Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 39 of 52
Found at i:6444422 original size:17 final size:17
Alignment explanation
Indices: 6444400--6444435 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6444390 TATTTTAAAT
6444400 AAATTAAATTTTATTTA
1 AAATTAAATTTTATTTA
**
6444417 AAATTATTTTTTATTTA
1 AAATTAAATTTTATTTA
6444434 AA
1 AA
6444436 TTTTAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATTAAATTTTATTTA
Found at i:6445138 original size:12 final size:14
Alignment explanation
Indices: 6445114--6445146 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
6445104 CAACAGAACC
6445114 AGAAAAATAATAGA
1 AGAAAAATAATAGA
6445128 A-AAAAAT-ATAGA
1 AGAAAAATAATAGA
6445140 AGAAAAA
1 AGAAAAA
6445147 AGAGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 11 0.61
14 1 0.06
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AGAAAAATAATAGA
Found at i:6445594 original size:13 final size:13
Alignment explanation
Indices: 6445588--6445612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6445578 TTTAAGAATT
6445588 ATTTTTAAATATA
1 ATTTTTAAATATA
6445601 ATTTTTAAATAT
1 ATTTTTAAATAT
6445613 TATAAAATAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTTTAAATATA
Found at i:6449719 original size:4 final size:4
Alignment explanation
Indices: 6449712--6449778 Score: 70
Period size: 4 Copynumber: 17.8 Consensus size: 4
6449702 TTATGTATGA
*
6449712 ATAC ATAC ATAC ATAC ATAC AT-- ATAT ATAC ATAC ATAC ATAC AT--
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
6449756 ATAT ATAT ATAT ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
6449779 TATATATATA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
4 53 0.93
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (4 bp):
ATAC
Found at i:6449748 original size:26 final size:26
Alignment explanation
Indices: 6449712--6449810 Score: 135
Period size: 26 Copynumber: 3.8 Consensus size: 26
6449702 TTATGTATGA
*
6449712 ATACATACATACATACATACATATAT
1 ATACATACATACATACATATATATAT
6449738 ATACATACATACATACATATATATAT
1 ATACATACATACATACATATATATAT
* *
6449764 ATATATACATACATATATATATATAT
1 ATACATACATACATACATATATATAT
* * * *
6449790 ATATATATATATATATATATA
1 ATACATACATACATACATATA
6449811 AAAGGATTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
ATACATACATACATACATATATATAT
Found at i:6449783 original size:4 final size:4
Alignment explanation
Indices: 6449732--6449810 Score: 104
Period size: 4 Copynumber: 19.8 Consensus size: 4
6449722 ACATACATAC
* * * * * *
6449732 ATAT ATAT ACAT ACAT ACAT ACAT ATAT ATAT ATAT ATAC ATAC ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
6449780 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA
6449811 AAAGGATTAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:6449807 original size:22 final size:22
Alignment explanation
Indices: 6449724--6449810 Score: 138
Period size: 22 Copynumber: 4.0 Consensus size: 22
6449714 ACATACATAC
* *
6449724 ATACATACATATATATACATAC
1 ATACATACATATATATATATAT
6449746 ATACATACATATATATATATAT
1 ATACATACATATATATATATAT
6449768 ATACATACATATATATATATAT
1 ATACATACATATATATATATAT
* *
6449790 ATATATATATATATATATATA
1 ATACATACATATATATATATA
6449811 AAAGGATTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (22 bp):
ATACATACATATATATATATAT
Found at i:6450324 original size:17 final size:17
Alignment explanation
Indices: 6450302--6450335 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6450292 ATTAATCTTT
6450302 TTAAATACTA-ATTAAAA
1 TTAAATA-TATATTAAAA
6450319 TTAAATATATATTAAAA
1 TTAAATATATATTAAAA
6450336 AAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATATATATTAAAA
Found at i:6451472 original size:50 final size:50
Alignment explanation
Indices: 6451397--6451493 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
6451387 AGGTTATTGT
* * * *
6451397 TGAGTTGTTCGAATGAACTTGAAAGTTGTATTTGTTGTTTGATTTGATAA
1 TGAGTTGTTCGAATGAACTTGAAAGTCGGATATGTTGTTTGACTTGATAA
*
6451447 TGAGTTGTTTGAATGAACTTGAAAGTCGGATATGTTGTTTGACTTGA
1 TGAGTTGTTCGAATGAACTTGAAAGTCGGATATGTTGTTTGACTTGA
6451494 CTAGGGAGCG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.26, T:0.43
Consensus pattern (50 bp):
TGAGTTGTTCGAATGAACTTGAAAGTCGGATATGTTGTTTGACTTGATAA
Found at i:6453621 original size:30 final size:30
Alignment explanation
Indices: 6453550--6453627 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 30
6453540 CTAGAAATAG
* *
6453550 GGGTTTAATTAAACAAAAATAGTAATTTAA
1 GGGTTTAATTAGACAAAAATAATAATTTAA
* * * *
6453580 GAGCTTAATTAGATAAAAATAATACTTTAA
1 GGGTTTAATTAGACAAAAATAATAATTTAA
* *
6453610 GGGTTTGATTAGAGAAAA
1 GGGTTTAATTAGACAAAA
6453628 TTAAGGGTGC
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (30 bp):
GGGTTTAATTAGACAAAAATAATAATTTAA
Found at i:6454956 original size:10 final size:11
Alignment explanation
Indices: 6454921--6454964 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
6454911 AATCTGAATG
6454921 TATTTTTATA-
1 TATTTTTATAT
6454931 -A-TTTTATAT
1 TATTTTTATAT
6454940 TATTTTT-TAAT
1 TATTTTTAT-AT
6454951 TATTTTTATAT
1 TATTTTTATAT
6454962 TAT
1 TAT
6454965 ATTCATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.24
9 1 0.03
10 2 0.07
11 18 0.62
12 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:6454957 original size:12 final size:12
Alignment explanation
Indices: 6454932--6454964 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6454922 ATTTTTATAA
6454932 TTTTATATTATT
1 TTTTATATTATT
6454944 TTTTA-ATTA-T
1 TTTTATATTATT
6454954 TTTTATATTAT
1 TTTTATATTAT
6454965 ATTCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.32
11 8 0.42
12 5 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATATTATT
Found at i:6455209 original size:20 final size:20
Alignment explanation
Indices: 6455169--6455233 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 20
6455159 ATATTTAAAA
*
6455169 TATTATATATTTATA-TATT
1 TATTTTATATTTATATTATT
6455188 TATTTTATATTTATATTATT
1 TATTTTATATTTATATTATT
*
6455208 TATATTATATTT-TAATTATTT
1 TATTTTATATTTAT-ATTA-TT
6455229 TATTT
1 TATTT
6455234 GCTTGAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.38
20 19 0.47
21 6 0.15
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TATTTTATATTTATATTATT
Found at i:6455225 original size:11 final size:12
Alignment explanation
Indices: 6455168--6455226 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 12
6455158 TATATTTAAA
6455168 ATATTATATATTT
1 ATATTATAT-TTT
*
6455181 ATATATTTATTTT
1 ATAT-TATATTTT
6455194 ATATTTATATTATTT
1 ATA-TTATA-T-TTT
6455209 ATATTATATTTT
1 ATATTATATTTT
6455221 A-ATTAT
1 ATATTAT
6455227 TTTATTTGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 5 0.12
12 4 0.10
13 14 0.35
14 11 0.28
15 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATATTATATTTT
Found at i:6464487 original size:29 final size:29
Alignment explanation
Indices: 6464428--6464488 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
6464418 TTACCTATGC
* *
6464428 ATATAAGATATATGTTATTTAAATTCGTA
1 ATATAAAATATATGTTATTTAAATTCATA
* *
6464457 ATATAAAATTTATGTTATTTAAATTTATA
1 ATATAAAATATATGTTATTTAAATTCATA
6464486 ATA
1 ATA
6464489 AATATCAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (29 bp):
ATATAAAATATATGTTATTTAAATTCATA
Found at i:6467820 original size:19 final size:19
Alignment explanation
Indices: 6467784--6467832 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
6467774 CTTTCCTACT
* *
6467784 AGAAAAGAAAATAGAAAAG
1 AGAAAAGAAAAAAGAAAAA
6467803 AGAAAA-AAAAAAGAAAAAA
1 AGAAAAGAAAAAAG-AAAAA
*
6467822 AGAAATGAAAA
1 AGAAAAGAAAA
6467833 CCATTTGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 15 0.60
20 4 0.16
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (19 bp):
AGAAAAGAAAAAAGAAAAA
Found at i:6469540 original size:14 final size:14
Alignment explanation
Indices: 6469521--6469551 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6469511 AAGCCTGTAC
*
6469521 ATTTATAGTTTTAA
1 ATTTATAGATTTAA
6469535 ATTTATAGATTTAA
1 ATTTATAGATTTAA
6469549 ATT
1 ATT
6469552 ACGACATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
ATTTATAGATTTAA
Found at i:6469602 original size:16 final size:15
Alignment explanation
Indices: 6469562--6469610 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
6469552 ACGACATGAA
6469562 TATAATAAATATTAT
1 TATAATAAATATTAT
*
6469577 TAT--T-ATTATTAAT
1 TATAATAAATATT-AT
6469590 TATAATAAATATTGAT
1 TATAATAAATATT-AT
6469606 TATAA
1 TATAA
6469611 ATATTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
12 5 0.19
13 6 0.22
15 4 0.15
16 12 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TATAATAAATATTAT
Found at i:6470220 original size:21 final size:22
Alignment explanation
Indices: 6470180--6470220 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6470170 GTTTTGAATG
* *
6470180 TAAAATTTTTTAATTTTATAAA
1 TAAAATTTTTTAAATATATAAA
6470202 TAAAA-TTTTTAAATATATA
1 TAAAATTTTTTAAATATATA
6470221 TATATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAAATTTTTTAAATATATAAA
Found at i:6470920 original size:2 final size:2
Alignment explanation
Indices: 6470913--6470937 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6470903 AGATTAACAA
6470913 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
6470938 AAGTGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6472701 original size:21 final size:21
Alignment explanation
Indices: 6472677--6472716 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6472667 ATTAAAAAAT
6472677 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
6472698 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
6472717 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:6472771 original size:34 final size:34
Alignment explanation
Indices: 6472705--6472772 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
6472695 ATATATTTTA
* **
6472705 TAATTAAATTTAAATAAAAAATATTATTTTAAAT
1 TAATTAAATTTAAATAAAAAATATCAGCTTAAAT
*
6472739 TAATTTAATTTAAAATAAAAAATA-CAGCTTAAAT
1 TAATTAAATTT-AAATAAAAAATATCAGCTTAAAT
6472773 GGAGAGAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (34 bp):
TAATTAAATTTAAATAAAAAATATCAGCTTAAAT
Found at i:6473231 original size:30 final size:30
Alignment explanation
Indices: 6473158--6473231 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
6473148 ATTGTTGTAA
* * *
6473158 TTAATTGAATATTTAAATATTTGTTTTCAT
1 TTAAATGAATTTTTAAATATTTATTTTCAT
*
6473188 TTAATAT-AATTTTT-AATAATTTATTTTTAT
1 TTAA-ATGAATTTTTAAAT-ATTTATTTTCAT
6473218 TTAAATGAATTTTT
1 TTAAATGAATTTTT
6473232 GATTGGATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 5 0.14
30 31 0.84
31 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.59
Consensus pattern (30 bp):
TTAAATGAATTTTTAAATATTTATTTTCAT
Found at i:6479508 original size:15 final size:15
Alignment explanation
Indices: 6479490--6479534 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
6479480 AATATATTAA
6479490 AATATAATTAATATT
1 AATATAATTAATATT
6479505 AATATAATTAATA-T
1 AATATAATTAATATT
**
6479519 AATATTTTTAATATT
1 AATATAATTAATATT
6479534 A
1 A
6479535 TATCATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATAATTAATATT
Found at i:6479521 original size:5 final size:5
Alignment explanation
Indices: 6479478--6479523 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
6479468 ATAGTATGAA
* *
6479478 ATAAT ATATT AAAAT ATAAT -TAAT ATTAAT ATAAT -TAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT ATAAT ATAAT AT
6479524 TTTTAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.24
5 21 0.62
6 5 0.15
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:6481086 original size:65 final size:65
Alignment explanation
Indices: 6481017--6481147 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
6481007 TTATTTATTT
* *
6481017 TATCATATTATAATTATATTTA-A-AAT-ATTTTATATTTATATAAATTTTATTATATTAATAAT
1 TATCATATTATAA-AATATTTATATAATCATGTTATATTTATATAAATTTT-TTATATT-ATAAT
6481079 ATA
63 ATA
* * * * *
6481082 TATCATATTTTAAAATATTTATATATTCATGTTATGTTTATATTAATTTTTTATATTATATTATA
1 TATCATATTATAAAATATTTATATAATCATGTTATATTTATATAAATTTTTTATATTATAATATA
6481147 T
1 T
6481148 TTTAATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
64 7 0.12
65 21 0.38
66 9 0.16
67 19 0.34
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (65 bp):
TATCATATTATAAAATATTTATATAATCATGTTATATTTATATAAATTTTTTATATTATAATATA
Found at i:6481142 original size:5 final size:5
Alignment explanation
Indices: 6480999--6481148 Score: 57
Period size: 5 Copynumber: 30.8 Consensus size: 5
6480989 CATGTAACAG
* * * * *
6480999 TATTA TATT- TATT- TATTT TATCA TATTA TAATTA TATTTA AAATA TTTTA
1 TATTA TATTA TATTA TATTA TATTA TATTA T-ATTA TA-TTA TATTA TATTA
* * * * * **
6481049 TATT- TATATA AATTT TATTA TATTA -ATAA TA-TA TATCA TATTT TAAAA
1 TATTA TAT-TA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
* * *
6481097 TATT- TA-TA TATTCA TGTTA TGTTTA TATTA -ATT- TTTTA TATTA TATTA
1 TATTA TATTA TATT-A TATTA T-ATTA TATTA TATTA TATTA TATTA TATTA
6481145 TATT
1 TATT
6481149 TTAATTAATT
Statistics
Matches: 104, Mismatches: 28, Indels: 26
0.66 0.18 0.16
Matches are distributed among these distances:
3 1 0.01
4 26 0.25
5 58 0.56
6 19 0.18
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:6483465 original size:20 final size:21
Alignment explanation
Indices: 6483426--6483485 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
6483416 TTTAAAATTT
* *
6483426 ATATAAAAATATAAAATATTTTA
1 ATATATAAATAT--AATATTTAA
*
6483449 A-ATATAATTATAATA-TTAA
1 ATATATAAATATAATATTTAA
6483468 ATATATAAATATAATATT
1 ATATATAAATATAATATT
6483486 AATTGTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 4 0.13
20 17 0.55
21 1 0.03
22 8 0.26
23 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATATATAAATATAATATTTAA
Found at i:6483473 original size:29 final size:30
Alignment explanation
Indices: 6483404--6483473 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
6483394 GGCCATATAT
* *
6483404 ATATATATATATTTTAAAATTTATATAAAA
1 ATATAAATATATTTTAAAATATATATAAAA
* *
6483434 ATATAAA-ATATTTT-AAATATA-ATTATA
1 ATATAAATATATTTTAAAATATATATAAAA
6483461 ATATTAAATATAT
1 ATA-TAAATATAT
6483474 AAATATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
27 7 0.21
28 10 0.29
29 11 0.32
30 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATATAAATATATTTTAAAATATATATAAAA
Found at i:6483486 original size:20 final size:20
Alignment explanation
Indices: 6483450--6483487 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6483440 AATATTTTAA
*
6483450 ATATAATTATAATATTAAAT
1 ATATAAATATAATATTAAAT
6483470 ATATAAATATAATATTAA
1 ATATAAATATAATATTAA
6483488 TTGTTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
ATATAAATATAATATTAAAT
Found at i:6483488 original size:26 final size:27
Alignment explanation
Indices: 6483457--6483527 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 27
6483447 TAAATATAAT
6483457 TATAATATTAAATATATAAATATAATA
1 TATAATATTAAATATATAAATATAATA
* *
6483484 T-TAATTGTTAAAT-TATATATATACATA
1 TATAA-TATTAAATATATAAATATA-ATA
*
6483511 TAT-ATATATATATATAT
1 TATAATAT-TAAATATAT
6483528 CCCTTGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
26 14 0.40
27 17 0.49
28 4 0.11
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (27 bp):
TATAATATTAAATATATAAATATAATA
Found at i:6483500 original size:20 final size:21
Alignment explanation
Indices: 6483450--6483514 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
6483440 AATATTTTAA
6483450 ATAT-AATTATAATATTAAAT
1 ATATAAATTATAATATTAAAT
*
6483470 ATATAAA-TATAATATTAATT
1 ATATAAATTATAATATTAAAT
* *
6483490 GT-TAAATTAT-ATATATACAT
1 ATATAAATTATAATAT-TAAAT
6483510 ATATA
1 ATATA
6483515 TATATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 8 0.22
20 24 0.67
21 4 0.11
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (21 bp):
ATATAAATTATAATATTAAAT
Found at i:6483504 original size:2 final size:2
Alignment explanation
Indices: 6483497--6483527 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6483487 ATTGTTAAAT
*
6483497 TA TA TA TA TA CA 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
6483528 CCCTTGATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6483741 original size:16 final size:16
Alignment explanation
Indices: 6483716--6483746 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6483706 TTTTGATTTA
*
6483716 TTTAAGTTTAAATTAG
1 TTTAAATTTAAATTAG
6483732 TTTAAATTTAAATTA
1 TTTAAATTTAAATTA
6483747 TTGACTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TTTAAATTTAAATTAG
Found at i:6484205 original size:22 final size:22
Alignment explanation
Indices: 6484174--6484223 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6484164 AATATTAAAA
6484174 ATATAATTTTAT-ATTAATATTT
1 ATATAATTTTATAATTAA-ATTT
*
6484196 ATATATTTTTATAATTAAATTT
1 ATATAATTTTATAATTAAATTT
*
6484218 AAATAA
1 ATATAA
6484224 AAATATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATAATTTTATAATTAAATTT
Found at i:6485107 original size:2 final size:2
Alignment explanation
Indices: 6485100--6485149 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
6485090 AATTTAGAAG
6485100 AT AT AT AT AT 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 AT AT AT AT AT
6485142 AT AT AT AT
1 AT AT AT AT
6485150 GCAACTTTAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6485547 original size:27 final size:29
Alignment explanation
Indices: 6485485--6485567 Score: 78
Period size: 29 Copynumber: 2.8 Consensus size: 29
6485475 ATCCAAATTA
* *
6485485 ATATTAAGTAATAAAAATATTTTTTTATTT
1 ATATTTAGTAATAAAAATA-TTTTTTATAT
* *
6485515 AAATTTAGTAATAAAAATATTTTTAATAT
1 ATATTTAGTAATAAAAATATTTTTTATAT
** *
6485544 AT-TTTAAAAAATAAAAAAATTTTT
1 ATATTT-AGTAATAAAAATATTTTT
6485568 GAATCGAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.07
29 24 0.55
30 17 0.39
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
ATATTTAGTAATAAAAATATTTTTTATAT
Found at i:6485763 original size:7 final size:7
Alignment explanation
Indices: 6485753--6485786 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
6485743 TATAATAAGT
6485753 AATTAAA
1 AATTAAA
*
6485760 AATTATTA
1 AATTA-AA
6485768 AATTAAA
1 AATTAAA
6485775 AATTAAA
1 AATTAAA
6485782 AATTA
1 AATTA
6485787 TATTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (7 bp):
AATTAAA
Found at i:6488012 original size:2 final size:2
Alignment explanation
Indices: 6488005--6488040 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
6487995 CTAGCTGAAC
*
6488005 CT CT CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6488041 TTTATATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:6488408 original size:23 final size:24
Alignment explanation
Indices: 6488382--6488444 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
6488372 TATTTATATG
*
6488382 TATAAAATAATATTAACATAT-AA
1 TATAAAATAATATAAACATATAAA
* *
6488405 TATAAAATACTATAAATATATAAA
1 TATAAAATAATATAAACATATAAA
6488429 TATAAAA-ACATATAAA
1 TATAAAATA-ATATAAA
6488445 AAAATTTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 19 0.56
24 15 0.44
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (24 bp):
TATAAAATAATATAAACATATAAA
Found at i:6488428 original size:8 final size:8
Alignment explanation
Indices: 6488399--6488444 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
6488389 TAATATTAAC
6488399 ATAT-AAT
1 ATATAAAT
6488406 ATA-AAAT
1 ATATAAAT
6488413 ACTATAAAT
1 A-TATAAAT
6488422 ATATAAAT
1 ATATAAAT
* *
6488430 ATAAAAAC
1 ATATAAAT
6488438 ATATAAA
1 ATATAAA
6488445 AAAATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
7 7 0.21
8 21 0.64
9 5 0.15
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.30
Consensus pattern (8 bp):
ATATAAAT
Found at i:6492006 original size:16 final size:17
Alignment explanation
Indices: 6491985--6492031 Score: 62
Period size: 16 Copynumber: 2.8 Consensus size: 17
6491975 TTTGGATAAA
6491985 TTTAAATTCGAATTA-T
1 TTTAAATTCGAATTATT
*
6492001 TTTAAATT-TAGATTATT
1 TTTAAATTCGA-ATTATT
6492018 TTTAAATTCGAATT
1 TTTAAATTCGAATT
6492032 GATTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.04
16 12 0.46
17 12 0.46
18 1 0.04
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTAAATTCGAATTATT
Found at i:6492024 original size:39 final size:39
Alignment explanation
Indices: 6491981--6492088 Score: 100
Period size: 39 Copynumber: 2.8 Consensus size: 39
6491971 ATTGTTTGGA
6491981 TAAATTTAAATTCGAATTATTTTAAATTTAGATTA-TTT-T
1 TAAATTTAAATT-GAATTATTTTAAATTTA-ATTATTTTAT
**
6492020 TAAATTCGAATTG-ATTGATTTTAAATTATTAATTATTTTAT
1 TAAATTTAAATTGAATT-ATTTTAAA-T-TTAATTATTTTAT
* *
6492061 TAAA-TTAAATTAAATT-TTTTATATTTAA
1 TAAATTTAAATTGAATTATTTTAAATTTAA
6492089 ATAAAAATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
37 7 0.12
38 10 0.18
39 21 0.37
40 11 0.19
41 8 0.14
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.54
Consensus pattern (39 bp):
TAAATTTAAATTGAATTATTTTAAATTTAATTATTTTAT
Found at i:6492059 original size:17 final size:17
Alignment explanation
Indices: 6491995--6492059 Score: 53
Period size: 17 Copynumber: 3.6 Consensus size: 17
6491985 TTTAAATTCG
6491995 AATTATTTTAAA-T-TT
1 AATTATTTTAAATTATT
6492010 AGATTATTTTTAAATTCGAATT
1 A-ATTA-TTTTAAATT---ATT
*
6492032 GATTGATTTTAAATTATT
1 AATT-ATTTTAAATTATT
6492050 AATTATTTTA
1 AATTATTTTA
6492060 TTAAATTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
15 1 0.03
16 4 0.10
17 13 0.32
18 7 0.17
21 12 0.30
22 3 0.08
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
AATTATTTTAAATTATT
Found at i:6492641 original size:24 final size:24
Alignment explanation
Indices: 6492591--6492641 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6492581 TTCATGATTG
* * *
6492591 CTCCTCCATTGTTTCTACCGACTT
1 CTCCGCCATTGTTTCTACCCACCT
6492615 CTCCGCCATTGTTTCTACCCACCT
1 CTCCGCCATTGTTTCTACCCACCT
6492639 CTC
1 CTC
6492642 AAAAACCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.12, C:0.43, G:0.08, T:0.37
Consensus pattern (24 bp):
CTCCGCCATTGTTTCTACCCACCT
Found at i:6493181 original size:41 final size:40
Alignment explanation
Indices: 6493123--6493251 Score: 115
Period size: 41 Copynumber: 3.2 Consensus size: 40
6493113 AATTAATATC
* *
6493123 AATATTATATTTT-ATTTTTATTTATAT-ATTTAATATTAACTT
1 AATATT-TTTTTTAATTTTTATTTATATAATTT--T-TTAAATT
* *
6493165 AAT-TTTTTTTTAATTTTTAATTATTTAATTTTTTAAATT
1 AATATTTTTTTTAATTTTTATTTATATAATTTTTTAAATT
*
6493204 AATATTTTTTTTACTTTTTATTT-TAATCAATTTTTTATAATT
1 AATATTTTTTTTAATTTTTATTTAT-AT-AATTTTTTA-AATT
6493246 -ATATTT
1 AATATTT
6493252 AAAAATAAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
39 10 0.14
40 24 0.32
41 29 0.39
42 11 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (40 bp):
AATATTTTTTTTAATTTTTATTTATATAATTTTTTAAATT
Found at i:6493359 original size:24 final size:23
Alignment explanation
Indices: 6493338--6493387 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
6493328 TATTTATTTG
6493338 ATATTTAAAAATTTTAAATATTAA
1 ATATTT-AAAATTTTAAATATTAA
*
6493362 ATATTTATAATTTTAAAT-TT-A
1 ATATTTAAAATTTTAAATATTAA
6493383 ATATT
1 ATATT
6493388 AACATATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 6 0.24
22 2 0.08
23 11 0.44
24 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
ATATTTAAAATTTTAAATATTAA
Found at i:6494198 original size:19 final size:20
Alignment explanation
Indices: 6494163--6494210 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
6494153 AAAGTGAATA
6494163 AAATATAAAAAATTATAATT
1 AAATATAAAAAATTATAATT
6494183 AAAT-TAAATAAA-TATAATT
1 AAATATAAA-AAATTATAATT
6494202 AATATATAA
1 AA-ATATAA
6494211 TTAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 13 0.52
20 9 0.36
21 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATAAAAAATTATAATT
Found at i:6498871 original size:114 final size:114
Alignment explanation
Indices: 6498671--6498895 Score: 405
Period size: 114 Copynumber: 2.0 Consensus size: 114
6498661 GTTCTAGAAC
* * * *
6498671 AACCTGTATAATTTCAAGCAGTAAAGGATAATGGAGTCATGCTTTATACGGTAATAAAGTAAGAT
1 AACCTGTATAATTTCAAGAAGCAAAGGATAATGGAGTCAAGCTTTATACAGTAATAAAGTAAGAT
6498736 AGCACCCTTCCTATACTCCAGTTTTTCCCTGACATACACAAAGACTACA
66 AGCACCCTTCCTATACTCCAGTTTTTCCCTGACATACACAAAGACTACA
*
6498785 AACCTGTATAATTTCAAGAAGCAAAGGATAATGGAGTCAAGCTTTATACAGTAATAAATTAAGAT
1 AACCTGTATAATTTCAAGAAGCAAAGGATAATGGAGTCAAGCTTTATACAGTAATAAAGTAAGAT
6498850 AGCACCCTTCCTATACTCCAGTTTTTCCCTGACATACACAAAGACT
66 AGCACCCTTCCTATACTCCAGTTTTTCCCTGACATACACAAAGACT
6498896 GCAGAAAACT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 106 1.00
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (114 bp):
AACCTGTATAATTTCAAGAAGCAAAGGATAATGGAGTCAAGCTTTATACAGTAATAAAGTAAGAT
AGCACCCTTCCTATACTCCAGTTTTTCCCTGACATACACAAAGACTACA
Found at i:6500840 original size:13 final size:13
Alignment explanation
Indices: 6500822--6500846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6500812 ACCAATATTG
6500822 TAATAAAATGTAT
1 TAATAAAATGTAT
6500835 TAATAAAATGTA
1 TAATAAAATGTA
6500847 ATAAAAGAAA
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:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
TAATAAAATGTAT
Found at i:6502525 original size:17 final size:17
Alignment explanation
Indices: 6502493--6502526 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6502483 CAAAAGATTC
**
6502493 AAAGAGATAATTAAAAT
1 AAAGAGATAAAAAAAAT
6502510 AAAGAGATAAAAAAAAT
1 AAAGAGATAAAAAAAAT
6502527 TTTACGATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAGAGATAAAAAAAAT
Found at i:6505504 original size:2 final size:2
Alignment explanation
Indices: 6505487--6505536 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
6505477 ATGATTATTG
* *
6505487 AT AT TT AT AT AC AT AT AT AT AT AT AT AT AT AT A- AT CAT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
*
6505528 CT AT AT AT A
1 AT AT AT AT A
6505537 ATTAAAACTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
1 2 0.05
2 35 0.90
3 2 0.05
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:6506023 original size:22 final size:23
Alignment explanation
Indices: 6505995--6506038 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6505985 AATCTCACAA
6505995 CTTTC-TTAAAT-TCATTTATTTT
1 CTTTCTTTAAATAT-ATTTATTTT
6506017 CTTTCTTTAAATATATTTATTT
1 CTTTCTTTAAATATATTTATTT
6506039 AGTTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (23 bp):
CTTTCTTTAAATATATTTATTTT
Found at i:6506200 original size:18 final size:18
Alignment explanation
Indices: 6506166--6506200 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6506156 TTTATATTAC
* *
6506166 TATTTTAATATTTAAATA
1 TATTTTAAAATTAAAATA
6506184 TATTTTAAAATTAAAAT
1 TATTTTAAAATTAAAAT
6506201 TTAATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTAAAATTAAAATA
Found at i:6506845 original size:18 final size:21
Alignment explanation
Indices: 6506822--6506862 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6506812 TTTGAATAAT
6506822 TATTTA-T-TAAATT-TTATA
1 TATTTATTCTAAATTGTTATA
6506840 TATTTATTCTAAATTGTTATA
1 TATTTATTCTAAATTGTTATA
6506861 TA
1 TA
6506863 ATATTATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 1 0.05
20 6 0.30
21 7 0.35
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTATTCTAAATTGTTATA
Found at i:6506867 original size:20 final size:20
Alignment explanation
Indices: 6506829--6506867 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6506819 AATTATTTAT
*
6506829 TAAATTTTATATATTTATTC
1 TAAATTTTATATATATATTC
6506849 TAAATTGTTATATA-ATATT
1 TAAATT-TTATATATATATT
6506868 ATTTCAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (20 bp):
TAAATTTTATATATATATTC
Found at i:6508386 original size:2 final size:2
Alignment explanation
Indices: 6508374--6508403 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
6508364 TATAGACAAA
6508374 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT A
6508404 AAAGCAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6508941 original size:18 final size:18
Alignment explanation
Indices: 6508907--6508941 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6508897 AATTAATTTT
* *
6508907 TATATTAATATTTAAATA
1 TATATTAAAATTAAAATA
6508925 TATATTAAAATTAAAAT
1 TATATTAAAATTAAAAT
6508942 TTGATAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TATATTAAAATTAAAATA
Found at i:6510310 original size:23 final size:23
Alignment explanation
Indices: 6510237--6510312 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
6510227 TTAATTAGAT
* * *
6510237 TTTAATTGAGC-TTTAAGTTCAGG
1 TTTAAATGAGCTTTTAA-TTTAAG
* *
6510260 TTTAAATGA-ATTTAAATTTAAG
1 TTTAAATGAGCTTTTAATTTAAG
* *
6510282 TCTAAATGAGCTTTTAATTTATG
1 TTTAAATGAGCTTTTAATTTAAG
6510305 TTTAAATG
1 TTTAAATG
6510313 GGTTTAAGTT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
22 12 0.29
23 29 0.71
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTAAATGAGCTTTTAATTTAAG
Found at i:6512860 original size:2 final size:2
Alignment explanation
Indices: 6512853--6512895 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
6512843 AGGCCGAAAC
6512853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6512895 T
1 T
6512896 GTCTTGTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6513126 original size:2 final size:2
Alignment explanation
Indices: 6513114--6513146 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6513104 TGAGCGATAC
6513114 AT AT A- 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 AT
6513147 TCATGCAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6514370 original size:23 final size:23
Alignment explanation
Indices: 6514342--6514387 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6514332 CAATCTATGA
6514342 GAATTT-ATTTTTTAAATATTGAT
1 GAATTTAATTTTTTAAAT-TTGAT
*
6514365 GAATTTAATTTTTTTAATTTGAT
1 GAATTTAATTTTTTAAATTTGAT
6514388 TTACGGTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
GAATTTAATTTTTTAAATTTGAT
Found at i:6514483 original size:2 final size:2
Alignment explanation
Indices: 6514476--6514508 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6514466 TTCAAACCAA
6514476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6514509 AAGAATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6515705 original size:2 final size:2
Alignment explanation
Indices: 6515698--6515724 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6515688 ATAATTAAAT
6515698 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 T
6515725 CTTTCTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6516575 original size:22 final size:23
Alignment explanation
Indices: 6516523--6516576 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
6516513 TTTGAATATA
* *
6516523 TTATATTTTATTTGTATTATTTT
1 TTATATTATATTTGTAATATTTT
6516546 TT-TAATTATATTT-TAATATTTT
1 TTAT-ATTATATTTGTAATATTTT
6516568 TTATATTAT
1 TTATATTAT
6516577 GTAATCGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (23 bp):
TTATATTATATTTGTAATATTTT
Found at i:6527273 original size:12 final size:13
Alignment explanation
Indices: 6527256--6527319 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 13
6527246 AAGACATAGA
6527256 TAATAA-AAAAAT
1 TAATAATAAAAAT
6527268 TAATAATAAAAAAAT
1 TAATAAT--AAAAAT
*
6527283 TAATATTTAAAAAT
1 TAATA-ATAAAAAT
* *
6527297 TGAAAAATAAAAAA
1 T-AATAATAAAAAT
6527311 TAA-AATAAA
1 TAATAATAAA
6527320 TAAAAGGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 12 0.28
13 2 0.05
14 14 0.33
15 14 0.33
16 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
TAATAATAAAAAT
Found at i:6527293 original size:16 final size:15
Alignment explanation
Indices: 6527255--6527310 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
6527245 TAAGACATAG
6527255 ATAATAAAAAAATTA
1 ATAATAAAAAAATTA
6527270 ATAATAAAAAAATTA
1 ATAATAAAAAAATTA
**
6527285 AT-ATTTAAAAATTGA
1 ATAATAAAAAAATT-A
*
6527300 AAAATAAAAAA
1 ATAATAAAAAA
6527311 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.26
15 19 0.56
16 6 0.18
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (15 bp):
ATAATAAAAAAATTA
Found at i:6527311 original size:15 final size:14
Alignment explanation
Indices: 6527255--6527319 Score: 62
Period size: 15 Copynumber: 4.6 Consensus size: 14
6527245 TAAGACATAG
6527255 ATAATAAAAAAATTA
1 ATAAT-AAAAAATTA
6527270 ATAATAAAAAAATTA
1 ATAAT-AAAAAATTA
* *
6527285 ATATTTAAAAATTGA
1 ATAATAAAAAATT-A
*
6527300 AAAATAAAAAA-TA
1 ATAATAAAAAATTA
6527313 A-AATAAA
1 ATAATAAA
6527320 TAAAAGGGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
12 6 0.14
13 2 0.05
14 8 0.18
15 28 0.64
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (14 bp):
ATAATAAAAAATTA
Found at i:6527419 original size:22 final size:22
Alignment explanation
Indices: 6527394--6527462 Score: 54
Period size: 22 Copynumber: 3.0 Consensus size: 22
6527384 ACGAAAAAAT
6527394 AATAACATAATATATAAAATAA
1 AATAACATAATATATAAAATAA
*
6527416 AATATCA-ACATA-A-AATAATAA
1 AATAACATA-ATATATAA-AATAA
*
6527437 TAATAATATAATATAATATAAATAA
1 -AATAACATAATAT-ATA-AAATAA
6527462 A
1 A
6527463 TATATTAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
20 2 0.06
21 7 0.19
22 17 0.47
23 1 0.03
24 2 0.06
25 6 0.17
26 1 0.03
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAACATAATATATAAAATAA
Found at i:6527430 original size:13 final size:12
Alignment explanation
Indices: 6527389--6527432 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
6527379 AAACTACGAA
6527389 AAAATAATAACAT
1 AAAAT-ATAACAT
* *
6527402 AATATATAAAAT
1 AAAATATAACAT
6527414 AAAATATCAACAT
1 AAAATAT-AACAT
6527427 AAAATA
1 AAAATA
6527433 ATAATAATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATATAACAT
Found at i:6527461 original size:14 final size:14
Alignment explanation
Indices: 6527428--6527508 Score: 50
Period size: 14 Copynumber: 6.0 Consensus size: 14
6527418 TATCAACATA
6527428 AAATAATAATAATA-
1 AAATAAT-ATAATAT
*
6527442 ATATAATATAATAT
1 AAATAATATAATAT
6527456 AAATAA-AT-ATATT
1 AAATAATATAATA-T
*
6527469 AAAAAAT-TAATATT
1 AAATAATATAATA-T
*
6527483 ATAA-AAT-TTATAT
1 A-AATAATATAATAT
6527496 AAAT-ATATAATAT
1 AAATAATATAATAT
6527509 TTTAAATAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
12 7 0.13
13 22 0.40
14 24 0.44
15 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAATATAATAT
Found at i:6528011 original size:17 final size:18
Alignment explanation
Indices: 6527973--6528017 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
6527963 ATTTATTATA
6527973 TTATTAATATATTATCTT
1 TTATTAATATATTATCTT
*
6527991 TTATTAATATATT-TTTT
1 TTATTAATATATTATCTT
6528008 TTATTAATAT
1 TTATTAATAT
6528018 TAAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTAATATATTATCTT
Found at i:6528075 original size:12 final size:13
Alignment explanation
Indices: 6528050--6528078 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6528040 CAATTCAAAT
6528050 TTTAAAATTTTAA
1 TTTAAAATTTTAA
6528063 TTTAAAA-TTTAA
1 TTTAAAATTTTAA
6528075 TTTA
1 TTTA
6528079 TACAAATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTAAAATTTTAA
Found at i:6531058 original size:22 final size:21
Alignment explanation
Indices: 6531030--6531072 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6531020 AATATTAAAC
6531030 ATATATTTT-TATATTAATATTT
1 ATATATTTTATA-ATTAA-ATTT
6531052 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
6531073 GAATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.20
22 14 0.70
23 2 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:6532426 original size:18 final size:19
Alignment explanation
Indices: 6532385--6532426 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
6532375 AATTTTTAAG
6532385 AAAT-TTTTATATTTAATT
1 AAATATTTTATATTTAATT
*
6532403 ATATATTTTATATTT-ATT
1 AAATATTTTATATTTAATT
6532421 AAATAT
1 AAATAT
6532427 AAAATATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
AAATATTTTATATTTAATT
Found at i:6532581 original size:2 final size:2
Alignment explanation
Indices: 6532570--6532602 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6532560 AGAAAGGTTT
6532570 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6532603 ATAATTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6532869 original size:20 final size:19
Alignment explanation
Indices: 6532845--6532884 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6532835 TATTAAAAAA
6532845 TTAT-TTTTAT-ATTAATAT
1 TTATATTTTATAATTAA-AT
6532863 TTATATTTTATAATTAAAT
1 TTATATTTTATAATTAAAT
6532882 TTA
1 TTA
6532885 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 4 0.20
19 11 0.55
20 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATTTTATAATTAAAT
Found at i:6532920 original size:19 final size:19
Alignment explanation
Indices: 6532881--6532921 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
6532871 TATAATTAAA
6532881 TTTAAATAAAAATATAATAT
1 TTTAAATAAAAATAT-ATAT
6532901 TTTAATATAAAAATAT-TAT
1 TTTAA-ATAAAAATATATAT
6532920 TT
1 TT
6532922 GGAGCGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 5 0.25
21 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAATAAAAATATATAT
Found at i:6533115 original size:12 final size:12
Alignment explanation
Indices: 6533100--6533145 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
6533090 TGATTCGTAA
*
6533100 ATTTATTTTATT
1 ATTTATTATATT
6533112 ATTTATTATATT
1 ATTTATTATATT
*
6533124 A-TTA-AATATT
1 ATTTATTATATT
6533134 ATTT-TTATATT
1 ATTTATTATATT
6533145 A
1 A
6533146 ATAGTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.21
11 11 0.38
12 12 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:6533144 original size:18 final size:21
Alignment explanation
Indices: 6533123--6533169 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
6533113 TTTATTATAT
6533123 TATTAAATA-TTAT-T-TTTA
1 TATTAAATAGTTATATATTTA
6533141 TATT-AATAGTTATATATTTA
1 TATTAAATAGTTATATATTTA
6533161 TAATTAAAT
1 T-ATTAAAT
6533170 TTAATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
17 4 0.17
18 8 0.33
19 1 0.04
20 5 0.21
21 3 0.12
22 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTAAATAGTTATATATTTA
Found at i:6533191 original size:30 final size:29
Alignment explanation
Indices: 6533157--6533213 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
6533147 TAGTTATATA
6533157 TTTATAATTAAAT-TTAATTAACAAATTATT
1 TTTATAATTAAATATTAATT--CAAATTATT
*
6533187 TTTATTATTAAATATTAATTCAAATTA
1 TTTATAATTAAATATTAATTCAAATTA
6533214 AATTTACTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 7 0.28
30 12 0.48
31 6 0.24
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTATAATTAAATATTAATTCAAATTATT
Found at i:6534409 original size:22 final size:23
Alignment explanation
Indices: 6534341--6534424 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 23
6534331 TTTATATTTG
* *
6534341 ATATATA-TTTAAATATAATATAAA
1 ATATATATTTTAAATA-AAT-TTAT
**
6534365 ATATAATATTTTAAATATCTTTAT
1 ATAT-ATATTTTAAATAAATTTAT
6534389 ATATATATTTTAAA-AAATTTAT
1 ATATATATTTTAAATAAATTTAT
*
6534411 ATATTTATATTTAA
1 ATATATAT-TTTAA
6534425 TAGGATAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.26
23 15 0.30
24 10 0.20
25 4 0.08
26 8 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATATATTTTAAATAAATTTAT
Found at i:6534413 original size:24 final size:23
Alignment explanation
Indices: 6534365--6534424 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
6534355 ATAATATAAA
*
6534365 ATATA-ATATTTTAAATATCTTT
1 ATATATATATTTTAAAAATCTTT
*
6534387 ATATATATATTTTAAAAA-ATTT
1 ATATATATATTTTAAAAATCTTT
*
6534409 ATATATTTATATTTAA
1 ATATATATAT-TTTAA
6534425 TAGGATAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.52
23 16 0.48
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATATATATTTTAAAAATCTTT
Found at i:6535032 original size:21 final size:20
Alignment explanation
Indices: 6535008--6535050 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
6534998 CTAATTATTT
6535008 TTTAATTATATAATATATTAA
1 TTTAATTATATAATATA-TAA
*
6535029 TTT-A-TATATATTATATAA
1 TTTAATTATATAATATATAA
6535047 TTTA
1 TTTA
6535051 TATCATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 1 0.05
21 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTAATTATATAATATATAA
Found at i:6535059 original size:16 final size:16
Alignment explanation
Indices: 6535013--6535064 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 16
6535003 TATTTTTTAA
6535013 TTATATAATATATTAAT
1 TTATATAATATA-TAAT
6535030 TTATATATATTATATAAT
1 TTATATA-A-TATATAAT
* *
6535048 TTATATCATATAGAAT
1 TTATATAATATATAAT
6535064 T
1 T
6535065 AAATATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 8 0.26
17 8 0.26
18 11 0.35
19 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
TTATATAATATATAAT
Found at i:6535570 original size:2 final size:2
Alignment explanation
Indices: 6535563--6535589 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6535553 TAGCTTGTGC
6535563 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6535590 AAATTTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6538477 original size:23 final size:23
Alignment explanation
Indices: 6538438--6538483 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6538428 TTGAATGAAT
*
6538438 TTATTTAATATTTACAAAATAAG
1 TTATTTAATATTAACAAAATAAG
*
6538461 TTATTTAAT-TTAAACAAACTAAG
1 TTATTTAATATT-AACAAAATAAG
6538484 CACAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (23 bp):
TTATTTAATATTAACAAAATAAG
Found at i:6538546 original size:16 final size:16
Alignment explanation
Indices: 6538509--6538553 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6538499 AAAATTTTTA
*
6538509 ATAAATACAAACTAAAT
1 ATAAATATAAA-TAAAT
6538526 ATAAATATAAATAAAT
1 ATAAATATAAATAAAT
* *
6538542 TTAAAAATAAAT
1 ATAAATATAAAT
6538554 GGACAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATATAAATAAAT
Found at i:6539566 original size:63 final size:63
Alignment explanation
Indices: 6539467--6539660 Score: 262
Period size: 63 Copynumber: 3.1 Consensus size: 63
6539457 TTATCATTAT
* ** * * *
6539467 AAAAGATGAAGTGAGTGAGGGACAGAAGCTGAATTCGTCGCGAAACGAAGAGATTAGTGCAAG
1 AAAAGATGAAGTGAATGAGGGGGAGAAGCTGAATTCGTCGCAAAACGAAGAGATCAATGCAAG
* * *
6539530 AAAAGATGAAGTGAAAGAGGGGGAGAAGCTGAATTCGTCGCCAAACGAAGAGATCAATGTAAG
1 AAAAGATGAAGTGAATGAGGGGGAGAAGCTGAATTCGTCGCAAAACGAAGAGATCAATGCAAG
* * * * *
6539593 AAAAGATGAAATGAATGAGGAGGAGAAGCTGAATTCGTCGCAAAACGAAGAGATAAACGTAAG
1 AAAAGATGAAGTGAATGAGGGGGAGAAGCTGAATTCGTCGCAAAACGAAGAGATCAATGCAAG
6539656 AAAAG
1 AAAAG
6539661 GAGAAGAGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 117 1.00
ACGTcount: A:0.44, C:0.10, G:0.31, T:0.14
Consensus pattern (63 bp):
AAAAGATGAAGTGAATGAGGGGGAGAAGCTGAATTCGTCGCAAAACGAAGAGATCAATGCAAG
Found at i:6541321 original size:21 final size:21
Alignment explanation
Indices: 6541287--6541326 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6541277 AAAATTTATT
6541287 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
6541308 TAAATATTAA-TATAAAATA
1 TAAAT-TTAATTATAAAATA
6541327 ATTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:6541335 original size:18 final size:17
Alignment explanation
Indices: 6541314--6541362 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
6541304 TATATAAATA
6541314 TTAATATAAAATAATTTT
1 TTAATATAAAAT-ATTTT
**
6541332 TTAATATTTAATATTTT
1 TTAATATAAAATATTTT
6541349 TTATATAATAAAAT
1 TTA-AT-ATAAAAT
6541363 GAACTATCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 8 0.32
18 12 0.48
19 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATAAAATATTTT
Found at i:6543751 original size:9 final size:9
Alignment explanation
Indices: 6543737--6543761 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6543727 ATGTTGAAGT
6543737 AGATGATCA
1 AGATGATCA
6543746 AGATGATCA
1 AGATGATCA
6543755 AGATGAT
1 AGATGAT
6543762 GCTGATGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.24
Consensus pattern (9 bp):
AGATGATCA
Found at i:6544989 original size:22 final size:23
Alignment explanation
Indices: 6544961--6545018 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
6544951 AAAATATTAA
*
6544961 TTTTATATTAATATTT-ATATAT
1 TTTTATATTAATATTTAATAAAT
6544983 TTTTATAATTAA-ATTTAATAAAT
1 TTTTAT-ATTAATATTTAATAAAT
* *
6545006 CTTTAAATTAATA
1 TTTTATATTAATA
6545019 AAAAATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 15 0.50
23 15 0.50
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTTTATATTAATATTTAATAAAT
Found at i:6545466 original size:22 final size:23
Alignment explanation
Indices: 6545438--6545482 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
6545428 ATTGGTTCAT
*
6545438 GAAAAATAAATTTTA-ATTCAAA
1 GAAAAATAAATTTAATATTCAAA
*
6545460 GAAAAATTAATTTAATATTCAAA
1 GAAAAATAAATTTAATATTCAAA
6545483 AAGAGAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
GAAAAATAAATTTAATATTCAAA
Found at i:6547088 original size:29 final size:29
Alignment explanation
Indices: 6547046--6547104 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
6547036 AATAATATAA
* *
6547046 ATACTCTAAAAAATAGGTGCTACTTTATT
1 ATACTCTAAAAAATAGATGCTACTCTATT
*
6547075 ATACTCTAAAAAATATATGCTACTCTATT
1 ATACTCTAAAAAATAGATGCTACTCTATT
6547104 A
1 A
6547105 ACTTATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (29 bp):
ATACTCTAAAAAATAGATGCTACTCTATT
Found at i:6547113 original size:29 final size:29
Alignment explanation
Indices: 6547046--6547114 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
6547036 AATAATATAA
* * *
6547046 ATACTCTAAAAAATAGGTGCTACTTTATT
1 ATACTATAAAAAATAGATGCTACTCTATT
* *
6547075 ATACTCTAAAAAATATATGCTACTCTATT
1 ATACTATAAAAAATAGATGCTACTCTATT
6547104 A-ACTTATAAAA
1 ATAC-TATAAAA
6547115 TTTAAAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.36
Consensus pattern (29 bp):
ATACTATAAAAAATAGATGCTACTCTATT
Found at i:6552682 original size:171 final size:171
Alignment explanation
Indices: 6552397--6552736 Score: 662
Period size: 171 Copynumber: 2.0 Consensus size: 171
6552387 ATTGGACAAT
*
6552397 TAATGAACATGTACATATCAAAGATTTAATTAATAATTGTAATGCAATGTAATAGTTATAATTTT
1 TAATGAACATGTACATATCAAAGATTTAACTAATAATTGTAATGCAATGTAATAGTTATAATTTT
6552462 GTAATATTTAATTCTTTTTATTATAAATATTCATCACAACTGGATCTGATTGGTTAACAATTCTT
66 GTAATATTTAATTCTTTTTATTATAAATATTCATCACAACTGGATCTGATTGGTTAACAATTCTT
6552527 AATAATTAATTTACAACCATGAATTACATCTATATAGATGG
131 AATAATTAATTTACAACCATGAATTACATCTATATAGATGG
6552568 TAATGAACATGTACATATCAAAGATTTAACTAATAATTGTAATGCAATGTAATAGTTATAATTTT
1 TAATGAACATGTACATATCAAAGATTTAACTAATAATTGTAATGCAATGTAATAGTTATAATTTT
6552633 GTAATATTTAATTCTTTTTATTATAAATATTCATCACAACTGGATCTGATTGGTTAACAATTCTT
66 GTAATATTTAATTCTTTTTATTATAAATATTCATCACAACTGGATCTGATTGGTTAACAATTCTT
*
6552698 AATAATTAATTTACAACCATGAATTACATTTATATAGAT
131 AATAATTAATTTACAACCATGAATTACATCTATATAGAT
6552737 TCTATATAAT
Statistics
Matches: 167, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
171 167 1.00
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.41
Consensus pattern (171 bp):
TAATGAACATGTACATATCAAAGATTTAACTAATAATTGTAATGCAATGTAATAGTTATAATTTT
GTAATATTTAATTCTTTTTATTATAAATATTCATCACAACTGGATCTGATTGGTTAACAATTCTT
AATAATTAATTTACAACCATGAATTACATCTATATAGATGG
Found at i:6555507 original size:19 final size:20
Alignment explanation
Indices: 6555468--6555508 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6555458 TGAATAGAAT
6555468 ATATAAAAAAATAAAACATG
1 ATATAAAAAAATAAAACATG
* *
6555488 ATATAATAAAA-AAAATATG
1 ATATAAAAAAATAAAACATG
6555507 AT
1 AT
6555509 CACATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.24
Consensus pattern (20 bp):
ATATAAAAAAATAAAACATG
Found at i:6559733 original size:21 final size:21
Alignment explanation
Indices: 6559684--6559746 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 21
6559674 GATATTACTG
6559684 TTATTATA-TTA-AATAAT-T
1 TTATTATATTTATAATAATAT
6559702 TTACTT-T-TTTATAATAATAT
1 TTA-TTATATTTATAATAATAT
*
6559722 TTATTATATTTATAATTATAAT
1 TTATTATATTTATAATAAT-AT
6559744 TTA
1 TTA
6559747 AATCTTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
18 7 0.19
19 10 0.27
20 5 0.14
21 10 0.27
22 5 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTATATTTATAATAATAT
Found at i:6561943 original size:20 final size:20
Alignment explanation
Indices: 6561906--6561944 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6561896 ATGATATTTT
*
6561906 TTTTATTGTCTAAAAAAATC
1 TTTTATTGTATAAAAAAATC
*
6561926 TTTTATTTTATAATAAAAA
1 TTTTATTGTATAA-AAAAA
6561945 GAGTTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.49
Consensus pattern (20 bp):
TTTTATTGTATAAAAAAATC
Found at i:6562567 original size:2 final size:2
Alignment explanation
Indices: 6562562--6562586 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6562552 AAAAAAGAGA
6562562 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6562587 GATTACAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6564090 original size:3 final size:3
Alignment explanation
Indices: 6564082--6564122 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
6564072 TTGATGGGAG
*
6564082 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
6564123 TGAAACCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:6564127 original size:9 final size:9
Alignment explanation
Indices: 6564083--6564127 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
6564073 TGATGGGAGG
*
6564083 AAGAAGAAG
1 AAGAAGAAA
*
6564092 AAGAAGAAG
1 AAGAAGAAA
*
6564101 AAGAAGAAG
1 AAGAAGAAA
6564110 AAGAAGAAA
1 AAGAAGAAA
*
6564119 AAGATGAAA
1 AAGAAGAAA
6564128 CCCTTTTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (9 bp):
AAGAAGAAA
Found at i:6564191 original size:16 final size:16
Alignment explanation
Indices: 6564170--6564206 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
6564160 GATGAAAGTC
*
6564170 AAAAAAATAAATAATT
1 AAAAAAATAAATAAAT
*
6564186 AAAAAATTAAATAAAT
1 AAAAAAATAAATAAAT
6564202 AAAAA
1 AAAAA
6564207 GAAAGTAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAAATAAATAAAT
Found at i:6565058 original size:20 final size:19
Alignment explanation
Indices: 6565035--6565074 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
6565025 CTTAATAAAA
6565035 ATAT-TTTTATATTAATATTT
1 ATATATTTTA-ATTAA-ATTT
6565055 ATATATTTTAATTAAATTT
1 ATATATTTTAATTAAATTT
6565074 A
1 A
6565075 AATAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.26
20 9 0.47
21 5 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATATATTTTAATTAAATTT
Found at i:6574509 original size:2 final size:2
Alignment explanation
Indices: 6574504--6574557 Score: 80
Period size: 2 Copynumber: 29.0 Consensus size: 2
6574494 CCAACACACT
6574504 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
6574544 GA GA -A G- GA GA GA GA
1 GA GA GA GA GA GA GA GA
6574558 AAGAAAGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
1 4 0.08
2 44 0.92
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:6574573 original size:20 final size:20
Alignment explanation
Indices: 6574530--6574573 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6574520 GAGAGAGAGA
* * *
6574530 GAGAGAGAAGGAGAGAGAAG
1 GAGAGAGAAAGAAAGAAAAG
*
6574550 GAGAGAGAAAGAAAGAAAAT
1 GAGAGAGAAAGAAAGAAAAG
6574570 GAGA
1 GAGA
6574574 AAAGGAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.41, T:0.02
Consensus pattern (20 bp):
GAGAGAGAAAGAAAGAAAAG
Found at i:6575061 original size:2 final size:2
Alignment explanation
Indices: 6575056--6575080 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6575046 AATAAAAAAA
6575056 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6575081 AATAGATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6577167 original size:4 final size:4
Alignment explanation
Indices: 6577160--6577188 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
6577150 TTCTTTACAC
6577160 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
6577189 TATTTATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6577989 original size:15 final size:16
Alignment explanation
Indices: 6577969--6578008 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
6577959 ATTAAATTAC
*
6577969 TAAAAATTAATTTTTT
1 TAAAAATTAATTTTTA
6577985 TAAAAA-T-ATTTTTA
1 TAAAAATTAATTTTTA
6577999 TAAAAATTAA
1 TAAAAATTAA
6578009 ATTAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.57
15 2 0.10
16 7 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAAAATTAATTTTTA
Found at i:6581041 original size:26 final size:27
Alignment explanation
Indices: 6580992--6581047 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
6580982 AAAAATAATA
*
6580992 ATAATAAAATAAAAAATATCTTTTTAT
1 ATAAAAAAATAAAAAATATCTTTTTAT
*
6581019 ATAAAAAAATAAAATATAT-TTTTTAT
1 ATAAAAAAATAAAAAATATCTTTTTAT
6581045 ATA
1 ATA
6581048 TAGCAATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
ATAAAAAAATAAAAAATATCTTTTTAT
Found at i:6583603 original size:2 final size:2
Alignment explanation
Indices: 6583596--6583622 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6583586 TTATTGTATG
6583596 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 T
6583623 TTATGTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6585162 original size:13 final size:14
Alignment explanation
Indices: 6585133--6585165 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
6585123 GAATTTTTAT
*
6585133 TTTTATTCTTTTTA
1 TTTTATTCTTTTCA
6585147 TTTTATT-TTTTCA
1 TTTTATTCTTTTCA
6585160 TTTTAT
1 TTTTAT
6585166 AATTTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTCTTTTCA
Found at i:6585318 original size:16 final size:15
Alignment explanation
Indices: 6585289--6585355 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
6585279 TGGATTGATA
*
6585289 TAAATATTAGATTAATT
1 TAAA-ATTATATTAA-T
6585306 TAAAATTATATTAAT
1 TAAAATTATATTAAT
6585321 TAAAATTATA-T-A-
1 TAAAATTATATTAAT
6585333 TAAATATTAT-TTAAT
1 TAAA-ATTATATTAAT
6585348 TAATAATT
1 TAA-AATT
6585356 TAAATATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
12 4 0.09
13 7 0.16
14 2 0.05
15 17 0.39
16 10 0.23
17 4 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
TAAAATTATATTAAT
Found at i:6585359 original size:23 final size:25
Alignment explanation
Indices: 6585294--6585369 Score: 77
Period size: 27 Copynumber: 3.0 Consensus size: 25
6585284 TGATATAAAT
*
6585294 ATTAGATTAATTTAAA-ATTATATTA
1 ATTAAATTAATTTAAATATTAT-TTA
*
6585319 ATTAAAATTATATATAAATATTATTTA
1 ATT-AAATTA-ATTTAAATATTATTTA
6585346 ATT-AA-TAATTTAAATATTAATTTA
1 ATTAAATTAATTTAAATATT-ATTTA
6585370 TAAATATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 10 0.23
24 7 0.16
25 5 0.11
26 5 0.11
27 12 0.27
28 5 0.11
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
ATTAAATTAATTTAAATATTATTTA
Found at i:6588972 original size:17 final size:16
Alignment explanation
Indices: 6588952--6588988 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
6588942 TTGAAAAGAT
6588952 AAAAATTAAAATAAAAG
1 AAAAATTAAAA-AAAAG
*
6588969 AAAAATTAAAAAATAG
1 AAAAATTAAAAAAAAG
6588985 AAAA
1 AAAA
6588989 TATTTTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAAATTAAAAAAAAG
Found at i:6590141 original size:24 final size:22
Alignment explanation
Indices: 6590114--6590175 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
6590104 AAATTAAATA
6590114 TAAATATATAAATAATATAATTTT
1 TAAATATATAAATAA-A-AATTTT
6590138 TAAATATATAAAATAAAAATTTT
1 TAAATATAT-AAATAAAAATTTT
* *
6590161 AAAAAAT-TAAATAAA
1 TAAATATATAAATAAA
6590176 TTTATTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 7 0.20
22 1 0.03
23 11 0.31
24 10 0.29
25 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATATATAAATAAAAATTTT
Found at i:6590152 original size:22 final size:24
Alignment explanation
Indices: 6590114--6590163 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
6590104 AAATTAAATA
* *
6590114 TAAATATATAAATAATATAATTTT
1 TAAATATATAAATAATAAAAATTT
6590138 TAAATATAT-AA-AATAAAAATTT
1 TAAATATATAAATAATAAAAATTT
6590160 TAAA
1 TAAA
6590164 AAATTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 2 0.08
24 9 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAATATATAAATAATAAAAATTT
Found at i:6594484 original size:24 final size:22
Alignment explanation
Indices: 6594438--6594493 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
6594428 AAATATAATT
*
6594438 ATATAAATATAATTCGAATAAA
1 ATATAAATATAATACGAATAAA
6594460 ATAATTAAATATAATACG-ATAAAA
1 AT-A-TAAATATAATACGAAT-AAA
6594484 ATATAAATAT
1 ATATAAATAT
6594494 TAAAATTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 9 0.30
23 4 0.13
24 17 0.57
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
ATATAAATATAATACGAATAAA
Found at i:6594990 original size:26 final size:26
Alignment explanation
Indices: 6594961--6595040 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 26
6594951 AAATAAAAAT
6594961 TTATATATTTATATAATATTAATATA
1 TTATATATTTATATAATATTAATATA
* *
6594987 TTATAT-TATA-ATAATATTTATACT-
1 TTATATATTTATATAATATTAATA-TA
* * *
6595011 TTTTATATTCATATAATTTTTAATATA
1 TTATATATTTATATAA-TATTAATATA
6595038 TTA
1 TTA
6595041 ATAATTAATA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
24 16 0.39
25 6 0.15
26 11 0.27
27 8 0.20
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATATATTTATATAATATTAATATA
Done.