Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 41 of 141
Found at i:12949867 original size:5 final size:5
Alignment explanation
Indices: 12949859--12949889 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
12949849 TTATGATAAA
12949859 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
12949890 TTAAATTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:12956642 original size:85 final size:85
Alignment explanation
Indices: 12956481--12956645 Score: 260
Period size: 85 Copynumber: 2.0 Consensus size: 85
12956471 CAAAATTTTA
** * *
12956481 TTCATTTTGAACAAAACAATGCCGTTTTGCTATTCTAAAAAGTTTTTATTTTGTTTTTTATAAAT
1 TTCATTTTGAACAAAACAACACCGTTTTGCTATGCTAAAAAGTTTTTATTTTGATTTTTATAAAT
12956546 TGATTTATTTTTTGCGCTAT
66 TGATTTATTTTTTGCGCTAT
** *
12956566 TTCATTTTGAACAAAATGACACCGTTTTGCTATGCTAAAAATTTTTTATTTT-ATTTTTATAAAT
1 TTCATTTTGAACAAAACAACACCGTTTTGCTATGCTAAAAAGTTTTTATTTTGATTTTTATAAAT
12956630 TGATTTATTTTTTGCG
66 TGATTTATTTTTTGCG
12956646 ACGTTTTTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 27 0.37
85 46 0.63
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (85 bp):
TTCATTTTGAACAAAACAACACCGTTTTGCTATGCTAAAAAGTTTTTATTTTGATTTTTATAAAT
TGATTTATTTTTTGCGCTAT
Found at i:12957937 original size:25 final size:23
Alignment explanation
Indices: 12957892--12957937 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
12957882 TAAATAATAA
*
12957892 TATTTTAATTTTTCCATGTGTTT
1 TATTTTAATTTTTCCACGTGTTT
*
12957915 TATTTTAAATTATTTCTACGTGT
1 TATTTT-AATT-TTTCCACGTGT
12957938 CATCATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 4 0.21
25 9 0.47
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.61
Consensus pattern (23 bp):
TATTTTAATTTTTCCACGTGTTT
Found at i:12958231 original size:114 final size:113
Alignment explanation
Indices: 12958026--12958469 Score: 678
Period size: 114 Copynumber: 3.9 Consensus size: 113
12958016 TAAAATATTT
* *
12958026 TTAGCGGCGCTTT-TCCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCT-TAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGC
*
12958090 TTAGGTTTTTTTGCAGCGCTTTCCCAAAAACGCCGCTAAAGTCCTGAGCA
65 TTAGGTTTTTTTGCGGCGCTTT-CCAAAAACGCCGCTAAAGTCCTGAGCA
*
12958140 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCTCGAAAGCTCAGAAAACGACGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCT
** *
12958205 TAGGTTTTTTTGCGGTACTTTTCCAAAAACGCCGTTAAA-TCCCTGAGCA
66 TAGGTTTTTTTGCGGCGC-TTTCCAAAAACGCCGCTAAAGT-CCTGAGCA
* *
12958254 TTAGCGGCGCTTTCTTATAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCT
* * *
12958319 GAGGTTTTTTTGCGGCGCTTTCCGAAAAATGCCGCTAAAGCCCTGAGCA
66 TAGGTTTTTTTGCGGCGCTTTCC-AAAAACGCCGCTAAAGTCCTGAGCA
* * *
12958368 TTAGCGGCGCTTACTTAAAAACGCCGCTAAATCCCCGAAAGCTCGGGAAACGACGTCGTTGGGCT
1 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCT
12958433 TAGG-TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
66 TAGGTTTTTTTGCGGCGCTTTC-CAAAAACGCCGCTAA
12958470 TGCTTATTTT
Statistics
Matches: 301, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
113 36 0.12
114 261 0.87
115 4 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (113 bp):
TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGACGTCGTTGGGCT
TAGGTTTTTTTGCGGCGCTTTCCAAAAACGCCGCTAAAGTCCTGAGCA
Found at i:12959089 original size:24 final size:24
Alignment explanation
Indices: 12959058--12959117 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
12959048 TAAAACAAAC
12959058 TTAACCCAAAACCCAACTACCCAA
1 TTAACCCAAAACCCAACTACCCAA
* * *
12959082 TTAACCCACCAGCCCAACTACCCAT
1 TTAACCCA-AAACCCAACTACCCAA
12959107 TTACACCCAAA
1 TTA-ACCCAAA
12959118 CCCGAAGCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 8 0.27
25 17 0.57
26 5 0.17
ACGTcount: A:0.40, C:0.43, G:0.02, T:0.15
Consensus pattern (24 bp):
TTAACCCAAAACCCAACTACCCAA
Found at i:12960311 original size:3 final size:3
Alignment explanation
Indices: 12960303--12960343 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
12960293 TATTTTAGCG
*
12960303 TAT TAT TATT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
12960344 GCTTTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:12960417 original size:31 final size:32
Alignment explanation
Indices: 12960363--12960432 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
12960353 TATATAGGAG
* *
12960363 TATATATATATTTTTATATATTTT-TGTATACT
1 TATATACATACTTTTATATATTTTATG-ATACT
*
12960395 TATATACATACTTTT-TATATTTTATGATAGT
1 TATATACATACTTTTATATATTTTATGATACT
12960426 TATATAC
1 TATATAC
12960433 GTATATATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (32 bp):
TATATACATACTTTTATATATTTTATGATACT
Found at i:12967839 original size:21 final size:21
Alignment explanation
Indices: 12967799--12967839 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12967789 ATTGTTTATT
*
12967799 TATTTATTTTATTATTTTAAA
1 TATTTATTCTATTATTTTAAA
12967820 TATTTATTCT-TTATTCTTAA
1 TATTTATTCTATTATT-TTAA
12967840 GTTTCTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTATTCTATTATTTTAAA
Found at i:12967918 original size:110 final size:111
Alignment explanation
Indices: 12967785--12968005 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 111
12967775 ATAGAATTCA
12967785 TTCAATTGTTTATTTATTTATTTTATTATTTTAAATATTTATTCTTTATTCTTAAGTTTCTTGTA
1 TTCAATTGTTTATTTATTTATTTTATTATTTTAAATATTTATTCTTTATTCTTAAGTTTCTTGTA
12967850 TAAGTTATTTTTTTGTTTTCCTAAATCAGTTTG-TTTCTTCTTTTC
66 TAAGTTATTTTTTTGTTTTCCTAAATCAGTTTGATTTCTTCTTTTC
12967895 TTCAATTGTTTATTTATTTATTTTATTATTTTAAATATTTATTCTTTATTCTTAAGTTTCTTGTA
1 TTCAATTGTTTATTTATTTATTTTATTATTTTAAATATTTATTCTTTATTCTTAAGTTTCTTGTA
12967960 TAAGTTATTTTTTTGTTTTCCTAAATCAGTTTGATTTCTTCTTTTC
66 TAAGTTATTTTTTTGTTTTCCTAAATCAGTTTGATTTCTTCTTTTC
12968006 AAGTTAATTC
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 98 0.89
111 12 0.11
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.63
Consensus pattern (111 bp):
TTCAATTGTTTATTTATTTATTTTATTATTTTAAATATTTATTCTTTATTCTTAAGTTTCTTGTA
TAAGTTATTTTTTTGTTTTCCTAAATCAGTTTGATTTCTTCTTTTC
Found at i:12967949 original size:21 final size:21
Alignment explanation
Indices: 12967909--12967949 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12967899 ATTGTTTATT
*
12967909 TATTTATTTTATTATTTTAAA
1 TATTTATTCTATTATTTTAAA
12967930 TATTTATTCT-TTATTCTTAA
1 TATTTATTCTATTATT-TTAA
12967950 GTTTCTTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (21 bp):
TATTTATTCTATTATTTTAAA
Found at i:12969637 original size:10 final size:10
Alignment explanation
Indices: 12969620--12969648 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12969610 GAGCATTTGG
12969620 GAGC-AAAAT
1 GAGCGAAAAT
12969629 GAGCGAAAAT
1 GAGCGAAAAT
12969639 GAGCGAAAAT
1 GAGCGAAAAT
12969649 CAAAAAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.21
10 15 0.79
ACGTcount: A:0.52, C:0.10, G:0.28, T:0.10
Consensus pattern (10 bp):
GAGCGAAAAT
Found at i:12984539 original size:34 final size:34
Alignment explanation
Indices: 12984456--12984546 Score: 137
Period size: 34 Copynumber: 2.7 Consensus size: 34
12984446 TAGACTCTGG
* * * *
12984456 AGTAAACCATCAATCATTAACAACTTTCCTTCAG
1 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
12984490 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
1 AGTAAACCATCACTCATTCACAACTTTCCTCCAC
*
12984524 AGTAAACCATTACTCATTCACAA
1 AGTAAACCATCACTCATTCACAA
12984547 GTTCCTAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 52 1.00
ACGTcount: A:0.37, C:0.31, G:0.04, T:0.27
Consensus pattern (34 bp):
AGTAAACCATCACTCATTCACAACTTTCCTCCAC
Found at i:12987689 original size:24 final size:24
Alignment explanation
Indices: 12987646--12987691 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
12987636 GATCATAGTG
*
12987646 TTTTGTTTTAGAATTGTGATTTAT
1 TTTTGTTTTAGAATTCTGATTTAT
12987670 TTTTGTTTTAG-ATTACTGATTT
1 TTTTGTTTTAGAATT-CTGATTT
12987692 CTATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.20, C:0.02, G:0.15, T:0.63
Consensus pattern (24 bp):
TTTTGTTTTAGAATTCTGATTTAT
Found at i:12987814 original size:20 final size:20
Alignment explanation
Indices: 12987789--12987850 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
12987779 GTATCTCTGA
12987789 TTGCACATTCGTACCCCTGT
1 TTGCACATTCGTACCCCTGT
* * *
12987809 TTGCAC-TTCGATATCCTTGA
1 TTGCACATTCG-TACCCCTGT
*
12987829 TTGCACA-TCTGTGCCCCTGT
1 TTGCACATTC-GTACCCCTGT
12987849 TT
1 TT
12987851 TGCATCTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 4 0.12
20 27 0.84
21 1 0.03
ACGTcount: A:0.15, C:0.31, G:0.16, T:0.39
Consensus pattern (20 bp):
TTGCACATTCGTACCCCTGT
Found at i:12997156 original size:12 final size:12
Alignment explanation
Indices: 12997141--12997165 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12997131 TTTTGTCCTT
12997141 TTACTATTATTA
1 TTACTATTATTA
12997153 TTACTATTATTA
1 TTACTATTATTA
12997165 T
1 T
12997166 ATTTATAATG
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:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTACTATTATTA
Found at i:12997981 original size:12 final size:12
Alignment explanation
Indices: 12997966--12997991 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12997956 TAATCAACTA
12997966 GGTACCAATTTT
1 GGTACCAATTTT
12997978 GGTACCAATTTT
1 GGTACCAATTTT
12997990 GG
1 GG
12997992 GCGCATCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (12 bp):
GGTACCAATTTT
Found at i:13003313 original size:74 final size:75
Alignment explanation
Indices: 13003232--13003381 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 75
13003222 ATTTTTGCTT
13003232 TGCTAAAATCATATCAAAAATAAAATTTAATATTATTTTAATTAATGTTATTAAAAAAATAATT-
1 TGCTAAAATCATATCAAAAATAAAATTTAATATTATTTTAATTAATGTTATTAAAAAAATAATTA
13003296 TTATTTTAAA
66 TTATTTTAAA
13003306 TGCTAAAATCATATCAAAAATAAAATTTAATATTATTTTAATTAATGTTATTAAAAAAATAATTA
1 TGCTAAAATCATATCAAAAATAAAATTTAATATTATTTTAATTAATGTTATTAAAAAAATAATTA
13003371 TTATTTTAAA
66 TTATTTTAAA
13003381 T
1 T
13003382 TAAATGTTAT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.85
75 11 0.15
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (75 bp):
TGCTAAAATCATATCAAAAATAAAATTTAATATTATTTTAATTAATGTTATTAAAAAAATAATTA
TTATTTTAAA
Found at i:13003362 original size:37 final size:37
Alignment explanation
Indices: 13003247--13003362 Score: 121
Period size: 37 Copynumber: 3.1 Consensus size: 37
13003237 AAATCATATC
13003247 AAAAATAAAATTTAATATTATTTTAATTAATGTTATT
1 AAAAATAAAATTTAATATTATTTTAATTAATGTTATT
* * ** ** *
13003284 AAAAA-AATAATTTTATTTTAAATGCTAA--AATCATATC
1 AAAAATAA-AATTTAATATT--ATTTTAATTAATGTTATT
13003321 AAAAATAAAATTTAATATTATTTTAATTAATGTTATT
1 AAAAATAAAATTTAATATTATTTTAATTAATGTTATT
13003358 AAAAA
1 AAAAA
13003363 AATAATTATT
Statistics
Matches: 59, Mismatches: 14, Indels: 12
0.69 0.16 0.14
Matches are distributed among these distances:
35 5 0.08
36 2 0.03
37 45 0.76
38 2 0.03
39 5 0.08
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (37 bp):
AAAAATAAAATTTAATATTATTTTAATTAATGTTATT
Found at i:13006534 original size:2 final size:2
Alignment explanation
Indices: 13006527--13006552 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13006517 GCTTGACAAA
13006527 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
13006553 TACTTAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13007563 original size:27 final size:27
Alignment explanation
Indices: 13007520--13007586 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
13007510 ACCAACCTAA
* *
13007520 CTAATGTGGGAAGCCCGTCAGGACTAT
1 CTAACGTGGGAAGCCCGTCAGGACCAT
* *
13007547 CTACCGTGGGAAGCCCGTTAGGACCAT
1 CTAACGTGGGAAGCCCGTCAGGACCAT
*
13007574 CTAATGTGGGAAG
1 CTAACGTGGGAAG
13007587 TTTGTTAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.21
Consensus pattern (27 bp):
CTAACGTGGGAAGCCCGTCAGGACCAT
Found at i:13011531 original size:26 final size:26
Alignment explanation
Indices: 13011495--13011546 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13011485 TAATAGAGAG
13011495 ATCATTACTCAGAAACCACAAATCTA
1 ATCATTACTCAGAAACCACAAATCTA
13011521 ATCATTACTCAGAAACCACAAATCTA
1 ATCATTACTCAGAAACCACAAATCTA
13011547 TCCTATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (26 bp):
ATCATTACTCAGAAACCACAAATCTA
Found at i:13017676 original size:8 final size:8
Alignment explanation
Indices: 13017632--13017729 Score: 54
Period size: 8 Copynumber: 11.0 Consensus size: 8
13017622 ATTAAAATAT
13017632 TATAACAAA
1 TATAA-AAA
*
13017641 TTTAGAAAA
1 TATA-AAAA
*
13017650 TTATAAAAGT
1 -TATAAAA-A
13017660 TATAAAAAA
1 TAT-AAAAA
13017669 CTATAAAAA
1 -TATAAAAA
13017678 TA-AAAAA
1 TATAAAAA
* *
13017685 TAGAAAAT
1 TATAAAAA
13017693 TATAAAAA
1 TATAAAAA
13017701 TTATAAAAAAA
1 -TAT--AAAAA
13017712 GTTATAAAAA
1 --TATAAAAA
13017722 TATAAAAA
1 TATAAAAA
13017730 CAATCATAGA
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
7 7 0.10
8 20 0.28
9 20 0.28
10 16 0.22
11 5 0.07
12 4 0.06
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:13017682 original size:16 final size:15
Alignment explanation
Indices: 13017661--13017709 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 15
13017651 TATAAAAGTT
13017661 ATAAAAAACTATAAAA
1 ATAAAAAA-TATAAAA
*
13017677 ATAAAAAATAGAAAA
1 ATAAAAAATATAAAA
*
13017692 TTATAAAAATTATAAAA
1 --ATAAAAAATATAAAA
13017709 A
1 A
13017710 AAGTTATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 13 0.46
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:13017694 original size:42 final size:45
Alignment explanation
Indices: 13017643--13017729 Score: 135
Period size: 42 Copynumber: 2.0 Consensus size: 45
13017633 ATAACAAATT
*
13017643 TAGAAAATTATAAAAGTTAT-AAAAAA-CTATAAAAATA-AAAAA
1 TAGAAAATTATAAAAATTATAAAAAAAGCTATAAAAATATAAAAA
*
13017685 TAGAAAATTATAAAAATTATAAAAAAAGTTATAAAAATATAAAAA
1 TAGAAAATTATAAAAATTATAAAAAAAGCTATAAAAATATAAAAA
13017730 CAATCATAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 19 0.47
43 6 0.15
44 10 0.25
45 5 0.12
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.25
Consensus pattern (45 bp):
TAGAAAATTATAAAAATTATAAAAAAAGCTATAAAAATATAAAAA
Found at i:13017709 original size:9 final size:9
Alignment explanation
Indices: 13017624--13017729 Score: 80
Period size: 9 Copynumber: 11.7 Consensus size: 9
13017614 TTAATTATAT
13017624 TAAAATATTA
1 TAAAA-ATTA
13017634 TAACAAATT-
1 TAA-AAATTA
13017643 TAGAAAATTA
1 TA-AAAATTA
*
13017653 TAAAAGTTA
1 TAAAAATTA
*
13017662 TAAAAAACTA
1 T-AAAAATTA
13017672 TAAAAA-TA
1 TAAAAATTA
13017680 -AAAAA-TA
1 TAAAAATTA
*
13017687 -GAAAATTA
1 TAAAAATTA
13017695 TAAAAATTA
1 TAAAAATTA
13017704 TAAAAAAAGTTA
1 T--AAAAA-TTA
13017716 TAAAAA-TA
1 TAAAAATTA
13017724 TAAAAA
1 TAAAAA
13017730 CAATCATAGA
Statistics
Matches: 82, Mismatches: 5, Indels: 20
0.77 0.05 0.19
Matches are distributed among these distances:
7 11 0.13
8 12 0.15
9 27 0.33
10 21 0.26
11 7 0.09
12 4 0.05
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (9 bp):
TAAAAATTA
Found at i:13017720 original size:20 final size:20
Alignment explanation
Indices: 13017646--13017729 Score: 64
Period size: 20 Copynumber: 4.1 Consensus size: 20
13017636 ACAAATTTAG
**
13017646 AAAATTATAAAAGTTAT-AA
1 AAAATTATAAAAAATATAAA
* * *
13017665 AAAACTATAAAAATAAAAAATA
1 AAAATTATAAAAA-ATATAA-A
*
13017687 GAAAATTATAAAAATTATAAA
1 -AAAATTATAAAAAATATAAA
13017708 AAAAGTTAT-AAAAATATAAA
1 AAAA-TTATAAAAAATATAAA
13017728 AA
1 AA
13017730 CAATCATAGA
Statistics
Matches: 50, Mismatches: 10, Indels: 9
0.72 0.14 0.13
Matches are distributed among these distances:
19 11 0.22
20 17 0.34
21 6 0.12
22 4 0.08
23 12 0.24
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAATTATAAAAAATATAAA
Found at i:13017993 original size:10 final size:10
Alignment explanation
Indices: 13017968--13018027 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 10
13017958 TTTATAAATT
13017968 TTATATAAAGA
1 TTATATAAA-A
13017979 GTTATATAAAA
1 -TTATATAAAA
13017990 TTATATAAAAA
1 TTATAT-AAAA
13018001 TTAT-TAAAA
1 TTATATAAAA
*
13018010 TGATA-AAAA
1 TTATATAAAA
13018019 --ATATAAAA
1 TTATATAAAA
13018027 T
1 T
13018028 ATAAAAAAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
7 3 0.07
8 4 0.09
9 11 0.26
10 7 0.16
11 9 0.21
12 9 0.21
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (10 bp):
TTATATAAAA
Found at i:13017996 original size:24 final size:20
Alignment explanation
Indices: 13017968--13018037 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 20
13017958 TTTATAAATT
*
13017968 TTATATAAAGAGTTATATAAAA
1 TTATATAAA-AATTAT-TAAAA
13017990 TTATATAAAAATTATTAAAA
1 TTATATAAAAATTATTAAAA
*
13018010 TGATA-AAAAA-TA-TAAAA
1 TTATATAAAAATTATTAAAA
*
13018027 -TATAAAAAAAT
1 TTATATAAAAAT
13018038 ATTTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
16 3 0.07
17 10 0.23
18 2 0.05
19 5 0.12
20 9 0.21
21 5 0.12
22 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TTATATAAAAATTATTAAAA
Found at i:13018017 original size:18 final size:16
Alignment explanation
Indices: 13017982--13018035 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 16
13017972 ATAAAGAGTT
13017982 ATATAAAATTATATAAAA
1 ATATAAAA-TATA-AAAA
13018000 ATTATTAAAATGATAAAAA
1 A-TA-TAAAAT-ATAAAAA
13018019 ATATAAAATATAAAAA
1 ATATAAAATATAAAAA
13018035 A
1 A
13018036 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
16 8 0.24
17 6 0.18
18 3 0.09
19 8 0.24
20 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATATAAAATATAAAAA
Found at i:13018313 original size:18 final size:17
Alignment explanation
Indices: 13018292--13018338 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
13018282 TATTTGATAC
13018292 TTTTTTATAATTATCCTA-
1 TTTTTTATAATTAT--TAT
* *
13018310 TTTTTCATAATTGTTAT
1 TTTTTTATAATTATTAT
13018327 TTTTTTATAATT
1 TTTTTTATAATT
13018339 TTTAGACTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 2 0.08
17 11 0.44
18 12 0.48
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTTATAATTATTAT
Found at i:13018384 original size:31 final size:31
Alignment explanation
Indices: 13018348--13018436 Score: 110
Period size: 31 Copynumber: 2.9 Consensus size: 31
13018338 TTTTAGACTT
*
13018348 AAATAATTTTAAAAATTAATTAAGTCCTTA-A
1 AAATAA-TTTAAAAATTAATTAAGTCCTCATA
* *
13018379 AAATAA-TTAAAATTTAATTATGTCCTCATA
1 AAATAATTTAAAAATTAATTAAGTCCTCATA
* *
13018409 AAATCATTTAAAAATTAATTAAGCCCTC
1 AAATAATTTAAAAATTAATTAAGTCCTC
13018437 CTTATTAGCA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
29 19 0.39
30 6 0.12
31 24 0.49
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.37
Consensus pattern (31 bp):
AAATAATTTAAAAATTAATTAAGTCCTCATA
Found at i:13018388 original size:29 final size:31
Alignment explanation
Indices: 13018356--13018436 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 31
13018346 TTAAATAATT
*
13018356 TTAAAAATTAATTAAGTCCTTA-AAAAT-AA
1 TTAAAAATTAATTAAGTCCTCATAAAATCAA
* * *
13018385 TTAAAATTTAATTATGTCCTCATAAAATCAT
1 TTAAAAATTAATTAAGTCCTCATAAAATCAA
*
13018416 TTAAAAATTAATTAAGCCCTC
1 TTAAAAATTAATTAAGTCCTC
13018437 CTTATTAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 19 0.44
30 5 0.12
31 19 0.44
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.37
Consensus pattern (31 bp):
TTAAAAATTAATTAAGTCCTCATAAAATCAA
Found at i:13019701 original size:13 final size:13
Alignment explanation
Indices: 13019683--13019707 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13019673 ATCAAATTTG
13019683 TATGTACTCTTTA
1 TATGTACTCTTTA
13019696 TATGTACTCTTT
1 TATGTACTCTTT
13019708 CACTAATAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TATGTACTCTTTA
Found at i:13020238 original size:29 final size:29
Alignment explanation
Indices: 13020205--13020272 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
13020195 AACAAATGCA
* *
13020205 ACAATTTCCAGTTTGGA-TGAAAACAGCAG
1 ACAATTTCCAATTT-CATTGAAAACAGCAG
*
13020234 ACAATTTCCAATTTCATTGAAAACTGCAG
1 ACAATTTCCAATTTCATTGAAAACAGCAG
*
13020263 ACGATTTCCA
1 ACAATTTCCA
13020273 TTGCAACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.28
Consensus pattern (29 bp):
ACAATTTCCAATTTCATTGAAAACAGCAG
Found at i:13021613 original size:9 final size:9
Alignment explanation
Indices: 13021599--13021628 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
13021589 AAGATGCGAA
13021599 GAAATATGC
1 GAAATATGC
13021608 GAAATATGC
1 GAAATATGC
13021617 GAAATATGC
1 GAAATATGC
13021626 GAA
1 GAA
13021629 GATGGAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (9 bp):
GAAATATGC
Found at i:13022080 original size:14 final size:14
Alignment explanation
Indices: 13022063--13022100 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
13022053 GTCTAACTCT
13022063 TAACCCCTAATGTC
1 TAACCCCTAATGTC
13022077 TAACCCCTAATGTC
1 TAACCCCTAATGTC
13022091 TAACCCCTAA
1 TAACCCCTAA
13022101 CCCCTAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (14 bp):
TAACCCCTAATGTC
Found at i:13022918 original size:111 final size:112
Alignment explanation
Indices: 13022668--13023253 Score: 808
Period size: 111 Copynumber: 5.2 Consensus size: 112
13022658 AATACTATCT
* * * * *
13022668 CTTTCTTAAAAACGCCGCTAAATACCCGAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGATTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* **
13022733 TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCTTGAGCATT-AGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAATG-CTT-A-TTTTCAGCGGCG
*
13022782 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCATCGTTGGGCTTAGG-TTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* *
13022846 TTGCGGCGCTTTCTCAAAAATGCCACTAATGCTTATTTTCAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCG
*
13022893 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGTGTCGTTGGGCTTAGG-TTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* *
13022957 TTGCGGCGCTTTCTCAAAAATGCCACTAATGCTTATTTTCAGCGGCG
66 TTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCG
13023004 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
1 CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
* * * * **
13023069 TTGCAGCTCTTTCTCAACAAA-GCCGCTAAAGCCCTGAGCATT-AGCGGCG
66 TTGCGGCGCTTTCTCAA-AAACGCCGCTAATG--CTTA-TTTTCAGCGGCG
*
13023118 -TTT-TTAAGAAAGCGCCGCTAAATCCCCCAATGCTCAGAAAACGGAGTCGTTGGGCTTAGGTTT
1 CTTTCTTAA-AAA-CGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
13023181 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCG
64 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCG
* * *
13023230 TTTTTTTATCCAAACGCCGCTAAA
1 CTTTCTTA--AAAACGCCGCTAAA
13023254 AGCCTATTTT
Statistics
Matches: 430, Mismatches: 28, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
110 2 0.00
111 178 0.41
112 44 0.10
113 47 0.11
114 154 0.36
115 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (112 bp):
CTTTCTTAAAAACGCCGCTAAATCCCCCAATGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTTTT
TTGCGGCGCTTTCTCAAAAACGCCGCTAATGCTTATTTTCAGCGGCG
Found at i:13023918 original size:16 final size:16
Alignment explanation
Indices: 13023885--13023919 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13023875 AAAAAATACA
* *
13023885 AAATATATATTTTTTC
1 AAATATATATATTATC
13023901 AAATATATATATTATC
1 AAATATATATATTATC
13023917 AAA
1 AAA
13023920 AACATTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (16 bp):
AAATATATATATTATC
Found at i:13024026 original size:2 final size:2
Alignment explanation
Indices: 13024019--13024046 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13024009 GAAACATAAA
13024019 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
13024047 TTTACTTATT
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):
AT
Found at i:13027653 original size:13 final size:12
Alignment explanation
Indices: 13027634--13027668 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
13027624 TCCAATAAAT
13027634 TTTATATTAATA
1 TTTATATTAATA
*
13027646 TTTAATATTTATA
1 TTT-ATATTAATA
13027659 TTTATATTAA
1 TTTATATTAA
13027669 ATAATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATTAATA
Found at i:13027658 original size:19 final size:19
Alignment explanation
Indices: 13027629--13027671 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
13027619 TCCCATCCAA
13027629 TAAAT-TTTATATTAATAT
1 TAAATATTTATATTAATAT
* *
13027647 TTAATATTTATATTTATAT
1 TAAATATTTATATTAATAT
13027666 TAAATA
1 TAAATA
13027672 ATCAATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAATATTTATATTAATAT
Found at i:13027883 original size:20 final size:19
Alignment explanation
Indices: 13027848--13027925 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 19
13027838 TTAATAAATC
* *
13027848 ATAAAAA-ATATAAAATTA
1 ATAAAAATATTTAAAATTT
13027866 ATAAAACATATTTAAAATTTT
1 ATAAAA-ATATTTAAAA-TTT
*
13027887 ATAAAAATGTATTAAAATTCT
1 ATAAAAATAT-TTAAAATT-T
13027908 ATAAAAA-ATATTAAAATT
1 ATAAAAATAT-TTAAAATT
13027926 GATATGAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
18 6 0.12
19 1 0.02
20 22 0.43
21 22 0.43
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (19 bp):
ATAAAAATATTTAAAATTT
Found at i:13027892 original size:21 final size:20
Alignment explanation
Indices: 13027848--13027925 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 20
13027838 TTAATAAATC
* *
13027848 ATAAAAA-ATATAAAA-TTA
1 ATAAAAATATTTAAAATTTT
13027866 ATAAAACATATTTAAAATTTT
1 ATAAAA-ATATTTAAAATTTT
* *
13027887 ATAAAAATGTATTAAAATTCT
1 ATAAAAATAT-TTAAAATTTT
13027908 ATAAAAA-ATATTAAAATT
1 ATAAAAATAT-TTAAAATT
13027926 GATATGAACT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
18 6 0.12
19 1 0.02
20 20 0.39
21 24 0.47
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAAAAATATTTAAAATTTT
Found at i:13028121 original size:18 final size:17
Alignment explanation
Indices: 13028094--13028129 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
13028084 AATGTTTTAT
*
13028094 TTAATTGAACTGGACAAA
1 TTAATCGAACTGGA-AAA
13028112 TTAATCGAACTGGAAAA
1 TTAATCGAACTGGAAAA
13028129 T
1 T
13028130 CAATGGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (17 bp):
TTAATCGAACTGGAAAA
Found at i:13028414 original size:10 final size:9
Alignment explanation
Indices: 13028391--13028430 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
13028381 TTTATATCAA
13028391 TTTTAATAT
1 TTTTAATAT
13028400 TTTTAATACT
1 TTTTAATA-T
13028410 TTTTAA-AT
1 TTTTAATAT
*
13028418 ATTTAATAT
1 TTTTAATAT
13028427 TTTT
1 TTTT
13028431 CTGATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.22
9 14 0.52
10 7 0.26
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTAATAT
Found at i:13028422 original size:18 final size:18
Alignment explanation
Indices: 13028391--13028456 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 18
13028381 TTTATATCAA
*
13028391 TTTTAATATTTTTAATACT
1 TTTTAATATATTTAATA-T
13028410 TTTTAA-ATATTTAATAT
1 TTTTAATATATTTAATAT
*
13028427 TTTT-CTGATTATTT--TAT
1 TTTTAAT-A-TATTTAATAT
13028444 TTTTAATATATTT
1 TTTTAATATATTT
13028457 TATGGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
16 5 0.12
17 13 0.32
18 11 0.28
19 11 0.28
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTAATATATTTAATAT
Found at i:13029912 original size:18 final size:18
Alignment explanation
Indices: 13029889--13029924 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13029879 TTCATAGATT
13029889 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
13029907 TTTTAATATCTATTTAAA
1 TTTTAATATCTATTTAAA
13029925 ATTGGCGCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATATCTATTTAAA
Found at i:13035966 original size:31 final size:31
Alignment explanation
Indices: 13035930--13035991 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
13035920 GCCACCAGGC
*
13035930 AAACACTTCATTCTATATCTTAGCATGCAGT
1 AAACACTTCAATCTATATCTTAGCATGCAGT
13035961 AAACACTTCAATCTATATCTTAGCATGCAGT
1 AAACACTTCAATCTATATCTTAGCATGCAGT
13035992 TACAGTGGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (31 bp):
AAACACTTCAATCTATATCTTAGCATGCAGT
Found at i:13040049 original size:108 final size:108
Alignment explanation
Indices: 13039857--13040053 Score: 297
Period size: 108 Copynumber: 1.8 Consensus size: 108
13039847 AATATATATA
* * *
13039857 TTTTTAACATATTTGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGTACCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
*
13039922 CACCACGGTTACTCGATTTGACATTTTTTTTCTCTTTTTTCAT
66 CACCACGGTTACTCAATTTGACATTTTTTTTCTCTTTTTTCAT
* *
13039965 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGTGAAATGAGATGACAACCCAAGCCCCT
1 TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
* * *
13040030 TACC-CTTGTTACTTAATTTGACAT
66 CACCAC-GGTTACTCAATTTGACAT
13040054 ATCCCTAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 1 0.01
108 78 0.99
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (108 bp):
TTTTTAACAAATTCGAGACATAGTCAAATCTTTTTACGCGAAATGAGATGACAACCCAAGCACCT
CACCACGGTTACTCAATTTGACATTTTTTTTCTCTTTTTTCAT
Found at i:13042280 original size:25 final size:25
Alignment explanation
Indices: 13042251--13042348 Score: 94
Period size: 25 Copynumber: 3.9 Consensus size: 25
13042241 AAAGTCACCA
*
13042251 CAGCTTGTATGAGCTTACCGATT-T
1 CAGCTCGTATGAGCTTACCGATTCT
*
13042275 GTAGCTCGTGA-GAGCTTACCGATTCT
1 -CAGCTCGT-ATGAGCTTACCGATTCT
*
13042301 CAGCTCGTATGAGCTTACC-ATATTT
1 CAGCTCGTATGAGCTTACCGAT-TCT
* * *
13042326 CAGCTCGAAGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGATT
13042349 ATGGCTCGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
24 3 0.05
25 54 0.89
26 4 0.07
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATTCT
Found at i:13042344 original size:50 final size:50
Alignment explanation
Indices: 13042251--13042348 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
13042241 AAAGTCACCA
* *
13042251 CAGCTTGTATGAGCTTACCGATTTGTAGCTCGTGAGAGCTTACCGATTCT
1 CAGCTCGTATGAGCTTACCGATTTGTAGCTCGAGAGAGCTTACCGATTCT
*
13042301 CAGCTCGTATGAGCTTACC-ATATT-TCAGCTCGA-AGGAGTTTACCGATT
1 CAGCTCGTATGAGCTTACCGAT-TTGT-AGCTCGAGA-GAGCTTACCGATT
13042349 ATGGCTCGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 4 0.10
50 38 0.90
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTACCGATTTGTAGCTCGAGAGAGCTTACCGATTCT
Found at i:13042646 original size:24 final size:24
Alignment explanation
Indices: 13042614--13042663 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13042604 GATTTTTATG
13042614 TGTATACATGGCTAACTTGGTGAA
1 TGTATACATGGCTAACTTGGTGAA
13042638 TGTATACATGGCTAACTTGGTGAA
1 TGTATACATGGCTAACTTGGTGAA
13042662 TG
1 TG
13042664 GTTATGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (24 bp):
TGTATACATGGCTAACTTGGTGAA
Found at i:13042896 original size:2 final size:2
Alignment explanation
Indices: 13042889--13042919 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13042879 ACTTTTGACT
13042889 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13042920 TTGGGTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13044157 original size:84 final size:85
Alignment explanation
Indices: 13044064--13044244 Score: 346
Period size: 84 Copynumber: 2.1 Consensus size: 85
13044054 CGGAATTAAA
13044064 TTATATATTTTTACGATAATAAAAATAGAATTTCATCATTTTAATAGACTATATATTTATAATTT
1 TTAT-TATTTTTACGATAATAAAAATAGAATTTCATCATTTTAATAGACTATATATTTATAATTT
13044129 TTAAATGATTAAATT-AATTT
65 TTAAATGATTAAATTAAATTT
13044149 TTATTATTTTTACGATAATAAAAATAGAATTTCATCATTTTAATAGACTATATATTTATAATTTT
1 TTATTATTTTTACGATAATAAAAATAGAATTTCATCATTTTAATAGACTATATATTTATAATTTT
13044214 TAAATGATTAAATTAAATTT
66 TAAATGATTAAATTAAATTT
13044234 TTATTATTTTT
1 TTATTATTTTT
13044245 TGAAGGGCCA
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
84 75 0.79
85 20 0.21
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (85 bp):
TTATTATTTTTACGATAATAAAAATAGAATTTCATCATTTTAATAGACTATATATTTATAATTTT
TAAATGATTAAATTAAATTT
Found at i:13054014 original size:125 final size:126
Alignment explanation
Indices: 13053817--13054171 Score: 570
Period size: 125 Copynumber: 2.8 Consensus size: 126
13053807 ATTATTTCGA
*
13053817 GTTGACGTTTCTG-GTCAAATTGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
1 GTTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTG
13053881 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
** * * *
13053943 -TTGACGTTTCTGAGCAAATAGTATAAAATTACTTCTACGAGGATGTTATTTGAGAAGAAATTAT
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
13054007 GAAATCGCGCCCTCGTAGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTTT
66 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
* * *
13054068 GTTAACGTTTCTGAGTAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAAAAAATTG
1 GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAG-AAGAAATTG
*
13054133 TGAAATCGCACCCTCGTGGACGCGATTTTGCTACAGTAG
65 TGAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
13054172 CAAGTTTGGG
Statistics
Matches: 208, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 115 0.55
126 49 0.24
127 44 0.21
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (126 bp):
GTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAAATTTTTT
Found at i:13057298 original size:10 final size:10
Alignment explanation
Indices: 13057283--13057307 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13057273 CAAATCTAAC
13057283 ATTATGTAAA
1 ATTATGTAAA
13057293 ATTATGTAAA
1 ATTATGTAAA
13057303 ATTAT
1 ATTAT
13057308 TAAGCCAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:13057392 original size:55 final size:56
Alignment explanation
Indices: 13057291--13057399 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 56
13057281 ACATTATGTA
*
13057291 AAATTATGTAAAATTATTAAGCCAGAAAAATTTTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGCCAGAAAAATTGTGTTAATGGTTAGTAAAATTATC
* *
13057347 AAATTATGTAAAATTATTAAGTC-TAAAAATTGTGTTAATGGTTAGTAAAATTA
1 AAATTATGTAAAATTATTAAGCCAGAAAAATTGTGTTAATGGTTAGTAAAATTA
13057400 AGTTAGGTTA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 28 0.56
56 22 0.44
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.39
Consensus pattern (56 bp):
AAATTATGTAAAATTATTAAGCCAGAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:13057643 original size:29 final size:29
Alignment explanation
Indices: 13057601--13057715 Score: 158
Period size: 29 Copynumber: 3.8 Consensus size: 29
13057591 NNNNNNNNNN
13057601 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 TTAGGGTTAGGGTTTTTAATT-A---A-GTTA-GG
* *
13057636 TTAGGGTTAGGGTTTTTAATTAAATTAGT
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
13057665 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGG
13057694 TTAGGGTTAGGGTTTTTAATTA
1 TTAGGGTTAGGGTTTTTAATTA
13057716 CCTCGAAAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
29 50 0.66
30 3 0.04
31 1 0.01
34 1 0.01
35 21 0.28
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TTAGGGTTAGGGTTTTTAATTAAGTTAGG
Found at i:13057647 original size:35 final size:35
Alignment explanation
Indices: 13057601--13057707 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
13057591 NNNNNNNNNN
13057601 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
*
13057636 TTAGGGTTAGGGTTTTTAATTAA---A--TTA-GT
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
13057665 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
1 TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
13057700 TTAGGGTT
1 TTAGGGTT
13057708 TTTAATTACC
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
29 24 0.38
30 3 0.05
32 2 0.03
34 3 0.05
35 32 0.50
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (35 bp):
TTAGGGTTAGGGTTTTTAATTAAGTTAGGTTAGGG
Found at i:13057796 original size:71 final size:71
Alignment explanation
Indices: 13057717--13057920 Score: 390
Period size: 71 Copynumber: 2.9 Consensus size: 71
13057707 TTTTAATTAC
* *
13057717 CTCGAAAAAAATTCTATGCCTATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATTA
1 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATATTA
13057782 AAATAA
66 AAATAA
13057788 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATATTA
1 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATATTA
13057853 AAATAA
66 AAATAA
13057859 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATA
1 CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATA
13057921 AATTTAAATA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 131 1.00
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.37
Consensus pattern (71 bp):
CTCGAAAAAATTTCTATGCCTATTATAACAAATAAACTTCTATTTTATTACATCAAATAATATTA
AAATAA
Found at i:13057822 original size:35 final size:35
Alignment explanation
Indices: 13057782--13057893 Score: 86
Period size: 35 Copynumber: 3.2 Consensus size: 35
13057772 AATAATATTA
13057782 AAATAACTCGAAAAAATTTCTATGCCTATTATAAC
1 AAATAACTCGAAAAAATTTCTATGCCTATTATAAC
* **** * * * *
13057817 AAATAAACTTCTATTTTATTAC-AT-CAAATAATATTA-
1 AAAT-AAC-TCGAAAAAATTTCTATGC--CTATTATAAC
13057853 AAATAACTCGAAAAAATTTCTATGCCTATTATAAC
1 AAATAACTCGAAAAAATTTCTATGCCTATTATAAC
13057888 AAATAA
1 AAATAA
13057894 ACTTCTATTT
Statistics
Matches: 52, Mismatches: 18, Indels: 14
0.62 0.21 0.17
Matches are distributed among these distances:
34 13 0.25
35 16 0.31
36 10 0.19
37 13 0.25
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (35 bp):
AAATAACTCGAAAAAATTTCTATGCCTATTATAAC
Found at i:13058445 original size:131 final size:132
Alignment explanation
Indices: 13058208--13058449 Score: 387
Period size: 131 Copynumber: 1.8 Consensus size: 132
13058198 CGAAGGTATG
* *
13058208 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCGCTCGGCATAACAGGAAATAGAGC
1 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
* **
13058273 TGAACCGGGTATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGATGGCCCCC
66 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGATGGCCCCC
13058338 CT
131 CT
* * * *
13058340 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATTGACGGT-CATTCGACATAACAGGAAATGGAGC
1 TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
*
13058404 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTTGGAAAAGGA
66 TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGA
13058450 TATATGTAAG
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
131 63 0.63
132 37 0.37
ACGTcount: A:0.25, C:0.29, G:0.25, T:0.21
Consensus pattern (132 bp):
TGCGATCCCTCCTGCGCCGCTGGCCTAGATATCGACGATCCACTCGACATAACAGGAAATAGAGC
TAAACCGGACATTTGGCTCCAACCTGCCATAGTATTCGGAAAAGGAGAGCTCTCCGATGGCCCCC
CT
Found at i:13059145 original size:7 final size:7
Alignment explanation
Indices: 13059135--13059159 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13059125 TTATATACAT
13059135 AATACTA
1 AATACTA
13059142 AATACTA
1 AATACTA
13059149 AATACTA
1 AATACTA
13059156 AATA
1 AATA
13059160 TCAATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:13060082 original size:9 final size:9
Alignment explanation
Indices: 13060011--13060089 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 9
13060001 GCCATTGATG
13060011 AAAATATAA
1 AAAATATAA
*
13060020 AAAATTTTAA
1 AAAA-TATAA
* * *
13060030 AATTATTTTA
1 AA-AATATAA
13060040 AAAATATAA
1 AAAATATAA
*
13060049 AAAATTTAA
1 AAAATATAA
* *
13060058 AATTATTTTAAA
1 AA--AATAT-AA
13060070 AAAATATAA
1 AAAATATAA
13060079 AAAATATAA
1 AAAATATAA
13060088 AA
1 AA
13060090 TTATTTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
9 31 0.56
10 15 0.27
11 5 0.09
12 4 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
AAAATATAA
Found at i:13060102 original size:29 final size:29
Alignment explanation
Indices: 13060011--13060103 Score: 152
Period size: 30 Copynumber: 3.2 Consensus size: 29
13060001 GCCATTGATG
13060011 AAAATATAAAAAATTTTAAAATTATTTT-A
1 AAAATATAAAAAA-TTTAAAATTATTTTAA
13060040 AAAATATAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAATTTAAAATTATTTT-AA
*
13060070 AAAATATAAAAAATATAAAATTATTTTAA
1 AAAATATAAAAAATTTAAAATTATTTTAA
13060099 AAAAT
1 AAAAT
13060104 GAAATTGAGG
Statistics
Matches: 61, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
28 14 0.23
29 20 0.33
30 27 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATATAAAAAATTTAAAATTATTTTAA
Found at i:13060160 original size:51 final size:51
Alignment explanation
Indices: 13060104--13060216 Score: 174
Period size: 51 Copynumber: 2.2 Consensus size: 51
13060094 TTTAAAAAAT
* * *
13060104 GAAATTGAGGGGAAATTGAATTTAAATATGGATTTGAGAGAATTTTCGG-AG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTT-GGAAG
*
13060155 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTCAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAG
13060206 GAAATTGAGAG
1 GAAATTGAGAG
13060217 AATTTTGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
50 2 0.04
51 55 0.96
ACGTcount: A:0.40, C:0.02, G:0.29, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTCAGAGAATTTTGGAAG
Found at i:13060216 original size:22 final size:22
Alignment explanation
Indices: 13060191--13060238 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
13060181 TATGGGTTTC
13060191 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
13060213 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
13060235 AGAG
1 AGAG
13060239 GATTAGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:13066721 original size:24 final size:21
Alignment explanation
Indices: 13066694--13066746 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
13066684 CATATCACTA
13066694 TTTAAAAGTAATAAAATATATTAT
1 TTTAAAA-TAAT-AAATATA-TAT
* **
13066718 TTTATAATAATATTTATATAT
1 TTTAAAATAATAAATATATAT
13066739 TTTAAAAT
1 TTTAAAAT
13066747 CTTAGCCCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 10 0.40
22 5 0.20
23 4 0.16
24 6 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTAAAATAATAAATATATAT
Found at i:13066725 original size:20 final size:21
Alignment explanation
Indices: 13066702--13066742 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
13066692 TATTTAAAAG
13066702 TAATAAAATATAT-TATTTTA
1 TAATAAAATATATATATTTTA
* *
13066722 TAATAATATTTATATATTTTA
1 TAATAAAATATATATATTTTA
13066743 AAATCTTAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TAATAAAATATATATATTTTA
Found at i:13070970 original size:14 final size:14
Alignment explanation
Indices: 13070951--13070988 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
13070941 CAATTCAACC
13070951 AACCTATATGTTCT
1 AACCTATATGTTCT
13070965 AACCTATATGTTCT
1 AACCTATATGTTCT
*
13070979 AACCAATATG
1 AACCTATATG
13070989 CCATTCAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (14 bp):
AACCTATATGTTCT
Found at i:13075485 original size:6 final size:6
Alignment explanation
Indices: 13075474--13075500 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13075464 GCCCGTTTTT
13075474 AATTAA AATTAA AATTAA AATTAA AAT
1 AATTAA AATTAA AATTAA AATTAA AAT
13075501 ATTGAATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:13082357 original size:20 final size:21
Alignment explanation
Indices: 13082313--13082357 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13082303 TTTTATGACT
* *
13082313 TTTATAGAATTTTAATATGTG
1 TTTATAAAATTTTAATATCTG
13082334 TTTATAAAATTTTAA-ATCTG
1 TTTATAAAATTTTAATATCTG
13082354 TTTA
1 TTTA
13082358 ATTAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTATAAAATTTTAATATCTG
Found at i:13082430 original size:10 final size:9
Alignment explanation
Indices: 13082237--13082447 Score: 60
Period size: 9 Copynumber: 22.6 Consensus size: 9
13082227 TTTTAATGAT
13082237 TTTTTAATAA
1 TTTTT-ATAA
*
13082247 TTTTTAAAA
1 TTTTTATAA
*
13082256 GTTTATATCAA
1 -TTTTTAT-AA
*
13082267 -TTTTATTAC
1 TTTTTA-TAA
*
13082276 TTTTAATAA
1 TTTTTATAA
**
13082285 TTCATAT-A
1 TTTTTATAA
*
13082293 TATTTATAA
1 TTTTTATAA
*
13082302 TTTTTATGA
1 TTTTTATAA
*
13082311 CTTTTATAGA
1 TTTTTATA-A
*
13082321 ATTTTA-ATA
1 TTTTTATA-A
13082330 TGTGTTTATAAA
1 T-T-TTTAT-AA
*
13082342 ATTTTA-AA
1 TTTTTATAA
13082350 TCTGTTTAATTAA
1 T-T-TTT-A-TAA
13082363 -TTTTATAA
1 TTTTTATAA
13082371 TTTTTATAA
1 TTTTTATAA
*
13082380 TTTTTA-AG
1 TTTTTATAA
*
13082388 TTTATATCAA
1 TTTTTAT-AA
* *
13082398 TTGTCAT-A
1 TTTTTATAA
*
13082406 TTTTTTTAA
1 TTTTTATAA
*
13082415 TATTTAATAA
1 T-TTTTATAA
*
13082425 TTTTTA-CA
1 TTTTTATAA
13082433 TTTTTGATAA
1 TTTTT-ATAA
13082443 TTTTT
1 TTTTT
13082448 TTCCTTTTTT
Statistics
Matches: 143, Mismatches: 36, Indels: 44
0.64 0.16 0.20
Matches are distributed among these distances:
8 27 0.19
9 53 0.37
10 50 0.35
11 9 0.06
12 1 0.01
13 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13084183 original size:29 final size:30
Alignment explanation
Indices: 13084150--13084217 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
13084140 AACACTCTAA
* * *
13084150 TTTTATAATTAATTTG-TTTCTCACCTTAT
1 TTTTATAATTAATTAGTTTTCTAACATTAT
*
13084179 TTTTATAATTAATTAGTTTTCTAATATTAT
1 TTTTATAATTAATTAGTTTTCTAACATTAT
13084209 TTTTATAAT
1 TTTTATAAT
13084218 AAAACCGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (30 bp):
TTTTATAATTAATTAGTTTTCTAACATTAT
Found at i:13084212 original size:14 final size:14
Alignment explanation
Indices: 13084175--13084218 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
13084165 GTTTCTCACC
13084175 TTATTTTTATAATTAA
1 TTATTTTTATAA-T-A
* *
13084191 TTAGTTTTCTAATA
1 TTATTTTTATAATA
13084205 TTATTTTTATAATA
1 TTATTTTTATAATA
13084219 AAACCGTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 1 0.04
16 10 0.42
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (14 bp):
TTATTTTTATAATA
Found at i:13085737 original size:57 final size:57
Alignment explanation
Indices: 13085668--13085822 Score: 292
Period size: 57 Copynumber: 2.7 Consensus size: 57
13085658 AGAAGAGAAA
* *
13085668 CACAAGGGAGAAGCTCATCACGAAGGCGGCCATGGCCATGGTTATGGCGCCGCTGAG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
13085725 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
13085782 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
1 CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGG
13085823 GGCCGCTGCG
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 96 1.00
ACGTcount: A:0.26, C:0.24, G:0.35, T:0.15
Consensus pattern (57 bp):
CACAAGGGAGAAGTTCATCACGAAGGCGGCCATGGCTATGGTTATGGCGCCGCTGAG
Found at i:13099290 original size:4 final size:4
Alignment explanation
Indices: 13099276--13099347 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
13099266 TAATTTCAAG
**
13099276 TTTA TTTTA TTTA TTTA TTCC TTT- TTGT- TCTTA TTTA TTTA TTTA TTCT-
1 TTTA -TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA TTTA TTTA TTTA TT-TA
**
13099325 TACA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
13099348 TTCTTGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
3 2 0.04
4 46 0.84
5 7 0.13
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:13101877 original size:30 final size:30
Alignment explanation
Indices: 13101842--13101987 Score: 174
Period size: 30 Copynumber: 4.9 Consensus size: 30
13101832 AAAAATTTTG
13101842 CATTTTGACCCCTAAATTTT-TCTAAAATTA
1 CATTTTGACCCCTAAATTTTCTC-AAAATTA
13101872 CATTTTGACCCCTAAATTTTCTCAAAATTA
1 CATTTTGACCCCTAAATTTTCTCAAAATTA
* *
13101902 CGTTTT-AACCCTAAACTTTTCT--AAATTA
1 CATTTTGACCCCTAAA-TTTTCTCAAAATTA
* * * *
13101930 CATTTTAACCTCGAAACTTTCTCAAAATTA
1 CATTTTGACCCCTAAATTTTCTCAAAATTA
* *
13101960 CATTTTGACCCCTAAACTTCCTCAAAAT
1 CATTTTGACCCCTAAATTTTCTCAAAAT
13101988 CACGTTTCGG
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
28 16 0.16
29 14 0.14
30 68 0.68
31 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATTTTGACCCCTAAATTTTCTCAAAATTA
Found at i:13101951 original size:58 final size:60
Alignment explanation
Indices: 13101842--13101978 Score: 188
Period size: 58 Copynumber: 2.3 Consensus size: 60
13101832 AAAAATTTTG
* * * * *
13101842 CATTTTGACCCCTAAATTTTTCTAAAATTACATTTTGACCCCTAAATTTTCTCAAAATTA
1 CATTTTGAACCCTAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
* *
13101902 CGTTTT-AACCCTAAACTTTTCT-AAATTACATTTTAACCTCGAAACTTTCTCAAAATTA
1 CATTTTGAACCCTAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
*
13101960 CATTTTGACCCCTAAACTT
1 CATTTTGAACCCTAAACTT
13101979 CCTCAAAATC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
58 37 0.55
59 25 0.37
60 5 0.07
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (60 bp):
CATTTTGAACCCTAAACTTTTCTAAAATTACATTTTAACCCCGAAACTTTCTCAAAATTA
Found at i:13102007 original size:30 final size:30
Alignment explanation
Indices: 13101943--13102008 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
13101933 TTTAACCTCG
* * * *
13101943 AAACTTTCTCAAAATTACATTTTGACCCCT
1 AAACTTCCTCAAAATCACATTTCGACCCCA
* *
13101973 AAACTTCCTCAAAATCACGTTTCGGCCCCA
1 AAACTTCCTCAAAATCACATTTCGACCCCA
13102003 AAACTT
1 AAACTT
13102009 TTGCTGCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.30, G:0.06, T:0.30
Consensus pattern (30 bp):
AAACTTCCTCAAAATCACATTTCGACCCCA
Found at i:13102339 original size:3 final size:3
Alignment explanation
Indices: 13102331--13102382 Score: 70
Period size: 3 Copynumber: 17.0 Consensus size: 3
13102321 CCTAGGGCTT
*
13102331 GAA GAA GAA GAC GAA GAA GAA GAA GAA GGAA -AA GAA GAA GAAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA G-AA GAA
13102377 GAA GAA
1 GAA GAA
13102383 AAAAAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 36 0.82
4 6 0.14
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13102389 original size:18 final size:18
Alignment explanation
Indices: 13102332--13102391 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
13102322 CTAGGGCTTG
* *
13102332 AAGAAGAAGACGAAGAAG-
1 AAGAAGAAGA-AAAAAAGA
13102350 AAGAAGAAGGAAAAGAAGAAGA
1 AAGAAGAA-G-AAA-AA-AAGA
13102372 AAGAAGAAGAAAAAAAGA
1 AAGAAGAAGAAAAAAAGA
13102390 AA
1 AA
13102392 AAAAACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 14 0.40
19 4 0.11
20 5 0.14
21 4 0.11
22 8 0.23
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAAAAAAGA
Found at i:13102528 original size:15 final size:14
Alignment explanation
Indices: 13102495--13102529 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
13102485 CCCATTGATT
13102495 TAAAAAAAAAACAA
1 TAAAAAAAAAACAA
*
13102509 CAAAAAAAAAACAAA
1 TAAAAAAAAAAC-AA
13102524 TAAAAA
1 TAAAAA
13102530 GGCAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.86, C:0.09, G:0.00, T:0.06
Consensus pattern (14 bp):
TAAAAAAAAAACAA
Found at i:13102529 original size:14 final size:14
Alignment explanation
Indices: 13102496--13102522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13102486 CCATTGATTT
13102496 AAAAAAAAAACAAC
1 AAAAAAAAAACAAC
13102510 AAAAAAAAAACAA
1 AAAAAAAAAACAA
13102523 ATAAAAAGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAC
Found at i:13102645 original size:24 final size:25
Alignment explanation
Indices: 13102589--13102648 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 25
13102579 AAGCTGACCC
*
13102589 ACCAGCAG-CCA-CAGCAGCCCAAC
1 ACCAGCAGCCCAGCAGCAGCCCAAA
*
13102612 AGCA-CAAGCCCAGC-GCAGCCCAAA
1 ACCAGC-AGCCCAGCAGCAGCCCAAA
13102636 ACCAGCAGCCCAG
1 ACCAGCAGCCCAG
13102649 GCCCGCGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 1 0.03
23 5 0.17
24 22 0.73
25 2 0.07
ACGTcount: A:0.35, C:0.45, G:0.20, T:0.00
Consensus pattern (25 bp):
ACCAGCAGCCCAGCAGCAGCCCAAA
Found at i:13102719 original size:24 final size:23
Alignment explanation
Indices: 13102676--13102752 Score: 79
Period size: 25 Copynumber: 3.3 Consensus size: 23
13102666 CAGCAGAGAG
13102676 AAAA-AAAAGAAAAAAGAGAGAAA
1 AAAAGAAAAGAAAAAA-AGAGAAA
13102699 AAAAGAATAAGAAAAAAAGAGGAAA
1 AAAAGAA-AAGAAAAAAAGA-GAAA
*
13102724 AAAGAGAAAA-AATAAAAA-ATAAA
1 AAA-AGAAAAGAA-AAAAAGAGAAA
13102747 AAAAGA
1 AAAAGA
13102753 GGGTTCAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
22 3 0.06
23 10 0.21
24 8 0.17
25 23 0.48
26 4 0.08
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (23 bp):
AAAAGAAAAGAAAAAAAGAGAAA
Found at i:13102730 original size:34 final size:35
Alignment explanation
Indices: 13102674--13102754 Score: 105
Period size: 34 Copynumber: 2.4 Consensus size: 35
13102664 CCCAGCAGAG
* *
13102674 AGAAAAAAA-AGAAAAAAGAGAGAAAAAA-AGAATA
1 AGAAAAAAAGAGGAAAAAGAGAGAAAAAATA-AAAA
13102708 AGAAAAAAAGAGGAAAAA-AGAGAAAAAATAAAAA
1 AGAAAAAAAGAGGAAAAAGAGAGAAAAAATAAAAA
*
13102742 ATAAAAAAAGAGG
1 AGAAAAAAAGAGG
13102755 GTTCAATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 34 0.81
35 8 0.19
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (35 bp):
AGAAAAAAAGAGGAAAAAGAGAGAAAAAATAAAAA
Found at i:13102740 original size:26 final size:25
Alignment explanation
Indices: 13102678--13102742 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
13102668 GCAGAGAGAA
13102678 AAAAAAGAAAAAAGAGAGAAAAAAAG
1 AAAAAA-AAAAAAGAGAGAAAAAAAG
*
13102704 AATAAGAAAAAAAGAG-GAAAAAAGAG
1 AA-AAAAAAAAAAGAGAGAAAAAA-AG
13102730 AAAAAATAAAAAA
1 AAAAAA-AAAAAA
13102743 TAAAAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 10 0.29
26 21 0.62
27 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (25 bp):
AAAAAAAAAAAAGAGAGAAAAAAAG
Found at i:13103108 original size:19 final size:18
Alignment explanation
Indices: 13103080--13103145 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
13103070 AAATTATATT
13103080 TTTC-AAAATTTTTCGTG
1 TTTCAAAAATTTTTCGTG
13103097 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAA-TTTT-TCGTG
* * *
13103118 TTTCAAAAAATATTCGCG
1 TTTCAAAAATTTTTCGTG
13103136 TTTTCAAAAA
1 -TTTCAAAAA
13103146 AATAAGGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 7 0.17
19 15 0.37
20 12 0.29
21 6 0.15
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (18 bp):
TTTCAAAAATTTTTCGTG
Found at i:13103122 original size:20 final size:19
Alignment explanation
Indices: 13103080--13103145 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
13103070 AAATTATATT
13103080 TTTC-AAAATTTT-TCGTG
1 TTTCAAAAATTTTCTCGTG
13103097 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAA-TTTTCTCGTG
* *
13103118 TTTCAAAAAATATTCGCGT-
1 TTTC-AAAAATTTTCTCGTG
13103137 TTTCAAAAA
1 TTTCAAAAA
13103146 AATAAGGCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
17 1 0.02
18 8 0.19
19 8 0.19
20 14 0.33
21 11 0.26
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTCAAAAATTTTCTCGTG
Found at i:13103380 original size:35 final size:34
Alignment explanation
Indices: 13103331--13103398 Score: 100
Period size: 35 Copynumber: 2.0 Consensus size: 34
13103321 AAAGATTTCG
13103331 TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
1 TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
* **
13103365 TTTTTCAAAATTTTTCGTGTTTTCAAAAAATTCT
1 TTTTTCAAAA-TTTTCATGTTTAAAAAAAATTCT
13103399 CGTGTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 10 0.33
35 20 0.67
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.50
Consensus pattern (34 bp):
TTTTTCAAAATTTTCATGTTTAAAAAAAATTCTA
Found at i:13103387 original size:19 final size:18
Alignment explanation
Indices: 13103366--13103884 Score: 250
Period size: 18 Copynumber: 28.6 Consensus size: 18
13103356 AAAATTCTAT
*
13103366 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13103384 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13103403 -TTTCAAAAAATCTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13103421 TTTTCAAAAATCTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13103439 TTTTC-AAGA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
13103454 TGTTTCAAAAATTTTCCTG
1 T-TTTCAAAAATTTTCGTG
**
13103473 TTTTCAAAAAAAAAAAATTCGTG
1 TTTTC-----AAAAATTTTCGTG
* *
13103496 -TTT-AAAAATTTTTGCG
1 TTTTCAAAAATTTTCGTG
* *
13103512 TTTTAAAAAAAAATTT-GTG
1 TTTT--CAAAAATTTTCGTG
** *
13103531 TTTTCAAAAATCCTCATG
1 TTTTCAAAAATTTTCGTG
*
13103549 TTTTC-AAAATTTTCATG
1 TTTTCAAAAATTTTCGTG
**
13103566 TTTTCAAAAAATTCCCGTG
1 TTTTC-AAAAATTTTCGTG
13103585 TTTT-AAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* ** *
13103602 -TTTCGAAAATACTAGTG
1 TTTTCAAAAATTTTCGTG
** *
13103619 TTTTTTAAAACTTTCGTG
1 TTTTCAAAAATTTTCGTG
13103637 -TTTCAAAAAATTTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13103655 TTTTCAAAAA-TTCCGATG
1 TTTTCAAAAATTTTCG-TG
*
13103673 --ATCAAAGAAATTTTTCGTG
1 TTTTC-AA-AAA-TTTTCGTG
*
13103692 TTTTCTAAAAACTGCTT--TG
1 TTTTC-AAAAA-T-TTTCGTG
13103711 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* ** * *
13103728 TTTTTTTAAAAAAAATCCAGTTT
1 ---TTTTCAAAAATTTTC-G-TG
* *
13103751 TTTTAAAAAAATTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13103769 TTTTCAAAAAATTTTCCTG
1 TTTTC-AAAAATTTTCGTG
*
13103788 -TTTC-AAAATTGTCGTG
1 TTTTCAAAAATTTTCGTG
* *
13103804 TTTTCAAAAAATTTCATG
1 TTTTCAAAAATTTTCGTG
* *
13103822 TTTTTAAGAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
13103840 -TCTCTAAAATTCTCGTG
1 TTTTCAAAAATTTTCGTG
* *
13103857 TTTTAAAAAATTTTAGTG
1 TTTTCAAAAATTTTCGTG
*
13103875 TGTTCAAAAA
1 TTTTCAAAAA
13103885 AAATGTTTCA
Statistics
Matches: 377, Mismatches: 82, Indels: 84
0.69 0.15 0.15
Matches are distributed among these distances:
15 4 0.01
16 33 0.09
17 82 0.22
18 142 0.38
19 56 0.15
20 29 0.08
21 16 0.04
22 4 0.01
23 11 0.03
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.45
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:13103813 original size:53 final size:53
Alignment explanation
Indices: 13103751--13103885 Score: 157
Period size: 53 Copynumber: 2.5 Consensus size: 53
13103741 AATCCAGTTT
* *
13103751 TTTTAAAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTTTC-AAAATTGTCGTG
1 TTTT-AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTG
* * * *
13103804 TTTTCAAAAAATTTCATGTTTT-TAAGAATTTTCGTGTCTCTAAAATTCTCGTG
1 TTTT-AAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTG
* *
13103857 TTTTAAAAAATTTTAGTGTGTTCAAAAAA
1 TTTTAAAAAA-TTTCGTGTTTTCAAAAAA
13103886 AATGTTTCAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
52 20 0.30
53 43 0.64
54 4 0.06
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (53 bp):
TTTTAAAAAATTTCGTGTTTTCAAAAAATTTTCCTGTCTCTAAAATTCTCGTG
Found at i:13103824 original size:34 final size:34
Alignment explanation
Indices: 13103758--13103824 Score: 109
Period size: 35 Copynumber: 2.0 Consensus size: 34
13103748 TTTTTTTAAA
*
13103758 AAAATTTCGTGTTTTCAAAAAATTTTCCTGTTTC
1 AAAATTTCGTGTTTTCAAAAAATTTTCATGTTTC
13103792 AAAATTGTCGTGTTTTCAAAAAA-TTTCATGTTT
1 AAAATT-TCGTGTTTTCAAAAAATTTTCATGTTT
13103825 TTAAGAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 15 0.48
35 16 0.52
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.46
Consensus pattern (34 bp):
AAAATTTCGTGTTTTCAAAAAATTTTCATGTTTC
Found at i:13113369 original size:74 final size:74
Alignment explanation
Indices: 13113262--13113687 Score: 663
Period size: 74 Copynumber: 5.6 Consensus size: 74
13113252 ATTTCTGTCT
*
13113262 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
13113327 CAATTTTTG
66 CAATTTTTG
13113336 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
*
13113401 TAATTTTTG
66 CAATTTTTG
13113410 TTTGTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
1 -TT-TTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
13113475 TTCAATTTTTG
64 TTCAATTTTTG
13113486 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
* * *
13113551 TAAGTTTCTA
66 CAA-TTTTTG
* * * *
13113561 TTTTTCAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGCCACATGCCGAGGTATCT
1 TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTAT-T
*
13113626 TTTCAATTTCTG
63 TTTCAATTTTTG
* *
13113638 TTTTTCAAAAAAAATCAACTCATAATGCTAGAGGTGAGTTGAGCCTCGGG
1 TTTTTC---AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGG
13113688 CCATACGCCG
Statistics
Matches: 327, Mismatches: 16, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
74 137 0.42
75 56 0.17
76 71 0.22
77 20 0.06
78 6 0.02
80 37 0.11
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.35
Consensus pattern (74 bp):
TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
CAATTTTTG
Found at i:13113517 original size:150 final size:149
Alignment explanation
Indices: 13113245--13113687 Score: 699
Period size: 150 Copynumber: 2.9 Consensus size: 149
13113235 TAAGAAATAT
13113245 TTTTTTAATTTCTGTCTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
1 TTTTTTAATTTCTG--TTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGT
*
13113310 CATGCTGAGGTATTTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGA
64 CACGCTGAGGTATTTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGA
13113375 GCCTCGGGTCACGCTGAGGTA
129 GCCTCGGGTCACGCTGAGGTA
*
13113396 TTTTTTAATTTTTGTTTGTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
1 TTTTTTAATTTCTGTTT-TTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
13113461 ACGCTGAGGTATTTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAG
65 ACGCTGAGGTATTTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAG
13113526 CCTCGGGTCACGCTGAGGTA
130 CCTCGGGTCACGCTGAGGTA
* * * *
13113546 TTTTTTAAGTTTCT-ATTTTTCAAAAATCAACTTATATTACGAGAGGTGAGTTGAGCCTCGGGCC
1 TTTTTTAA-TTTCTGTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTC
* * * *
13113610 ACATGCCGAGGTATCTTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATAATGCTAGAGGTGA
65 AC--GCTGAGGTAT-TTTTCAATTTTTGTTTTTC---AAAAATCAACTCATAATACGAGAGGTGA
13113675 GTTGAGCCTCGGG
124 GTTGAGCCTCGGG
13113688 CCATACGCCG
Statistics
Matches: 273, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
149 49 0.18
150 141 0.52
151 26 0.10
152 18 0.07
155 39 0.14
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (149 bp):
TTTTTTAATTTCTGTTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCA
CGCTGAGGTATTTTTCAATTTTTGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGC
CTCGGGTCACGCTGAGGTA
Found at i:13113911 original size:30 final size:30
Alignment explanation
Indices: 13113877--13114048 Score: 156
Period size: 30 Copynumber: 5.8 Consensus size: 30
13113867 TAAAATTTTG
*
13113877 CATTTTGACCCCTGAATTTTTCTAAAATTA
1 CATTTTGACCCCTAAATTTTTCTAAAATTA
13113907 CATTTTGACCCCTAAATTTTT-TCAAAATTA
1 CATTTTGACCCCTAAATTTTTCT-AAAATTA
** * *
13113937 CATTTCAAGCCCTAAACTTTTCT-AAATTA
1 CATTTTGACCCCTAAATTTTTCTAAAATTA
** *
13113966 CATTTTGA-CATTGAAAATTTATC-AAAATTA
1 CATTTTGACCCCT--AAATTTTTCTAAAATTA
* *
13113996 CATTTTAACCCCTAAA-CTTTCTCAAAATTA
1 CATTTTGACCCCTAAATTTTTCT-AAAATTA
* * *
13114026 CATTTTGGCCCCAAAACTTTTCT
1 CATTTTGACCCCTAAATTTTTCT
13114049 GCATTTAGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
28 5 0.04
29 16 0.14
30 84 0.74
31 8 0.07
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.40
Consensus pattern (30 bp):
CATTTTGACCCCTAAATTTTTCTAAAATTA
Found at i:13113991 original size:59 final size:59
Alignment explanation
Indices: 13113884--13114032 Score: 183
Period size: 59 Copynumber: 2.5 Consensus size: 59
13113874 TTGCATTTTG
* * * * *
13113884 ACCCCTGAATTTTTCTAAAATTACATTTTGACCCCTAAATTTTTTCAAAATTACATTTCA
1 ACCCCTAAACTTTTCT-AAATTACATTTTGACCACTAAAATTTATCAAAATTACATTTCA
* * *
13113944 AGCCCTAAACTTTTCTAAATTACATTTTGA-CATTGAAAATTTATCAAAATTACATTTTA
1 ACCCCTAAACTTTTCTAAATTACATTTTGACCACT-AAAATTTATCAAAATTACATTTCA
*
13114003 ACCCCTAAACTTTCTCAAAATTACATTTTG
1 ACCCCTAAACTTT-TCTAAATTACATTTTG
13114033 GCCCCAAAAC
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
58 2 0.03
59 47 0.61
60 28 0.36
ACGTcount: A:0.36, C:0.20, G:0.04, T:0.40
Consensus pattern (59 bp):
ACCCCTAAACTTTTCTAAATTACATTTTGACCACTAAAATTTATCAAAATTACATTTCA
Found at i:13114381 original size:3 final size:3
Alignment explanation
Indices: 13114373--13114399 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13114363 CCTAGGGCTT
13114373 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
13114400 AGAAAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13114711 original size:24 final size:22
Alignment explanation
Indices: 13114669--13114732 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
13114659 CCAGCCCAGC
*
13114669 AGAGAGAAAAAAAAGAAAAAAG
1 AGAGAAAAAAAAAAGAAAAAAG
13114691 AGAGAAAAAGAAAAAGAAAAAA-
1 AGAGAAAAA-AAAAAGAAAAAAG
* *
13114713 AGAG-GAAAAAAGAGAAAAAA
1 AGAGAAAAAAAAAAGAAAAAA
13114733 ATAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 11 0.29
21 3 0.08
22 12 0.32
23 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (22 bp):
AGAGAAAAAAAAAAGAAAAAAG
Found at i:13114721 original size:34 final size:33
Alignment explanation
Indices: 13114673--13114747 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
13114663 CCCAGCAGAG
*
13114673 AGAAAAAAA-AGAAAAAAGAGAGAAAAAGAAAA
1 AGAAAAAAAGAGAAAAAAGAGAAAAAAAGAAAA
*
13114705 AGAAAAAAAGAGGAAAAAAGAGAAAAAAATAAAA
1 AGAAAAAAAGA-GAAAAAAGAGAAAAAAAGAAAA
*
13114739 A-ATAAAAAG
1 AGAAAAAAAG
13114748 GGGGTTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 9 0.24
33 8 0.21
34 21 0.55
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (33 bp):
AGAAAAAAAGAGAAAAAAGAGAAAAAAAGAAAA
Found at i:13114733 original size:20 final size:21
Alignment explanation
Indices: 13114669--13114733 Score: 87
Period size: 20 Copynumber: 3.0 Consensus size: 21
13114659 CCAGCCCAGC
13114669 AGAGAGAAAAAAAAGAAAAAA
1 AGAGAGAAAAAAAAGAAAAAA
*
13114690 GAGAGAAAAAGAAAAAGAAAAAA
1 -AGAGAGAAA-AAAAAGAAAAAA
*
13114713 AGAG-GAAAAAAGAGAAAAAA
1 AGAGAGAAAAAAAAGAAAAAA
13114733 A
1 A
13114734 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
20 12 0.31
21 3 0.08
22 12 0.31
23 12 0.31
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
AGAGAGAAAAAAAAGAAAAAA
Found at i:13114733 original size:23 final size:23
Alignment explanation
Indices: 13114669--13114739 Score: 72
Period size: 26 Copynumber: 3.0 Consensus size: 23
13114659 CCAGCCCAGC
* *
13114669 AGAGAGAAA-AAAAAGAAAAAAG
1 AGAGAAAAAGAAAAAAAAAAAAG
13114691 AGAGAAAAAGAAAAAGAAAAAAAG
1 AGAGAAAAAGAAAAA-AAAAAAAG
*
13114715 AGGAAAAAAGAGAAAAAAATAAAAA
1 A-GAGAAAA-AGAAAAAAA-AAAAA
13114740 ATAAAAAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.20
23 5 0.12
24 8 0.20
25 8 0.20
26 12 0.29
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (23 bp):
AGAGAAAAAGAAAAAAAAAAAAG
Found at i:13114909 original size:5 final size:5
Alignment explanation
Indices: 13114899--13114926 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13114889 CATTTATATT
13114899 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
13114927 TAAATACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:13115114 original size:19 final size:20
Alignment explanation
Indices: 13115086--13115132 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
13115076 AAATTATAAT
13115086 TTTC-AAAA-TTTT-TCGTG
1 TTTCAAAAATTTTTCTCGTG
13115103 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAATTTTTCTCGTG
13115124 TTTCAAAAA
1 TTTCAAAAA
13115133 ATATTCGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 1 0.04
18 3 0.12
19 4 0.15
20 12 0.46
21 6 0.23
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.47
Consensus pattern (20 bp):
TTTCAAAAATTTTTCTCGTG
Found at i:13115128 original size:20 final size:18
Alignment explanation
Indices: 13115086--13115151 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
13115076 AAATTATAAT
13115086 TTTC-AAAATTTTTCGTG
1 TTTCAAAAATTTTTCGTG
13115103 TCTTCAAAAATTTTTCTCGTG
1 T-TTCAAAAA-TTTT-TCGTG
* * *
13115124 TTTCAAAAAATATTCGCG
1 TTTCAAAAATTTTTCGTG
13115142 TTCTCAAAAA
1 TT-TCAAAAA
13115152 AATAAGGCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.02
18 9 0.22
19 13 0.32
20 12 0.29
21 6 0.15
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTTTTCGTG
Found at i:13115441 original size:17 final size:18
Alignment explanation
Indices: 13115378--13115912 Score: 316
Period size: 18 Copynumber: 29.1 Consensus size: 18
13115368 AAATTTCTAT
*
13115378 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13115396 TTTTCAAAAAATTCTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13115415 -TTTCAAAAAATCTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13115433 TTTTCAAAAATCTTCGTG
1 TTTTCAAAAATTTTCGTG
*
13115451 TTTTC-AAGA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
13115466 TGTTTCAAAAATTTTCATG
1 T-TTTCAAAAATTTTCGTG
13115485 TTTTCAAAAAAAAAAATTTCTCGTG
1 TTTTC------AAAAATTT-TCGTG
* *
13115510 TTTT-AAAAATTTTTGGG
1 TTTTCAAAAATTTTCGTG
*
13115527 TTTT-AAAATTTTTTTTTCGTG
1 TTTTCAAAA----ATTTTCGTG
**
13115548 TTTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
*
13115566 TTTTC-AAAATTTTCATG
1 TTTTCAAAAATTTTCGTG
*
13115583 TTTTCAAAAA-ATTCATGTG
1 TTTTCAAAAATTTTC--GTG
*
13115602 TTTT-AAAAATTTCCGTG
1 TTTTCAAAAATTTTCGTG
*
13115619 TTTTCAAAAATTTTGGTG
1 TTTTCAAAAATTTTCGTG
* **
13115637 -TTTCGAAAATACTCGTG
1 TTTTCAAAAATTTTCGTG
** *
13115654 TTTTTTAAAACTTTCGTG
1 TTTTCAAAAATTTTCGTG
13115672 -TTTCAAAAAATTTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13115690 TTTTCAAAAA-TTCCGATG
1 TTTTCAAAAATTTTCG-TG
*
13115708 --ATCAAAGAAATTTTTCGTG
1 TTTTC-AA-AAA-TTTTCGTG
*
13115727 TTTTCTAAAAA-CTTC-TG
1 TTTTC-AAAAATTTTCGTG
13115744 TGTTTCAAAAATTTTCGTG
1 T-TTTCAAAAATTTTCGTG
* * *
13115763 TTTTTTTAAAAAAATTTCCGGTT
1 ---TTTT-CAAAAATTTTC-GTG
*
13115786 TTTTCAAAAAAATTTCGTG
1 TTTTC-AAAAATTTTCGTG
*
13115805 TTTTCAAAAAATTTCTCCT-
1 TTTTC-AAAAATTT-TCGTG
* *
13115824 ATTTC-AAAATTGTCGTG
1 TTTTCAAAAATTTTCGTG
13115841 TTTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* *
13115859 TTTTTAAGAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
* * *
13115877 -TCTCTAAAATTCTCGTG
1 TTTTCAAAAATTTTCGTG
* *
13115894 TTTTAAAAAATTTTAGTG
1 TTTTCAAAAATTTTCGTG
13115912 T
1 T
13115913 GTTAAAAAAA
Statistics
Matches: 400, Mismatches: 71, Indels: 92
0.71 0.13 0.16
Matches are distributed among these distances:
15 2 0.00
16 13 0.03
17 93 0.23
18 169 0.42
19 52 0.13
20 22 0.05
21 17 0.04
22 14 0.04
23 2 0.00
24 8 0.02
25 8 0.02
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:13115517 original size:24 final size:24
Alignment explanation
Indices: 13115472--13115518 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13115462 TCGGTGTTTC
13115472 AAAAATTTTCATGTTTTCAAAAAA
1 AAAAATTTTCATGTTTTCAAAAAA
*
13115496 AAAAATTTCTCGTGTTTT-AAAAA
1 AAAAATTT-TCATGTTTTCAAAAA
13115519 TTTTTGGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (24 bp):
AAAAATTTTCATGTTTTCAAAAAA
Found at i:13115776 original size:22 final size:22
Alignment explanation
Indices: 13115750--13115815 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 22
13115740 TCTGTGTTTC
*
13115750 AAAAATTTTCGTGTTTTTTTAA
1 AAAAATTTTCGTGTTTTTTCAA
*
13115772 AAAAATTTCCG-GTTTTTTCAA
1 AAAAATTTTCGTGTTTTTTCAA
13115793 AAAAA-TTTCGTG--TTTTCAA
1 AAAAATTTTCGTGTTTTTTCAA
13115812 AAAA
1 AAAA
13115816 TTTCTCCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 15 0.38
22 10 0.25
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (22 bp):
AAAAATTTTCGTGTTTTTTCAA
Found at i:13115851 original size:53 final size:52
Alignment explanation
Indices: 13115792--13115921 Score: 136
Period size: 53 Copynumber: 2.4 Consensus size: 52
13115782 GGTTTTTTCA
* *
13115792 AAAAAATTTCGTGTTTTCAAAAAATTTCTCCTATTTC-AAAATTGTCGTGTTTT
1 AAAAAATTTCGTGTTTT-AAAAAATTT-TCCTATCTCTAAAATTCTCGTGTTTT
* * * * *
13115845 CAAAAATTTTCGTGTTTTTAAGAATTTTCGTGTCTCTAAAATTCTCGTGTTTT
1 -AAAAAATTTCGTGTTTTAAAAAATTTTCCTATCTCTAAAATTCTCGTGTTTT
* *
13115898 AAAAAATTTTAGTGTGTTAAAAAA
1 AAAAAA-TTTCGTGTTTTAAAAAA
13115922 ATGTGTCAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
52 11 0.18
53 35 0.56
54 16 0.26
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.45
Consensus pattern (52 bp):
AAAAAATTTCGTGTTTTAAAAAATTTTCCTATCTCTAAAATTCTCGTGTTTT
Found at i:13117006 original size:107 final size:107
Alignment explanation
Indices: 13116804--13117013 Score: 239
Period size: 107 Copynumber: 2.0 Consensus size: 107
13116794 TTATCCCGGA
* *
13116804 TTGCCCTACAATGATGACTTGCCACCCTGGATTGCCCGACGACGATGACTTACCATCCCGGGTTG
1 TTGCCCTACAATGATAACTTGCCACCCTGGATTGCCCGACGACGATGACTTACCATCCCGGATTG
** * * **
13116869 CTTGGCAATGATGGTTCCTTGATTCTTTTATGTCATCCTAGG
66 CCCGACAACGATAATTCCTTGATTCTTTTATGTCATCCTAGG
* * *
13116911 TTGCCC-AGCAATGATAACTTGCCA-CCTCGGGTTGCCCGGCGACGATGGCTTACCA-CCCTGGA
1 TTGCCCTA-CAATGATAACTTGCCACCCT-GGATTGCCCGACGACGATGACTTACCATCCC-GGA
* *
13116973 TTGCCCGACAACGATAATTTCTT-ATTTTATTTATGTCATCC
63 TTGCCCGACAACGATAATTCCTTGATTCT-TTTATGTCATCC
13117014 CAAATTTCCT
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
106 11 0.13
107 75 0.87
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (107 bp):
TTGCCCTACAATGATAACTTGCCACCCTGGATTGCCCGACGACGATGACTTACCATCCCGGATTG
CCCGACAACGATAATTCCTTGATTCTTTTATGTCATCCTAGG
Found at i:13125828 original size:15 final size:15
Alignment explanation
Indices: 13125808--13125837 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13125798 AACCCGCCCA
13125808 TATTATTTTTTATAT
1 TATTATTTTTTATAT
13125823 TATTATTTTTTATAT
1 TATTATTTTTTATAT
13125838 AAAAGTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATTTTTTATAT
Found at i:13127776 original size:46 final size:46
Alignment explanation
Indices: 13127714--13127801 Score: 158
Period size: 46 Copynumber: 1.9 Consensus size: 46
13127704 AAGTAGTATT
13127714 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATG
1 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATG
* *
13127760 AAATCAAAATGGGTCCAACCTACAAAACTTACCAAAATTAAT
1 AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAAT
13127802 AATTTTTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.51, C:0.19, G:0.07, T:0.23
Consensus pattern (46 bp):
AAATCAAAATGAGTCCAACATACAAAACTTACCAAAATTAATTATG
Found at i:13145811 original size:25 final size:26
Alignment explanation
Indices: 13145781--13145838 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 26
13145771 TACCCCCAAC
*
13145781 AAAATTTTGACGATTTTACCC-TGGT
1 AAAATTTTGACAATTTTACCCTTGGT
13145806 AAAATTTTGACAATTTTACCCTTGGT
1 AAAATTTTGACAATTTTACCCTTGGT
13145832 AAAATTT
1 AAAATTT
13145839 CGAGAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 20 0.65
26 11 0.35
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (26 bp):
AAAATTTTGACAATTTTACCCTTGGT
Found at i:13150641 original size:3 final size:3
Alignment explanation
Indices: 13150635--13150704 Score: 52
Period size: 3 Copynumber: 23.3 Consensus size: 3
13150625 TAATAAAACC
* * * * * * *
13150635 AAT AAT AAT AAT AGT AAT AGT ACT CAT AAC AAT AAT AAT ACT AAT ACT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
13150683 AAT ACT AAT AAAT AA- AAT AAT A
1 AAT AAT AAT -AAT AAT AAT AAT A
13150705 TTAAACTAAA
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
2 2 0.04
3 45 0.90
4 3 0.06
ACGTcount: A:0.59, C:0.09, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:13150682 original size:24 final size:24
Alignment explanation
Indices: 13150623--13150704 Score: 62
Period size: 24 Copynumber: 3.4 Consensus size: 24
13150613 ACAAAATTAA
* *
13150623 AATAATAAAAC-CAATAATAATAAT
1 AATAATAATACTC-ATAACAATAAT
* *
13150647 AGTAATAGTACTCATAACAATAAT
1 AATAATAATACTCATAACAATAAT
* *
13150671 AATACTAATACTAAT-ACTAATAAAT
1 AATAATAATACTCATAAC-AAT-AAT
13150696 AA-AATAATA
1 AATAATAATA
13150705 TTAAACTAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 2 0.04
24 38 0.83
25 6 0.13
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.28
Consensus pattern (24 bp):
AATAATAATACTCATAACAATAAT
Found at i:13150685 original size:12 final size:12
Alignment explanation
Indices: 13150623--13150692 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
13150613 ACAAAATTAA
* *
13150623 AATAATAAAACC
1 AATAATAATACT
*
13150635 AATAATAATAAT
1 AATAATAATACT
* *
13150647 AGTAATAGTACT
1 AATAATAATACT
* * *
13150659 CATAACAATAAT
1 AATAATAATACT
*
13150671 AATACTAATACT
1 AATAATAATACT
*
13150683 AATACTAATA
1 AATAATAATA
13150693 AATAAAATAA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (12 bp):
AATAATAATACT
Found at i:13154341 original size:8 final size:8
Alignment explanation
Indices: 13154325--13154377 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
13154315 TCGAATCATC
*
13154325 ATTTGAAA
1 ATTTTAAA
13154333 ATTTTAAA
1 ATTTTAAA
13154341 ATTTTAAA
1 ATTTTAAA
*
13154349 ATTATATAA
1 ATTTTA-AA
*
13154358 ATTAT-AA
1 ATTTTAAA
*
13154365 ATTTTTAA
1 ATTTTAAA
13154373 ATTTT
1 ATTTT
13154378 CAGATAATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.15
8 27 0.68
9 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (8 bp):
ATTTTAAA
Found at i:13162841 original size:49 final size:49
Alignment explanation
Indices: 13162777--13162873 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
13162767 ATATAAATTG
* *
13162777 AAAAACGAAGAGTATATATATAAATTGAAAATAAAAATAACAAATTTAC
1 AAAAACAAAGAGTATATATATAAATTGAAAACAAAAATAACAAATTTAC
*
13162826 AAAAACAAAGAGTATATATATAAATTGAAAACAAAATTAACAAATTTA
1 AAAAACAAAGAGTATATATATAAATTGAAAACAAAAATAACAAATTTA
13162874 GTTAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.62, C:0.06, G:0.07, T:0.25
Consensus pattern (49 bp):
AAAAACAAAGAGTATATATATAAATTGAAAACAAAAATAACAAATTTAC
Found at i:13162919 original size:16 final size:15
Alignment explanation
Indices: 13162898--13162931 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
13162888 AAAATTCAAA
*
13162898 AAAAATAAATATGTTT
1 AAAAATAAA-ATGGTT
13162914 AAAAATAAAATGGTT
1 AAAAATAAAATGGTT
13162929 AAA
1 AAA
13162932 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (15 bp):
AAAAATAAAATGGTT
Done.