA
Found at i:5035454 original size:21 final size:20
Alignment explanation
Indices: 5035409--5035456 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
5035399 TAATTTTAAA
5035409 AATTTTTAAAAAAATTTTAG
1 AATTTTTAAAAAAATTTTAG
* *
5035429 TATTTGTTAAGAAAAGTTTT-G
1 AATTT-TTAA-AAAAATTTTAG
5035450 AATTTTT
1 AATTTTT
5035457 GAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (20 bp):
AATTTTTAAAAAAATTTTAG
Found at i:5035501 original size:10 final size:9
Alignment explanation
Indices: 5035485--5035527 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
5035475 AAAAAAATAG
5035485 AATTTTTAA
1 AATTTTTAA
*
5035494 AGATTTTTTAG
1 A-A-TTTTTAA
5035505 AATTTTTAA
1 AATTTTTAA
*
5035514 ATTTTTTAA
1 AATTTTTAA
5035523 AATTT
1 AATTT
5035528 CTTTTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 19 0.68
10 2 0.07
11 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (9 bp):
AATTTTTAA
Found at i:5035507 original size:20 final size:18
Alignment explanation
Indices: 5035482--5035527 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
5035472 TTTAAAAAAA
5035482 TAGAATTTTTAAAGATTTTT
1 TAGAATTTTT-AA-ATTTTT
5035502 TAGAATTTTTAAATTTTT
1 TAGAATTTTTAAATTTTT
*
5035520 TAAAATTT
1 TAGAATTT
5035528 CTTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 13 0.52
19 2 0.08
20 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (18 bp):
TAGAATTTTTAAATTTTT
Found at i:5036168 original size:22 final size:22
Alignment explanation
Indices: 5036143--5036184 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
5036133 GTTAAAGTCT
*
5036143 CAAATAACATTAATTTAACACG
1 CAAACAACATTAATTTAACACG
5036165 CAAACAACATTAATTTAACA
1 CAAACAACATTAATTTAACA
5036185 ATACTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.19, G:0.02, T:0.26
Consensus pattern (22 bp):
CAAACAACATTAATTTAACACG
Found at i:5036313 original size:2 final size:2
Alignment explanation
Indices: 5036308--5036335 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
5036298 TCTCTCTCTC
5036308 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5036336 AGAATGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5036929 original size:16 final size:15
Alignment explanation
Indices: 5036879--5036933 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
5036869 ACTATATTAC
5036879 AAAA-AACACAAACAA
1 AAAATAACA-AAACAA
5036894 AAAATAAC--AA-AA
1 AAAATAACAAAACAA
*
5036906 AAATTAACATAAACAA
1 AAAATAACA-AAACAA
5036922 AAAATAACAAAA
1 AAAATAACAAAA
5036934 AGTTTATTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
12 9 0.27
13 2 0.06
15 9 0.27
16 13 0.39
ACGTcount: A:0.78, C:0.13, G:0.00, T:0.09
Consensus pattern (15 bp):
AAAATAACAAAACAA
Found at i:5047717 original size:20 final size:19
Alignment explanation
Indices: 5047686--5047736 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
5047676 TTCAAAATAT
*
5047686 ATTTTCAAAAAAATTATATGA
1 ATTTT-AAAAAAATTATA-AA
*
5047707 ATTTTAAAAAAATTTTAAA
1 ATTTTAAAAAAATTATAAA
5047726 ATTTTAAAAAA
1 ATTTTAAAAAA
5047737 TTGTGAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 11 0.39
21 5 0.18
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTTTAAAAAAATTATAAA
Found at i:5056585 original size:15 final size:16
Alignment explanation
Indices: 5056556--5056591 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
5056546 AAATAATTAC
*
5056556 AAATACTAGCATTTGG
1 AAATACTAGCATTTGA
5056572 AAATACTA-CATTTGA
1 AAATACTAGCATTTGA
5056587 AAATA
1 AAATA
5056592 TTTTCACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (16 bp):
AAATACTAGCATTTGA
Found at i:5057088 original size:5 final size:5
Alignment explanation
Indices: 5057078--5057107 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
5057068 ATAATATATT
5057078 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
5057108 ATTAAAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:5063438 original size:2 final size:2
Alignment explanation
Indices: 5063431--5063463 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5063421 TCCCCAGCTT
5063431 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5063464 TTTAGTGCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5063635 original size:66 final size:66
Alignment explanation
Indices: 5063529--5063661 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
5063519 ATATCATCTC
5063529 TTACTATGCCATTGTATGATTGGTTGGGAAGAGGCACAATATAAAGCTTTTGATTGGTTCAAAAA
1 TTACTATGCCATTGTATGATTGGTTGGGAAGAGGCACAATATAAAGCTTTTGATTGGTTCAAAAA
5063594 A
66 A
*
5063595 TTACTATGCCATTGTATGATTGGTTGGGAAGAGGCACAATATAAAGTTTTTGATTGGTTCAAAAA
1 TTACTATGCCATTGTATGATTGGTTGGGAAGAGGCACAATATAAAGCTTTTGATTGGTTCAAAAA
5063660 A
66 A
5063661 T
1 T
5063662 GATCTCCAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (66 bp):
TTACTATGCCATTGTATGATTGGTTGGGAAGAGGCACAATATAAAGCTTTTGATTGGTTCAAAAA
A
Found at i:5065336 original size:2 final size:2
Alignment explanation
Indices: 5065329--5065353 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5065319 ATTCAAATGC
5065329 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5065354 AAATTTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5065834 original size:22 final size:22
Alignment explanation
Indices: 5065809--5065850 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5065799 AAAAAGCACT
*
5065809 AAACTTTAAATTATAAATTCAA
1 AAACTCTAAATTATAAATTCAA
* *
5065831 AAACTCTAGATTTTAAATTC
1 AAACTCTAAATTATAAATTC
5065851 TAAATCCAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (22 bp):
AAACTCTAAATTATAAATTCAA
Found at i:5065846 original size:29 final size:29
Alignment explanation
Indices: 5065788--5065856 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
5065778 AATCCAAAAC
5065788 AAATTATAAA-CAAAAAGCACTAAACTTT
1 AAATTATAAATCAAAAAGCACTAAACTTT
* * *
5065816 AAATTATAAATTCAAAAA-CTCTAGATTTT
1 AAATTATAAA-TCAAAAAGCACTAAACTTT
*
5065845 AAATTCTAAATC
1 AAATTATAAATC
5065857 CAGAATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 12 0.34
29 17 0.49
30 6 0.17
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (29 bp):
AAATTATAAATCAAAAAGCACTAAACTTT
Found at i:5065940 original size:61 final size:61
Alignment explanation
Indices: 5065822--5065938 Score: 159
Period size: 61 Copynumber: 1.9 Consensus size: 61
5065812 CTTTAAATTA
* * *
5065822 TAAATTCAAAAACTCTAGATTTTAAATTCTAAATCCAGAATTTTAATTAAAGAAAAAGTTC
1 TAAATTCAAAAACTCTAAATTCTAAATTCTAAATCCAAAATTTTAATTAAAGAAAAAGTTC
*
5065883 TAAATTCAAAAACAT-TAAATTCTAAA-TCATAAATCCAAAATTTTAGTT-AAGAAAAA
1 TAAATTCAAAAAC-TCTAAATTCTAAATTC-TAAATCCAAAATTTTAATTAAAGAAAAA
5065939 AGAAATCTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
60 10 0.20
61 39 0.78
62 1 0.02
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (61 bp):
TAAATTCAAAAACTCTAAATTCTAAATTCTAAATCCAAAATTTTAATTAAAGAAAAAGTTC
Found at i:5069119 original size:17 final size:17
Alignment explanation
Indices: 5069099--5069138 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
5069089 TTATTGTAAC
*
5069099 TATTTTTTACTTTTTAT
1 TATTTTTTACTATTTAT
*
5069116 TATTATTTACTATTTAT
1 TATTTTTTACTATTTAT
5069133 TATTTT
1 TATTTT
5069139 CATCTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTTTACTATTTAT
Found at i:5069461 original size:3 final size:3
Alignment explanation
Indices: 5069453--5069514 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
5069443 CAAATAATCA
5069453 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5069501 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
5069515 GTAACAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5069713 original size:10 final size:9
Alignment explanation
Indices: 5069675--5069730 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 9
5069665 AAAACTAAGT
5069675 AAATAAATAA
1 AAATAAAT-A
5069685 ATAATAACATA
1 A-AATAA-ATA
5069696 AAATAAATA
1 AAATAAATA
*
5069705 AAATCAAATC
1 AAAT-AAATA
5069715 AAA-AAATGA
1 AAATAAAT-A
5069724 AAATAAA
1 AAATAAA
5069731 ATCAAAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
8 4 0.10
9 10 0.26
10 16 0.41
11 7 0.18
12 2 0.05
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (9 bp):
AAATAAATA
Found at i:5069755 original size:18 final size:19
Alignment explanation
Indices: 5069700--5069749 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
5069690 AACATAAAAT
*
5069700 AAAT-AAAATCAAATCAAA
1 AAATGAAAATAAAATCAAA
5069718 AAATGAAAATAAAATCAAA
1 AAATGAAAATAAAATCAAA
5069737 AAA-GAAAA-AAAAT
1 AAATGAAAATAAAAT
5069750 GGAAAACTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 16 0.53
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (19 bp):
AAATGAAAATAAAATCAAA
Found at i:5070815 original size:14 final size:14
Alignment explanation
Indices: 5070796--5070826 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5070786 TTGGGATTTT
*
5070796 TTTGTGTTTTTCTC
1 TTTGTGTCTTTCTC
5070810 TTTGTGTCTTTCTC
1 TTTGTGTCTTTCTC
5070824 TTT
1 TTT
5070827 TCTTGGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.13, T:0.71
Consensus pattern (14 bp):
TTTGTGTCTTTCTC
Found at i:5078802 original size:18 final size:17
Alignment explanation
Indices: 5078769--5078802 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5078759 AATTTATATA
*
5078769 TAAAAAAATCTAATAAG
1 TAAAAAAATATAATAAG
5078786 TAAAAAAATATAGATAA
1 TAAAAAAATATA-ATAA
5078803 CATGAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAAAAATATAATAAG
Found at i:5080612 original size:704 final size:704
Alignment explanation
Indices: 5079521--5081298 Score: 1543
Period size: 704 Copynumber: 2.5 Consensus size: 704
5079511 ATCAATTAAC
* * * * *
5079521 GTAAAATGAGTATTAATTGTCATAATACACTAAAAAGCATTATGATAAATCTAAATAATAGAAAG
1 GTAAAATGAGTAATAAATGTCATAACACACTAAAAAGCATGATAATAAATCTAAATAATAGAAAG
* * *
5079586 TAAGAACAACCATAATAAAATATTATTGTAACATAAGGAATTATATTGACAACGTAAAATTTTAA
66 TAAAAACAACCATAATAAAATATTATTGTAACATAAAGAATTATATTGACAACATAAAATTTTAA
* * * * *
5079651 TTAATTATTGTTTTGTAAATATTTAAAGAAAATAGATAGAAATTAAAAAAGAAATTGATAATGTA
131 CTAATTATTGATTTGTAAATATATAAAGAAAATAGATAGAAATTAAAAAACAAATAGATAATGTA
* * * * * *
5079716 AACAAGTGAAAACAAACGTAAAATTAGTATCATTGACATAAAATAGGTAAGATATATCATAATAT
196 AAAAAGTGAAAACAAACATAAAATTAGTATAATTGACATAAAATAGGTAAGAAATATCATAACAC
* * * * * * *
5079781 ATTAAAAAATAGTTATGATAATTCTAAACATAATGAAAAATAAAAATAACCGTAAAAATATATTA
261 ACTAAAAAATAGTAATGACAATTATAAACATAATGAAAAATAAAAATAACCATAAAAAGAAATTA
5079846 TTATAAAGTAAATAATTATGTTGACAACATAAAATTTAATTAATTATTATTCCTATAAATATAT-
326 TTATAAAGTAAATAATTATGTTGACAACATAAAATTTAATTAATTATTATTCCTATAAATATATA
* * *
5079910 AAAAA-AGTTAAAAATTAAAATACAAAATGA-TAATTTAAGCAAGTGAG-AAATGTAAAGTTAGT
391 AAAAATAGTTAAAAATTAAAA-ACAAAATGAGTAATATAAGCAAATGAGAAAATGTAAAATTAGT
* ** *
5079972 ATCATTTAATGTAAAATAGGAAAGAAATATTGTAAAACACTAAGAAAGAGTTATAATAATTCTAA
455 ATCATTTAACGTAAAATAGGAAAGAAATATCATAAAACACTAA-AAA-AGTTATAACAATTCTAA
* * * *
5080037 ACATAATGAAAA-TAAGAATAATCATAAAAATATATTATTATAATAT-AATAATTATGATT-GCA
518 ACATAATAAAAATTAAGAACAATCATAAAAATATATTATTACAACATAAATAATTAT-ATTGGCA
** *
5080099 ATGTAAAATTTTAATTAATTATTATTTTCATATATATATATGTATAAGGCAAATAATTAAAAAAT
582 ACATAAAATTTTAATTAATTATTATTTT-ATAAATATATATGTATAAGGCAAATAATTAAAAAAT
5080164 AAAAAATAAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATTATTTGAT
646 AAAAAATAAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATTATTTGAT
*
5080223 GTAAAATGAGTAATAAATGTCAGTAACACACTAAGAAAG-AGTGATAATAATTCTAAACATAATA
1 GTAAAATGAGTAATAAATGTCA-TAACACACTAA-AAAGCA-TGATAATAAATCT-AA-ATAATA
* * * * * *
5080287 -AAAGATAAAAACACCCATAA-AAATATATTATTGTAACATAAATAATTATGTTGGCAATATAAT
61 GAAAG-TAAAAACAACCATAATAAA-ATATTATTGTAACATAAAGAATTATATTGACAACATAAA
* * *
5080350 ATTTTAACTAATTATT-ATTTGTAAATATAT-AAGAAAAATAGTTA-AAATTTGAAAAACAAGTA
124 ATTTTAACTAATTATTGATTTGTAAATATATAAAG-AAAATAGATAGAAA-TTAAAAAACAAATA
* * *
5080412 GATAATGTAAAAAAGTGAGAA-AAACATAAAATTCGTATAATTTTACATAAAAT-GAGTAA-AAA
187 GATAATGTAAAAAAGTGAAAACAAACATAAAATTAGTATAA-TTGACATAAAATAG-GTAAGAAA
* ** * * * ** * *
5080474 TGTTGTAACACACTAAGAAAA-GGTAATGACAATTATAAACATGAT-TAAGGTAAGAATAATCAT
250 TATCATAACACACTAA-AAAATAGTAATGACAATTATAAACATAATGAAAAATAAAAATAACCAT
* * *
5080537 AAAAAAGAAATTATTATAACGTAAATAATTATGTT-ACTAATATAAAATTTTAATTATTTATT-T
314 -AAAAAGAAATTATTATAAAGTAAATAATTATGTTGAC-AACATAAAA-TTTAATTAATTATTAT
** * * * *
5080600 TTTTGTAAATATATAAGAAAAATAGTTAAAAATTAAAAGCCAAATTAGTAATATAAGCAAATGAG
376 TCCTATAAATATAT-A-AAAAATAGTTAAAAATTAAAAACAAAATGAGTAATATAAGCAAATGAG
* * * * * * **
5080665 AAAATGTAAAATTAGTATCATTTGACGTAAAATGGGTATGAATTATCATAATATGCTAAAAAAGT
439 AAAATGTAAAATTAGTATCATTTAACGTAAAATAGGAAAGAAATATCATAAAACACTAAAAAAGT
* * *
5080730 TATGACAATTCTACACATAATAAAAATTAAGAACAATCATAATAATATATTATTACAACATAAAT
504 TATAACAATTCTAAACATAATAAAAATTAAGAACAATCATAAAAATATATTATTACAACATAAAT
* * * *
5080795 AATTATATTGGTAACATAAAATTTTAATTAATTATTGTTTTATAAATATCTA---AGAA---AAA
569 AATTATATTGGCAACATAAAATTTTAATTAATTATTATTTTATAAATATATATGTATAAGGCAAA
** * * * * * ** * * **
5080854 TAGCTAGAAATTAAAAAATAAATCGGTAACGTAAACAATTGAAACCAAACGT-AAATTAATACCA
634 TAATTAAAAAATAAAAAATAAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATTA
* *
5080918 TTTAAC
699 TTTGAT
* * * *** ** * * * * *
5080924 ATAAAATG-G-ATATAAAGTATCGTAACATGTTAAAAAAGTGTTATGACT-ATTGTAAATATTAT
1 GTAAAATGAGTA-ATAAA-TGTCATAACACACT-AAAAAGCATGAT-AATAAATCTAAATAATA-
* * * *
5080986 GATAAGTAAAAACAACCATAA-AAAGATATTATTG-AAAAGGT-AATAATTATATTGATAACGTA
61 GA-AAGTAAAAACAACCATAATAAA-ATATTATTGTAACA--TAAAGAATTATATTGACAACATA
* * * * *
5081048 AAATTTTAATTATTTATT-ATTCTTATAAATATAT-AAGAAAAATAGCTA-AAATTAAAAATCAA
122 AAATTTTAACTAATTATTGA-T-TTGTAAATATATAAAG-AAAATAGATAGAAATTAAAAAACAA
* * * ** ** * *
5081110 ATTGATAATGTAAATAAGTGAGAAGTAATGTAAAATTAGTATCATTTGA-AGTAAAA-AGCGTTA
184 ATAGATAATGTAAAAAAGTGAAAACAAACATAAAATTAGTAT-AATTGACA-TAAAATAG-GTAA
* * ** * * * * *
5081173 GAAGTATCGTAGTATACTAAGAAAA-AGTTATAACAATTCTAAACATAA-CAAAAAGTAAAAATA
246 GAAATATCATAACACACTAA-AAAATAGTAATGACAATTATAAACATAATGAAAAA-TAAAAATA
* * * * ** *
5081236 A-TAGTAAAAATATATTATTATAACA-TAAATAATTATGATGACAATGTAAACTTTTAATTAATT
309 ACCA-TAAAAAGAAATTATTATAA-AGTAAATAATTATGTTGACAACATAAA-ATTTAATTAATT
5081299 GTTGTTATTG
Statistics
Matches: 867, Mismatches: 162, Indels: 93
0.77 0.14 0.08
Matches are distributed among these distances:
698 5 0.01
699 6 0.01
700 82 0.09
701 63 0.07
702 117 0.13
703 111 0.13
704 130 0.15
705 94 0.11
706 66 0.08
707 36 0.04
708 75 0.09
709 82 0.09
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.32
Consensus pattern (704 bp):
GTAAAATGAGTAATAAATGTCATAACACACTAAAAAGCATGATAATAAATCTAAATAATAGAAAG
TAAAAACAACCATAATAAAATATTATTGTAACATAAAGAATTATATTGACAACATAAAATTTTAA
CTAATTATTGATTTGTAAATATATAAAGAAAATAGATAGAAATTAAAAAACAAATAGATAATGTA
AAAAAGTGAAAACAAACATAAAATTAGTATAATTGACATAAAATAGGTAAGAAATATCATAACAC
ACTAAAAAATAGTAATGACAATTATAAACATAATGAAAAATAAAAATAACCATAAAAAGAAATTA
TTATAAAGTAAATAATTATGTTGACAACATAAAATTTAATTAATTATTATTCCTATAAATATATA
AAAAATAGTTAAAAATTAAAAACAAAATGAGTAATATAAGCAAATGAGAAAATGTAAAATTAGTA
TCATTTAACGTAAAATAGGAAAGAAATATCATAAAACACTAAAAAAGTTATAACAATTCTAAACA
TAATAAAAATTAAGAACAATCATAAAAATATATTATTACAACATAAATAATTATATTGGCAACAT
AAAATTTTAATTAATTATTATTTTATAAATATATATGTATAAGGCAAATAATTAAAAAATAAAAA
ATAAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATTATTTGAT
Found at i:5081194 original size:936 final size:937
Alignment explanation
Indices: 5079640--5081412 Score: 1990
Period size: 936 Copynumber: 1.9 Consensus size: 937
5079630 ATTGACAACG
* * *
5079640 TAAAATTTTAATTAATTATTGTTTTGTAAATATTTAAAGAAAATAGATAGAAATTAAAAAAGAAA
1 TAAAATTTTAATTAATTATTGTTTTGTAAATATATAAAGAAAATAGATAAAAATTAAAAAACAAA
* *
5079705 TTGATAATGTAAACAAGTGAAAACAAACGTAAAATTAGTATCATTGACATAAAATAGGTAAGATA
66 TTGATAATATAAACAAATGAAAACAAACGTAAAATTAGTATCATTGACATAAAATAGGTAAGATA
* * * *
5079770 TATCATAATATATTAAAAAATAGTTATGATAATTCTAAACATAATGAAAAATAAAAATAACCGTA
131 TATCATAATATACTAAAAAATAGTTATGACAATTCTAAACATAATGAAAAATAAAAACAACCATA
* *
5079835 AAAATATATTATTATAAAGTAAATAATTATGTTGACAACATAAAATTTAATTAATTATTATTCCT
196 AAAATATATTATTACAAAGTAAATAATTATATTGACAACATAAAATTTAATTAATTATTATTCCT
* * ** * * *
5079900 ATAAATATATAAAAAAGTTAAAAATTAAAATACAAAATGATAATTTAAGCAAGTGAGAAATGTAA
261 ATAAATATAGAAAAAAGCTAAAAATTAAAATACAAAATGATAACGTAAACAAGTGACAAACGTAA
* * ** * *
5079965 AGTTAGTATCATTTAATGTAAAATAGGAAAGAAATATTGTAAAACACTAAGAAAGAGTTATAATA
326 AGTTAATACCATTTAACATAAAATAGGAAAGAAATATCGTAAAACACTAAAAAAGAGTTATAATA
* * * * * *
5080030 ATTCTAAACATAATGAAAATAAGAATAATCATAAAAATATATTATTATAATATAATAATTATGAT
391 ATTCTAAACATAATGAAAATAAAAACAACCATAAAAAGATATTATTAAAAGATAATAATTATGAT
* * ** *
5080095 TGCAATGTAAAATTTTAATTAATTATTATTTTCATATATATATATGTATAAGGCAAATAATTAAA
456 TGCAACGTAAAATTTTAATTAATTATTA-TTTCATATATATATATATATAAGAAAAATAACT-AA
* * *
5080160 AAATAAAAAATAAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATTATTTGATGT
519 AAATAAAAAATAAATTGATAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATCATTTGAAGT
* * * * * *
5080225 AAAATGAGTAATAAATGTCAGTAACACACTAAGAAAGAGTGATAATAATTCTAAACATAA-TAAA
584 AAAAAGAGTAAGAAATATCAGTAACACACTAAGAAAAAGTGATAACAATTCTAAACATAACAAAA
* * * *
5080289 AGATAAAAACACCCA-TAAAAATATATTATTGTAACATAAATAATTATGTTGGCAATATAATA-T
649 AG-TAAAAACA-ACAGTAAAAATATATTATTATAACATAAATAATTATGATGACAATATAA-ACT
* *
5080352 TTTAACTAATTATT-AT-TTGTAAATATATAAGAAAAATAGTTA-AAATTTGAAAAACAAGTAGA
711 TTTAACTAATTATTGATATTGTAAATATACAAGAAAAATAGCTAGAAA-TT-AAAAA-AA-TAG-
* * *
5080414 TAATGTAAA-AAAGTGAGAA-AAACATAAAATTCGTATAATTTTACATAAAATGAGTAA-AAATG
771 TAATGTAAACAAA-TAAGAAGAAACATAAAATTAGTATAATTTGACATAAAATGAGTAAGAAATG
5080476 TTGTAACACACTAAGAAAAGGTAATGACAATTATAAACATGATTAAGGTAAGAATAATCATAAAA
835 TTGTAACACACTAAGAAAAGGTAATGACAATTATAAACATGATTAAGGTAAGAATAATCATAAAA
5080541 AAGAAATTATTATAACGTAAATAATTATGTTACTAATA
900 AAGAAATTATTATAACGTAAATAATTATGTTACTAATA
* * * **
5080579 TAAAATTTTAATTATTTATTTTTTTGTAAATATAT-AAGAAAAATAGTTAAAAATTAAAAGCCAA
1 TAAAATTTTAATTAATTATTGTTTTGTAAATATATAAAG-AAAATAGATAAAAATTAAAAAACAA
* * * * * *
5080643 ATT-AGTAATATAAGCAAATG-AGA-AAATGTAAAATTAGTATCATTTGACGTAAAATGGGTATG
65 ATTGA-TAATATAAACAAATGAAAACAAACGTAAAATTAGTATCA-TTGACATAAAATAGGTAAG
* * *
5080705 A-ATTATCATAATATGCT-AAAAA-AGTTATGACAATTCTACACATAAT-AAAAATTAAGAACAA
128 ATA-TATCATAATATACTAAAAAATAGTTATGACAATTCTAAACATAATGAAAAA-TAAAAACAA
* * **
5080766 TCATAATAATATATTATTACAACA-TAAATAATTATATTGGTAACATAAAATTTTAATTAATTAT
191 CCATAAAAATATATTATTACAA-AGTAAATAATTATATTGACAACATAAAA-TTTAATTAATTAT
* * * *
5080830 TGTT-TTATAAATATCTAAGAAAAATAGCTAGAAATTAAAA-A-ATAAATCGGTAACGTAAACAA
254 TATTCCTATAAATA--T-AGAAAAA-AGCTAAAAATTAAAATACA-AAAT-GATAACGTAAACAA
* * * * ***
5080892 TTGAAACCAAACGTAAA-TTAATACCATTTAACATAAAAT-GGATATAAAGTATCGTAACATGTT
313 GTG--A-CAAACGTAAAGTTAATACCATTTAACATAAAATAGGAAAGAAA-TATCGTAAAACACT
* * * * * *
5080955 AAAAAAGTGTTATGACT-ATTGTAAATATTATGATAAGTAAAAACAACCATAAAAAGATATTATT
374 AAAAAAGAGTTAT-AATAATTCTAAACATAATGA-AAATAAAAACAACCATAAAAAGATATTATT
* * *
5081019 GAAAAGGTAATAATTAT-ATTGATAACGTAAAATTTTAATTATTTATTA-TTC-T-TATA-A-AT
437 -AAAAGATAATAATTATGATTG-CAACGTAAAATTTTAATTAATTATTATTTCATATATATATAT
* * * * *
5081078 ATATAAGAAAAATAGCT-AAAATTAAAAATCAAATTGATAATGTAAATAAGTGAGAAGTAATGTA
500 ATATAAGAAAAATAACTAAAAATAAAAAAT-AAATTGATAATGTAAACAAGTGAAAAGAAATGTA
* * * ** * *
5081142 AAATTAGTATCATTTGAAGTAAAAAGCGTTAGAAGTATC-GTAGTATACTAAGAAAAAGTTATAA
564 AAATTAGTATCATTTGAAGTAAAAAGAGTAAGAAATATCAGTAACACACTAAGAAAAAGTGATAA
* *
5081206 CAATTCTAAACATAACAAAAAGTAAAAATAATAGTAAAAATATATTATTATAACATAAATAATTA
629 CAATTCTAAACATAACAAAAAGTAAAAACAACAGTAAAAATATATTATTATAACATAAATAATTA
* * * * * *
5081271 TGATGACAATGTAAACTTTTAATTAATTGTTGTTATTGTATATATACAAGGAAAATAGCTAGAAA
694 TGATGACAATATAAACTTTTAACTAATTATTGATATTGTAAATATACAAGAAAAATAGCTAGAAA
* **
5081336 TTAAAAAAATAGTAATGTAAACAAATAAGAAGAAACATAAAATTAGTATTATTTGATGTAAAATG
759 TTAAAAAAATAGTAATGTAAACAAATAAGAAGAAACATAAAATTAGTATAATTTGACATAAAATG
*
5081401 GGTAAGAAATGT
824 AGTAAGAAATGT
5081413 CACAACATAT
Statistics
Matches: 688, Mismatches: 115, Indels: 65
0.79 0.13 0.07
Matches are distributed among these distances:
934 14 0.02
935 45 0.07
936 192 0.28
937 113 0.16
938 75 0.11
939 82 0.12
940 29 0.04
941 8 0.01
942 55 0.08
943 39 0.06
944 36 0.05
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.32
Consensus pattern (937 bp):
TAAAATTTTAATTAATTATTGTTTTGTAAATATATAAAGAAAATAGATAAAAATTAAAAAACAAA
TTGATAATATAAACAAATGAAAACAAACGTAAAATTAGTATCATTGACATAAAATAGGTAAGATA
TATCATAATATACTAAAAAATAGTTATGACAATTCTAAACATAATGAAAAATAAAAACAACCATA
AAAATATATTATTACAAAGTAAATAATTATATTGACAACATAAAATTTAATTAATTATTATTCCT
ATAAATATAGAAAAAAGCTAAAAATTAAAATACAAAATGATAACGTAAACAAGTGACAAACGTAA
AGTTAATACCATTTAACATAAAATAGGAAAGAAATATCGTAAAACACTAAAAAAGAGTTATAATA
ATTCTAAACATAATGAAAATAAAAACAACCATAAAAAGATATTATTAAAAGATAATAATTATGAT
TGCAACGTAAAATTTTAATTAATTATTATTTCATATATATATATATATAAGAAAAATAACTAAAA
ATAAAAAATAAATTGATAATGTAAACAAGTGAAAAGAAATGTAAAATTAGTATCATTTGAAGTAA
AAAGAGTAAGAAATATCAGTAACACACTAAGAAAAAGTGATAACAATTCTAAACATAACAAAAAG
TAAAAACAACAGTAAAAATATATTATTATAACATAAATAATTATGATGACAATATAAACTTTTAA
CTAATTATTGATATTGTAAATATACAAGAAAAATAGCTAGAAATTAAAAAAATAGTAATGTAAAC
AAATAAGAAGAAACATAAAATTAGTATAATTTGACATAAAATGAGTAAGAAATGTTGTAACACAC
TAAGAAAAGGTAATGACAATTATAAACATGATTAAGGTAAGAATAATCATAAAAAAGAAATTATT
ATAACGTAAATAATTATGTTACTAATA
Found at i:5081269 original size:236 final size:232
Alignment explanation
Indices: 5079321--5081408 Score: 1293
Period size: 233 Copynumber: 8.9 Consensus size: 232
5079311 ACACAATAAA
* * * * * * * * *
5079321 AAAAGAGTTATTACAATTTTAAACGTAATTAAAAGTAAGAACAATTATAAAAACAAATTATTGTA
1 AAAA-AGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAA-TATAAAAATATATTATTATA
* * * * * * *
5079386 ATACAAATAATTA-AGTT-ACCAAGATAAAATTTTAATTATTTATT-TTTTACAAAACATATAGG
64 ACATAAATAATTATA-TTGA-CAACATAAAATTTTAATTAATTATTATTTTA-TAAATATATAAG
* * * ** * *
5079448 AAAAATAGCTAAAA--AATATAT-ATATT-AGTAACATAAATAAGTGAGAATAAACATAAAATTA
126 AAAAATAGTTAAAATTAA-AAATCAAATTGA-TAATGTAAACAAGTGAGAA-AAACGTAAAATTA
* * ** * * * * *
5079509 GCATCAATT-AACGTAAAATGAGTATTAATTGTCATAATACACTAA-
188 GTATCATTTGAA-GTAAAATG-GTAAGAAGTATCGTAACATACTAAG
* * * * * * * *
5079554 AAAGCA-TTATGATAAATCT-AA-ATAATAGAAAGTAAGAACAACCATAATAAA-ATATTATTGT
1 AAA-AAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAA-TATAA-AAATATATTATTAT
** * * * *
5079615 AACATAAGGAATTATATTGACAACGTAAAATTTTAATTAATTATTGTTTTGTAAATATTTAA-AG
63 AACATAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATTTTATAAATATATAAGA-
* ** *
5079679 AAAATAGATAGAAATTAAAAAAGAAATTGATAATGTAAACAAGTGAAAACAAACGTAAAATTAGT
127 AAAATAGTTA-AAATTAAAAATCAAATTGATAATGTAAACAAGTGAGAA-AAACGTAAAATTAGT
* * *
5079744 ATCA-TTGACA-TAAAATAGGTAAGATA-TATCATAATATATTAA-
190 ATCATTTGA-AGTAAAAT-GGTAAGA-AGTATCGTAACATACTAAG
* **
5079786 AAAATAGTTATGATAATTCTAAACATAATGAAAAA-TAAAAATAACCGTAAAAATATATTATTAT
1 AAAA-AGTTATGACAATTCTAAACATAAT-AAAAAGTAAAAATAA-TATAAAAATATATTATTAT
* *
5079850 AA-AGTAAATAATTATGTTGACAACATAAAA-TTTAATTAATTATTATTCCTATAAATATAT---
63 AACA-TAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATT-TTATAAATATATAAG
* * * * *
5079910 AAAAA-AGTTAAAAATT-AAAATACAAAATGATAATTTAAGCAAGTGAG--AAATGTAAAGTTAG
126 AAAAATAGTT-AAAATTAAAAAT-CAAATTGATAATGTAAACAAGTGAGAAAAACGTAAAATTAG
* * * * *
5079971 TATCATTT-AATGTAAAATAGGAAAGAAATATTGTAAAACACTAAG
189 TATCATTTGAA-GTAAAAT-GGTAAGAAGTATCGTAACATACTAAG
* * * * *
5080016 AAAGAGTTATAATAATTCTAAACATAATGAAAA-TAAGAATAATCATAAAAATATATTATTATAA
1 AAAAAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAAT-ATAAAAATATATTATTATAA
* **
5080080 TAT-AATAATTATGATTG-CAATGTAAAATTTTAATTAATTATTATTTTCATATATATATATGTA
65 CATAAATAATTAT-ATTGACAACATAAAATTTTAATTAATTATTA-TTT--TATA-A-ATA--TA
** * * * * *
5080143 TAAGGCAAATAATTAAAAAATAAAAAAT-AAATTGGTAATGTAAACAAGTGAAAAGAAATGTAAA
122 TAAGAAAAATAGTT--AAAATTAAAAATCAAATTGATAATGTAAACAAGTGAGAA-AAACGTAAA
* * * * * *
5080207 ATTAGTATTATTTGATGTAAAATGAGTAATAAATGTCAGTAACACACTAAG
184 ATTAGTATCATTTGAAGTAAAATG-GTAAGAAGTATC-GTAACATACTAAG
* * * * * ** *
5080258 AAAGAGTGATAATAATTCTAAACATAAT-AAAAGATAAAAACACCCATAAAAATATATTATTGTA
1 AAAAAGTTATGACAATTCTAAACATAATAAAAAG-TAAAAATA-ATATAAAAATATATTATTATA
* * * * * *
5080322 ACATAAATAATTATGTTGGCAATATAATATTTTAACTAATTATTA-TTTGTAAATATATAAGAAA
64 ACATAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATTTTATAAATATATAAGAAA
* * * * *
5080386 AATAGTTAAAATTTGAAAAA-CAAGTAGATAATGTAAAAAAGTGAGAAAAACATAAAATTCGTAT
129 AATAGTTAAAA-TT-AAAAATCAAATTGATAATGTAAACAAGTGAGAAAAACGTAAAATTAGTAT
* * * *
5080450 AATTTTACA-TAAAATGAGTAAAAATGT-T-GTAACACACTAAG
192 CATTTGA-AGTAAAATG-GTAAGAA-GTATCGTAACATACTAAG
* * * * * * * * *
5080491 AAAAGGTAATGACAATTATAAACATGAT-TAAGGTAAGAATAATCATAAAAAAGAAATTATTATA
1 AAAAAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAAT-AT-AAAAATATATTATTATA
* * * * * *
5080555 ACGTAAATAATTATGTT-ACTAATATAAAATTTTAATTATTTATTTTTTTGTAAATATATAAGAA
64 ACATAAATAATTATATTGAC-AACATAAAATTTTAATTAATTATTATTTTATAAATATATAAGAA
** * * * *
5080619 AAATAGTTAAAAATTAAAAGCCAAATT-AGTAATATAAGCAAATGAG-AAAATGTAAAATTAGTA
128 AAATAGTT-AAAATTAAAAATCAAATTGA-TAATGTAAACAAGTGAGAAAAACGTAAAATTAGTA
* * * * * *
5080682 TCATTTGACGTAAAATGGGTATGAATTATCATAATATGCT-A-
191 TCATTTGAAGTAAAAT-GGTAAGAAGTATCGTAACATACTAAG
* * * * * *
5080723 AAAAAGTTATGACAATTCTACACATAATAAAAATTAAGAACAATCATAATAATATATTATTACAA
1 AAAAAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAAT-ATAAAAATATATTATTATAA
** * *
5080788 CATAAATAATTATATTGGTAACATAAAATTTTAATTAATTATTGTTTTATAAATATCTAAGAAAA
65 CATAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATTTTATAAATATATAAGAAAA
* * * * * *
5080853 ATAGCTAGAAATTAAAAAAT-AAATCGGTAACGTAAACAATTGA-AACCAAACGT-AAATTAATA
130 ATAGTTA-AAATT-AAAAATCAAATTGATAATGTAAACAAGTGAGAA--AAACGTAAAATTAGTA
* * **
5080915 CCATTT-AACATAAAATGGATATA-AAGTATCGTAACATGTTAA-
191 TCATTTGAA-GTAAAATGG-TA-AGAAGTATCGTAACATACTAAG
* * * * * * * * * * *
5080957 AAAAGTGTTATGACTATTGTAAATATTATGATAAGTAAAAACAACCATAAAAAGATATTATTGAA
1 AAAA-AGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAA-TATAAAAATATATTATT-AT
** * * *
5081022 AAGGT-AATAATTATATTGATAACGTAAAATTTTAATTATTTATTATTCTTATAAATATATAAGA
63 AACATAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATT-TTATAAATATATAAGA
* * * *
5081086 AAAATAGCTAAAATTAAAAATCAAATTGATAATGTAAATAAGTGAGAAGTAATGTAAAATTAGTA
127 AAAATAGTTAAAATTAAAAATCAAATTGATAATGTAAACAAGTGAGAA-AAACGTAAAATTAGTA
* * **
5081151 TCATTTGAAGTAAAAAGCGTTAGAAGTATCGTAGTATACTAAG
191 TCATTTGAAGTAAAATG-GTAAGAAGTATCGTAACATACTAAG
* *
5081194 AAAAAGTTATAACAATTCTAAACATAACAAAAAGTAAAAATAATAGTAAAAATATATTATTATAA
1 AAAAAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAATA-TAAAAATATATTATTATAA
** * * * * * * *
5081259 CATAAATAATTATGA-TGACAATGTAAACTTTTAATTAATTGTTGTTATTGTATATATACAAGGA
65 CATAAATAATTAT-ATTGACAACATAAAATTTTAATTAATTATTATT-TTATAAATATATAAGAA
* * * * *
5081323 AAATAGCTAGAAATT-AAAA--AAATAG-TAATGTAAACAAATAAGAAGAAACATAAAATTAGTA
128 AAATAGTTA-AAATTAAAAATCAAATTGATAATGTAAACAAGTGAGAA-AAACGTAAAATTAGTA
* *
5081384 TTATTTGATGTAAAATGGGTAAGAA
191 TCATTTGAAGTAAAAT-GGTAAGAA
5081409 ATGTCACAAC
Statistics
Matches: 1470, Mismatches: 283, Indels: 204
0.75 0.14 0.10
Matches are distributed among these distances:
227 18 0.01
228 69 0.05
229 53 0.04
230 91 0.06
231 44 0.03
232 180 0.12
233 285 0.19
234 105 0.07
235 212 0.14
236 213 0.14
237 16 0.01
238 25 0.02
239 7 0.00
240 9 0.01
241 39 0.03
242 42 0.03
243 30 0.02
244 32 0.02
ACGTcount: A:0.51, C:0.06, G:0.10, T:0.32
Consensus pattern (232 bp):
AAAAAGTTATGACAATTCTAAACATAATAAAAAGTAAAAATAATATAAAAATATATTATTATAAC
ATAAATAATTATATTGACAACATAAAATTTTAATTAATTATTATTTTATAAATATATAAGAAAAA
TAGTTAAAATTAAAAATCAAATTGATAATGTAAACAAGTGAGAAAAACGTAAAATTAGTATCATT
TGAAGTAAAATGGTAAGAAGTATCGTAACATACTAAG
Found at i:5082195 original size:234 final size:230
Alignment explanation
Indices: 5081687--5082486 Score: 670
Period size: 234 Copynumber: 3.4 Consensus size: 230
5081677 AATGAAAAGT
* * * *
5081687 AAAAACAATCTTAAAAAAATATTATTGGAATATAAATAATTAAGTAGATAATGTAAACTTTTAAT
1 AAAAACAACCATAAAAAAATATTATTGCAATATAAATAATTAAGTAGATAATGTAAAATTTTAAT
* * * * *
5081752 TGATTATTGTTTTTATAAATATACAAAAAAAATAACTAAAAATTAAAAAGCAAGTAGGTAACATA
66 TAATTATTG-TTTTGTAAATATA-AAAAAAAATAGCTAAAAATTAAAAAACAAATAGGTAACATA
* * * * *
5081817 AACAAGTAATAA-AAACGTAAAATT-TATATCATTTACTCTAAAAT-AGGTAAGAAGTGTCATAA
129 AACAAGTGAGAAGAATCGTAAAATTCT-TATCATTTA-TATAAAATGA-GTAAAAAGTGTCATAA
* **
5081879 CAAACTATGACAAAGCTATAACAATTTTAAACGTAATAAA
191 CAAACTAAGACAAAGCTATAACAATTCCAAACGTAATAAA
* * * ** * *
5081919 AAGTGAGAACAACTATAATAATATATTATTATAATGTAAATAATTAAATAGATAATGTAAAATTT
1 AA---A-AACAACCATAAAAAAATATTATTGCAATATAAATAATTAAGTAGATAATGTAAAATTT
* * * *
5081984 TAATTAATTATTGTTTTGTAAATGTAAAAAAAAATAGCTAAAAGTTAAAAAATAAATAGGTAATA
62 TAATTAATTATTGTTTTGTAAATATAAAAAAAAATAGCTAAAAATTAAAAAACAAATAGGTAACA
* **
5082049 TAAACAAGTGAGAAGAATCATAAAATTCTTATCATTTGATATAAAATGAGTAAAAAGTGTTGTAA
127 TAAACAAGTGAGAAGAATCGTAAAATTCTTATCATTT-ATATAAAATGAGTAAAAAGTGTCATAA
* * *
5082114 TATACACTAAGA-AAGAGTTATAACAATTCCAAACGTAA-AGGAC
191 CA-A-ACTAAGACAA-AGCTATAACAATTCCAAACGTAATA--AA
* * *
5082157 AAAAACAACCATAAAAAGATATTATTGCAATATAAATAATTAAGTA-AGCAATGTTAAATTTTAA
1 AAAAACAACCATAAAAAAATATTATTGCAATATAAATAATTAAGTAGA-TAATGTAAAATTTTAA
* * * * * *
5082221 TTAATTATTATTTTTGTAAATAT-ATAAAAAATAGATAAAATTTAAAAAACAAATAGGTAACGTG
65 TTAATTATT-GTTTTGTAAATATAAAAAAAAATAGCTAAAAATTAAAAAACAAATAGGTAACATA
* * *
5082285 AACAAGTGAGAGGAAGT-GTAAAATTCATATCATTTAACATAAAATGAG-AAATAAGTGTCATAA
129 AACAAGTGAGAAGAA-TCGTAAAATTCTTATCATTT-ATATAAAATGAGTAAA-AAGTGTCATAA
* * * * * ** *
5082348 CACAGTAA-A-AAAGAAATATGACAATTCTAAATTTATTAGAA
191 CAAACTAAGACAAAG--CTATAACAATTCCAAACGTAATA-AA
** ** ** * * *
5082389 TATAATAACAATTATACGAAAATATTATTATAATGTAAATAATTAAATTAG-CAATGTAAAATTT
1 -A-AA-AACAACCATAAAAAAATATTATTGCAATATAAATAATT-AAGTAGATAATGTAAAATTT
* * *
5082453 TAATTAATTATTATTCATGTAAATATATAAAAAA
62 TAATTAATTATTGTT-TTGTAAATATAAAAAAAA
5082487 TTTAATAAAT
Statistics
Matches: 459, Mismatches: 82, Indels: 50
0.78 0.14 0.08
Matches are distributed among these distances:
230 2 0.00
231 3 0.01
232 23 0.05
233 6 0.01
234 193 0.42
235 127 0.28
236 76 0.17
237 26 0.06
238 3 0.01
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (230 bp):
AAAAACAACCATAAAAAAATATTATTGCAATATAAATAATTAAGTAGATAATGTAAAATTTTAAT
TAATTATTGTTTTGTAAATATAAAAAAAAATAGCTAAAAATTAAAAAACAAATAGGTAACATAAA
CAAGTGAGAAGAATCGTAAAATTCTTATCATTTATATAAAATGAGTAAAAAGTGTCATAACAAAC
TAAGACAAAGCTATAACAATTCCAAACGTAATAAA
Found at i:5083482 original size:18 final size:18
Alignment explanation
Indices: 5083441--5083482 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5083431 ATGTTATATC
* *
5083441 ATTTTTATTATTTTTTTA
1 ATTTTTATAATATTTTTA
*
5083459 AATTTTATAATATTTTTA
1 ATTTTTATAATATTTTTA
5083477 ATTTTT
1 ATTTTT
5083483 TGTGATATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTATAATATTTTTA
Found at i:5086945 original size:12 final size:13
Alignment explanation
Indices: 5086930--5086962 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
5086920 ATATAAATCT
5086930 TAAAAATTCAT-A
1 TAAAAATTCATGA
5086942 TAAAAATTCATGA
1 TAAAAATTCATGA
*
5086955 TTAAAATT
1 TAAAAATT
5086963 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (13 bp):
TAAAAATTCATGA
Found at i:5087390 original size:12 final size:11
Alignment explanation
Indices: 5087371--5087395 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5087361 AACTAAAATT
5087371 AATTTTTTTTA
1 AATTTTTTTTA
5087382 AATTTTTTTTA
1 AATTTTTTTTA
5087393 AAT
1 AAT
5087396 AATTTATCAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
AATTTTTTTTA
Found at i:5087778 original size:5 final size:5
Alignment explanation
Indices: 5087768--5087810 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
5087758 TAGAAAGAAT
5087768 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTT
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTT
5087811 GTGCTTTCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
CTTCC
Found at i:5095715 original size:13 final size:13
Alignment explanation
Indices: 5095677--5095719 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
5095667 CATATATGTT
* *
5095677 TTTTAAAATTTTA
1 TTTTAATATTTAA
5095690 TTATTAGATATTTAA
1 TT-TTA-ATATTTAA
5095705 TTTTAATATTTAA
1 TTTTAATATTTAA
5095718 TT
1 TT
5095720 CAAAATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 12 0.46
14 6 0.23
15 8 0.31
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTTTAATATTTAA
Found at i:5096214 original size:62 final size:61
Alignment explanation
Indices: 5096115--5096233 Score: 159
Period size: 62 Copynumber: 1.9 Consensus size: 61
5096105 ATTGATCAAT
* *
5096115 ATTATTTAAGGTATTTTTTAGCAAAAAATACCTTAAATACTCTTC-AAAAATAAATGTAGC
1 ATTATTTAAAGTATTTTTTAGCAAAAAATACCTTAAATACTCTCCAAAAAATAAATGTAGC
* * * *
5096175 ATTATTTAAAGTATTTTTTTTGGCCAAAAATGCTTTAAATACTCTCCAAAAAATAAATG
1 ATTATTTAAAGTA--TTTTTTAGCAAAAAATACCTTAAATACTCTCCAAAAAATAAATG
5096234 CTAAAAAGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 12 0.24
62 27 0.54
63 11 0.22
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (61 bp):
ATTATTTAAAGTATTTTTTAGCAAAAAATACCTTAAATACTCTCCAAAAAATAAATGTAGC
Found at i:5096756 original size:61 final size:61
Alignment explanation
Indices: 5096657--5096890 Score: 206
Period size: 62 Copynumber: 3.8 Consensus size: 61
5096647 AGGTATCGCT
* * *** *
5096657 TTAAATAATCCCTATTAAAAAAATATTAAAGATTATTTAAGATATTTTTGGTTAAAAA-ATTC
1 TTAAATAATCCCT-TTTAAAAAATATTAAAGATTATTTAAGACATTTTTGACCAAAAACA-CC
* * * *
5096719 TTGAATAATCCCTTTTAAAAAATATTAGAGATTATTTAAGACGTTTTTTACCAAAAACACC
1 TTAAATAATCCCTTTTAAAAAATATTAAAGATTATTTAAGACATTTTTGACCAAAAACACC
* * * ** *
5096780 TTAAATAATCCCTTTTAAAAAATTATTAAAGATTATTCAAAACATCTTTGGTCAAAAACATC
1 TTAAATAATCCCTTTTAAAAAA-TATTAAAGATTATTTAAGACATTTTTGACCAAAAACACC
* **
5096842 ATAAATAATATGC-TTT-AAAAA-ATTAAAGAATATTATTTAAGACATTTTT
1 TTAAATAAT-CCCTTTTAAAAAATATTAAAG---ATTATTTAAGACATTTTT
5096891 AGTCTTCTTT
Statistics
Matches: 140, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
59 7 0.05
61 63 0.45
62 69 0.49
63 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (61 bp):
TTAAATAATCCCTTTTAAAAAATATTAAAGATTATTTAAGACATTTTTGACCAAAAACACC
Found at i:5096859 original size:123 final size:124
Alignment explanation
Indices: 5096657--5096890 Score: 287
Period size: 123 Copynumber: 1.9 Consensus size: 124
5096647 AGGTATCGCT
* * * * * * *
5096657 TTAAATAATCCCTATTAAAAAAATATTAAAGATTATTTAAGATATTTTTGGTTAAAAAATTCTTG
1 TTAAATAATCCCTATTAAAAAAATATTAAAGATTATTCAAAACATCTTTGGTCAAAAAATTCATA
* *
5096722 AATAATCCCTTTTAAAAAA-TATTAG-AGATTATTTAAGACGTTTTTTACCAAAAACACC
66 AATAATCCCTTTTAAAAAATTA-AAGAAGATTATTTAAGACATTTTTTACCAAAAACACC
* *
5096780 TTAAATAATCCCTTTTAAAAAATTATTAAAGATTATTCAAAACATCTTTGGTCAAAAACA-TCAT
1 TTAAATAATCCCTATTAAAAAAATATTAAAGATTATTCAAAACATCTTTGGTCAAAAA-ATTCAT
** *
5096844 AAATAATATGC-TTTAAAAAATTAAAGAATATTATTTAAGACATTTTT
65 AAATAAT-CCCTTTTAAAAAATTAAAGAAGATTATTTAAGACATTTTT
5096891 AGTCTTCTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
123 71 0.76
124 22 0.24
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.38
Consensus pattern (124 bp):
TTAAATAATCCCTATTAAAAAAATATTAAAGATTATTCAAAACATCTTTGGTCAAAAAATTCATA
AATAATCCCTTTTAAAAAATTAAAGAAGATTATTTAAGACATTTTTTACCAAAAACACC
Found at i:5097035 original size:33 final size:33
Alignment explanation
Indices: 5096982--5097049 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
5096972 AATGACATTT
5096982 ATTTAAGGCAATTTTAAACCAAAAACG-TATTAA
1 ATTTAAGGCAATTTTAAACCAAAAACGCT-TTAA
* * *
5097015 ATTTAAGGTATTTTTCAACCAAAAACGCTTTAA
1 ATTTAAGGCAATTTTAAACCAAAAACGCTTTAA
5097048 AT
1 AT
5097050 AACTCAACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.34
Consensus pattern (33 bp):
ATTTAAGGCAATTTTAAACCAAAAACGCTTTAA
Found at i:5097720 original size:21 final size:22
Alignment explanation
Indices: 5097689--5097741 Score: 90
Period size: 22 Copynumber: 2.4 Consensus size: 22
5097679 TTATATAATT
5097689 ATATATTTATA-TTTAAAAAATA
1 ATAT-TTTATATTTTAAAAAATA
5097711 ATATTTTATATTTTAAAAAATA
1 ATATTTTATATTTTAAAAAATA
5097733 ATATTTTAT
1 ATATTTTAT
5097742 TAATTTCGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 6 0.20
22 24 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTATATTTTAAAAAATA
Found at i:5098880 original size:183 final size:182
Alignment explanation
Indices: 5098573--5098939 Score: 585
Period size: 183 Copynumber: 2.0 Consensus size: 182
5098563 AATATACATG
**
5098573 ATAACTTACTTGCGTGTACATTTTTTAAAAAGTTTCAATAATATCATAATCTTCAACATCTATAT
1 ATAACTTACTTAAGTGTACATTTTTTAAAAAGTTTCAATAATATCATAATCTTCAACATCTATAT
* * *
5098638 GGCTTTCCAAATATTTGTGTTTTTCAATTGTTTTAAGGATAACATCTAATACAGAATTATGTTCT
66 GGCTTTCCAAATATTTATGTCTTTCAATTGTTTTAAGGATAACATATAATACAGAATTATGTTCT
* *
5098703 TGTAAAAATTGAAATGAAATAGTTTTAAATTTTGAGTAAGTAATAGTATTAA
131 TGTAAAAATTGAAATGAAATAGCTTTAAATTTTGAGTAAGTAATAATATTAA
* * *
5098755 ATAACTTACTTAAGTGTACATTTTTTTAAAGAA-TTTCAGTAATATCATAATCTTCAGCATTTAT
1 ATAACTTACTTAAGTGTACA-TTTTTTAAA-AAGTTTCAATAATATCATAATCTTCAACATCTAT
* *
5098819 ATGGCTTTCCAAATATTTATGTCTTTCAATTGTTTTGAA-GTTAACATATAATATAGAATTATGT
64 ATGGCTTTCCAAATATTTATGTCTTTCAATTGTTTT-AAGGATAACATATAATACAGAATTATGT
5098883 TCTTGTAAAAATTGAAATGAAATAGCTTTAAATTTTGAGTAAGTAATAATATTAA
128 TCTTGTAAAAATTGAAATGAAATAGCTTTAAATTTTGAGTAAGTAATAATATTAA
5098938 AT
1 AT
5098940 TATAAACAAT
Statistics
Matches: 170, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
182 18 0.11
183 148 0.87
184 4 0.02
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.42
Consensus pattern (182 bp):
ATAACTTACTTAAGTGTACATTTTTTAAAAAGTTTCAATAATATCATAATCTTCAACATCTATAT
GGCTTTCCAAATATTTATGTCTTTCAATTGTTTTAAGGATAACATATAATACAGAATTATGTTCT
TGTAAAAATTGAAATGAAATAGCTTTAAATTTTGAGTAAGTAATAATATTAA
Found at i:5102432 original size:71 final size:71
Alignment explanation
Indices: 5102288--5102421 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 71
5102278 TAAACATTTG
* * **
5102288 AATCTTTGTTTTGAATATGGCATTTGCATCATTGTCAGAATCATGCATTTGTATCATTTGGTTGG
1 AATCCTTGTTTTGAATATGGCATTTGCATCATTGTCAGAATCATGCATTTGAATCATTTGCATGG
5102353 TACATA
66 TACATA
* * * *
5102359 AATCCTTGTTTTGTATATGGCATTTGCATCATTG-CTTGCATCATGTATTTGAATCATTT-CATG
1 AATCCTTGTTTTGAATATGGCATTTGCATCATTGTC-AGAATCATGCATTTGAATCATTTGCATG
5102422 AGTTTCTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
70 3 0.06
71 51 0.94
ACGTcount: A:0.24, C:0.14, G:0.17, T:0.45
Consensus pattern (71 bp):
AATCCTTGTTTTGAATATGGCATTTGCATCATTGTCAGAATCATGCATTTGAATCATTTGCATGG
TACATA
Found at i:5103185 original size:45 final size:45
Alignment explanation
Indices: 5103136--5103262 Score: 136
Period size: 44 Copynumber: 2.9 Consensus size: 45
5103126 AAATATCTCC
* *
5103136 AAACATAATCTTTAAAGACTTTCTAATATGATTTATAAGACC-TTT
1 AAACATAATCTTTAAAGACTTTCGAATATGATTTACAA-ACCTTTT
* *
5103181 AAACATAATC-TCAAAGACTTTCGAATATGATTTGCAAACCTTTT
1 AAACATAATCTTTAAAGACTTTCGAATATGATTTACAAACCTTTT
* * * *
5103225 AGACATAATTTTTAAA-ATCTTTC-AGTATTATTTACAAA
1 AAACATAATCTTTAAAGA-CTTTCGAATATGATTTACAAA
5103263 ATCTTTAGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.04
44 47 0.68
45 19 0.28
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (45 bp):
AAACATAATCTTTAAAGACTTTCGAATATGATTTACAAACCTTTT
Found at i:5103257 original size:22 final size:21
Alignment explanation
Indices: 5103232--5103304 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
5103222 TTTAGACATA
5103232 ATTTTTAAAATCTTTCAGTATT
1 ATTTTTAAAATCTTT-AGTATT
**
5103254 ATTTACAAAATCTTTAGATATT
1 ATTTTTAAAATCTTTAG-TATT
* * *
5103276 ATTTTTGAGATCTTT-GAATTT
1 ATTTTTAAAATCTTTAGTA-TT
5103297 ATTTTTAA
1 ATTTTTAA
5103305 CTTTAGCTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 1 0.02
21 12 0.29
22 28 0.68
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (21 bp):
ATTTTTAAAATCTTTAGTATT
Found at i:5103390 original size:33 final size:33
Alignment explanation
Indices: 5103353--5103417 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
5103343 TGATTTAGTG
5103353 CAAATAATCTCATT-TTTAGACTTTAGCTTAAAC
1 CAAATAATCTC-TTGTTTAGACTTTAGCTTAAAC
* * *
5103386 CAAATCATTTCTTGTTTAGACTTTTGCTTAAA
1 CAAATAATCTCTTGTTTAGACTTTAGCTTAAA
5103418 TAAAATCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (33 bp):
CAAATAATCTCTTGTTTAGACTTTAGCTTAAAC
Found at i:5103715 original size:49 final size:49
Alignment explanation
Indices: 5103608--5103708 Score: 116
Period size: 49 Copynumber: 2.1 Consensus size: 49
5103598 GAGTCTCTTC
* * ** * *
5103608 TAATTTGTTCTTTGGGCAAATTAAACCCAAACAACTTTTAAATCTCTCT
1 TAATTTATTTTTTGGGCAAATTAAACCCAAACAACTAATAAATCTCGCA
* *
5103657 TAATTTATTTTTTGGGCAAATTAGACCCAAAC-A-TAATAAATGTCGCA
1 TAATTTATTTTTTGGGCAAATTAAACCCAAACAACTAATAAATCTCGCA
5103704 TAATT
1 TAATT
5103709 CTTATTTCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
47 14 0.32
48 1 0.02
49 29 0.66
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (49 bp):
TAATTTATTTTTTGGGCAAATTAAACCCAAACAACTAATAAATCTCGCA
Found at i:5105324 original size:17 final size:17
Alignment explanation
Indices: 5105298--5105335 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
5105288 TATTTTGTTT
5105298 ATTTTGCATTATTATTA
1 ATTTTGCATTATTATTA
*
5105315 ATTTTTCATTATTATTA
1 ATTTTGCATTATTATTA
5105332 ATTT
1 ATTT
5105336 GTTTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (17 bp):
ATTTTGCATTATTATTA
Found at i:5105785 original size:21 final size:19
Alignment explanation
Indices: 5105761--5105800 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
5105751 ATATCAAAGG
5105761 TTTGAATTAAAATTCTTTTTT
1 TTTGAA-TAAAATT-TTTTTT
*
5105782 TTTGTATAAAATTTTTTTT
1 TTTGAATAAAATTTTTTTT
5105801 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTGAATAAAATTTTTTTT
Found at i:5106526 original size:5 final size:5
Alignment explanation
Indices: 5106516--5106570 Score: 51
Period size: 5 Copynumber: 10.8 Consensus size: 5
5106506 AATGATTTTA
* *
5106516 TAATT TAATTT TAAGTT TGATT TAATT TAATT TAATT T--TT TAATA TATATT
1 TAATT TAA-TT TAA-TT TAATT TAATT TAATT TAATT TAATT TAATT TA-ATT
5106567 TAAT
1 TAAT
5106571 ATTTTATTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
3 3 0.07
5 25 0.61
6 13 0.32
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (5 bp):
TAATT
Found at i:5106569 original size:19 final size:18
Alignment explanation
Indices: 5106536--5106584 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
5106526 TTAAGTTTGA
* *
5106536 TTTAATTTAATTTAATTT
1 TTTAATATAATTTAATAT
5106554 TTTAATATATATTTAATAT
1 TTTAATATA-ATTTAATAT
*
5106573 TTTATTATAATT
1 TTTAATATAATT
5106585 ATTTTTGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAATATAATTTAATAT
Found at i:5106947 original size:15 final size:14
Alignment explanation
Indices: 5106923--5106958 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
5106913 TTATTTACTT
*
5106923 TTAATTTTAAAATA
1 TTAATATTAAAATA
5106937 TATAATATTAAAATA
1 T-TAATATTAAAATA
5106952 TTAATAT
1 TTAATAT
5106959 AATTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAATATTAAAATA
Found at i:5109304 original size:33 final size:34
Alignment explanation
Indices: 5109241--5109306 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 34
5109231 ATTTTTGCTT
*
5109241 TTTTTGAATTTTTTAATTCTAAAAATATTTTTTC
1 TTTTTGAATTTTTTAATCCTAAAAATATTTTTTC
5109275 TTTTTG-A-TTTTTAA-CCTAAAAATGAATTTTTT
1 TTTTTGAATTTTTTAATCCTAAAAAT--ATTTTTT
5109307 TAAAGAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 8 0.28
32 7 0.24
33 8 0.28
34 6 0.21
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (34 bp):
TTTTTGAATTTTTTAATCCTAAAAATATTTTTTC
Found at i:5109305 original size:32 final size:34
Alignment explanation
Indices: 5109241--5109305 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 34
5109231 ATTTTTGCTT
* *
5109241 TTTTTGAATTTTTTAATTCTAAAAATATTTTTTC
1 TTTTTGAATTTTTTAATCCTAAAAATAATTTTTC
5109275 TTTTTG-A-TTTTTAA-CCTAAAAATGAATTTTT
1 TTTTTGAATTTTTTAATCCTAAAAAT-AATTTTT
5109306 TTAAAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 8 0.29
32 13 0.46
33 1 0.04
34 6 0.21
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (34 bp):
TTTTTGAATTTTTTAATCCTAAAAATAATTTTTC
Found at i:5110349 original size:16 final size:18
Alignment explanation
Indices: 5110328--5110364 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5110318 TATATATATG
5110328 CAATTA-AAAGTTTAG-A
1 CAATTATAAAGTTTAGCA
*
5110344 CAATTATATAGTTTAGCA
1 CAATTATAAAGTTTAGCA
5110362 CAA
1 CAA
5110365 ATTTTTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 8 0.44
18 4 0.22
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
CAATTATAAAGTTTAGCA
Found at i:5110736 original size:17 final size:17
Alignment explanation
Indices: 5110711--5110754 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
5110701 TAATAAAAAA
*
5110711 TTATATAAAAATATATT
1 TTATATAAAAATAGATT
*
5110728 ATT-TATAAATATAGATT
1 -TTATATAAAAATAGATT
5110745 TTATATAAAA
1 TTATATAAAA
5110755 TTTTCATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTATATAAAAATAGATT
Found at i:5115408 original size:11 final size:11
Alignment explanation
Indices: 5115392--5115416 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5115382 AAATACGCTA
5115392 TTACTATAGAT
1 TTACTATAGAT
5115403 TTACTATAGAT
1 TTACTATAGAT
5115414 TTA
1 TTA
5115417 AGATTAGTAA
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:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TTACTATAGAT
Found at i:5130436 original size:20 final size:21
Alignment explanation
Indices: 5130413--5130451 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5130403 ATTTTGTTAA
*
5130413 TAATTTT-TTTTATTTAAAGT
1 TAATTTTATTATATTTAAAGT
5130433 TAATTTTATTATATTTAAA
1 TAATTTTATTATATTTAAA
5130452 ATAAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TAATTTTATTATATTTAAAGT
Found at i:5131512 original size:9 final size:9
Alignment explanation
Indices: 5131498--5131538 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
5131488 ATAGTATGTG
5131498 AAATATATT
1 AAATATATT
5131507 AAATATATCT
1 AAATATAT-T
*
5131517 AAATTTATTT
1 AAATATA-TT
5131527 AAATATATT
1 AAATATATT
5131536 AAA
1 AAA
5131539 ATCATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 13 0.46
10 14 0.50
11 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (9 bp):
AAATATATT
Found at i:5131548 original size:20 final size:20
Alignment explanation
Indices: 5131505--5131549 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
5131495 GTGAAATATA
* *
5131505 TTAAATATATCTAAATTTAT
1 TTAAATATATCTAAAATCAT
5131525 TTAAATATAT-TAAAATCAT
1 TTAAATATATCTAAAATCAT
5131544 CTTAAA
1 -TTAAA
5131550 ATAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAAATATATCTAAAATCAT
Found at i:5131710 original size:11 final size:12
Alignment explanation
Indices: 5131688--5131716 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
5131678 TATTTTTTAT
5131688 TTTTATATATTA
1 TTTTATATATTA
5131700 TTTTA-ATATTA
1 TTTTATATATTA
5131711 TTTTAT
1 TTTTAT
5131717 TTCATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATATATTA
Found at i:5132088 original size:18 final size:19
Alignment explanation
Indices: 5132045--5132092 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
5132035 CCCTTTTATA
5132045 TAAAAATATTTTATATTTT
1 TAAAAATATTTTATATTTT
5132064 TATAAAAT-TTTTAGT-TTTT
1 TA-AAAATATTTTA-TATTTT
5132083 TAAAAATATT
1 TAAAAATATT
5132093 AATTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.19
19 15 0.58
20 6 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TAAAAATATTTTATATTTT
Found at i:5132605 original size:16 final size:17
Alignment explanation
Indices: 5132586--5132617 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
5132576 AAATGATTTT
5132586 TATT-TAAAAATTAAAA
1 TATTGTAAAAATTAAAA
5132602 TATTGTAAAAATTAAA
1 TATTGTAAAAATTAAA
5132618 TTTAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
TATTGTAAAAATTAAAA
Found at i:5143336 original size:19 final size:18
Alignment explanation
Indices: 5143294--5143344 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
5143284 CTAGAAAAAC
5143294 ATAAAAATTTAAAAATAT
1 ATAAAAATTTAAAAATAT
* *
5143312 AGAAAAATTTACAAAATTT
1 ATAAAAATTTA-AAAATAT
*
5143331 CTAAAAA-TTAAAAA
1 ATAAAAATTTAAAAA
5143345 CAATAAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.14
18 13 0.46
19 11 0.39
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (18 bp):
ATAAAAATTTAAAAATAT
Found at i:5146827 original size:38 final size:37
Alignment explanation
Indices: 5146771--5146844 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 37
5146761 AAACACTAAA
*
5146771 TATAGTTTTCATATGAGAATTTTTGGTACTATATTTGG
1 TATAGTTTTCATATGAGAATTCTTGGTACTAT-TTTGG
* * *
5146809 TATATTTTTCATGTGAGAATTCTTGGTATTATTTTG
1 TATAGTTTTCATATGAGAATTCTTGGTACTATTTTG
5146845 AAGAATACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 4 0.12
38 28 0.88
ACGTcount: A:0.24, C:0.05, G:0.18, T:0.53
Consensus pattern (37 bp):
TATAGTTTTCATATGAGAATTCTTGGTACTATTTTGG
Found at i:5147711 original size:81 final size:81
Alignment explanation
Indices: 5147576--5147737 Score: 315
Period size: 81 Copynumber: 2.0 Consensus size: 81
5147566 TAAAACTTTG
*
5147576 AGGTCTTAGATTCAAATCACACCATTTGTGGATTTGGTTTAATTTTATGATAAATTTATCTAATT
1 AGGTCTTAGATTCAAATCACACCATTTGTGGATTTGGTTTAACTTTATGATAAATTTATCTAATT
5147641 ATATTCTAATTTGTTT
66 ATATTCTAATTTGTTT
5147657 AGGTCTTAGATTCAAATCACACCATTTGTGGATTTGGTTTAACTTTATGATAAATTTATCTAATT
1 AGGTCTTAGATTCAAATCACACCATTTGTGGATTTGGTTTAACTTTATGATAAATTTATCTAATT
5147722 ATATTCTAATTTGTTT
66 ATATTCTAATTTGTTT
5147738 GTTGATTATT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (81 bp):
AGGTCTTAGATTCAAATCACACCATTTGTGGATTTGGTTTAACTTTATGATAAATTTATCTAATT
ATATTCTAATTTGTTT
Found at i:5154486 original size:79 final size:79
Alignment explanation
Indices: 5154355--5154512 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
5154345 TAAGGAGTTG
5154355 GCATTTGAATGTGTGCATTTTGTTTAAGTAAAGTAGTCTACTACGTTAAAGGGAGATAAACTATC
1 GCATTTGAATGTGTGCATTTTGTTTAAGTAAAGTAGTCTACTACGTTAAAGGGAGATAAACTATC
5154420 CATACTCATTTTGC
66 CATACTCATTTTGC
5154434 GCATTTGAATGTGTGCATTTTGTTTAAGTAAAGTAGTCTACTACGTTAAAGGGAGATAAACTATC
1 GCATTTGAATGTGTGCATTTTGTTTAAGTAAAGTAGTCTACTACGTTAAAGGGAGATAAACTATC
5154499 CATACTCATTTTGC
66 CATACTCATTTTGC
5154513 CTTTAAGATA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (79 bp):
GCATTTGAATGTGTGCATTTTGTTTAAGTAAAGTAGTCTACTACGTTAAAGGGAGATAAACTATC
CATACTCATTTTGC
Found at i:5156176 original size:8 final size:8
Alignment explanation
Indices: 5156165--5156203 Score: 64
Period size: 8 Copynumber: 5.1 Consensus size: 8
5156155 TTGGATTTGT
5156165 AAATTTAA
1 AAATTTAA
5156173 AAATTTAA
1 AAATTTAA
5156181 AAATTTAA
1 AAATTTAA
5156189 AAA--TAA
1 AAATTTAA
5156195 AAATTTAA
1 AAATTTAA
5156203 A
1 A
5156204 TAAATAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 6 0.21
8 23 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AAATTTAA
Found at i:5156178 original size:16 final size:16
Alignment explanation
Indices: 5156165--5156203 Score: 64
Period size: 14 Copynumber: 2.6 Consensus size: 16
5156155 TTGGATTTGT
5156165 AAATTTAAAAATTTAA
1 AAATTTAAAAATTTAA
5156181 AAATTTAAAAA--TAA
1 AAATTTAAAAATTTAA
5156195 AAATTTAAA
1 AAATTTAAA
5156204 TAAATAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 12 0.52
16 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATTTAAAAATTTAA
Found at i:5156208 original size:16 final size:15
Alignment explanation
Indices: 5156165--5156211 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
5156155 TTGGATTTGT
*
5156165 AAATTTAAAAATTTAA
1 AAATTTAAAAA-ATAA
5156181 AAATTT-AAAAATAA
1 AAATTTAAAAAATAA
5156195 AAATTTAAATAAATAA
1 AAATTTAAA-AAATAA
5156211 A
1 A
5156212 TTAAATAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATTTAAAAAATAA
Found at i:5156211 original size:22 final size:22
Alignment explanation
Indices: 5156170--5156211 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
5156160 TTTGTAAATT
*
5156170 TAAAAATTTAAAAATTTAAAAA
1 TAAAAATTTAAAAATATAAAAA
5156192 TAAAAATTTAAATAA-ATAAA
1 TAAAAATTTAAA-AATATAAA
5156212 TTAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAAATTTAAAAATATAAAAA
Found at i:5156212 original size:14 final size:15
Alignment explanation
Indices: 5156165--5156220 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
5156155 TTGGATTTGT
5156165 AAATTTAAA-AATTTAA
1 AAATTTAAATAA--TAA
5156181 AAATTTAAA-AATAA
1 AAATTTAAATAATAA
*
5156195 AAATTTAAATAA-AT
1 AAATTTAAATAATAA
5156209 AAA-TTAAATAAT
1 AAATTTAAATAAT
5156221 TTTATATAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
13 8 0.22
14 16 0.43
15 2 0.05
16 11 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATTTAAATAATAA
Found at i:5159077 original size:14 final size:15
Alignment explanation
Indices: 5159038--5159077 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
5159028 TGGCTGTTAT
*
5159038 TTTTCCTTTTTACTA
1 TTTTCCTTTTTACCA
*
5159053 TTTTCCATTTT-CCA
1 TTTTCCTTTTTACCA
5159067 TTTTCCTTTTT
1 TTTTCCTTTTT
5159078 TTCCCCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTCCTTTTTACCA
Found at i:5160479 original size:66 final size:66
Alignment explanation
Indices: 5160295--5160481 Score: 231
Period size: 66 Copynumber: 2.8 Consensus size: 66
5160285 ATCAAGTAGT
* *
5160295 TGCATGAT-GATTTACTGTTTATTTTCCAATTTTTGATTCATGTTCCTATTACCTT-GAATGGAT
1 TGCATGATGGATTTTCTGTTTATTTTCCAATTTTTGATTCATGTTCTTATTA-CTTCGAATGGAT
5160358 GC
65 GC
** *
5160360 TATATGATGGGA-TTTCT-TTTCATTTTCCAATTTTTGATTCATGTACTTATTACTTCGAATGGA
1 TGCATGAT-GGATTTTCTGTTT-ATTTTCCAATTTTTGATTCATGTTCTTATTACTTCGAATGGA
5160423 TGC
64 TGC
* * *
5160426 TGCATGATGGTTTTTCTGTTTATTGTCCAATTTCTTG-TTCCTGTTCTTATTACTTC
1 TGCATGATGGATTTTCTGTTTATTTTCCAATTT-TTGATTCATGTTCTTATTACTTC
5160482 ACATTAATGC
Statistics
Matches: 104, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
65 14 0.13
66 82 0.79
67 8 0.08
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (66 bp):
TGCATGATGGATTTTCTGTTTATTTTCCAATTTTTGATTCATGTTCTTATTACTTCGAATGGATG
C
Found at i:5164992 original size:24 final size:24
Alignment explanation
Indices: 5164965--5165020 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
5164955 TTTTTCATCA
*
5164965 ATAAA-ATTAATAAATCATATAAAT
1 ATAAATATAAATAAAT-ATATAAAT
*
5164989 ATAAATATAAATAAATATATATAT
1 ATAAATATAAATAAATATATAAAT
*
5165013 ATATATAT
1 ATAAATAT
5165021 TATAAGTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 19 0.68
25 9 0.32
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAATATAAATAAATATATAAAT
Found at i:5165004 original size:16 final size:16
Alignment explanation
Indices: 5164983--5165013 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5164973 AATAAATCAT
5164983 ATAAATATAAATATAA
1 ATAAATATAAATATAA
*
5164999 ATAAATATATATATA
1 ATAAATATAAATATA
5165014 TATATATTAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAAATATAAATATAA
Found at i:5165020 original size:12 final size:12
Alignment explanation
Indices: 5164981--5165020 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5164971 TTAATAAATC
*
5164981 ATATAAATATAA
1 ATATAAATATAT
*
5164993 ATATAAATAAAT
1 ATATAAATATAT
*
5165005 ATATATATATAT
1 ATATAAATATAT
5165017 ATAT
1 ATAT
5165021 TATAAGTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATAAATATAT
Found at i:5167937 original size:14 final size:16
Alignment explanation
Indices: 5167908--5167961 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 16
5167898 CCGAAATTAA
*
5167908 TAAA-ATATTATT-TT
1 TAAATATATAATTATT
5167922 TAAATATA-AA-TATT
1 TAAATATATAATTATT
*
5167936 TAAATATATAATTATA
1 TAAATATATAATTATT
5167952 TAAATATATA
1 TAAATATATA
5167962 TAAATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 1 0.03
14 15 0.44
15 5 0.15
16 13 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAATATATAATTATT
Found at i:5167941 original size:8 final size:8
Alignment explanation
Indices: 5167925--5167961 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
5167915 TTATTTTTAA
5167925 ATATAAAT
1 ATATAAAT
*
5167933 ATTTAAAT
1 ATATAAAT
*
5167941 ATATAATT
1 ATATAAAT
5167949 ATATAAAT
1 ATATAAAT
5167957 ATATA
1 ATATA
5167962 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:5167989 original size:12 final size:12
Alignment explanation
Indices: 5167927--5167999 Score: 67
Period size: 12 Copynumber: 5.8 Consensus size: 12
5167917 ATTTTTAAAT
*
5167927 ATAAATATTTAA
1 ATAAATAATTAA
* *
5167939 ATATATAATTAT
1 ATAAATAATTAA
5167951 ATAAATATATATAA
1 ATAAATA-AT-TAA
*
5167965 ATAAAAAAATTAA
1 AT-AAATAATTAA
5167978 ATAAATAATTAA
1 ATAAATAATTAA
5167990 A-AAATTAATT
1 ATAAA-TAATT
5168000 TTTATATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
11 3 0.06
12 30 0.60
13 7 0.14
14 6 0.12
15 4 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:5167990 original size:21 final size:22
Alignment explanation
Indices: 5167952--5168011 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
5167942 TATAATTATA
5167952 TAAATATATATAAATAAAAAAAT
1 TAAATATATATAAAT-AAAAAAT
*
5167975 TAAATA-A-ATAATTAAAAAAT
1 TAAATATATATAAATAAAAAAT
* *
5167995 TAATTTTTATATAAATA
1 TAA-ATATATATAAATA
5168012 TCGGGTCGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 10 0.33
21 6 0.20
22 2 0.07
23 12 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATATATAAATAAAAAAT
Found at i:5168547 original size:17 final size:18
Alignment explanation
Indices: 5168520--5168560 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5168510 TAAAAAATAA
* *
5168520 AAAAATGAAAATTATTTT
1 AAAAATAAAAATAATTTT
5168538 AAAAATAAAAATAATTTT
1 AAAAATAAAAATAATTTT
5168556 AAAAA
1 AAAAA
5168561 GATTTATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (18 bp):
AAAAATAAAAATAATTTT
Found at i:5170163 original size:18 final size:19
Alignment explanation
Indices: 5170140--5170175 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5170130 GTTTCATTTT
5170140 TTGCTT-TTTTTTTCCTGA
1 TTGCTTGTTTTTTTCCTGA
5170158 TTGCTTGTTTTTTTCCTG
1 TTGCTTGTTTTTTTCCTG
5170176 TAAGTTGTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.03, C:0.17, G:0.14, T:0.67
Consensus pattern (19 bp):
TTGCTTGTTTTTTTCCTGA
Found at i:5175847 original size:22 final size:23
Alignment explanation
Indices: 5175819--5175873 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
5175809 ACATGAACAT
*
5175819 CATTTTTA-AAAAAAATGCAATG
1 CATTTTTATAAAAAAATACAATG
* *
5175841 CATTTTTCATAAAAAGATACGATG
1 CATTTTT-ATAAAAAAATACAATG
5175865 CATTTTTAT
1 CATTTTTAT
5175874 TCAAAATGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.25
23 3 0.11
24 18 0.64
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (23 bp):
CATTTTTATAAAAAAATACAATG
Found at i:5182166 original size:3 final size:3
Alignment explanation
Indices: 5182158--5182214 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
5182148 AAGTTTATAG
5182158 TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5182204 TAA TAA TAA TA
1 TAA TAA TAA TA
5182215 GGGATTTAGT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5182185 original size:20 final size:20
Alignment explanation
Indices: 5182160--5182214 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
5182150 GTTTATAGTA
5182160 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
5182180 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
5182200 ATAATAATAATAATA
1 ATAATAATAATAATA
5182215 GGGATTTAGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATAATAATAATAATAAT
Found at i:5183756 original size:31 final size:32
Alignment explanation
Indices: 5183696--5183756 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
5183686 CCACATTATT
* ** *
5183696 TTTAAAAAATTAAGTAAAGATTTCTATATTAA
1 TTTAAAAAATTAAATAAAGAACTCAATATTAA
5183728 TTTAAAAAATTAAATAAA-AACTCAATATT
1 TTTAAAAAATTAAATAAAGAACTCAATATT
5183757 GTTTTGAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (32 bp):
TTTAAAAAATTAAATAAAGAACTCAATATTAA
Found at i:5185361 original size:26 final size:24
Alignment explanation
Indices: 5185316--5185366 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
5185306 TTTTAAGAGT
*
5185316 TTATATTTATTTATTAATAAAGTA
1 TTATATTTATTTACTAATAAAGTA
* *
5185340 TTATCATTTAATTTACTGATAACGTA
1 TTAT-ATTT-ATTTACTAATAAAGTA
5185366 T
1 T
5185367 ATAATCTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 4 0.18
26 14 0.64
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (24 bp):
TTATATTTATTTACTAATAAAGTA
Found at i:5185407 original size:24 final size:23
Alignment explanation
Indices: 5185356--5185417 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
5185346 TTTAATTTAC
* *
5185356 TGATAACGTATATAATCTATATT
1 TGATAATGTATAAAATCTATATT
*
5185379 T-ATAATGTATAAAATTTATATAT
1 TGATAATGTATAAAATCTATAT-T
* *
5185402 TGATAATATATTAAAT
1 TGATAATGTATAAAAT
5185418 ATAAATTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 17 0.53
23 3 0.09
24 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (23 bp):
TGATAATGTATAAAATCTATATT
Found at i:5186904 original size:22 final size:22
Alignment explanation
Indices: 5186869--5186910 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
5186859 TTTAAGTCTT
*
5186869 GATCCATGATAAGTGGTATCTC
1 GATCCATGACAAGTGGTATCTC
* *
5186891 GATCCGTGACAAGTTGTATC
1 GATCCATGACAAGTGGTATC
5186911 AAAACCAGCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (22 bp):
GATCCATGACAAGTGGTATCTC
Found at i:5189612 original size:12 final size:12
Alignment explanation
Indices: 5189580--5189616 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5189570 TCAAACATAA
5189580 AAAT-AAAATTT
1 AAATCAAAATTT
5189591 AAA-C-AAATTT
1 AAATCAAAATTT
5189601 AAATCAAAATTT
1 AAATCAAAATTT
5189613 AAAT
1 AAAT
5189617 TACCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.39
11 4 0.17
12 10 0.43
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATCAAAATTT
Found at i:5191975 original size:44 final size:44
Alignment explanation
Indices: 5191926--5192014 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
5191916 ATAGGCTCAA
* *
5191926 ACAATGCATAGATTTTTACAAACAAGTTACTCTGATGGCTGAAC
1 ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
*
5191970 ACAATGCATATATTTTTACAAACAAGTTACTATGATGCCTGAAC
1 ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
5192014 A
1 A
5192015 TAGAGATCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (44 bp):
ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
Found at i:5194897 original size:20 final size:22
Alignment explanation
Indices: 5194843--5194895 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
5194833 ATATATTTAT
5194843 ATATTTATATTT--AAAAAATA
1 ATATTTATATTTAAAAAAAATA
5194863 ATATTTATATTTTAAAAAAAATA
1 ATATTTATA-TTTAAAAAAAATA
5194886 ATATTT-TATT
1 ATATTTATATT
5194896 AATTTCAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 9 0.30
21 5 0.17
22 2 0.07
23 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTTATATTTAAAAAAAATA
Found at i:5198341 original size:15 final size:15
Alignment explanation
Indices: 5198321--5198360 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
5198311 GAGGCAACCC
5198321 AAGTTTTACACTTTT
1 AAGTTTTACACTTTT
*
5198336 AAGTTTTACATTTTT
1 AAGTTTTACACTTTT
5198351 AAGTTTTACA
1 AAGTTTTACA
5198361 GTTTATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (15 bp):
AAGTTTTACACTTTT
Found at i:5198350 original size:8 final size:8
Alignment explanation
Indices: 5198322--5198364 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
5198312 AGGCAACCCA
5198322 AGTTTTAC
1 AGTTTTAC
*
5198330 ACTTTTA-
1 AGTTTTAC
5198337 AGTTTTAC
1 AGTTTTAC
*
5198345 ATTTTTA-
1 AGTTTTAC
5198352 AGTTTTAC
1 AGTTTTAC
5198360 AGTTT
1 AGTTT
5198365 ATTAGTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 12 0.41
8 17 0.59
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (8 bp):
AGTTTTAC
Found at i:5199710 original size:22 final size:22
Alignment explanation
Indices: 5199676--5199725 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
5199666 CCATAATGCA
*
5199676 TGATTGATAAATTATGGAACTT
1 TGATTTATAAATTATGGAACTT
*
5199698 TGATTTATCAATTATGGAACTT
1 TGATTTATAAATTATGGAACTT
5199720 TGATTT
1 TGATTT
5199726 GTGTGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (22 bp):
TGATTTATAAATTATGGAACTT
Found at i:5201797 original size:9 final size:9
Alignment explanation
Indices: 5201766--5201814 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
5201756 TTTTATTTTG
5201766 ATAAAATAA
1 ATAAAATAA
* *
5201775 AAAAAACAA
1 ATAAAATAA
*
5201784 GTAAAATAA
1 ATAAAATAA
*
5201793 ATAAATTAA
1 ATAAAATAA
5201802 ATAAAATAA
1 ATAAAATAA
5201811 ATAA
1 ATAA
5201815 GAAAATATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
ATAAAATAA
Found at i:5201807 original size:31 final size:31
Alignment explanation
Indices: 5201769--5201830 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
5201759 TATTTTGATA
*
5201769 AAATAAAAAAAACAAGTAAAATA-AATAAATT
1 AAATAAAAAAAACAAG-AAAATATAAAAAATT
* *
5201800 AAATAAAATAAATAAGAAAATATAAAAAATT
1 AAATAAAAAAAACAAGAAAATATAAAAAATT
5201831 CGAAAATAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (31 bp):
AAATAAAAAAAACAAGAAAATATAAAAAATT
Found at i:5202117 original size:30 final size:30
Alignment explanation
Indices: 5202083--5202139 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
5202073 TTTTTTAGAA
*
5202083 TTCCCTTCTCCTCTTCTCTTTTTCTCTCTC
1 TTCCCTTCTCCTCTCCTCTTTTTCTCTCTC
**
5202113 TTCCCTTCTTTTCTCCTCTTTTTCTCT
1 TTCCCTTCTCCTCTCCTCTTTTTCTCT
5202140 AAACAATTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (30 bp):
TTCCCTTCTCCTCTCCTCTTTTTCTCTCTC
Found at i:5202297 original size:22 final size:23
Alignment explanation
Indices: 5202272--5202317 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
5202262 CCAAAAATTT
* *
5202272 TTCAGAAAAAGAAC-TCCAAAAA
1 TTCAAAAAAAAAACTTCCAAAAA
*
5202294 TTCAAAAAAAAAACTTCTAAAAA
1 TTCAAAAAAAAAACTTCCAAAAA
5202317 T
1 T
5202318 CATATATTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.15, G:0.04, T:0.20
Consensus pattern (23 bp):
TTCAAAAAAAAAACTTCCAAAAA
Found at i:5202622 original size:22 final size:21
Alignment explanation
Indices: 5202597--5202692 Score: 60
Period size: 20 Copynumber: 4.7 Consensus size: 21
5202587 AAAAAAAGAT
*
5202597 AAATATATTA-ATAGATAACAAA
1 AAATA-ATTAGATAAATAA-AAA
*
5202619 AAATAATTAGATAAATAAAAG
1 AAATAATTAGATAAATAAAAA
*
5202640 AAATAGA-TAGAT-AATAATAA
1 AAATA-ATTAGATAAATAAAAA
* ** *
5202660 TAA-AAGCAGATAAATAATAA
1 AAATAATTAGATAAATAAAAA
5202680 AAAT-ATTA-ATAAA
1 AAATAATTAGATAAA
5202693 AATATATATT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
18 1 0.02
19 10 0.17
20 20 0.33
21 16 0.27
22 13 0.22
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (21 bp):
AAATAATTAGATAAATAAAAA
Found at i:5202643 original size:21 final size:23
Alignment explanation
Indices: 5202597--5202653 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 23
5202587 AAAAAAAGAT
* *
5202597 AAATATATTA-ATAGATAACAAA
1 AAATAGATTAGATAAATAACAAA
*
5202619 AAATA-ATTAGATAAATAA-AAG
1 AAATAGATTAGATAAATAACAAA
5202640 AAATAGA-TAGATAA
1 AAATAGATTAGATAA
5202654 TAATAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.65, C:0.02, G:0.09, T:0.25
Consensus pattern (23 bp):
AAATAGATTAGATAAATAACAAA
Found at i:5202679 original size:26 final size:26
Alignment explanation
Indices: 5202632--5202684 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5202622 TAATTAGATA
* *
5202632 AATAAAAGAAATAGATAGATAATAAT
1 AATAAAAGAAATAAATAGATAAAAAT
*
5202658 AATAAAAGCAGATAAATA-ATAAAAAT
1 AATAAAAG-AAATAAATAGATAAAAAT
5202684 A
1 A
5202685 TTAATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.21
Consensus pattern (26 bp):
AATAAAAGAAATAAATAGATAAAAAT
Found at i:5203041 original size:44 final size:43
Alignment explanation
Indices: 5202962--5203048 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
5202952 TTTTTTTTGT
** * **
5202962 CAAAGCTCCTCTAAGTAGAGGCTCTACAATTTTGAAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCCACAACCTTG-AAAAATAAA
*
5203006 CAAAGCTCCTCTAAACAGAGGCTCCACGACCTTGAAAAATAAA
1 CAAAGCTCCTCTAAACAGAGGCTCCACAACCTTGAAAAATAAA
5203049 TGGCTCCCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 9 0.24
44 28 0.76
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.21
Consensus pattern (43 bp):
CAAAGCTCCTCTAAACAGAGGCTCCACAACCTTGAAAAATAAA
Found at i:5203067 original size:41 final size:41
Alignment explanation
Indices: 5202966--5203354 Score: 286
Period size: 41 Copynumber: 9.4 Consensus size: 41
5202956 TTTTGTCAAA
* * * **
5202966 GCTCCTCTAAGT-AGAGGCTCTACAATTTTGAAAAAATAAACAAA
1 GCTCCTCTAA-TCAGAGGCTCAACGACTTTG-AAAAAT-AA-ATG
* * *
5203010 GCTCCTCTAAACAGAGGCTCCACGACCTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * *
5203051 GCTCCCCTAATCAGAGGCTCAATGACTTTGGAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* *
5203092 GCTCTTCTAATCAGAGGCTTAACGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
** * * *
5203133 GCTTATCTAATCAGAGGCTCAATGACTTTGGAAAATAAATA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
** * * * * *** *
5203174 AATTCTCTAAGCAGAAGCACCGTGAC-TTCAAAAATAAAT-
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * * * *
5203213 GCTCCTCTAAACAGAGG-TACCACAACTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCT-CAACGACTTTGAAAAATAAATG
* * * *
5203254 GCTCCTTTAAAT-AGAGGCAACCACGACTTTGGAAAATAAATG
1 GCTCCTCT-AATCAGAGGC-TCAACGACTTTGAAAAATAAATG
* * * * *
5203296 GCTCCTCTAATAAGATGTTTAATGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
5203337 GCTCCTCTAAAT-AGAGGC
1 GCTCCTCT-AATCAGAGGC
5203355 AGCAGAACTT
Statistics
Matches: 274, Mismatches: 62, Indels: 21
0.77 0.17 0.06
Matches are distributed among these distances:
39 16 0.06
40 22 0.08
41 170 0.62
42 36 0.13
43 6 0.02
44 24 0.09
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.26
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:5203294 original size:42 final size:40
Alignment explanation
Indices: 5203204--5203305 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 40
5203194 CGTGACTTCA
*
5203204 AAAATAAA-TGCTCCTCTAAACAGAGGTACCACAACTTTG
1 AAAATAAATTGCTCCTCTAAACAGAGGAACCACAACTTTG
* * *
5203243 AAAAGTAAATTGCTCCTTTAAATAGAGGCAACCACGACTTTGG
1 AAAA-TAAATTGCTCCTCTAAACAGAGG-AACCACAACTTT-G
*
5203286 AAAATAAATGGCTCCTCTAA
1 AAAATAAATTGCTCCTCTAA
5203306 TAAGATGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.08
40 4 0.08
41 16 0.30
42 24 0.45
43 5 0.09
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (40 bp):
AAAATAAATTGCTCCTCTAAACAGAGGAACCACAACTTTG
Found at i:5205013 original size:13 final size:14
Alignment explanation
Indices: 5204990--5205022 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
5204980 TTTTTCCTCC
5204990 TTTCATCTTTTTTT
1 TTTCATCTTTTTTT
5205004 TTTC-TCTTTTTTT
1 TTTCATCTTTTTTT
5205017 TTTCAT
1 TTTCAT
5205023 TTTCCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCATCTTTTTTT
Found at i:5205019 original size:19 final size:19
Alignment explanation
Indices: 5204997--5205052 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
5204987 TCCTTTCATC
5204997 TTTTT-TTTTTCTCTTTTT
1 TTTTTCTTTTTCTCTTTTT
*
5205015 TTTTTCATTTTC-CTTATTT
1 TTTTTCTTTTTCTCTT-TTT
5205034 TTTTTCTTTTTCT-TTTTT
1 TTTTTCTTTTTCTCTTTTT
5205052 T
1 T
5205053 CACCTTTCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTTCTCTTTTT
Found at i:5205060 original size:7 final size:7
Alignment explanation
Indices: 5205050--5205084 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
5205040 TTTTTCTTTT
5205050 TTTCACC
1 TTTCACC
5205057 TTTCACC
1 TTTCACC
5205064 TTTCACC
1 TTTCACC
5205071 TTTCACC
1 TTTCACC
5205078 TTTCACC
1 TTTCACC
5205085 ATTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (7 bp):
TTTCACC
Found at i:5205095 original size:21 final size:20
Alignment explanation
Indices: 5205046--5205095 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
5205036 TTTCTTTTTC
5205046 TTTTTTTCACCTTTCACCTT
1 TTTTTTTCACCTTTCACCTT
***
5205066 TCACCTTTCACCTTTCACCATT
1 T-TTTTTTCACCTTTCACC-TT
5205088 TTTTTTTC
1 TTTTTTTC
5205096 TTATCTTTCA
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.82
22 3 0.14
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTTTCACCTTTCACCTT
Found at i:5212999 original size:12 final size:12
Alignment explanation
Indices: 5212967--5213003 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
5212957 TCAAACATAA
5212967 AAAT-AAAATTT
1 AAATCAAAATTT
5212978 AAA-C-AAATTT
1 AAATCAAAATTT
5212988 AAATCAAAATTT
1 AAATCAAAATTT
5213000 AAAT
1 AAAT
5213004 TACCAACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.39
11 4 0.17
12 10 0.43
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATCAAAATTT
Found at i:5215368 original size:44 final size:44
Alignment explanation
Indices: 5215319--5215407 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
5215309 ATAGGCTCAA
* *
5215319 ACAATGCATAGATTTTTACAAACAAGTTACTCTGATGGCTGAAC
1 ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
*
5215363 ACAATGCATATATTTTTACAAACAAGTTACTATGATGCCTGAAC
1 ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
5215407 A
1 A
5215408 TAGAGATCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (44 bp):
ACAATGCATAGATTTTTACAAACAAGTTACTATGATGCCTGAAC
Found at i:5221708 original size:15 final size:15
Alignment explanation
Indices: 5221688--5221727 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
5221678 GAGGCAACCC
5221688 AAGTTTTACACTATT
1 AAGTTTTACACTATT
* *
5221703 AAGTTTTACATTTTT
1 AAGTTTTACACTATT
5221718 AAGTTTTACA
1 AAGTTTTACA
5221728 GTTTATTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
AAGTTTTACACTATT
Found at i:5223085 original size:22 final size:22
Alignment explanation
Indices: 5223051--5223100 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
5223041 CCATAATGCA
*
5223051 TGATTGATAAATTATGGAACTT
1 TGATTTATAAATTATGGAACTT
*
5223073 TGATTTATCAATTATGGAACTT
1 TGATTTATAAATTATGGAACTT
5223095 TGATTT
1 TGATTT
5223101 TGTGTGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (22 bp):
TGATTTATAAATTATGGAACTT
Found at i:5225937 original size:22 final size:21
Alignment explanation
Indices: 5225912--5226037 Score: 75
Period size: 21 Copynumber: 5.8 Consensus size: 21
5225902 TAAAAAAGAT
*
5225912 AAATATATTA-ATAGATAACAAA
1 AAATA-ATTAGATAAATAA-AAA
*
5225934 AAATAATTAGATAAATAAAAG
1 AAATAATTAGATAAATAAAAA
*
5225955 AAATAGA-TAGAT-AATAATAA
1 AAATA-ATTAGATAAATAAAAA
* *
5225975 TAA-AAGTAGATAAATAATAAA
1 AAATAATTAGATAAATAA-AAA
5225996 AATATTAA-TAGATAAAAATTAAAAA
1 AA-A-TAATTAGAT--AAA-TAAAAA
5226021 AAATATATTA-ATAAATA
1 AAATA-ATTAGATAAATA
5226038 GACAAATACT
Statistics
Matches: 84, Mismatches: 7, Indels: 27
0.71 0.06 0.23
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 13 0.15
21 21 0.25
22 17 0.20
23 7 0.08
24 6 0.07
25 10 0.12
26 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.06, T:0.27
Consensus pattern (21 bp):
AAATAATTAGATAAATAAAAA
Found at i:5225994 original size:26 final size:26
Alignment explanation
Indices: 5225947--5225999 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
5225937 TAATTAGATA
* *
5225947 AATAAAAGAAATAGATAGATAATAAT
1 AATAAAAGAAATAAATAGATAAAAAT
*
5225973 AATAAAAGTAGATAAATA-ATAAAAAT
1 AATAAAAG-AAATAAATAGATAAAAAT
5225999 A
1 A
5226000 TTAATAGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (26 bp):
AATAAAAGAAATAAATAGATAAAAAT
Found at i:5226007 original size:23 final size:22
Alignment explanation
Indices: 5225955--5226034 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 22
5225945 TAAATAAAAG
* *
5225955 AAATAGATAGATAATAATAATA
1 AAATAGATAAATAATAAAAATA
5225977 AAAGTAGATAAATAATAAAAATA
1 AAA-TAGATAAATAATAAAAATA
* *
5226000 TTAATAGATAAA-AATTAAAA-A
1 -AAATAGATAAATAATAAAAATA
* *
5226021 AAATATATTAATAA
1 AAATAGATAAATAA
5226035 ATAGACAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 8 0.17
21 3 0.06
22 10 0.21
23 25 0.52
24 2 0.04
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (22 bp):
AAATAGATAAATAATAAAAATA
Found at i:5226469 original size:82 final size:82
Alignment explanation
Indices: 5226339--5226665 Score: 329
Period size: 82 Copynumber: 4.0 Consensus size: 82
5226329 ATAACAAAGT
* * * *
5226339 TCCTCTAAACAGAGGCTCCACGACCTTG-AAAATAAATGGCTCCCCTAATCAGAGGCTCAACGAC
1 TCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
*
5226403 TTTAAAAAATAAATGGC
66 TTTGAAAAATAAATGGC
* * * * *
5226420 TCCTCTAATTAGAGGCTCAATGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGAC
1 TCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
* ***
5226485 TTCGAAAAATAAATAAA
66 TTTGAAAAATAAATGGC
* * ** * ** * * * *
5226502 TTCTTTAGGTAGAAGCACCGTGAC-TTCAAAAATAAAT-GCTCATCTAAACAGAGGCATC-ACAA
1 TCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGC-TCAACGA
* *
5226564 CTTTGAAAAGTAAATTGC
65 CTTTGAAAAATAAATGGC
* * * *
5226582 TCATCTAAATAGAGGCAACCACGACTTTGGAAAATAGATGACTCCTCTAATCAGAGGCTCAACGA
1 TCCTCTAAATAGAGGC-ACCACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGA
5226647 CTTTGAAAAATAAATGGC
65 CTTTGAAAAATAAATGGC
5226665 T
1 T
5226666 TATCTAAACA
Statistics
Matches: 193, Mismatches: 47, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
80 41 0.21
81 43 0.22
82 74 0.38
83 35 0.18
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (82 bp):
TCCTCTAAATAGAGGCACCACGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGAC
TTTGAAAAATAAATGGC
Found at i:5226629 original size:163 final size:163
Alignment explanation
Indices: 5226367--5226661 Score: 405
Period size: 163 Copynumber: 1.8 Consensus size: 163
5226357 CACGACCTTG
* * * * *
5226367 AAAATAAATGGCTCCCCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGCTCCTCTAATTAG
1 AAAATAAATGGCTCACCTAAACAGAGGCTCAACAACTTTAAAAAATAAATGGCTCATCTAAATAG
* * * *
5226432 AGGCTCAATGACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAATGACTTCGAAAAATAA
66 AGGCACAACGACTTTGAAAAATAAATGACTCCTCTAATCAGAGGCTCAACGACTTCGAAAAATAA
5226497 ATAAATTCTTTAGGTAGAAGCACCGTGACTTCA
131 ATAAATTCTTTAGGTAGAAGCACCGTGACTTCA
* * * *
5226530 AAAATAAAT-GCTCATCTAAACAGAGGCATC-ACAACTTTGAAAAGTAAATTGCTCATCTAAATA
1 AAAATAAATGGCTCACCTAAACAGAGGC-TCAACAACTTTAAAAAATAAATGGCTCATCTAAATA
* * * *
5226593 GAGGCAACCACGACTTTGGAAAATAGATGACTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAT
65 GAGGC-ACAACGACTTTGAAAAATAAATGACTCCTCTAATCAGAGGCTCAACGACTTCGAAAAAT
5226658 AAAT
129 AAAT
5226662 GGCTTATCTA
Statistics
Matches: 113, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
162 47 0.42
163 66 0.58
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (163 bp):
AAAATAAATGGCTCACCTAAACAGAGGCTCAACAACTTTAAAAAATAAATGGCTCATCTAAATAG
AGGCACAACGACTTTGAAAAATAAATGACTCCTCTAATCAGAGGCTCAACGACTTCGAAAAATAA
ATAAATTCTTTAGGTAGAAGCACCGTGACTTCA
Found at i:5226672 original size:41 final size:41
Alignment explanation
Indices: 5226339--5226665 Score: 288
Period size: 41 Copynumber: 8.0 Consensus size: 41
5226329 ATAACAAAGT
* * *
5226339 TCCTCTAAACAGAGGCTCCACGACCTTG-AAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
* *
5226379 TCCCCTAATCAGAGGCTCAACGACTTTAAAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
* *
5226420 TCCTCTAATTAGAGGCTCAATGACTTTGAAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
* * ***
5226461 TCCTCTAATCAGAGGCTCAATGACTTCGAAAAATAAATAAA
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
* * * * * *** *
5226502 TTCTTTAGGT-AGAAGCACCGTGAC-TTCAAAAATAAAT-GC
1 TCCTCTA-ATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
* * * * *
5226541 TCATCTAAACAGAGGCATC-ACAACTTTGAAAAGTAAATTGC
1 TCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAATGGC
* * * * * *
5226582 TCATCTAAAT-AGAGGCAACCACGACTTTGGAAAATAGATGAC
1 TCCTCT-AATCAGAGGC-TCAACGACTTTGAAAAATAAATGGC
5226624 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
1 TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
5226665 T
1 T
5226666 TATCTAAACA
Statistics
Matches: 227, Mismatches: 51, Indels: 17
0.77 0.17 0.06
Matches are distributed among these distances:
39 11 0.05
40 46 0.20
41 140 0.62
42 30 0.13
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (41 bp):
TCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATGGC
Found at i:5227174 original size:22 final size:21
Alignment explanation
Indices: 5227125--5227165 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
5227115 GGTTTCACTC
5227125 CTCAAAGATTCTCATTTTGAAA
1 CTCAAAGATTCTCA-TTTGAAA
5227147 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
5227166 GTTTTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:5235256 original size:11 final size:11
Alignment explanation
Indices: 5235240--5235264 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5235230 ACATGTGACT
5235240 TTAAATTAAAA
1 TTAAATTAAAA
5235251 TTAAATTAAAA
1 TTAAATTAAAA
5235262 TTA
1 TTA
5235265 TTATTTTTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTAAATTAAAA
Found at i:5235411 original size:24 final size:25
Alignment explanation
Indices: 5235384--5235431 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
5235374 ATGATAAAAA
*
5235384 TAAATTTATTTTTATGAG-ATTTTT
1 TAAAGTTATTTTTATGAGTATTTTT
5235408 TAAAGTTATTTTTATGAGTATTTT
1 TAAAGTTATTTTTATGAGTATTTT
5235432 GTATGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.60
Consensus pattern (25 bp):
TAAAGTTATTTTTATGAGTATTTTT
Done.