Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 58 of 117
Found at i:10807274 original size:77 final size:78
Alignment explanation
Indices: 10807185--10807384 Score: 285
Period size: 79 Copynumber: 2.6 Consensus size: 78
10807175 CAAATCTTAA
*
10807185 GGGTTTCACACCTCAAAGATTCTCATTTAAAATTCAAAATTCTCATTTGAG-TTCAAAATTCACA
1 GGGTTTCACACCTCAAAGATTCTCATTTAGAATTCAAAATTCTCATTTGAGTTTCAAAATTCACA
10807249 ATCAACAAATTTT
66 ATCAACAAATTTT
* * * *
10807262 GGGTTTCACACCTCAAAGATTCTTATTTGGAATTCAAAGATTCTCATTTGAGTTTGAAGATTCAC
1 GGGTTTCACACCTCAAAGATTCTCATTTAGAATTCAAA-ATTCTCATTTGAGTTTCAAAATTCAC
* *
10807327 ATTTAACAAATTTT
65 AATCAACAAATTTT
* * *
10807341 GAGTTTCACACCTCAAAGATTTTCATTTGAGAACTCAAAATTCT
1 GGGTTTCACACCTCAAAGATTCTCATTT-AGAATTCAAAATTCT
10807385 TACCAAAAGA
Statistics
Matches: 108, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
77 35 0.32
78 13 0.12
79 52 0.48
80 8 0.07
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (78 bp):
GGGTTTCACACCTCAAAGATTCTCATTTAGAATTCAAAATTCTCATTTGAGTTTCAAAATTCACA
ATCAACAAATTTT
Found at i:10807471 original size:18 final size:19
Alignment explanation
Indices: 10807448--10807495 Score: 80
Period size: 18 Copynumber: 2.5 Consensus size: 19
10807438 GAATGTCATG
10807448 AAATGCAAATATTTTCTC-
1 AAATGCAAATATTTTCTCA
10807466 AAATGCAAATATTTTCTCA
1 AAATGCAAATATTTTCTCA
10807485 ATAATGCAAAT
1 A-AATGCAAAT
10807496 GCAACAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.64
19 1 0.04
20 9 0.32
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (19 bp):
AAATGCAAATATTTTCTCA
Found at i:10807777 original size:23 final size:23
Alignment explanation
Indices: 10807732--10807777 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10807722 TTTTAGAACA
**
10807732 ATTTTCATCAATTGATCTTCATT
1 ATTTTCATCAATTGATCACCATT
* *
10807755 ATTTTTATCACTTGATCACCATT
1 ATTTTCATCAATTGATCACCATT
10807778 CATAGGCTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (23 bp):
ATTTTCATCAATTGATCACCATT
Found at i:10807825 original size:79 final size:80
Alignment explanation
Indices: 10807721--10807941 Score: 200
Period size: 79 Copynumber: 2.8 Consensus size: 80
10807711 GCTCCTCAGT
* * * * ** *
10807721 ATTTTAGAA-CAATTTTCATCAATTGAT-CTTCATTATTTTTATCACTTGATCACCATTCATAGG
1 ATTTTAGAATAAATTTTCATCAATTGATCCAT-ATTATGTTCATCACTTGATCACCACCCACAGG
10807784 CTTCTCAACACTAGCA
65 CTTCTCAACACTAGCA
* *
10807800 ATTTTAGAATAAATTTT-GTCAATTGATCCATATTATGTTCATCACTTGATTACCACCCACAGGC
1 ATTTTAGAATAAATTTTCATCAATTGATCCATATTATGTTCATCACTTGATCACCACCCACAGGC
** *
10807864 TTCTCAGTACTAGCC
66 TTCTCAACACTAGCA
* * * * * * * * *
10807879 ATTCTAGAATGAA-TTTAATCTATTGATTCGTATTAT-TTCCATCATTTGATCACGACTCACAGG
1 ATTTTAGAATAAATTTTCATCAATTGATCCATATTATGTT-CATCACTTGATCACCACCCACAGG
10807942 TTTTTAGCAT
Statistics
Matches: 116, Mismatches: 22, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
78 5 0.04
79 103 0.89
80 8 0.07
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.39
Consensus pattern (80 bp):
ATTTTAGAATAAATTTTCATCAATTGATCCATATTATGTTCATCACTTGATCACCACCCACAGGC
TTCTCAACACTAGCA
Found at i:10808674 original size:25 final size:24
Alignment explanation
Indices: 10808641--10808716 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 24
10808631 TTGAGTTTTT
10808641 TTTTCTATTTTTTTTCATTTTTCACC
1 TTTT-TATTTTTTTTCATTTTT-ACC
* *
10808667 TTTTTATTTGTTTTC-TTTTTTCC
1 TTTTTATTTTTTTTCATTTTTACC
*
10808690 TTTTTATTTTATTTT-ATTTTTTCC
1 TTTTTATTTT-TTTTCATTTTTACC
10808714 TTT
1 TTT
10808717 CTTTCATTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.24
24 20 0.44
25 10 0.22
26 4 0.09
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTTTATTTTTTTTCATTTTTACC
Found at i:10808694 original size:24 final size:24
Alignment explanation
Indices: 10808640--10808716 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 24
10808630 TTTGAGTTTT
* *
10808640 TTTTTCTATTTTTTTTCATTTTTCAC
1 TTTTT-TATTTATTTTCTTTTTTC-C
* *
10808666 CTTTTTATTTGTTTTCTTTTTTCC
1 TTTTTTATTTATTTTCTTTTTTCC
*
10808690 -TTTTTATTTTATTTTATTTTTTCC
1 TTTTTTA-TTTATTTTCTTTTTTCC
10808714 TTT
1 TTT
10808717 CTTTCATTCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
23 6 0.14
24 16 0.36
25 18 0.41
26 4 0.09
ACGTcount: A:0.09, C:0.13, G:0.01, T:0.77
Consensus pattern (24 bp):
TTTTTTATTTATTTTCTTTTTTCC
Found at i:10809102 original size:11 final size:11
Alignment explanation
Indices: 10809071--10809113 Score: 52
Period size: 10 Copynumber: 3.9 Consensus size: 11
10809061 ATGGCATTCA
*
10809071 TTTCTTTTTTT
1 TTTCATTTTTT
*
10809082 TCTTCATTTTAT
1 T-TTCATTTTTT
10809094 TTT-ATTTTTT
1 TTTCATTTTTT
10809104 TTTCATTTTT
1 TTTCATTTTT
10809114 CACTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 9 0.33
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTCATTTTTT
Found at i:10812841 original size:55 final size:54
Alignment explanation
Indices: 10812751--10812856 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 54
10812741 TTTCTGAATT
* *
10812751 TCTAAAATTTTCACCATTTTGGCCTATCTAGAAATTCCTTTTTTATTT-TTTTATC
1 TCTAAAATTTTCACCATTTGGGCCTATCTAAAAATT-CTTTTTT-TTTCTTTTATC
* * * *
10812806 TCTAAATTTTTCACTATTTGGGGCTATTTAAAAATTCTTTTTTTTTCTTTT
1 TCTAAAATTTTCACCATTTGGGCCTATCTAAAAATTCTTTTTTTTTCTTTT
10812857 GAAAAGAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.07
54 11 0.25
55 30 0.68
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.56
Consensus pattern (54 bp):
TCTAAAATTTTCACCATTTGGGCCTATCTAAAAATTCTTTTTTTTTCTTTTATC
Found at i:10813301 original size:11 final size:11
Alignment explanation
Indices: 10813266--10813330 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
10813256 AAATACTCCT
10813266 AAAAATAAATA
1 AAAAATAAATA
**
10813277 AACGCAT-AAT-
1 AA-AAATAAATA
10813287 AAAAATAAATA
1 AAAAATAAATA
10813298 AAAAATAAAATA
1 AAAAAT-AAATA
* *
10813310 AAAAACAAAAA
1 AAAAATAAATA
*
10813321 AAAAAGAAAT
1 AAAAATAAAT
10813331 GGATCGGTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
9 2 0.05
10 5 0.12
11 23 0.55
12 12 0.29
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:10813319 original size:12 final size:12
Alignment explanation
Indices: 10813293--10813325 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10813283 TAATAAAAAT
*
10813293 AAATAAAAAATA
1 AAATAAAAAACA
10813305 AAATAAAAAACA
1 AAATAAAAAACA
10813317 AAA-AAAAAA
1 AAATAAAAAA
10813326 GAAATGGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (12 bp):
AAATAAAAAACA
Found at i:10818882 original size:77 final size:79
Alignment explanation
Indices: 10818759--10818912 Score: 240
Period size: 77 Copynumber: 2.0 Consensus size: 79
10818749 TATTTTAAAT
* * * *
10818759 AAAAAAAGAAAAGATGAGAGAAAGCCATGTGGCACTCTAAATGAAGAGTTCTGTACTTTGTTCAT
1 AAAAAAAGAAAAGATGAGACAAAGCCATGTGACACTCTAAATGAAGAGTTCTATACTTTGTACAT
10818824 TTGTAAAATTTAAG
66 TTGTAAAATTTAAG
* *
10818838 AAAAAAA-AAAA-ATGAGACAATGCCATGTGACACTCTAAATGAAGAGTTCTATGCTTTGTACAT
1 AAAAAAAGAAAAGATGAGACAAAGCCATGTGACACTCTAAATGAAGAGTTCTATACTTTGTACAT
10818901 TTGTAAAATTTA
66 TTGTAAAATTTA
10818913 TTTTATGGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
77 58 0.84
78 4 0.06
79 7 0.10
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (79 bp):
AAAAAAAGAAAAGATGAGACAAAGCCATGTGACACTCTAAATGAAGAGTTCTATACTTTGTACAT
TTGTAAAATTTAAG
Found at i:10819598 original size:17 final size:18
Alignment explanation
Indices: 10819561--10819599 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10819551 TGCTTAAATG
**
10819561 AAAAGCTAAAAAAAACTA
1 AAAAGCTAAAAAAAAAAA
10819579 AAAAGC-AAAAAAAAAAA
1 AAAAGCTAAAAAAAAAAA
10819596 AAAA
1 AAAA
10819600 AACATGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.82, C:0.08, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAGCTAAAAAAAAAAA
Found at i:10819599 original size:18 final size:18
Alignment explanation
Indices: 10819561--10819600 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10819551 TGCTTAAATG
* **
10819561 AAAAGCTAAAAAAAACTA
1 AAAAGCAAAAAAAAAAAA
10819579 AAAAGCAAAAAAAAAAAA
1 AAAAGCAAAAAAAAAAAA
10819597 AAAA
1 AAAA
10819601 ACATGAAACG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.07, G:0.05, T:0.05
Consensus pattern (18 bp):
AAAAGCAAAAAAAAAAAA
Found at i:10821449 original size:71 final size:75
Alignment explanation
Indices: 10821374--10821545 Score: 169
Period size: 74 Copynumber: 2.4 Consensus size: 75
10821364 AGAAATCTCC
* * *
10821374 AAAGATCATAATCTAAATTCTTA-AAAAATCTCCAAAATCATAA-ATAAGC-TCTT-AAACATCC
1 AAAGATCATAATCTAAACTCGTAGAAAAATCTCAAAAATCATAACATAAGCTTCTTCAAA-ATCC
10821435 CA-CATAGTT-T
65 CATCATA-TTCT
* * * * * * * *
10821445 AAAGATTATAACCTGAACTCGTAGAAAATTTTCAAAAATCATAACTTAAGCTTTTTCAAAATCTC
1 AAAGATCATAATCTAAACTCGTAGAAAAATCTCAAAAATCATAACATAAGCTTCTTCAAAATCCC
10821510 ATCATATTCT
66 ATCATATTCT
*
10821520 AAAGATCATAATCT-AACTCATAGAAA
1 AAAGATCATAATCTAAACTCGTAGAAA
10821546 TTCTTTAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
71 18 0.22
72 17 0.21
73 5 0.06
74 21 0.26
75 20 0.25
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (75 bp):
AAAGATCATAATCTAAACTCGTAGAAAAATCTCAAAAATCATAACATAAGCTTCTTCAAAATCCC
ATCATATTCT
Found at i:10829257 original size:2 final size:2
Alignment explanation
Indices: 10829250--10829284 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
10829240 TATTGATAGT
10829250 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10829285 AATGGACATC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10831134 original size:18 final size:18
Alignment explanation
Indices: 10831111--10831147 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10831101 GTTTATAATT
10831111 TGTTTAT-AGAATTATTTA
1 TGTTTATAAG-ATTATTTA
10831129 TGTTTATAAGATTATTTA
1 TGTTTATAAGATTATTTA
10831147 T
1 T
10831148 TGTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (18 bp):
TGTTTATAAGATTATTTA
Found at i:10831497 original size:26 final size:26
Alignment explanation
Indices: 10831453--10831502 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
10831443 CTTCATTACT
* * *
10831453 AAATTTTATTTTAGGCTTTCATAGCC
1 AAATTTTATTTAAAGCTTTAATAGCC
*
10831479 AAATTTTATTTAAATCTTTAATAG
1 AAATTTTATTTAAAGCTTTAATAG
10831503 TCTTATATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (26 bp):
AAATTTTATTTAAAGCTTTAATAGCC
Found at i:10841327 original size:22 final size:22
Alignment explanation
Indices: 10841302--10841345 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10841292 AATTTATATA
*
10841302 TATTTATATATCTAGAATTAAG
1 TATTTATATATCTAAAATTAAG
* *
10841324 TATTTGTATATTTAAAATTAAG
1 TATTTATATATCTAAAATTAAG
10841346 GACAGAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (22 bp):
TATTTATATATCTAAAATTAAG
Found at i:10841451 original size:22 final size:22
Alignment explanation
Indices: 10841426--10841468 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10841416 AATTTATATA
*
10841426 TATTTATATATCTAGAATTAAT
1 TATTTATATATCTAAAATTAAT
* *
10841448 TATTTGTATATTTAAAATTAA
1 TATTTATATATCTAAAATTAA
10841469 AGACAGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (22 bp):
TATTTATATATCTAAAATTAAT
Found at i:10841474 original size:124 final size:124
Alignment explanation
Indices: 10841257--10841504 Score: 469
Period size: 124 Copynumber: 2.0 Consensus size: 124
10841247 CAATTTGAGG
10841257 GGGAGTGTGGGAAAACACTTTGTTATGGTTGGTTAAATTTATATATATTTATATATCTAGAATTA
1 GGGAGTGTGGGAAAACACTTTGTTATGGTTGGTTAAATTTATATATATTTATATATCTAGAATTA
* *
10841322 AGTATTTGTATATTTAAAATTAAGGACAGAAAATTAGGATACGCAATCTCTCAATTATA
66 AGTATTTGTATATTTAAAATTAAAGACAGAAAATTAGGATACACAATCTCTCAATTATA
10841381 GGGAGTGTGGGAAAACACTTTGTTATGGTTGGTTAAATTTATATATATTTATATATCTAGAATTA
1 GGGAGTGTGGGAAAACACTTTGTTATGGTTGGTTAAATTTATATATATTTATATATCTAGAATTA
*
10841446 ATTATTTGTATATTTAAAATTAAAGACAGAAAATTAGGATACACAATCTCTCAATTATA
66 AGTATTTGTATATTTAAAATTAAAGACAGAAAATTAGGATACACAATCTCTCAATTATA
10841505 AGGATCACTT
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (124 bp):
GGGAGTGTGGGAAAACACTTTGTTATGGTTGGTTAAATTTATATATATTTATATATCTAGAATTA
AGTATTTGTATATTTAAAATTAAAGACAGAAAATTAGGATACACAATCTCTCAATTATA
Found at i:10842364 original size:2 final size:2
Alignment explanation
Indices: 10842357--10842394 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10842347 ACAACTTCTA
10842357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10842395 GCTATCTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10843754 original size:34 final size:34
Alignment explanation
Indices: 10843716--10843782 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
10843706 TGGCTTTTTG
10843716 TTTTCGTTTTAAAATAATTGTTAATGCTCAACAT
1 TTTTCGTTTTAAAATAATTGTTAATGCTCAACAT
10843750 TTTTCGTTTTAAAATAATTGTTAATGCTCAACA
1 TTTTCGTTTTAAAATAATTGTTAATGCTCAACA
10843783 GCACTCTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (34 bp):
TTTTCGTTTTAAAATAATTGTTAATGCTCAACAT
Found at i:10843996 original size:2 final size:2
Alignment explanation
Indices: 10843989--10844020 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10843979 TAGTAATCCA
10843989 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10844021 TCCAAAAGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10844351 original size:19 final size:20
Alignment explanation
Indices: 10844299--10844352 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
10844289 TATATAAAAA
10844299 ATAAAAATAAAAATTACATAT
1 ATAAAAATAAAAA-TACATAT
* *
10844320 ATAAAGATTAAAAA-A-TTAT
1 ATAAA-AATAAAAATACATAT
10844339 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
10844353 TAAGTTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 7 0.25
19 8 0.29
20 1 0.04
21 5 0.18
22 7 0.25
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
ATAAAAATAAAAATACATAT
Found at i:10845945 original size:19 final size:19
Alignment explanation
Indices: 10845921--10845957 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10845911 GCTGTCAACT
*
10845921 GCCTTGACAGGAGCCGACC
1 GCCTTGACAGCAGCCGACC
10845940 GCCTTGACAGCAGCCGAC
1 GCCTTGACAGCAGCCGAC
10845958 TGCTCTTTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.30, T:0.11
Consensus pattern (19 bp):
GCCTTGACAGCAGCCGACC
Found at i:10847090 original size:20 final size:20
Alignment explanation
Indices: 10847065--10847102 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10847055 CATTGACATT
* *
10847065 AGTAAAGGCAAGGAAAAGAA
1 AGTAAAGGAAAGAAAAAGAA
10847085 AGTAAAGGAAAGAAAAAG
1 AGTAAAGGAAAGAAAAAG
10847103 TTTTAGAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.29, T:0.05
Consensus pattern (20 bp):
AGTAAAGGAAAGAAAAAGAA
Found at i:10847195 original size:64 final size:64
Alignment explanation
Indices: 10847111--10847242 Score: 239
Period size: 64 Copynumber: 2.1 Consensus size: 64
10847101 AGTTTTAGAG
10847111 GAAA-GATAAATATATATATCTCTTGTTTGGATAGTTAAAATTAATAAAAGAATAGATACGAAA
1 GAAATGATAAATATATATATCTCTTGTTTGGATAGTTAAAATTAATAAAAGAATAGATACGAAA
* *
10847174 GAAATGATAAATATATGTATCTCTTGTTTGGATAGTTAAAATTAATAAAAGAATAGATAGGAAA
1 GAAATGATAAATATATATATCTCTTGTTTGGATAGTTAAAATTAATAAAAGAATAGATACGAAA
10847238 GAAAT
1 GAAAT
10847243 CCTAATAACC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 4 0.06
64 62 0.94
ACGTcount: A:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (64 bp):
GAAATGATAAATATATATATCTCTTGTTTGGATAGTTAAAATTAATAAAAGAATAGATACGAAA
Found at i:10848185 original size:60 final size:59
Alignment explanation
Indices: 10848106--10848222 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 59
10848096 GCTTTTGTAC
* *
10848106 AAGAGAAATTGATATTTTCAACTTTTCCTTAAAATGTTTTTCTTGATAATTTTTATTTTTA
1 AAGAGAAATTGATACTTTCAACTTTTCCTCAAAATG-TTTT-TTGATAATTTTTATTTTTA
* * *
10848167 AAGA-AAATTGGTACTTTCAACTTTTTCTCAGAATGTTTTTTGATAATTTTTATTTT
1 AAGAGAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTGATAATTTTTATTTT
10848223 AGAAATTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
58 17 0.33
59 4 0.08
60 26 0.51
61 4 0.08
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (59 bp):
AAGAGAAATTGATACTTTCAACTTTTCCTCAAAATGTTTTTTGATAATTTTTATTTTTA
Found at i:10848364 original size:59 final size:57
Alignment explanation
Indices: 10848219--10848434 Score: 201
Period size: 59 Copynumber: 3.8 Consensus size: 57
10848209 ATAATTTTTA
* * * **
10848219 TTTTAGAAATTTTACTTTAAGGAAAATTGATACTTTCAAC-CTCTCC-ACAAAGCATT
1 TTTTAGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTCTCCTA-AAAATATT
* * * *
10848275 TTTTAGAAAAATTTATTTTCAAGTAAAATTGATGCTTTCAACTTTTTCCTAAAAATATT
1 TTTTAG-AAATTTTATTTT-AAGAAAAATTGATACTTTCAACTTTCTCCTAAAAATATT
*
10848334 TTTTAGAAATTTTATTTTTAAAGAAAAATTGATACTTTCAACTTTCCCCTAAAAATATAT
1 TTTTAGAAATTTTA-TTTT-AAGAAAAATTGATACTTTCAACTTTCTCCTAAAAATAT-T
* * **
10848394 ATTTT-TAAA---TATTTCAAGGGAAATTGATACTTTCAACTTTC
1 -TTTTAGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTC
10848435 CCCAAAATGC
Statistics
Matches: 135, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
55 24 0.18
56 9 0.07
57 12 0.09
58 27 0.20
59 54 0.40
60 5 0.04
61 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (57 bp):
TTTTAGAAATTTTATTTTAAGAAAAATTGATACTTTCAACTTTCTCCTAAAAATATT
Found at i:10849349 original size:81 final size:81
Alignment explanation
Indices: 10849214--10849377 Score: 319
Period size: 81 Copynumber: 2.0 Consensus size: 81
10849204 GAATTGGCAT
*
10849214 AACTCTCAAGTTTCAATCTTAAGAGACCAAAAGCTCGAACTAAGTCATATAACAAAACATCTTTA
1 AACTCCCAAGTTTCAATCTTAAGAGACCAAAAGCTCGAACTAAGTCATATAACAAAACATCTTTA
10849279 GAACCATGAATGGATG
66 GAACCATGAATGGATG
10849295 AACTCCCAAGTTTCAATCTTAAGAGACCAAAAGCTCGAACTAAGTCATATAACAAAACATCTTTA
1 AACTCCCAAGTTTCAATCTTAAGAGACCAAAAGCTCGAACTAAGTCATATAACAAAACATCTTTA
10849360 GAACCATGAATGGATG
66 GAACCATGAATGGATG
10849376 AA
1 AA
10849378 TGCCTAGAAA
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (81 bp):
AACTCCCAAGTTTCAATCTTAAGAGACCAAAAGCTCGAACTAAGTCATATAACAAAACATCTTTA
GAACCATGAATGGATG
Found at i:10850815 original size:45 final size:44
Alignment explanation
Indices: 10850664--10850849 Score: 198
Period size: 44 Copynumber: 4.2 Consensus size: 44
10850654 ACCACAACTC
* *
10850664 TTTT-AAAAAATAAAT--CGCTCCTCTAAACAGAGGCTTAACAA
1 TTTTGAAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA
* * * *
10850705 TTTTGAAAAAATAAAAAAAGCTCCTCCAAACATAGGCTCAACAA
1 TTTTGAAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA
* * ** * *
10850749 CTTTGGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTTAACGA
1 TTTTGAAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA
* *
10850793 TTTTCAAAAATATAAATAAGGCTCCTCTAAACAGAGGCTCAACGAC
1 TTTTGAAAAA-ATAAATAAGGCTCCTCTAAACAGAGGCTCAAC-AA
*
10850839 TTTGGAAAAAA
1 TTTTGAAAAAA
10850850 AATTTGCTCA
Statistics
Matches: 115, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
41 4 0.03
42 10 0.09
44 63 0.55
45 30 0.26
46 8 0.07
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (44 bp):
TTTTGAAAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA
Found at i:10850841 original size:89 final size:87
Alignment explanation
Indices: 10850680--10850852 Score: 247
Period size: 89 Copynumber: 2.0 Consensus size: 87
10850670 AAAATAAATC
* *
10850680 GCTCCTCTAAACAGAGGCTTAACAATTTTGAAAAAATAAAAAAAGCTCCTCCAAACATAGGCTCA
1 GCTCCTCTAAACAGAGGCTTAACAATTTTCAAAAAATAAAAAAAGCTCCTCCAAACAGAGGCTCA
10850745 ACAACTTTGGAAAAATAAATAAG
66 ACAACTTTGGAAAAA-AAATAAG
** * * * *
10850768 GCTCCTCTAATTAGAGGCTTAACGATTTTCAAAAATATAAATAAGGCTCCTCTAAACAGAGGCTC
1 GCTCCTCTAAACAGAGGCTTAACAATTTTCAAAAA-ATAAAAAAAGCTCCTCCAAACAGAGGCTC
*
10850833 AACGACTTTGGAAAAAAAAT
65 AACAACTTTGGAAAAAAAAT
10850853 TTGCTCATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
88 35 0.47
89 40 0.53
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (87 bp):
GCTCCTCTAAACAGAGGCTTAACAATTTTCAAAAAATAAAAAAAGCTCCTCCAAACAGAGGCTCA
ACAACTTTGGAAAAAAAATAAG
Found at i:10850934 original size:45 final size:44
Alignment explanation
Indices: 10850668--10851018 Score: 160
Period size: 42 Copynumber: 8.1 Consensus size: 44
10850658 CAACTCTTTT
* * *
10850668 AAAAAATAAATCGCTCCTCTAAACAGAGGCTTA-ACAATTTTGAA
1 AAAAAATAAATAGCTCCTCTAAACAGAGGC-AACACAACTTTGAA
* * * *
10850712 AAAATAA-AAAAAGCTCCTCCAAACATAGGC-TCAACAACTTTGGAA
1 AAAA-AATAAATAGCTCCTCTAAACAGAGGCAAC-ACAACTTT-GAA
* ** * * **
10850757 AAATAAAT-AA-GGCTCCTCTAATTAGAGGCTTA-ACGA-TTTTCA
1 AAA-AAATAAATAGCTCCTCTAAACAGAGGC-AACACAACTTTGAA
* * *
10850799 AAAATATAAATAAGGCTCCTCTAAACAGAGGC-TCAACGACTTTGGAA
1 AAAAAATAAAT-A-GCTCCTCTAAACAGAGGCAAC-ACAACTTT-GAA
* * * * * *
10850846 AAAAAAT---TTGCTCATTTAGACAAAGGCAACCACAACTTGGAA
1 AAAAAATAAATAGCTCCTCTAAACAGAGGCAA-CACAACTTTGAA
**
10850888 AAAAAATAAATAGCTCCTCTAAACAGAGGCAATCATGACTTTG--
1 AAAAAATAAATAGCTCCTCTAAACAGAGGCAA-CACAACTTTGAA
* * * * *
10850931 -AAAAATAAATTGCTCCTTTAAATAGAGGTACCACAACTTTG--
1 AAAAAATAAATAGCTCCTCTAAACAGAGGCAACACAACTTTGAA
* * * *
10850972 -AAAAGTAAATTGCTCCTCTAAACAGAGGTAACTATAACTTTGAA
1 AAAAAATAAATAGCTCCTCTAAACAGAGGCAAC-ACAACTTTGAA
10851016 AAA
1 AAA
10851019 TAAAATGATC
Statistics
Matches: 230, Mismatches: 52, Indels: 49
0.69 0.16 0.15
Matches are distributed among these distances:
41 39 0.17
42 64 0.28
43 9 0.04
44 49 0.21
45 58 0.25
46 4 0.02
47 7 0.03
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.24
Consensus pattern (44 bp):
AAAAAATAAATAGCTCCTCTAAACAGAGGCAACACAACTTTGAA
Found at i:10850935 original size:87 final size:86
Alignment explanation
Indices: 10850798--10851022 Score: 230
Period size: 83 Copynumber: 2.6 Consensus size: 86
10850788 AACGATTTTC
* *
10850798 AAAAATATAAATAAGGCTCCTCTAAACAGAGGC--TCAACGACTTTGGAAAAA-AAATTTGCTCA
1 AAAAAAATAAAT-A-GCTCCTCTAAACAGAGGCAATCAATGACTTT-GAAAAATAAA-TTGCTCA
*
10850860 TTTAGACAAAGGCAACCACAACTTGG
62 TTTAAACAAAGG-AACCACAACTTGG
*
10850886 AAAAAAAATAAATAGCTCCTCTAAACAGAGGCAATC-ATGACTTTGAAAAATAAATTGCTCCTTT
1 -AAAAAAATAAATAGCTCCTCTAAACAGAGGCAATCAATGACTTTGAAAAATAAATTGCTCATTT
* * * *
10850950 AAATAGAGGTACCACAACTTTG
65 AAACAAAGGAACCACAACTTGG
* * * * *
10850972 --AAAAGTAAATTGCTCCTCTAAACAGAGGTAA-CTATAACTTTGAAAAATAAA
1 AAAAAAATAAATAGCTCCTCTAAACAGAGGCAATCAATGACTTTGAAAAATAAA
10851023 ATGATCCTTG
Statistics
Matches: 120, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
82 1 0.01
83 45 0.38
86 11 0.09
87 39 0.32
88 11 0.09
89 13 0.11
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (86 bp):
AAAAAAATAAATAGCTCCTCTAAACAGAGGCAATCAATGACTTTGAAAAATAAATTGCTCATTTA
AACAAAGGAACCACAACTTGG
Found at i:10850982 original size:41 final size:42
Alignment explanation
Indices: 10850837--10851031 Score: 169
Period size: 42 Copynumber: 4.6 Consensus size: 42
10850827 AGGCTCAACG
* * * *
10850837 ACTTTGGAAAAA-AAATTTGCTCATTTAGACAAAGGCAACCACA
1 ACTTT-GAAAAATAAA-TTGCTCCTTTAAACAGAGGTAACCACA
* * * * * **
10850880 ACTTGGAAAAAAAATAAATAGCTCCTCTAAACAGAGGCAATCATG
1 ACTTTG---AAAAATAAATTGCTCCTTTAAACAGAGGTAACCACA
*
10850925 ACTTTGAAAAATAAATTGCTCCTTTAAATAGAGGT-ACCACA
1 ACTTTGAAAAATAAATTGCTCCTTTAAACAGAGGTAACCACA
* * * *
10850966 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTAACTATA
1 ACTTTGAAAAATAAATTGCTCCTTTAAACAGAGGTAACCACA
* *
10851008 ACTTTGAAAAATAAAATGATCCTT
1 ACTTTGAAAAATAAATTGCTCCTT
10851032 GACAATCATG
Statistics
Matches: 121, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
41 35 0.29
42 50 0.41
43 4 0.03
45 29 0.24
46 3 0.02
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (42 bp):
ACTTTGAAAAATAAATTGCTCCTTTAAACAGAGGTAACCACA
Found at i:10851443 original size:79 final size:79
Alignment explanation
Indices: 10851308--10851536 Score: 307
Period size: 79 Copynumber: 2.9 Consensus size: 79
10851298 GTCCAAAGGC
* * * * * * *
10851308 TCACATTTGACAGATTTTAGGGTTTTACACCACAAAGATTCTCATTCGAAACTCAAAGATTCTCA
1 TCACATTCGACAAATTTT-GGGTTTCACACCTCAAAAATTCTCATTTGAAATTCAAAGATTCTCA
10851373 TTTGAGTTCGAAGAT
65 TTTGAGTTCGAAGAT
* * * *
10851388 TCACATTCGACAAATTTTGGGTTTCACACTTCAAATATTCTCATTTGAAATTCAAAGATTTTTAT
1 TCACATTCGACAAATTTTGGGTTTCACACCTCAAAAATTCTCATTTGAAATTCAAAGATTCTCAT
10851453 TTGAGTTCGAAGAT
66 TTGAGTTCGAAGAT
* * *
10851467 TCACAGTCGACAAATTTTGGGTTTC-CTGCCTCAAAAATTCTAATTTGAAATTCAAAGATTCTCA
1 TCACATTCGACAAATTTTGGGTTTCAC-ACCTCAAAAATTCTCATTTGAAATTCAAAGATTCTCA
10851531 TTTGAG
65 TTTGAG
10851537 AACTTAAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
78 1 0.01
79 114 0.87
80 16 0.12
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (79 bp):
TCACATTCGACAAATTTTGGGTTTCACACCTCAAAAATTCTCATTTGAAATTCAAAGATTCTCAT
TTGAGTTCGAAGAT
Found at i:10851521 original size:21 final size:23
Alignment explanation
Indices: 10851497--10851548 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
10851487 GTTTCCTGCC
10851497 TCAAAAATTCTAATTTGA-AA-T
1 TCAAAAATTCTAATTTGAGAACT
* *
10851518 TCAAAGATTCTCATTTGAGAACT
1 TCAAAAATTCTAATTTGAGAACT
10851541 T-AAAAATT
1 TCAAAAATT
10851549 TAAAAGATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 16 0.62
22 8 0.31
23 2 0.08
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (23 bp):
TCAAAAATTCTAATTTGAGAACT
Found at i:10854870 original size:19 final size:20
Alignment explanation
Indices: 10854843--10854919 Score: 63
Period size: 19 Copynumber: 4.0 Consensus size: 20
10854833 TAGATGAAAA
*
10854843 ATGAGAAAAA-AAAAAGATG
1 ATGAAAAAAAGAAAAAGATG
**
10854862 ATGAAAAAAAGAAAAA-AAA
1 ATGAAAAAAAGAAAAAGATG
* *
10854881 AAGAAAAAAAAGAAAAAAATG
1 ATG-AAAAAAAGAAAAAGATG
10854902 A-GAAAATAAA-AAAAAGAT
1 ATGAAAA-AAAGAAAAAGAT
10854920 TCAATTTGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
19 23 0.49
20 22 0.47
21 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (20 bp):
ATGAAAAAAAGAAAAAGATG
Found at i:10854874 original size:25 final size:26
Alignment explanation
Indices: 10854835--10854884 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
10854825 ATCAATAATA
*
10854835 GATGAAAAATGAGAAAAAAAAAAGAT
1 GATGAAAAATAAGAAAAAAAAAAGAT
10854861 GATGAAAAA-AAGAAAAAAAAAAGA
1 GATGAAAAATAAGAAAAAAAAAAGA
10854885 AAAAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (26 bp):
GATGAAAAATAAGAAAAAAAAAAGAT
Found at i:10854879 original size:9 final size:9
Alignment explanation
Indices: 10854864--10854899 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
10854854 AAAAGATGAT
10854864 GAAAAAAAGA
1 GAAAAAAA-A
*
10854874 AAAAAAAAA
1 GAAAAAAAA
10854883 GAAAAAAAA
1 GAAAAAAAA
10854892 GAAAAAAA
1 GAAAAAAA
10854900 TGAGAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
GAAAAAAAA
Found at i:10854896 original size:25 final size:25
Alignment explanation
Indices: 10854846--10854918 Score: 60
Period size: 25 Copynumber: 2.9 Consensus size: 25
10854836 ATGAAAAATG
* **
10854846 AGAAAAAAAAAAGATGATGAAA-AAA
1 AGAAAAAAAAAAGA-AAAAAAAGAAA
10854871 AGAAAAAAAAAAGAAAAAAAAGAAA
1 AGAAAAAAAAAAGAAAAAAAAGAAA
* * *
10854896 A-AAATGAGAAAATAAAAAAAAGA
1 AGAAA-AAAAAAAGAAAAAAAAGA
10854919 TTCAATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 7 0.17
25 33 0.82
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (25 bp):
AGAAAAAAAAAAGAAAAAAAAGAAA
Found at i:10856049 original size:21 final size:21
Alignment explanation
Indices: 10856025--10856075 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
10856015 CCTGAAATTA
10856025 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
10856046 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTTAAAT
10856067 AT-AAATATT
1 ATAAAATATT
10856076 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATAAAATATTATTTTTTAAAT
Found at i:10856084 original size:30 final size:30
Alignment explanation
Indices: 10856048--10856104 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
10856038 TTTTAAATAT
* * *
10856048 AAAATATTATTTTTTAAATATAAATATTTA
1 AAAATATCATTATATAAATATAAATATTTA
*
10856078 AAAATATCATTATATAAATATATATAT
1 AAAATATCATTATATAAATATAAATAT
10856105 AATAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (30 bp):
AAAATATCATTATATAAATATAAATATTTA
Found at i:10857206 original size:42 final size:41
Alignment explanation
Indices: 10857151--10857554 Score: 408
Period size: 42 Copynumber: 9.7 Consensus size: 41
10857141 TTTACTCGTC
*
10857151 AAAGTTGTTGAGCCTCTGATTAGAGGAGCCATTTACTTTTCA
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCC-TTTACTTTTCA
* *
10857193 AAAGTCGTTGAGCCTCTTATTAGAGGAGCTTTATTTACTTTTC-
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGC---CTTTACTTTTCA
* *
10857236 AAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTACTTTTTCA
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCC-TTTAC-TTTTCA
* * * *
10857279 AAAGTCATTGAGCCTCTAATTAGA-GAGCCGTTATTTTTC-
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTACTTTTCA
* * **
10857318 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTTTT
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTA-CTTTTCA
* *
10857360 AAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTA-TTTTCC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCC-TTTACTTTTCA
* ** *
10857401 AAATTCACTGAGCCTCTGCTTAGAGGAG-CTTTATTCATTTTC-
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTA--C-TTTTCA
* * *
10857443 AAAGTTGTTGAGCCTTTGATTAGAGGAGTCATTTACTTTTTCA
1 AAAGTCGTTGAGCCTCTGATTAGAGGAG-CCTTTAC-TTTTCA
* *
10857486 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTCA
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTACTTTTCA
* *
10857527 AAA-TTGTTGAGCCTCTGCTTAGAGGAGC
1 AAAGTCGTTGAGCCTCTGATTAGAGGAGC
10857555 TTTGATCAAA
Statistics
Matches: 305, Mismatches: 40, Indels: 36
0.80 0.10 0.09
Matches are distributed among these distances:
39 26 0.09
40 38 0.12
41 49 0.16
42 98 0.32
43 80 0.26
44 14 0.05
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
AAAGTCGTTGAGCCTCTGATTAGAGGAGCCTTTACTTTTCA
Found at i:10857427 original size:83 final size:84
Alignment explanation
Indices: 10857150--10857554 Score: 414
Period size: 83 Copynumber: 4.9 Consensus size: 84
10857140 ATTTACTCGT
* * * * * *
10857150 CAAAGTTGTTGAGCCTCTGATTAGAGGAGCCATT-TACTTTTCAAAAGTCGTTGAGCCTCTTATT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTAT-TTTTTTAAAAGTTGTTGAGCCTCTGATT
*
10857214 AGAGGAGCTTTATTTACTTTT-
65 AGAGGAGC--CATTTACTTTTC
* * * * * ** *
10857235 CAAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTACTTTTTCAAAAGTCATTGAGCCTCTAATT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCC-GTTATTTTTTTAAAAGTTGTTGAGCCTCTGATT
* *
10857300 AGA-GAGCC-GTTA-TTTTT
65 AGAGGAGCCATTTACTTTTC
*
10857317 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTTTTAAAGTTGTTGAGCCTCTGATTA
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTTTAAAAGTTGTTGAGCCTCTGATTA
*
10857382 GAGGAGCCGTTTA-TTTTC
66 GAGGAGCCATTTACTTTTC
* ** * * * * *
10857400 CAAATTCACTGAGCCTCTGCTTAGAGGAG-CTTTATTCATTTTCAAAGTTGTTGAGCCTTTGATT
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATT-TTTTTAAAAGTTGTTGAGCCTCTGATT
*
10857464 AGAGGAGTCATTTACTTTTTC
65 AGAGGAGCCATTTAC-TTTTC
* * *
10857485 AAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTA-TTTTTCAAAA-TTGTTGAGCCTCTGCTTA
1 CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTTTAAAAGTTGTTGAGCCTCTGATTA
10857548 GAGGAGC
66 GAGGAGC
10857555 TTTGATCAAA
Statistics
Matches: 270, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
81 33 0.12
82 43 0.16
83 90 0.33
84 6 0.02
85 64 0.24
86 34 0.13
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (84 bp):
CAAAGTCGTTGAGCCTCTGATTAGAGGAGCCGTTATTTTTTTAAAAGTTGTTGAGCCTCTGATTA
GAGGAGCCATTTACTTTTC
Found at i:10857442 original size:125 final size:125
Alignment explanation
Indices: 10857158--10857554 Score: 486
Period size: 125 Copynumber: 3.2 Consensus size: 125
10857148 GTCAAAGTTG
*
10857158 TTGAGCCTCTGATTAGAGGAGCCATTTA-CTTTTCAAAAGTCGTTGAGCCTCTTATTAGAGGAG-
1 TTGAGCCTCTGATTAGAGGAGCC-TTTATCTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
* * * *
10857221 CTTTATTTACTTTTCAAAGTTGTTGAGCCTTTGATTAGAGGAGCCATTTACTTTTTCAAAAGTCA
64 CTTTATTT--TTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTA-TTTTTCAAAATTCA
* * *
10857286 TTGAGCCTCTAATTAGA-GAGCCGTTAT-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCG
1 TTGAGCCTCTGATTAGAGGAGCCTTTATCTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
* *
10857349 TTATTTTTTTTAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTA-TTTTCCAAATTCA
66 TTATTTTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAATTCA
* * * *
10857408 CTGAGCCTCTGCTTAGAGGAG-CTTTATTCATTTTCAAAGTTGTTGAGCCTTTGATTAGAGGAGT
1 TTGAGCCTCTGATTAGAGGAGCCTTTA-TC-TTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAG-
* * * * *
10857472 CATTTACTTTTTCAAAAGTCGTTGAGCCTCTGATTAGAGGAGCCG-TTATTTTTCAAAATT-G
63 CCTTTATTTTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAATTCA
*
10857533 TTGAGCCTCTGCTTAGAGGAGC
1 TTGAGCCTCTGATTAGAGGAGC
10857555 TTTGATCAAA
Statistics
Matches: 236, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
122 29 0.12
123 4 0.02
124 37 0.16
125 81 0.34
126 64 0.27
127 5 0.02
128 16 0.07
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (125 bp):
TTGAGCCTCTGATTAGAGGAGCCTTTATCTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCT
TTATTTTTTTAAAAGTTGTTGAGCCTCTGATTAGAGGAGCCGTTTATTTTTCAAAATTCA
Found at i:10857723 original size:100 final size:101
Alignment explanation
Indices: 10857497--10857883 Score: 501
Period size: 100 Copynumber: 3.9 Consensus size: 101
10857487 AAGTCGTTGA
* * *
10857497 GCCTCTGATTAGAGGAGC--CG-TTAT-TTT-TCAAAA-TTGTTGAGCCTCTGCTTAGAGGAGCT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
*
10857556 TTGATCAAATTTAAAAAAAAAAACAAAAAACAAAAAAAATT
66 TTGATCAAATTT----TAAAAAACAAAAAAC-AAAAAAATT
* * * *
10857597 GCCTCTATTTAGAAGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTACTTAAAGGAGCT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
10857662 TTGATCAAATTTTAAAAAA-AAAAAACAAAAAAATT
66 TTGATCAAATTTTAAAAAACAAAAAACAAAAAAATT
*
10857697 GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCATTGAGCCTCTGCTTAGAGGAGCT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
10857762 TTGATCAAA-TTT--AAAA-AAAAAACAAAAAAATT
66 TTGATCAAATTTTAAAAAACAAAAAACAAAAAAATT
* * * **
10857794 ACCTCTGTTTAAAGAAGCTTTGTTTATGTTTCTC-AAAGTCGTTGAGTTTCTGCTTAGAGGAGCT
1 GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
* *
10857858 TTGATCAAAATTTAAAAAATAAAAAA
66 TTGATCAAATTTTAAAAAACAAAAAA
10857884 AAAGTAAAAA
Statistics
Matches: 258, Mismatches: 19, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
96 36 0.14
97 54 0.21
99 7 0.03
100 99 0.38
101 7 0.03
102 7 0.03
103 4 0.02
104 3 0.01
105 6 0.02
106 35 0.14
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (101 bp):
GCCTCTGTTTAGAGGAGCTTTGTTTATGTTTCTCAAAAGTCGTTGAGCCTCTGCTTAGAGGAGCT
TTGATCAAATTTTAAAAAACAAAAAACAAAAAAATT
Found at i:10861093 original size:8 final size:8
Alignment explanation
Indices: 10861082--10861106 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
10861072 TTATTATATG
10861082 TTTTGAAT
1 TTTTGAAT
10861090 TTTTGAAT
1 TTTTGAAT
10861098 TTTTGAAT
1 TTTTGAAT
10861106 T
1 T
10861107 AAAATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TTTTGAAT
Found at i:10861132 original size:17 final size:19
Alignment explanation
Indices: 10861110--10861148 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
10861100 TTGAATTAAA
*
10861110 ATTTTGA-AT-TTTATTAT
1 ATTTTGATATCTTAATTAT
10861127 ATTTTGATATCTTAATTAT
1 ATTTTGATATCTTAATTAT
10861146 ATT
1 ATT
10861149 ATTTGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
19 10 0.53
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
ATTTTGATATCTTAATTAT
Found at i:10861585 original size:13 final size:14
Alignment explanation
Indices: 10861566--10861603 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
10861556 TTTTTAAGTA
10861566 GATTAATTTATAAT
1 GATTAATTTATAAT
10861580 -ATTAATTTCATAAT
1 GATTAATTT-ATAAT
10861594 GA-TAATTTAT
1 GATTAATTTAT
10861604 CATCAATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 10 0.45
14 11 0.50
15 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (14 bp):
GATTAATTTATAAT
Found at i:10865232 original size:23 final size:23
Alignment explanation
Indices: 10865205--10865250 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
10865195 TTTAAAGTGG
*
10865205 TCATAAACTTATAATAATGACAA
1 TCATAAACATATAATAATGACAA
*
10865228 TCATAAACATGTAATAATGACAA
1 TCATAAACATATAATAATGACAA
10865251 CAATTGCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (23 bp):
TCATAAACATATAATAATGACAA
Found at i:10865905 original size:15 final size:15
Alignment explanation
Indices: 10865882--10865928 Score: 85
Period size: 15 Copynumber: 3.1 Consensus size: 15
10865872 TTATTCCTTT
*
10865882 CCCTGATTTCTTCTG
1 CCCTAATTTCTTCTG
10865897 CCCTAATTTCTTCTG
1 CCCTAATTTCTTCTG
10865912 CCCTAATTTCTTCTG
1 CCCTAATTTCTTCTG
10865927 CC
1 CC
10865929 TTTATGGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.11, C:0.36, G:0.09, T:0.45
Consensus pattern (15 bp):
CCCTAATTTCTTCTG
Found at i:10870124 original size:170 final size:170
Alignment explanation
Indices: 10869827--10870171 Score: 521
Period size: 170 Copynumber: 2.0 Consensus size: 170
10869817 CCTAGAGAAG
* * *
10869827 AAATGTGATAAATGCAAAAGATTTTATCATTACAGCATCTCTCCTCGACTAAGTTGACTCTCATA
1 AAATGTGATAAATGCAAAAGATTTGATCATTACAGCATCTCTCCTCGACTAAGCTAACTCTCATA
* * *
10869892 ATAAGCCAATGGCCCTTCATGCAAATGAGGATAGATGTACTCAATCTATTCATATTAGCCACTCA
66 ATAAGCCAATGGCCCTTCATGCAAAAGAGGATAGATGTACTCAATCTATTCACATCAGCCACTCA
* * *
10869957 GCACAGAAGATTTGTGCTAGTTACTATTGACTATTTTACC
131 ACACAAAAGATTTGTGCTAATTACTATTGACTATTTTACC
* ** *
10869997 AAATGTGATAAATGCCAAAGATTTGATCATTGTAGCATCT-TCCATCGACTGAGCTAACTCTCAT
1 AAATGTGATAAATGCAAAAGATTTGATCATTACAGCATCTCTCC-TCGACTAAGCTAACTCTCAT
* * *
10870061 AATAAGCCTATGGCCCTTCATGCAAAAGAGGATGGATGTACTCAATTTATTCACATCAGCCACTC
65 AATAAGCCAATGGCCCTTCATGCAAAAGAGGATAGATGTACTCAATCTATTCACATCAGCCACTC
*
10870126 AACATAAAAGATTTGTGCTAATTACTATTGACTATTTTACC
130 AACACAAAAGATTTGTGCTAATTACTATTGACTATTTTACC
10870167 AAATG
1 AAATG
10870172 GCTTGAGGCC
Statistics
Matches: 157, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 3 0.02
170 154 0.98
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (170 bp):
AAATGTGATAAATGCAAAAGATTTGATCATTACAGCATCTCTCCTCGACTAAGCTAACTCTCATA
ATAAGCCAATGGCCCTTCATGCAAAAGAGGATAGATGTACTCAATCTATTCACATCAGCCACTCA
ACACAAAAGATTTGTGCTAATTACTATTGACTATTTTACC
Found at i:10871391 original size:10 final size:10
Alignment explanation
Indices: 10871376--10871413 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
10871366 ATGCTTATTG
10871376 AATTATTTGA
1 AATTATTTGA
10871386 AATTATTTGA
1 AATTATTTGA
10871396 AATTATTTGA
1 AATTATTTGA
*
10871406 AGTTATTT
1 AATTATTT
10871414 TCGATCCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (10 bp):
AATTATTTGA
Found at i:10872479 original size:28 final size:28
Alignment explanation
Indices: 10872437--10872494 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
10872427 ACCACCTTGG
10872437 AATCCTCGTAGGTATTTTTCAATGAGTC
1 AATCCTCGTAGGTATTTTTCAATGAGTC
* *
10872465 AATCCTCTTATGTATTTTTCAATGAGTC
1 AATCCTCGTAGGTATTTTTCAATGAGTC
10872493 AA
1 AA
10872495 ACTCCACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (28 bp):
AATCCTCGTAGGTATTTTTCAATGAGTC
Found at i:10873764 original size:4 final size:4
Alignment explanation
Indices: 10873755--10873805 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
10873745 TTTTTTCATT
* *
10873755 TTTA TTTA TTTA TTTA -TT- TTTA GTTTA GTTTA TTTT TTTA TTTA ATTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA TTTA
10873803 TTT
1 TTT
10873806 TTATCATCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
3 4 0.10
4 27 0.68
5 9 0.22
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:10873788 original size:16 final size:14
Alignment explanation
Indices: 10873742--10873824 Score: 62
Period size: 14 Copynumber: 5.5 Consensus size: 14
10873732 CTTTTTTTTG
*
10873742 TATTTTT-TTCATT
1 TATTTTTATTTATT
10873755 T-TTATTTATTTATT
1 TATT-TTTATTTATT
10873769 TATTTTTAGTTTAGTT
1 TATTTTTA-TTTA-TT
*
10873785 TATTTTTTTATTTAAT
1 TA--TTTTTATTTATT
10873801 TATTTTTATCATCTATT
1 TATTTTTAT--T-TATT
10873818 TATTTTT
1 TATTTTT
10873825 GAAATGTTGA
Statistics
Matches: 57, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
12 2 0.04
13 4 0.07
14 17 0.30
15 6 0.11
16 8 0.14
17 14 0.25
18 6 0.11
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (14 bp):
TATTTTTATTTATT
Found at i:10875885 original size:16 final size:16
Alignment explanation
Indices: 10875864--10875896 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10875854 TCTCCCTTTC
10875864 CCTTTAGGAGGTTATA
1 CCTTTAGGAGGTTATA
10875880 CCTTTAGGAGGTTATA
1 CCTTTAGGAGGTTATA
10875896 C
1 C
10875897 AAAGCGAGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.36
Consensus pattern (16 bp):
CCTTTAGGAGGTTATA
Found at i:10876440 original size:16 final size:17
Alignment explanation
Indices: 10876405--10876442 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
10876395 AAATTGTAAG
* *
10876405 ATAAAAGAAACTCTATA
1 ATAAAAGAAACTATAAA
10876422 ATAAAA-AAACTATAAA
1 ATAAAAGAAACTATAAA
10876438 ATAAA
1 ATAAA
10876443 TCTAAGGCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.21
Consensus pattern (17 bp):
ATAAAAGAAACTATAAA
Found at i:10877164 original size:3 final size:3
Alignment explanation
Indices: 10877146--10877232 Score: 67
Period size: 3 Copynumber: 30.3 Consensus size: 3
10877136 TATTGTATAG
*
10877146 TAT TA- TAT TAT T-T TAT TAT TAT TAC TAT TA- TAT T-T CTAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * *
10877188 TCT TAT TA- TAT TAT TAT TAC TAT CAT TGT TTT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10877233 TTTTCTTCCT
Statistics
Matches: 65, Mismatches: 13, Indels: 12
0.72 0.14 0.13
Matches are distributed among these distances:
2 9 0.14
3 55 0.85
4 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:10877176 original size:20 final size:20
Alignment explanation
Indices: 10877146--10877226 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
10877136 TATTGTATAG
10877146 TATTA-TATTATTTTATTAT
1 TATTACTATTATTTTATTAT
*
10877165 TATTACTATTATATTT-CTAT
1 TATTACTATTAT-TTTATTAT
*
10877185 TATT-C--TTATTATATTAT
1 TATTACTATTATTTTATTAT
* *
10877202 TATTACTATCATTGTTTTTAT
1 TATTACTATTATT-TTATTAT
10877223 TATT
1 TATT
10877227 TTTATTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 2 0.04
17 11 0.22
18 1 0.02
19 6 0.12
20 17 0.35
21 12 0.24
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (20 bp):
TATTACTATTATTTTATTAT
Found at i:10878128 original size:13 final size:13
Alignment explanation
Indices: 10878112--10878142 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10878102 CTTTTTTTAA
10878112 TTTTAATTTTATT
1 TTTTAATTTTATT
*
10878125 TTTTGATTTTATT
1 TTTTAATTTTATT
10878138 TTTTA
1 TTTTA
10878143 GCTCATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTAATTTTATT
Found at i:10878140 original size:19 final size:19
Alignment explanation
Indices: 10878104--10878139 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10878094 CAAGGTTTCT
10878104 TTTTTTAATTTTAATTTTA
1 TTTTTTAATTTTAATTTTA
*
10878123 TTTTTTGATTTT-ATTTT
1 TTTTTTAATTTTAATTTT
10878140 TTAGCTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTTTTTAATTTTAATTTTA
Found at i:10878152 original size:17 final size:17
Alignment explanation
Indices: 10878130--10878174 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
10878120 TTATTTTTTG
10878130 ATTTTATTTTTTAGCTC
1 ATTTTATTTTTTAGCTC
10878147 ATTTTATTTTTTAGCTC
1 ATTTTATTTTTTAGCTC
10878164 ATTTTATTTTT
1 ATTTTATTTTT
10878175 ATTTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.18, C:0.09, G:0.04, T:0.69
Consensus pattern (17 bp):
ATTTTATTTTTTAGCTC
Found at i:10878356 original size:39 final size:43
Alignment explanation
Indices: 10878313--10878397 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 43
10878303 AAAATTCAAA
*
10878313 TAAGTTTTCAAAA-TA-A-TAATAAAAACAAAAAAAA-ACTTT
1 TAAGTTTTAAAAAGTATATTAATAAAAACAAAAAAAATACTTT
* *
10878352 TAAGTTTTAAAAAGTATATTCATAAAAACAAAAAAAATCCTTT
1 TAAGTTTTAAAAAGTATATTAATAAAAACAAAAAAAATACTTT
10878395 TAA
1 TAA
10878398 TAAAAAAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
39 12 0.31
40 2 0.05
41 1 0.03
42 17 0.44
43 7 0.18
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.31
Consensus pattern (43 bp):
TAAGTTTTAAAAAGTATATTAATAAAAACAAAAAAAATACTTT
Found at i:10878404 original size:17 final size:18
Alignment explanation
Indices: 10878382--10878422 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10878372 CATAAAAACA
10878382 AAAAAAATCCTTTT-AAT
1 AAAAAAATCCTTTTAAAT
*
10878399 AAAAAAATCTTTTTCAAAT
1 AAAAAAATCCTTTT-AAAT
10878418 AAAAA
1 AAAAA
10878423 TCCCTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAAAATCCTTTTAAAT
Found at i:10878423 original size:17 final size:16
Alignment explanation
Indices: 10878380--10878425 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
10878370 TTCATAAAAA
10878380 CAAAAAAAATCCTTTT
1 CAAAAAAAATCCTTTT
* *
10878396 AATAAAAAAATCTTTTT
1 CA-AAAAAAATCCTTTT
10878413 CAAATAAAAATCC
1 CAAA-AAAAATCC
10878426 CTATAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.30
Consensus pattern (16 bp):
CAAAAAAAATCCTTTT
Found at i:10880865 original size:63 final size:63
Alignment explanation
Indices: 10880650--10880874 Score: 190
Period size: 63 Copynumber: 3.6 Consensus size: 63
10880640 TAAATGACAT
** * * * * * *
10880650 TTATTTAAGATGTTTTTGGTTCAAAAATATATTAAATAATCCCCTTTAAAATGTATC-AGAGAA
1 TTATTTAAGACATTTTTAGTCCAAAAATGTCTTAAATAATCCTCTTTAAAATGTATCAAG-GGA
* * * * * ** * *
10880713 TTATTTAAGATATTTTTTAATCCAAAAATGCCTTAAACAAT-GTCATTTAAAAAATATAAAGAG-
1 TTATTTAAGACA-TTTTTAGTCCAAAAATGTCTTAAATAATCCTC-TTTAAAATGTATCAAGGGA
* * **
10880776 TTATTTAAGGCATTTTTGGATAAAAAAATGTCTTAAATAATCCTC-TTAAAATGTATCAAGGGA
1 TTATTTAAGACATTTTTAG-TCCAAAAATGTCTTAAATAATCCTCTTTAAAATGTATCAAGGGA
10880839 TTATTTAAGACATTTTTAGTCCAAAAATG-CTTAAAT
1 TTATTTAAGACATTTTTAGTCCAAAAATGTCTTAAAT
10880875 GATCATTTGA
Statistics
Matches: 124, Mismatches: 32, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
61 7 0.06
62 26 0.21
63 56 0.45
64 33 0.27
65 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.38
Consensus pattern (63 bp):
TTATTTAAGACATTTTTAGTCCAAAAATGTCTTAAATAATCCTCTTTAAAATGTATCAAGGGA
Found at i:10880928 original size:125 final size:125
Alignment explanation
Indices: 10880662--10880917 Score: 299
Period size: 125 Copynumber: 2.0 Consensus size: 125
10880652 ATTTAAGATG
* *
10880662 TTTTTGGTTCAAAAATATATTAAATAATCCCCTTTAAAATGTATCAGAGAATTATTTAAGATATT
1 TTTTTGGATCAAAAATATATTAAATAATCCCCTTTAAAATGTATCAGAGAATTATTTAAGACATT
*
10880727 TTTTAATCCAAAAATGCCTTAAACAATGTCATTTAAAAAATATAAAGAGTTATTTAAGGCA
66 TTTTAATCCAAAAATGCCTT-AACAATGTCATTTAAAAAATATAAAGAATTATTTAAGGCA
* * * * *
10880788 TTTTTGGATAAAAAAATGTCTTAAATAATCCTC-TTAAAATGTATCA-AGGGATTATTTAAGACA
1 TTTTTGGAT-CAAAAATATATTAAATAATCCCCTTTAAAATGTATCAGA-GAATTATTTAAGACA
* ** *
10880851 -TTTTTAGTCCAAAAATG-CTT-A-AATGATCATTTGAAAATTTTTGAAAGATATTATTTAAGGC
64 TTTTTTAATCCAAAAATGCCTTAACAATG-TCATTT-AAAAAATAT-AAAGA-ATTATTTAAGGC
10880912 A
125 A
10880913 TTTTT
1 TTTTT
10880918 TTTATCAAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
121 4 0.04
122 7 0.06
123 6 0.05
124 8 0.07
125 34 0.30
126 34 0.30
127 19 0.17
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (125 bp):
TTTTTGGATCAAAAATATATTAAATAATCCCCTTTAAAATGTATCAGAGAATTATTTAAGACATT
TTTTAATCCAAAAATGCCTTAACAATGTCATTTAAAAAATATAAAGAATTATTTAAGGCA
Found at i:10885602 original size:23 final size:23
Alignment explanation
Indices: 10885572--10885620 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
10885562 CTGGATTTAC
*
10885572 TTTAGAGGTTTAAGGGTTTGGAT
1 TTTAGAGGTTGAAGGGTTTGGAT
10885595 TTTAGAGGTTGAAGGGTTTGGAT
1 TTTAGAGGTTGAAGGGTTTGGAT
10885618 TTT
1 TTT
10885621 TTGAAGTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.35, T:0.45
Consensus pattern (23 bp):
TTTAGAGGTTGAAGGGTTTGGAT
Found at i:10888762 original size:22 final size:22
Alignment explanation
Indices: 10888734--10888778 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
10888724 AAGTTCATTA
10888734 TTATGGTATAG-TGACTCATCAC
1 TTATGGTA-AGATGACTCATCAC
*
10888756 TTATGGTACGATGACTCATCAC
1 TTATGGTAAGATGACTCATCAC
10888778 T
1 T
10888779 ATGACTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (22 bp):
TTATGGTAAGATGACTCATCAC
Found at i:10889716 original size:23 final size:22
Alignment explanation
Indices: 10889671--10889724 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
10889661 GGGAGGCTCG
**
10889671 AAATTTTAAAAAATATATTTTA
1 AAATTTTAAAAAATATACATTA
*
10889693 AAATATTAAAAAATAATACATTA
1 AAATTTTAAAAAAT-ATACATTA
10889716 AAATTTTAA
1 AAATTTTAA
10889725 CATTTTAGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
AAATTTTAAAAAATATACATTA
Found at i:10893205 original size:14 final size:16
Alignment explanation
Indices: 10893176--10893207 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
10893166 TTTTATAATA
10893176 AAAAATCAATTAAAAT
1 AAAAATCAATTAAAAT
10893192 AAAAAT-AA-TAAAAT
1 AAAAATCAATTAAAAT
10893206 AA
1 AA
10893208 TTTATATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATCAATTAAAAT
Found at i:10893406 original size:15 final size:15
Alignment explanation
Indices: 10893388--10893417 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10893378 TATATATAAT
10893388 TTATTTAAAATTTTA
1 TTATTTAAAATTTTA
*
10893403 TTATTTAATATTTTA
1 TTATTTAAAATTTTA
10893418 ATTCAATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTTAAAATTTTA
Found at i:10893714 original size:15 final size:15
Alignment explanation
Indices: 10893694--10893737 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10893684 TTTTATTATT
*
10893694 TATTATATTTATAAA
1 TATTATATTAATAAA
10893709 TATTATATTAATAAAAA
1 TATTATATTAAT--AAA
10893726 TATTAT-TTAATA
1 TATTATATTAATA
10893738 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 11 0.42
16 5 0.19
17 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATATTAATAAA
Found at i:10893737 original size:16 final size:17
Alignment explanation
Indices: 10893694--10893737 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
10893684 TTTTATTATT
*
10893694 TATTATATT--TATAAA
1 TATTATATTAATAAAAA
10893709 TATTATATTAATAAAAA
1 TATTATATTAATAAAAA
10893726 TATTAT-TTAATA
1 TATTATATTAATA
10893738 TTTTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 6 0.23
17 11 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTATATTAATAAAAA
Found at i:10893772 original size:29 final size:29
Alignment explanation
Indices: 10893697--10893776 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
10893687 TATTATTTAT
*
10893697 TATATTTATA-AATATTATATTAATAAAAA
1 TATATTTATATAAT-TAATATTAATAAAAA
*
10893726 TATTATTTA-ATATTTTAAT-TTAATAAAAA
1 TA-TATTTATATA-ATTAATATTAATAAAAA
10893755 CTATATTTATATAATTAA-ATTA
1 -TATATTTATATAATTAATATTA
10893777 TAATTTATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
29 26 0.62
30 15 0.36
31 1 0.02
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTTATATAATTAATATTAATAAAAA
Found at i:10893794 original size:20 final size:19
Alignment explanation
Indices: 10893750--10893794 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
10893740 TTAATTTAAT
*
10893750 AAAAACTATATTTATATAA
1 AAAAATTATATTTATATAA
**
10893769 TTAAATTATAATTTATATAA
1 AAAAATTAT-ATTTATATAA
10893789 AAAAAT
1 AAAAAT
10893795 AAATCATCAT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTATATTTATATAA
Found at i:10893974 original size:19 final size:20
Alignment explanation
Indices: 10893943--10893988 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
10893933 TGTCCCAAAC
10893943 ATTTTTTCTTTTTCTTT-TT
1 ATTTTTTCTTTTTCTTTCTT
10893962 ATTTTATTC-TTTTCTTTCTT
1 ATTTT-TTCTTTTTCTTTCTT
10893982 ATTTTTT
1 ATTTTTT
10893989 AATTTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTTCTTTTTCTTTCTT
Found at i:10894001 original size:23 final size:22
Alignment explanation
Indices: 10893943--10894025 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 22
10893933 TGTCCCAAAC
*
10893943 ATTTTTTCTTTTTCTT-TTTATTTT
1 ATTTTTTC--TTTCTTATTT-TTTA
10893967 ATTCTTTTCTTTCTTATTTTTTA
1 ATT-TTTTCTTTCTTATTTTTTA
*
10893990 ATTTTTTACTTTTTTATTCCTTTTCA
1 ATTTTTT-CTTTCTTATT--TTTT-A
10894016 A-TTTTTCTTT
1 ATTTTTTCTTT
10894026 TAAAAATTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
22 4 0.08
23 21 0.41
24 10 0.20
25 14 0.27
26 2 0.04
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (22 bp):
ATTTTTTCTTTCTTATTTTTTA
Found at i:10894409 original size:26 final size:27
Alignment explanation
Indices: 10894372--10894451 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 27
10894362 GCCTTTAATT
10894372 TATA-TTTA-TATTTATATTTATTAAA
1 TATATTTTATTATTTATATTTATTAAA
* **
10894397 TAT-TTTTATTATTTATTTTTAAAAAA
1 TATATTTTATTATTTATATTTATTAAA
*
10894423 TATATTTATATTTGTTTATATATTATTAA
1 TATATTT-TA-TTATTTATAT-TTATTAA
10894452 TCATTAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
25 7 0.17
26 17 0.40
27 3 0.07
28 2 0.05
29 8 0.19
30 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (27 bp):
TATATTTTATTATTTATATTTATTAAA
Found at i:10894973 original size:21 final size:21
Alignment explanation
Indices: 10894944--10894985 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10894934 TAAAAAATAA
*
10894944 ATATTTAATTTT-TATAAAATT
1 ATATGTAATTTTAT-TAAAATT
10894965 ATATGTAATTTTATTAAAATT
1 ATATGTAATTTTATTAAAATT
10894986 TTAAATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATGTAATTTTATTAAAATT
Found at i:10894994 original size:21 final size:21
Alignment explanation
Indices: 10894953--10895000 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10894943 AATATTTAAT
**
10894953 TTTTA-TAAAATTATATGTAA
1 TTTTATTAAAATTATAAATAA
*
10894973 TTTTATTAAAATTTTAAATAA
1 TTTTATTAAAATTATAAATAA
*
10894994 TATTATT
1 TTTTATT
10895001 TTTATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTTATTAAAATTATAAATAA
Found at i:10895410 original size:36 final size:36
Alignment explanation
Indices: 10895361--10895433 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
10895351 TTCTCCAATC
10895361 TAGTTTTTCCTGCATTTCTCTTTTAAATAGATCAAG
1 TAGTTTTTCCTGCATTTCTCTTTTAAATAGATCAAG
*
10895397 TAGTTTTTTCTGCATTTCTCTTTTAAATAGATCAAG
1 TAGTTTTTCCTGCATTTCTCTTTTAAATAGATCAAG
10895433 T
1 T
10895434 GGCATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (36 bp):
TAGTTTTTCCTGCATTTCTCTTTTAAATAGATCAAG
Found at i:10901204 original size:30 final size:30
Alignment explanation
Indices: 10901170--10901231 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
10901160 ATTGTATTTC
*
10901170 TACAAAGGCTAAAGTGAAATTATTTTAAGT
1 TACAAAGACTAAAGTGAAATTATTTTAAGT
10901200 TACAAAGACTAAAGTGAAATTATTTTAAGT
1 TACAAAGACTAAAGTGAAATTATTTTAAGT
10901230 TA
1 TA
10901232 TAATTAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (30 bp):
TACAAAGACTAAAGTGAAATTATTTTAAGT
Found at i:10901885 original size:22 final size:21
Alignment explanation
Indices: 10901847--10901890 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10901837 ATGTAAAACT
*
10901847 AAAATCTATTAATTAAATAAA
1 AAAATCTATTAAATAAATAAA
*
10901868 AAAATTTATTTAAATAAATAAA
1 AAAATCTA-TTAAATAAATAAA
10901890 A
1 A
10901891 TTAATATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATCTATTAAATAAATAAA
Found at i:10904051 original size:18 final size:18
Alignment explanation
Indices: 10904028--10904070 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10904018 TAAGGTTTAA
10904028 GTTTAGGGACAACTTAGG
1 GTTTAGGGACAACTTAGG
* * *
10904046 GTTTAGAGATAATTTAGG
1 GTTTAGGGACAACTTAGG
10904064 GTTTAGG
1 GTTTAGG
10904071 ATTTGGTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.33, T:0.35
Consensus pattern (18 bp):
GTTTAGGGACAACTTAGG
Found at i:10904106 original size:19 final size:19
Alignment explanation
Indices: 10904058--10904137 Score: 92
Period size: 19 Copynumber: 4.2 Consensus size: 19
10904048 TTAGAGATAA
10904058 TTTAGGGTTTAGGATTTGG
1 TTTAGGGTTTAGGATTTGG
*
10904077 -TTCGGGATTTAGGATTTGG
1 TTTAGGG-TTTAGGATTTGG
* *
10904096 TTTAAGGTTTA-GAGTTTGA
1 TTTAGGGTTTAGGA-TTTGG
*
10904115 TTTAGGGTTTAAGATTTGG
1 TTTAGGGTTTAGGATTTGG
10904134 TTTA
1 TTTA
10904138 AATTAAGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
18 7 0.14
19 38 0.75
20 6 0.12
ACGTcount: A:0.20, C:0.01, G:0.31, T:0.47
Consensus pattern (19 bp):
TTTAGGGTTTAGGATTTGG
Found at i:10905054 original size:16 final size:16
Alignment explanation
Indices: 10905033--10905065 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10905023 ATTTCAATTA
10905033 ATATTAAAATTAACAT
1 ATATTAAAATTAACAT
*
10905049 ATATTAAAATTCACAT
1 ATATTAAAATTAACAT
10905065 A
1 A
10905066 AAATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATTAAAATTAACAT
Found at i:10913597 original size:52 final size:51
Alignment explanation
Indices: 10913539--10913666 Score: 168
Period size: 52 Copynumber: 2.5 Consensus size: 51
10913529 ATCCCTCTCC
*
10913539 TCTTAGAATTCTTCTTTCGTAAGTCAAACTTATATATTAAGAATCTT-TTTT
1 TCTTAGAATTCTTCTTT-GTAAGTCAAACTTACATATTAAGAATCTTCTTTT
* * *
10913590 CTTTTAGAATTCTTCTCTTGCAAGTCAAACTTACCTATTAAGAATCTTCTTTT
1 -TCTTAGAATTCTTCT-TTGTAAGTCAAACTTACATATTAAGAATCTTCTTTT
*
10913643 TCTTAAAATTCTTCTTTTGTAAGT
1 TCTTAGAATTCTTC-TTTGTAAGT
10913667 TTTTTTATCC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
52 59 0.89
53 7 0.11
ACGTcount: A:0.27, C:0.16, G:0.08, T:0.48
Consensus pattern (51 bp):
TCTTAGAATTCTTCTTTGTAAGTCAAACTTACATATTAAGAATCTTCTTTT
Found at i:10913708 original size:11 final size:11
Alignment explanation
Indices: 10913692--10913733 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
10913682 ACAATATCTG
10913692 ACAAATCTCAA
1 ACAAATCTCAA
10913703 ACAAATCTCAA
1 ACAAATCTCAA
*
10913714 ACAAATCACAA
1 ACAAATCTCAA
10913725 ACAAATCTC
1 ACAAATCTC
10913734 TTATGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.17
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:10914004 original size:25 final size:25
Alignment explanation
Indices: 10913975--10914098 Score: 99
Period size: 25 Copynumber: 5.0 Consensus size: 25
10913965 AAACCAAGCA
*
10913975 CTTCCCACATCTTAAACCTTTAGCT
1 CTTCCCACATCTTGAACCTTTAGCT
* * *
10914000 CTTCCCATATC-TCAAACTTTCAGCT
1 CTTCCCACATCTTGAACCTTT-AGCT
* * *
10914025 CTT-TCACATCTCGAACCTTTGGCT
1 CTTCCCACATCTTGAACCTTTAGCT
* * * *
10914049 CTTTCCACATCTTGAATCTTCAACT
1 CTTCCCACATCTTGAACCTTTAGCT
* * *
10914074 CTTCTCACATTTTGAACCTTCAGCT
1 CTTCCCACATCTTGAACCTTTAGCT
10914099 TTTATACCAC
Statistics
Matches: 76, Mismatches: 20, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
24 18 0.24
25 58 0.76
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (25 bp):
CTTCCCACATCTTGAACCTTTAGCT
Found at i:10914783 original size:52 final size:52
Alignment explanation
Indices: 10914632--10914785 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
10914622 TATAACCATA
* * ** *
10914632 CAAACTTACCCACTAAGAATCCTTC-TCCTCTTAGAATTCTTCTTTTGTAAGT
1 CAAACTTACCTATTAAGAAT-CTTCTTTTTCTTAGAATTCTTCTTTTGCAAGT
* * *
10914684 CAAACTTATCTATT-A-AAT-TTTTTTTTTTTAGAATTCTT-TTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTTTCTTAGAATTCTTCTT-TTGCAAGT
*
10914733 CAAACTTACCTATTAAGAATCTTCTTTTTCTTAGAATTCTTCATTTGCAAGT
1 CAAACTTACCTATTAAGAATCTTCTTTTTCTTAGAATTCTTCTTTTGCAAGT
10914785 C
1 C
10914786 TTTTTATCCA
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
48 4 0.05
49 33 0.39
50 4 0.05
51 4 0.05
52 38 0.45
53 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCTTCTTTTTCTTAGAATTCTTCTTTTGCAAGT
Found at i:10914828 original size:11 final size:11
Alignment explanation
Indices: 10914812--10914851 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
10914802 AATATCTGAT
10914812 AAATCTCAAAC
1 AAATCTCAAAC
*
10914823 AAATCTCTAAC
1 AAATCTCAAAC
*
10914834 AAATCACAAAC
1 AAATCTCAAAC
10914845 AAATCTC
1 AAATCTC
10914852 TTATGGGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.20
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:10920119 original size:45 final size:45
Alignment explanation
Indices: 10920059--10920151 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
10920049 AATTTTTTTG
* *
10920059 AATGAGAATAGTTGAAT-GTGGAATGTGAATCTCTAAGACTTTTCA
1 AATGAGAATAGTTGAATAGTGG-ATGGGAACCTCTAAGACTTTTCA
* * * *
10920104 AATGAGAATATTTGAATATTGGATGGGAACCTCTAAGATTTTTTA
1 AATGAGAATAGTTGAATAGTGGATGGGAACCTCTAAGACTTTTCA
10920149 AAT
1 AAT
10920152 ATGAATTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 38 0.93
46 3 0.07
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (45 bp):
AATGAGAATAGTTGAATAGTGGATGGGAACCTCTAAGACTTTTCA
Found at i:10920380 original size:46 final size:46
Alignment explanation
Indices: 10920300--10920405 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 46
10920290 GAATTATGCT
* * *
10920300 TGTGAATC-TTGAAATTTATTATGTGAAGCCCTAAA-TTGTTTGAG
1 TGTGAATCTTTGAAAATTATGATGTGAAGCCCTAAAGTTGTTTGAA
* * * *
10920344 TGTGAATCTTTGAAAATTATAGATTTGAATCTCTAAAGTTTTTTGAA
1 TGTGAATCTTTGAAAATTAT-GATGTGAAGCCCTAAAGTTGTTTGAA
**
10920391 TGAAAATCTTTGAAA
1 TGTGAATCTTTGAAA
10920406 TTTTGGATAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
44 8 0.16
45 10 0.20
46 12 0.24
47 20 0.40
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.42
Consensus pattern (46 bp):
TGTGAATCTTTGAAAATTATGATGTGAAGCCCTAAAGTTGTTTGAA
Found at i:10920399 original size:24 final size:23
Alignment explanation
Indices: 10920371--10920439 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
10920361 TATAGATTTG
10920371 AATCTCTAAAGTTTTTTGAATGAA
1 AATCTCTAAAGTTTTTTGAATG-A
* *
10920395 AATCTTTGAAA--TTTTGGATATG-
1 AATCTCT-AAAGTTTTTTGA-ATGA
*
10920417 AATTTCTAAAGTTTTTTGAATGA
1 AATCTCTAAAGTTTTTTGAATGA
10920440 GGATATTTGA
Statistics
Matches: 35, Mismatches: 5, Indels: 11
0.69 0.10 0.22
Matches are distributed among these distances:
21 3 0.09
22 8 0.23
23 12 0.34
24 9 0.26
25 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
AATCTCTAAAGTTTTTTGAATGA
Found at i:10920419 original size:46 final size:46
Alignment explanation
Indices: 10920348--10920508 Score: 182
Period size: 46 Copynumber: 3.5 Consensus size: 46
10920338 TTTGAGTGTG
* * *
10920348 AATCTTTGAAAATTATAGATTTGAATCTCTAAAGTTTTTTGAATGAA
1 AATCTTTG-AAATTTTGGATATGAATCTCTAAAGTTTTTTGAATGAA
* *
10920395 AATCTTTGAAATTTTGGATATGAATTTCTAAAGTTTTTTGAATGAG
1 AATCTTTGAAATTTTGGATATGAATCTCTAAAGTTTTTTGAATGAA
* * * *
10920441 GATATTTGAAATTTTGGATAT-AGATCTCTAAA-ATTTTTGAAATAAA
1 AATCTTTGAAATTTTGGATATGA-ATCTCTAAAGTTTTTTG-AATGAA
*
10920487 AATCTTTGAAAGTTTGGGATAT
1 AATCTTTGAAA-TTTTGGATAT
10920509 AAGTCATTTA
Statistics
Matches: 97, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
45 7 0.07
46 73 0.75
47 17 0.18
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.43
Consensus pattern (46 bp):
AATCTTTGAAATTTTGGATATGAATCTCTAAAGTTTTTTGAATGAA
Found at i:10920732 original size:20 final size:20
Alignment explanation
Indices: 10920707--10920760 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
10920697 AAAATTACAA
10920707 TTGCGAATCTTTGAAGTCAT
1 TTGCGAATCTTTGAAGTCAT
*
10920727 TTGCGAAATCTTT-AAGTTAT
1 TTGCG-AATCTTTGAAGTCAT
10920747 TAT--GAATCTTTGAA
1 T-TGCGAATCTTTGAA
10920761 TTTTAAGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.23
19 3 0.10
20 12 0.40
21 8 0.27
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.43
Consensus pattern (20 bp):
TTGCGAATCTTTGAAGTCAT
Found at i:10924456 original size:14 final size:16
Alignment explanation
Indices: 10924426--10924458 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10924416 TGAATTTGAC
10924426 TATTTATATTATCATG
1 TATTTATATTATCATG
10924442 TATTTAT-TTAT-ATG
1 TATTTATATTATCATG
10924456 TAT
1 TAT
10924459 ATTTAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.35
15 4 0.24
16 7 0.41
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTTATATTATCATG
Found at i:10929821 original size:28 final size:27
Alignment explanation
Indices: 10929781--10929837 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
10929771 GTTGAACTTC
10929781 AACACATAATTACCACTATAGTTAGTAG
1 AACACATAATTACCACTATAGTT-GTAG
*
10929809 AACATATAATTACCACTATAGTTGTAG
1 AACACATAATTACCACTATAGTTGTAG
10929836 AA
1 AA
10929838 ATGGCTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (27 bp):
AACACATAATTACCACTATAGTTGTAG
Found at i:10931045 original size:179 final size:182
Alignment explanation
Indices: 10930736--10931192 Score: 514
Period size: 180 Copynumber: 2.5 Consensus size: 182
10930726 TCAGGAATAT
* * * * * * * *
10930736 TTTCAAGCCAGATTTTGAATCACCTGAGAGT-AGAATTTTGAGCAGAATTTTTTCATAC--GTGC
1 TTTCAAGCGA-ATTTTGAACCACTTGGGA-TAAGAATTTGGAGCTGATTTTTTTCACACATGTGC
* * * **
10930798 TGCACTTGATAACCTATGTTCAAGAATTTTTTTGATGATTTTAGAAGCACTCATTGGTGCTCAAA
64 TACACTGGATAACCTATGTTCAAGAATTTTTTGGATGATTTTAGAAGCACAAATTGGTGCTCAAA
* * * *
10930863 AGAA-TTAAAAACAGAAGCCACGTTCAGAATTTCCTAAAGCTGTGTAGGCAGCA
129 AGAATTTAAAAACAGAAACCACGTTCAGAACTTCCTAAAGCTGTATAGACAGCA
* * *
10930916 TTTCAAGCTAATTTTGAACCACTTGGGATGAGAA-TTGGAGCTTATTTTTTTCACACATGTGCTA
1 TTTCAAGCGAATTTTGAACCACTTGGGATAAGAATTTGGAGCTGATTTTTTTCACACATGTGCTA
* * * *
10930980 CACTGGATAACTTCTGTTCAAGAATTTTTTGG-T-AGTTTTAGAAGCACAAATTTGTGCTGAAAA
66 CACTGGATAACCTATGTTCAAGAATTTTTTGGATGA-TTTTAGAAGCACAAATTGGTGCTCAAAA
* * *
10931043 GAATTTAAAAACAGAAACCATGTTCAGAACTTCCTGAATCTGTATAGACAGCA
130 GAATTTAAAAACAGAAACCACGTTCAGAACTTCCTAAAGCTGTATAGACAGCA
* * *
10931096 TTTCTAGCGAATTTTGAACCACTTGGGATAAGAATTTGGGGCTGATTTTTTTCACATATGTGCTA
1 TTTCAAGCGAATTTTGAACCACTTGGGATAAGAATTTGGAGCTGATTTTTTTCACACATGTGCTA
* * **
10931161 CACTAGATGACCTACATTCAAGATTATTTTTT
66 CACTGGATAACCTATGTTCAAGA--ATTTTTT
10931193 TTGGTGATTT
Statistics
Matches: 232, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
178 19 0.08
179 47 0.20
180 115 0.50
181 44 0.19
183 7 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (182 bp):
TTTCAAGCGAATTTTGAACCACTTGGGATAAGAATTTGGAGCTGATTTTTTTCACACATGTGCTA
CACTGGATAACCTATGTTCAAGAATTTTTTGGATGATTTTAGAAGCACAAATTGGTGCTCAAAAG
AATTTAAAAACAGAAACCACGTTCAGAACTTCCTAAAGCTGTATAGACAGCA
Found at i:10933732 original size:24 final size:23
Alignment explanation
Indices: 10933694--10933746 Score: 88
Period size: 24 Copynumber: 2.3 Consensus size: 23
10933684 TTTATGCTCG
*
10933694 TAAAAAAAAAGATTTGTAATCAA
1 TAAAAAAAAAAATTTGTAATCAA
10933717 TAAAAAATAAAAATTTGTAATCAA
1 TAAAAAA-AAAAATTTGTAATCAA
10933741 TAAAAA
1 TAAAAA
10933747 TTTTTGTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
TAAAAAAAAAAATTTGTAATCAA
Found at i:10934388 original size:12 final size:12
Alignment explanation
Indices: 10934373--10934397 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10934363 TATTAATATT
10934373 TATTGTATTTAA
1 TATTGTATTTAA
10934385 TATTGTATTTAA
1 TATTGTATTTAA
10934397 T
1 T
10934398 TTTTTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (12 bp):
TATTGTATTTAA
Found at i:10934487 original size:17 final size:15
Alignment explanation
Indices: 10934465--10934514 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 15
10934455 TTGTTTTTAA
*
10934465 TGTATAAGTCAATTAGT
1 TGTATAA-TAAATTA-T
10934482 TGTATAATAAATTAT
1 TGTATAATAAATTAT
*
10934497 TG--TAATAAATTGT
1 TGTATAATAAATTAT
10934510 TGTAT
1 TGTAT
10934515 TGTATGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
13 12 0.41
15 4 0.14
16 6 0.21
17 7 0.24
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (15 bp):
TGTATAATAAATTAT
Found at i:10934589 original size:18 final size:18
Alignment explanation
Indices: 10934536--10934592 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
10934526 AGTTGTATGC
10934536 AATAAATTATTATATTGT
1 AATAAATTATTATATTGT
* ** *
10934554 -TTTTATT-TTTTA-TGT
1 AATAAATTATTATATTGT
10934569 AATAAATTATTATATTGT
1 AATAAATTATTATATTGT
10934587 AATAAA
1 AATAAA
10934593 ATAATAAGAT
Statistics
Matches: 28, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
15 3 0.11
16 8 0.29
17 8 0.29
18 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
AATAAATTATTATATTGT
Found at i:10942058 original size:15 final size:15
Alignment explanation
Indices: 10942038--10942067 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10942028 TTTATTTAAC
10942038 TTGTAAATGATTTAT
1 TTGTAAATGATTTAT
*
10942053 TTGTAAATTATTTAT
1 TTGTAAATGATTTAT
10942068 ATATAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TTGTAAATGATTTAT
Found at i:10952605 original size:3 final size:3
Alignment explanation
Indices: 10952597--10952648 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
10952587 TCCAATACAA
10952597 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10952645 AAT A
1 AAT A
10952649 CAGCCCCGCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10953559 original size:27 final size:29
Alignment explanation
Indices: 10953528--10953599 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 29
10953518 ATCATTATTT
*
10953528 ACAAAT-TTTAAAAT-TAAAAAATTTGTA
1 ACAAATCTTTAAAATAAAAAAAATTTGTA
10953555 ACAAATCTTTAAAATAAAAAAAAATTTGTA
1 ACAAATCTTTAAAAT-AAAAAAAATTTGTA
10953585 ACAAATCTTTAAAAT
1 ACAAATCTTTAAAAT
10953600 CACAATAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 6 0.15
28 8 0.20
30 27 0.66
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (29 bp):
ACAAATCTTTAAAATAAAAAAAATTTGTA
Found at i:10955706 original size:30 final size:30
Alignment explanation
Indices: 10955643--10955706 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
10955633 AATGAGGGAT
***
10955643 CAAAATAAAATTCTCTCAAAATTTAAGGGC
1 CAAAATAAAATTCTCTCAAAATTTAAAAAC
*
10955673 CAAAATAAAATTCTTTCAAAATTTAAAAAC
1 CAAAATAAAATTCTCTCAAAATTTAAAAAC
10955703 CAAA
1 CAAA
10955707 TAAGAAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAAATAAAATTCTCTCAAAATTTAAAAAC
Found at i:10956277 original size:31 final size:29
Alignment explanation
Indices: 10956205--10956296 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 29
10956195 TAAAATTACA
*
10956205 TATCATTTTTAAAAATTAAGTAAAAATTT
1 TATCATTTTTAAAAATTAAATAAAAATTT
10956234 TAT-ATTGGTTTAAGAAATTAAATAAAAACTCTT
1 TATCATT--TTTAA-AAATTAAATAAAAA-T-TT
**
10956267 TATCA-TTTTAAAATATTATGTAAAAATTT
1 TATCATTTTTAAAA-ATTAAATAAAAATTT
10956296 T
1 T
10956297 CAAATTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
28 3 0.06
29 6 0.11
30 8 0.15
31 28 0.53
32 1 0.02
33 6 0.11
34 1 0.02
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (29 bp):
TATCATTTTTAAAAATTAAATAAAAATTT
Found at i:10956689 original size:14 final size:14
Alignment explanation
Indices: 10956670--10956699 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10956660 TTTTTATTCA
10956670 TTTTTATTTCAAAT
1 TTTTTATTTCAAAT
*
10956684 TTTTTATTTCATAT
1 TTTTTATTTCAAAT
10956698 TT
1 TT
10956700 ATCATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTATTTCAAAT
Found at i:10956721 original size:21 final size:21
Alignment explanation
Indices: 10956669--10956722 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
10956659 ATTTTTATTC
*
10956669 ATTTTTATTTCA-AATTTTTT
1 ATTTTTATTTTATAATTTTTT
* *
10956689 A-TTTCATATTTATCATTTTTT
1 ATTTTTAT-TTTATAATTTTTT
10956710 ATTTTTATTTTAT
1 ATTTTTATTTTAT
10956723 GGTCTATCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 13 0.48
22 5 0.19
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTTTATTTTATAATTTTTT
Found at i:10957765 original size:13 final size:13
Alignment explanation
Indices: 10957747--10957776 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10957737 GTGAAAACTT
10957747 AAACAAAGGGCTG
1 AAACAAAGGGCTG
*
10957760 AAACAAAGGGTTG
1 AAACAAAGGGCTG
10957773 AAAC
1 AAAC
10957777 TCTGGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.27, T:0.10
Consensus pattern (13 bp):
AAACAAAGGGCTG
Found at i:10958193 original size:60 final size:59
Alignment explanation
Indices: 10958111--10958354 Score: 262
Period size: 60 Copynumber: 4.1 Consensus size: 59
10958101 CTCAATGACC
* *
10958111 TCTTT-AAAATAAAATTTGAAAAAAATATATTTTTAAAAAAAAGTTGAATGTATCAATT
1 TCTTTGAAAATAAAATTTCAAAAAAATATATTTTTAAAAAAAAGTTGAAAGTATCAATT
* * * * *
10958169 TCCTTTGAACATAAAATTTTAAAAAAATATATTTTTGAGAAAAAGTTAAAAGTATCAATT
1 T-CTTTGAAAATAAAATTTCAAAAAAATATATTTTTAAAAAAAAGTTGAAAGTATCAATT
* * * * * *
10958229 TTTCTTGAAAATAAAATTACAAAAAAACATATTTTTGAGAAAAAA-TTGGAAGTACCAATCT
1 TCT-TTGAAAATAAAATTTCAAAAAAATATATTTTT-AAAAAAAAGTTGAAAGTATCAAT-T
* * *
10958290 TCTTTAAAAATAAAATTATCAAGAAAAT-T-TTTTTAAGAAAAAGTTGAAAGTATCAATTT
1 TCTTTGAAAATAAAATT-TCAAAAAAATATATTTTTAAAAAAAAGTTGAAAGTATCAA-TT
10958349 TCTTTG
1 TCTTTG
10958355 TATAAAAGCA
Statistics
Matches: 151, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
58 7 0.05
59 27 0.18
60 102 0.68
61 15 0.10
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (59 bp):
TCTTTGAAAATAAAATTTCAAAAAAATATATTTTTAAAAAAAAGTTGAAAGTATCAATT
Found at i:10958261 original size:120 final size:119
Alignment explanation
Indices: 10958111--10958349 Score: 297
Period size: 120 Copynumber: 2.0 Consensus size: 119
10958101 CTCAATGACC
* ** * *
10958111 TCTTTAAAATAAAATTTGAAAAAAATATATTTTT-AAAAAAAAGTT-GAATGTATCAAT-TTCCT
1 TCTTGAAAATAAAATTACAAAAAAACATATTTTTGAAAAAAAA-TTGGAA-GTACCAATCTT-CT
* * * *
10958173 TTGAACATAAAATT-TTAAAAAAATATATTTTTGAGAAAAAGTTAAAAGTATCAATTTT
63 TTAAAAATAAAATTATCAAAAAAAT-T-TTTTTAAGAAAAAGTTAAAAGTATCAATTTT
*
10958231 TCTTGAAAATAAAATTACAAAAAAACATATTTTTGAGAAAAAATTGGAAGTACCAATCTTCTTTA
1 TCTTGAAAATAAAATTACAAAAAAACATATTTTTGAAAAAAAATTGGAAGTACCAATCTTCTTTA
* *
10958296 AAAATAAAATTATCAAGAAAATTTTTTTAAGAAAAAGTTGAAAGTATCAATTTT
66 AAAATAAAATTATCAAAAAAATTTTTTTAAGAAAAAGTTAAAAGTATCAATTTT
10958350 CTTTGTATAA
Statistics
Matches: 103, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
119 29 0.28
120 54 0.52
121 20 0.19
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.36
Consensus pattern (119 bp):
TCTTGAAAATAAAATTACAAAAAAACATATTTTTGAAAAAAAATTGGAAGTACCAATCTTCTTTA
AAAATAAAATTATCAAAAAAATTTTTTTAAGAAAAAGTTAAAAGTATCAATTTT
Found at i:10962211 original size:25 final size:26
Alignment explanation
Indices: 10962183--10962253 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 26
10962173 AAATGGATGG
10962183 AAAAAAAAGAGAAAAAAATGAAA-AA
1 AAAAAAAAGAGAAAAAAATGAAAGAA
*
10962208 AAAAAAGAGAAAGAGAAAAAATGAAAGAA
1 AAAAAA-A-AGAGA-AAAAAATGAAAGAA
*
10962237 AAGAAAAAGAGAAAAAA
1 AAAAAAAAGAGAAAAAA
10962254 GAATACTCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 6 0.15
26 6 0.15
27 8 0.21
28 12 0.31
29 7 0.18
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (26 bp):
AAAAAAAAGAGAAAAAAATGAAAGAA
Found at i:10962220 original size:29 final size:31
Alignment explanation
Indices: 10962188--10962250 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
10962178 GATGGAAAAA
10962188 AAAGAGAAAAAAATG-AA-AAAA-AAAAAGAG
1 AAAGAG-AAAAAATGAAAGAAAAGAAAAAGAG
10962217 AAAGAGAAAAAATGAAAGAAAAGAAAAAGAG
1 AAAGAGAAAAAATGAAAGAAAAGAAAAAGAG
10962248 AAA
1 AAA
10962251 AAAGAATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 8 0.26
29 8 0.26
30 4 0.13
31 11 0.35
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (31 bp):
AAAGAGAAAAAATGAAAGAAAAGAAAAAGAG
Found at i:10963539 original size:25 final size:24
Alignment explanation
Indices: 10963500--10963712 Score: 175
Period size: 25 Copynumber: 9.2 Consensus size: 24
10963490 TTTGAGTCTT
10963500 AAATGAGAATCTTTAAGACATTTTC
1 AAATGAGAATCTTTAAGAC-TTTTC
* *
10963525 ATATAAGAATCTTTAAG--TTTT-
1 AAATGAGAATCTTTAAGACTTTTC
*
10963546 AAATGAGAATCTTCAAGACGTTTTC
1 AAATGAGAATCTTTAAGAC-TTTTC
* *
10963571 AAATGAGAATCTTT--GAGTCTT-
1 AAATGAGAATCTTTAAGACTTTTC
*
10963592 AAATGAAAAT-TTTAAAGACATTTTC
1 AAATGAGAATCTTT-AAGAC-TTTTC
* *
10963617 AAATGTA-AATCTTT--GAATCTT-
1 AAATG-AGAATCTTTAAGACTTTTC
10963638 AAATGAGAATCTTTAAGACGTTTTC
1 AAATGAGAATCTTTAAGAC-TTTTC
*
10963663 AAATGAGAATCTTTAAG--TCTT-
1 AAATGAGAATCTTTAAGACTTTTC
*
10963684 AAATGAGAATCTTTAAAACATTTTC
1 AAATGAGAATCTTTAAGAC-TTTTC
10963709 AAAT
1 AAAT
10963713 CTTAAAGATG
Statistics
Matches: 150, Mismatches: 18, Indels: 40
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.03
21 51 0.34
22 13 0.09
23 8 0.05
24 13 0.09
25 57 0.38
26 4 0.03
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (24 bp):
AAATGAGAATCTTTAAGACTTTTC
Found at i:10963551 original size:46 final size:46
Alignment explanation
Indices: 10963494--10963712 Score: 309
Period size: 46 Copynumber: 4.8 Consensus size: 46
10963484 TAAAGTTTTG
* *
10963494 AGTCTTAAATGAGAATCTTTAAGACATTTTCATATAAGAATCTTTA
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTA
* * * *
10963540 AGTTTTAAATGAGAATCTTCAAGACGTTTTCAAATGAGAATCTTTG
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTA
*
10963586 AGTCTTAAATGAAAAT-TTTAAAGACATTTTCAAATGTA-AATCTTTGA
1 AGTCTTAAATGAGAATCTTT-AAGACATTTTCAAATG-AGAATCTTT-A
*
10963633 A-TCTTAAATGAGAATCTTTAAGACGTTTTCAAATGAGAATCTTTA
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTA
*
10963678 AGTCTTAAATGAGAATCTTTAAAACATTTTCAAAT
1 AGTCTTAAATGAGAATCTTTAAGACATTTTCAAAT
10963713 CTTAAAGATG
Statistics
Matches: 152, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
45 5 0.03
46 142 0.93
47 5 0.03
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (46 bp):
AGTCTTAAATGAGAATCTTTAAGACATTTTCAAATGAGAATCTTTA
Done.