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 34 of 52
Found at i:5762354 original size:22 final size:24
Alignment explanation
Indices: 5762329--5762380 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
5762319 ATAAAATTTC
5762329 AAAAATGTAA-TTATA-AATTAA-T
1 AAAAAT-TAATTTATATAATTAATT
*
5762351 -AAAATTAATTTTTATAATTAATT
1 AAAAATTAATTTATATAATTAATT
5762374 AAAAATT
1 AAAAATT
5762381 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 3 0.12
21 9 0.36
22 6 0.24
23 1 0.04
24 6 0.24
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (24 bp):
AAAAATTAATTTATATAATTAATT
Found at i:5763817 original size:23 final size:23
Alignment explanation
Indices: 5763791--5763834 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
5763781 TATATAATCC
*
5763791 AAATATGGTATAAAAAATAATTA
1 AAATATGATATAAAAAATAATTA
*
5763814 AAATATGATATAAAATATAAT
1 AAATATGATATAAAAAATAAT
5763835 ATGATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (23 bp):
AAATATGATATAAAAAATAATTA
Found at i:5763829 original size:12 final size:12
Alignment explanation
Indices: 5763799--5763836 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5763789 CCAAATATGG
*
5763799 TATAAAAAATAA
1 TATAAAATATAA
*
5763811 T-TAAAATATGA
1 TATAAAATATAA
5763822 TATAAAATATAA
1 TATAAAATATAA
5763834 TAT
1 TAT
5763837 GATATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
TATAAAATATAA
Found at i:5763837 original size:17 final size:16
Alignment explanation
Indices: 5763815--5763851 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
5763805 AAATAATTAA
5763815 AATATGATATAAAATAT
1 AATATGATATAAAA-AT
5763832 AATATGATATAAAAAT
1 AATATGATATAAAAAT
5763848 AATA
1 AATA
5763852 AAACAATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AATATGATATAAAAAT
Found at i:5763931 original size:21 final size:21
Alignment explanation
Indices: 5763899--5763941 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
5763889 AAAATACAAA
5763899 TTATTAACATATATTAA-ATTT
1 TTATTAACATATA-TAATATTT
5763920 TTATATAA-ATATATAATATTT
1 TTAT-TAACATATATAATATTT
5763941 T
1 T
5763942 AAATATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.15
21 14 0.70
22 3 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTATTAACATATATAATATTT
Found at i:5763954 original size:20 final size:19
Alignment explanation
Indices: 5763897--5763955 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
5763887 ATAAAATACA
*
5763897 AATTATTAACATAT-ATTA-
1 AATTTTTAA-ATATAATTAT
*
5763915 AATTTTTATATA-AATATAT
1 AATTTTTAAATATAAT-TAT
5763934 AATATTTTAAATATAATTAT
1 AAT-TTTTAAATATAATTAT
5763954 AA
1 AA
5763956 AAAATAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.15
18 9 0.27
19 3 0.09
20 13 0.39
21 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTTTTAAATATAATTAT
Found at i:5764011 original size:46 final size:45
Alignment explanation
Indices: 5763922--5764020 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 45
5763912 TTAAATTTTT
* *
5763922 ATATAAATATATAATATTTTAAATATAATTATAAAAAATAAAATA
1 ATATAAATATATAATATATCAAATATAATTATAAAAAATAAAATA
*
5763967 ATTATAAATATATAA-ATAATCAAATCTAATTA-AAAAAATAAAAATA
1 A-TATAAATATATAATAT-ATCAAATATAATTATAAAAAAT-AAAATA
5764013 A-ATAAATA
1 ATATAAATA
5764021 AATGTTGGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
44 7 0.15
45 10 0.21
46 31 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (45 bp):
ATATAAATATATAATATATCAAATATAATTATAAAAAATAAAATA
Found at i:5764271 original size:6 final size:6
Alignment explanation
Indices: 5764251--5764289 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
5764241 GTGGATGGGG
5764251 AAGAGA AAGAGGA AAGAGA AAGAGA AAGAGA AAGGAGA A
1 AAGAGA AAGA-GA AAGAGA AAGAGA AAGAGA AA-GAGA A
5764290 GAAAAAGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
AAGAGA
Found at i:5764275 original size:19 final size:19
Alignment explanation
Indices: 5764251--5764289 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
5764241 GTGGATGGGG
5764251 AAGAGAAAGAGGAAA-GAGA
1 AAGAGAAAGA-GAAAGGAGA
5764270 AAGAGAAAGAGAAAGGAGA
1 AAGAGAAAGAGAAAGGAGA
5764289 A
1 A
5764290 GAAAAAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
AAGAGAAAGAGAAAGGAGA
Found at i:5764291 original size:12 final size:12
Alignment explanation
Indices: 5764251--5764289 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
5764241 GTGGATGGGG
5764251 AAGAGAAAGAGGA
1 AAGAGAAAGA-GA
5764264 AAGAGAAAGAGA
1 AAGAGAAAGAGA
5764276 AAGAGAAAGGAGA
1 AAGAGAAA-GAGA
5764289 A
1 A
5764290 GAAAAAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
AAGAGAAAGAGA
Found at i:5765603 original size:2 final size:2
Alignment explanation
Indices: 5765596--5765633 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
5765586 AAAAAGGCAA
* *
5765596 AT AT AT AT AT AT AT AT AT GT GT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5765634 AGCAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5767378 original size:16 final size:17
Alignment explanation
Indices: 5767357--5767407 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
5767347 AATACTAATT
5767357 TATATTTAAATTT-TAA
1 TATATTTAAATTTATAA
*
5767373 TATATTTAATAATTTATAT
1 TATATTT-A-AATTTATAA
*
5767392 TATATTTACATTTATA
1 TATATTTAAATTTATA
5767408 TGATTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 7 0.23
17 8 0.27
18 6 0.20
19 9 0.30
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATTTAAATTTATAA
Found at i:5767612 original size:2 final size:2
Alignment explanation
Indices: 5767605--5767637 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5767595 CCAATATTAC
5767605 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
5767638 AACTTTTACT
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:5769583 original size:5 final size:5
Alignment explanation
Indices: 5769573--5769652 Score: 74
Period size: 5 Copynumber: 15.4 Consensus size: 5
5769563 TGATCAAATT
*
5769573 ATATA ATATAA ATATA ATATA ATATA A-A-A ATTAAA ATATA ATATAAA
1 ATATA ATAT-A ATATA ATATA ATATA ATATA A-TATA ATATA ATAT--A
* *
5769620 ATATA ATATT ATATA AAATA ATATAA ATATA AT
1 ATATA ATATA ATATA ATATA ATAT-A ATATA AT
5769653 TATATCACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 43 0.68
6 12 0.19
7 5 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:5769615 original size:29 final size:31
Alignment explanation
Indices: 5769568--5769690 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 31
5769558 TCATATGATC
5769568 AAATTATATAATATAA-ATATAATATAATATAA
1 AAATTATA-AATATAATATA-AATATAATATAA
5769600 AAATTA-AAATATAATATAAAATATAATATTATA
1 AAATTATAAATATAATAT-AAATATAATA-TA-A
* *
5769633 TAAA--AT-AATATAAATATAATTATATCACATAA
1 -AAATTATAAATAT-AATATAA--ATATAATATAA
*
5769665 AAATATATAAATATAAAATAAATATA
1 AAAT-TATAAATATAATATAAATATA
5769691 TCAAATAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
30 7 0.09
31 15 0.20
32 22 0.30
33 8 0.11
34 17 0.23
35 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATTATAAATATAATATAAATATAATATAA
Found at i:5769633 original size:17 final size:17
Alignment explanation
Indices: 5769573--5769690 Score: 103
Period size: 15 Copynumber: 7.3 Consensus size: 17
5769563 TGATCAAATT
5769573 ATATAATAT-AAATATA
1 ATATAATATAAAATATA
*
5769589 ATATAATATAAAAATTAAA
1 ATATAATAT-AAAA-TATA
5769608 ATATAATATAAAATATA
1 ATATAATATAAAATATA
*
5769625 ATATTATAT-AAA-ATA
1 ATATAATATAAAATATA
*
5769640 ATATAA-ATATAAT-T-
1 ATATAATATAAAATATA
5769654 ATATCACATA-AAAATAT-
1 ATAT-A-ATATAAAATATA
5769671 ATA-AATATAAAATA-A
1 ATATAATATAAAATATA
5769686 ATATA
1 ATATA
5769691 TCAAATAATC
Statistics
Matches: 84, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.11
15 22 0.26
16 18 0.21
17 16 0.19
18 7 0.08
19 12 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATAATATAAAATATA
Found at i:5769689 original size:19 final size:20
Alignment explanation
Indices: 5769573--5769691 Score: 100
Period size: 19 Copynumber: 5.8 Consensus size: 20
5769563 TGATCAAATT
*
5769573 ATATAATATAAATATAATATA
1 ATATAAAATAAATAT-ATATA
*
5769594 ATATAAAAATTAA-A-ATATA
1 ATAT-AAAATAAATATATATA
5769613 ATATAAAATATAATATTATATA
1 ATATAAAATA-AATA-TATATA
* * *
5769635 AAATAATATAAATATA-ATT
1 ATATAAAATAAATATATATA
* * *
5769654 ATATCACATAAAAATATATAA
1 ATATAAAATAAATATATAT-A
5769675 ATATAAAATAAATATAT
1 ATATAAAATAAATATAT
5769692 CAAATAATCC
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.06
19 25 0.32
20 5 0.06
21 23 0.30
22 19 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAAAATAAATATATATA
Found at i:5769698 original size:13 final size:11
Alignment explanation
Indices: 5769573--5769690 Score: 64
Period size: 11 Copynumber: 10.5 Consensus size: 11
5769563 TGATCAAATT
*
5769573 ATATAATATAA
1 ATATAAAATAA
*
5769584 ATATAATAT-A
1 ATATAAAATAA
5769594 ATATAAAAATTAAA
1 ATAT-AAAA-T-AA
*
5769608 ATATAATATAA
1 ATATAAAATAA
* *
5769619 A-ATATAATATT
1 ATATAAAATA-A
5769630 ATATAAAAT-A
1 ATATAAAATAA
5769640 ATATAAATATAA
1 ATATAAA-ATAA
* *
5769652 TTATATCACATAA
1 --ATATAAAATAA
* *
5769665 AAAT-ATATAA
1 ATATAAAATAA
5769675 ATATAAAATAA
1 ATATAAAATAA
5769686 ATATA
1 ATATA
5769691 TCAAATAATC
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
10 26 0.31
11 31 0.37
12 9 0.11
13 7 0.08
14 10 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAAATAA
Found at i:5770406 original size:16 final size:16
Alignment explanation
Indices: 5770368--5770409 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
5770358 ATTTTAGATT
*
5770368 TAATATAAA-AAAAAT
1 TAATATAAATAAAAAA
*
5770383 TAAAATAAATAAAAAA
1 TAATATAAATAAAAAA
5770399 TAATATAAATA
1 TAATATAAATA
5770410 TATGAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAATATAAATAAAAAA
Found at i:5770439 original size:32 final size:32
Alignment explanation
Indices: 5770398--5770463 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
5770388 TAAATAAAAA
* * *
5770398 ATAATATAAATATATGAATGTATTAA-ATTTAT
1 ATAAGATAAAT-TATGAATATATTAATAATTAT
*
5770430 ATAAGATAAATTATTAATATATTAATAATTAT
1 ATAAGATAAATTATGAATATATTAATAATTAT
5770462 AT
1 AT
5770464 TTAATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
ATAAGATAAATTATGAATATATTAATAATTAT
Found at i:5770500 original size:21 final size:22
Alignment explanation
Indices: 5770474--5770523 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
5770464 TTAATATTTT
* *
5770474 AAATATAATTATAAT-ATATAA
1 AAATATAATAAAAATAATATAA
5770495 AAATAT-ATAAAAATAATATAA
1 AAATATAATAAAAATAATATAA
*
5770516 ATATATAA
1 AAATATAA
5770524 ATTTATTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATATAATAAAAATAATATAA
Found at i:5770501 original size:10 final size:10
Alignment explanation
Indices: 5770486--5770524 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
5770476 ATATAATTAT
5770486 AATATATAAA
1 AATATATAAA
5770496 AATATATAAA
1 AATATATAAA
*
5770506 AATA-ATATA
1 AATATATAAA
5770515 AATATATAAA
1 AATATATAAA
5770525 TTTATTACGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATATATAAA
Found at i:5771704 original size:22 final size:21
Alignment explanation
Indices: 5771655--5771705 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
5771645 TATTAAAAAT
5771655 ATTAAAAAAATAAAATATATA
1 ATTAAAAAAATAAAATATATA
* * *
5771676 ATATAAAAATATAACATAATTTA
1 AT-TAAAAAAATAAAAT-ATATA
5771699 ATTAAAA
1 ATTAAAA
5771706 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTAAAAAAATAAAATATATA
Found at i:5772174 original size:23 final size:21
Alignment explanation
Indices: 5772131--5772174 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
5772121 ATTTGTTATT
* *
5772131 TTATTTATTTTTAATATATAA
1 TTATATATTTTTAATAAATAA
5772152 TTATATATTTTATAAATAAATAA
1 TTATATATTTT-T-AATAAATAA
5772175 ATTTAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATATTTTTAATAAATAA
Found at i:5772310 original size:29 final size:26
Alignment explanation
Indices: 5772250--5772324 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
5772240 TCAAATTAAG
5772250 ATAAAATTTATTATTTTTAATCTAAAA
1 ATAAAA-TTATTATTTTTAATCTAAAA
*
5772277 TTAAAATTATTATTTTTATTTATC-AATAA
1 ATAAAATTATTATTTTTA---ATCTAA-AA
*
5772306 ATAAAATT-TTAATTTTAAT
1 ATAAAATTATTATTTTTAAT
5772325 TTTTTATTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
25 2 0.05
26 12 0.29
27 5 0.12
28 10 0.24
29 12 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAAAATTATTATTTTTAATCTAAAA
Found at i:5772648 original size:14 final size:15
Alignment explanation
Indices: 5772617--5772657 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
5772607 CACAATTTTA
*
5772617 AAAATAAT-TATGTC
1 AAAATAATATATATC
5772631 AAAATAATATATAT-
1 AAAATAATATATATC
*
5772645 AAAATATTATATA
1 AAAATAATATATA
5772658 GACGAGATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (15 bp):
AAAATAATATATATC
Found at i:5773188 original size:14 final size:15
Alignment explanation
Indices: 5773160--5773188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5773150 TTTTTTTAAC
5773160 AATAAAAATATATTA
1 AATAAAAATATATTA
5773175 AATAAAAATA-ATTA
1 AATAAAAATATATTA
5773189 TTTTTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAAAATATATTA
Found at i:5773224 original size:16 final size:17
Alignment explanation
Indices: 5773187--5773228 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5773177 TAAAAATAAT
5773187 TATTTTTATTAATTTAA
1 TATTTTTATTAATTTAA
*
5773204 AATTTTT-TTATATTT-A
1 TATTTTTATTA-ATTTAA
5773220 TATTTTTAT
1 TATTTTTAT
5773229 ATGTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTATTAATTTAA
Found at i:5773241 original size:3 final size:3
Alignment explanation
Indices: 5773233--5773299 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
5773223 TTTTATATGT
* *
5773233 ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
5773281 ACA GTA ATA ATA GTA ATA A
1 ATA ATA ATA ATA ATA ATA A
5773300 GGTAAGCTAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:5773508 original size:16 final size:15
Alignment explanation
Indices: 5773452--5773504 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
5773442 TTTTATTAGA
5773452 TATTT-AAATTATTT
1 TATTTAAAATTATTT
* *
5773466 TAATTAAAATAAGTTT
1 TATTTAAAATTA-TTT
5773482 TATTT-AAATTATTT
1 TATTTAAAATTATTT
5773496 TATTTAAAA
1 TATTTAAAA
5773505 ATTAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 12 0.38
15 13 0.41
16 7 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATTTAAAATTATTT
Found at i:5773509 original size:21 final size:20
Alignment explanation
Indices: 5773485--5773538 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
5773475 TAAGTTTTAT
5773485 TTAAATTATTTTATTTAAAAA
1 TTAAATTATTTTATTT-AAAA
* **
5773506 TTAAATTAATTTATTTAATT
1 TTAAATTATTTTATTTAAAA
5773526 TTAAATTATTTTA
1 TTAAATTATTTTA
5773539 ACATAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTAAATTATTTTATTTAAAA
Found at i:5779417 original size:16 final size:16
Alignment explanation
Indices: 5779396--5779439 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5779386 ATATAGTTGT
*
5779396 AAAATATAATTATAAA
1 AAAATATAATAATAAA
*
5779412 AAAATA-AATAATTAA
1 AAAATATAATAATAAA
*
5779427 AATATATAATAAT
1 AAAATATAATAAT
5779440 CACATCTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAAATATAATAATAAA
Found at i:5782387 original size:11 final size:11
Alignment explanation
Indices: 5782371--5782436 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 11
5782361 GTAATAAAAA
5782371 AATATTTATTT
1 AATATTTATTT
*
5782382 AATATTAATTT
1 AATATTTATTT
*
5782393 AAT-TCTT-TTA
1 AATAT-TTATTT
5782403 AATAGTTTATTAT
1 AATA-TTTATT-T
5782416 AATAACTTTATTT
1 AAT-A-TTTATTT
5782429 AATATTTA
1 AATATTTA
5782437 AGGAATGAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 6 0.14
11 20 0.45
12 4 0.09
13 7 0.16
14 7 0.16
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (11 bp):
AATATTTATTT
Found at i:5782849 original size:16 final size:16
Alignment explanation
Indices: 5782828--5782872 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
5782818 ATAACTAATT
5782828 TATATTTAAATTTTAA
1 TATATTTAAATTTTAA
*
5782844 TATATTTAATAATTTAA
1 TATATTTAA-ATTTTAA
*
5782861 T-TATTTACATTT
1 TATATTTAAATTT
5782873 ATATGATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 3 0.12
16 15 0.60
17 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TATATTTAAATTTTAA
Found at i:5784234 original size:21 final size:22
Alignment explanation
Indices: 5784191--5784235 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
5784181 TTTATTTATG
*
5784191 ATTAATATTTATCAAATTGATT
1 ATTAATATTTATCAAATTAATT
5784213 ATTAA-ATTTAT-AAATATAATT
1 ATTAATATTTATCAAAT-TAATT
5784234 AT
1 AT
5784236 AATTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTAATATTTATCAAATTAATT
Found at i:5785046 original size:5 final size:5
Alignment explanation
Indices: 5785036--5785115 Score: 74
Period size: 5 Copynumber: 15.4 Consensus size: 5
5785026 TGATCAAATT
*
5785036 ATATA ATATAA ATATA ATATA ATATA A-A-A ATTAAA ATATA ATATAAA
1 ATATA ATAT-A ATATA ATATA ATATA ATATA A-TATA ATATA ATAT--A
* *
5785083 ATATA ATATT ATATA AAATA ATATAA ATATA AT
1 ATATA ATATA ATATA ATATA ATAT-A ATATA AT
5785116 TATATCACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 43 0.68
6 12 0.19
7 5 0.08
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:5785078 original size:29 final size:31
Alignment explanation
Indices: 5785031--5785153 Score: 94
Period size: 32 Copynumber: 3.8 Consensus size: 31
5785021 TCATATGATC
5785031 AAATTATATAATATAA-ATATAATATAATATAA
1 AAATTATA-AATATAATATA-AATATAATATAA
5785063 AAATTA-AAATATAATATAAAATATAATATTATA
1 AAATTATAAATATAATAT-AAATATAATA-TA-A
* *
5785096 TAAA--AT-AATATAAATATAATTATATCACATAA
1 -AAATTATAAATAT-AATATAA--ATATAATATAA
*
5785128 AAATATATAAATATAAAATAAATATA
1 AAAT-TATAAATATAATATAAATATA
5785154 TCAAATAATC
Statistics
Matches: 74, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
30 7 0.09
31 15 0.20
32 22 0.30
33 8 0.11
34 17 0.23
35 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
AAATTATAAATATAATATAAATATAATATAA
Found at i:5785096 original size:17 final size:17
Alignment explanation
Indices: 5785036--5785153 Score: 103
Period size: 15 Copynumber: 7.3 Consensus size: 17
5785026 TGATCAAATT
5785036 ATATAATAT-AAATATA
1 ATATAATATAAAATATA
*
5785052 ATATAATATAAAAATTAAA
1 ATATAATAT-AAAA-TATA
5785071 ATATAATATAAAATATA
1 ATATAATATAAAATATA
*
5785088 ATATTATAT-AAA-ATA
1 ATATAATATAAAATATA
*
5785103 ATATAA-ATATAAT-T-
1 ATATAATATAAAATATA
5785117 ATATCACATA-AAAATAT-
1 ATAT-A-ATATAAAATATA
5785134 ATA-AATATAAAATA-A
1 ATATAATATAAAATATA
5785149 ATATA
1 ATATA
5785154 TCAAATAATC
Statistics
Matches: 84, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.11
15 22 0.26
16 18 0.21
17 16 0.19
18 7 0.08
19 12 0.14
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
ATATAATATAAAATATA
Found at i:5785152 original size:19 final size:20
Alignment explanation
Indices: 5785036--5785154 Score: 100
Period size: 19 Copynumber: 5.8 Consensus size: 20
5785026 TGATCAAATT
*
5785036 ATATAATATAAATATAATATA
1 ATATAAAATAAATAT-ATATA
*
5785057 ATATAAAAATTAA-A-ATATA
1 ATAT-AAAATAAATATATATA
5785076 ATATAAAATATAATATTATATA
1 ATATAAAATA-AATA-TATATA
* * *
5785098 AAATAATATAAATATA-ATT
1 ATATAAAATAAATATATATA
* * *
5785117 ATATCACATAAAAATATATAA
1 ATATAAAATAAATATATAT-A
5785138 ATATAAAATAAATATAT
1 ATATAAAATAAATATAT
5785155 CAAATAATCC
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.06
19 25 0.32
20 5 0.06
21 23 0.30
22 19 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAAAATAAATATATATA
Found at i:5785161 original size:13 final size:11
Alignment explanation
Indices: 5785036--5785153 Score: 64
Period size: 11 Copynumber: 10.5 Consensus size: 11
5785026 TGATCAAATT
*
5785036 ATATAATATAA
1 ATATAAAATAA
*
5785047 ATATAATAT-A
1 ATATAAAATAA
5785057 ATATAAAAATTAAA
1 ATAT-AAAA-T-AA
*
5785071 ATATAATATAA
1 ATATAAAATAA
* *
5785082 A-ATATAATATT
1 ATATAAAATA-A
5785093 ATATAAAAT-A
1 ATATAAAATAA
5785103 ATATAAATATAA
1 ATATAAA-ATAA
* *
5785115 TTATATCACATAA
1 --ATATAAAATAA
* *
5785128 AAAT-ATATAA
1 ATATAAAATAA
5785138 ATATAAAATAA
1 ATATAAAATAA
5785149 ATATA
1 ATATA
5785154 TCAAATAATC
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
10 26 0.31
11 31 0.37
12 9 0.11
13 7 0.08
14 10 0.12
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAAATAA
Found at i:5786098 original size:1 final size:1
Alignment explanation
Indices: 5786092--5786128 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
5786082 GTGTAAAAGA
* *
5786092 GGGGGGGAGGGGGGGGGGGGGGGGGGGGGGAGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
5786129 AGAGAGAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.05, C:0.00, G:0.95, T:0.00
Consensus pattern (1 bp):
G
Found at i:5786101 original size:8 final size:8
Alignment explanation
Indices: 5786090--5786128 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
5786080 AAGTGTAAAA
5786090 GAGGGGGG
1 GAGGGGGG
5786098 GAGGGGGG
1 GAGGGGGG
5786106 G-GGGGGG
1 GAGGGGGG
*
5786113 GGGGGGGG
1 GAGGGGGG
5786121 GAGGGGGG
1 GAGGGGGG
5786129 AGAGAGAAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.08, C:0.00, G:0.92, T:0.00
Consensus pattern (8 bp):
GAGGGGGG
Found at i:5786154 original size:13 final size:13
Alignment explanation
Indices: 5786136--5786174 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
5786126 GGGAGAGAGA
5786136 AGGGAGGAGGAAG
1 AGGGAGGAGGAAG
* *
5786149 AGGGAGGGGGGAG
1 AGGGAGGAGGAAG
5786162 AGGGAGGAAGGAA
1 AGGGAGG-AGGAA
5786175 AGGTGTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 18 0.86
14 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (13 bp):
AGGGAGGAGGAAG
Found at i:5787418 original size:22 final size:21
Alignment explanation
Indices: 5787369--5787419 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
5787359 TATTAAAAAT
5787369 ATTAAAAAAATAAAATATATA
1 ATTAAAAAAATAAAATATATA
* * *
5787390 ATATAAAAATATAACATAATTTA
1 AT-TAAAAAAATAAAAT-ATATA
5787413 ATTAAAA
1 ATTAAAA
5787420 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 17 0.68
23 6 0.24
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
ATTAAAAAAATAAAATATATA
Found at i:5788360 original size:14 final size:14
Alignment explanation
Indices: 5788328--5788369 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
5788318 TTCACAATTT
*
5788328 TAAAATAAT-TATG
1 TAAAATAATATATA
5788341 TCAAAATAATATATA
1 T-AAAATAATATATA
*
5788356 TAAAATATTATATA
1 TAAAATAATATATA
5788370 GACGAGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 1 0.04
14 20 0.80
15 4 0.16
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAATAATATATA
Found at i:5791196 original size:18 final size:18
Alignment explanation
Indices: 5791162--5791214 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
5791152 GTTATATTAT
*
5791162 ATAAATAAT-TAAAATAAA
1 ATAAA-AATATAATATAAA
5791180 ATAAAAATATAATAT-AA
1 ATAAAAATATAATATAAA
*
5791197 ATATAAAATATTATATAA
1 ATA-AAAATATAATATAA
5791215 TAAAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 8 0.27
18 21 0.70
19 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAAATATAATATAAA
Found at i:5791219 original size:15 final size:15
Alignment explanation
Indices: 5791199--5791273 Score: 55
Period size: 15 Copynumber: 4.8 Consensus size: 15
5791189 TAATATAAAT
5791199 ATAAAATATTATATA
1 ATAAAATATTATATA
*
5791214 ATAAAAAATTAT-TAA
1 ATAAAATATTATAT-A
*
5791229 ATAATTATATTATA-A
1 ATAA-AATATTATATA
*
5791244 ATAAAATTATTGAGATA
1 ATAAAA-TATT-ATATA
*
5791261 ATATAAATTTTAT
1 ATA-AAATATTAT
5791274 TATATTTATT
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
14 2 0.04
15 25 0.54
16 9 0.20
17 7 0.15
18 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAAAATATTATATA
Found at i:5791226 original size:18 final size:17
Alignment explanation
Indices: 5791182--5791233 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
5791172 AAAATAAAAT
*
5791182 AAAAATATAATATAAATA
1 AAAAATATTATAT-AATA
*
5791200 TAAAATATTATATAATA
1 AAAAATATTATATAATA
*
5791217 AAAAATTATTAAATAAT
1 AAAAA-TATTATATAAT
5791234 TATATTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 8 0.28
18 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAAATATTATATAATA
Found at i:5791229 original size:26 final size:28
Alignment explanation
Indices: 5791185--5791254 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
5791175 ATAAAATAAA
*
5791185 AATATAATATAAA-TATAAAAT-ATTATAT
1 AATA-AATA-AAATTATTAAATAATTATAT
5791213 AAT-AA-AAAATTATTAAATAATTATAT
1 AATAAATAAAATTATTAAATAATTATAT
*
5791239 TATAAATAAAATTATT
1 AATAAATAAAATTATT
5791255 GAGATAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
24 3 0.08
25 8 0.22
26 11 0.31
27 2 0.06
28 12 0.33
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATAAATAAAATTATTAAATAATTATAT
Found at i:5791265 original size:28 final size:29
Alignment explanation
Indices: 5791199--5791265 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
5791189 TAATATAAAT
*
5791199 ATAAAATATTATATAATAAAAAATTATTAA
1 ATAATATATTATATAAT-AAAAATTATTAA
*
5791229 ATAATTATATTATA-AAT-AAAATTATTGAG
1 ATAA-TATATTATATAATAAAAATTATT-AA
5791258 ATAATATA
1 ATAATATA
5791266 AATTTTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 13 0.39
29 5 0.15
30 7 0.21
31 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
ATAATATATTATATAATAAAAATTATTAA
Found at i:5791935 original size:30 final size:28
Alignment explanation
Indices: 5791867--5791935 Score: 68
Period size: 30 Copynumber: 2.3 Consensus size: 28
5791857 GAAAATTTTA
*
5791867 TATTTTAATAATTATTTTATTTATATTT
1 TATTTTAATAATTATTTTATTTATATAT
*
5791895 TATATGTTAATATATTTTTGTTACTTT-TATAT
1 TAT-T-TTAATA-ATTATT-TTA-TTTATATAT
5791927 TATTTTAAT
1 TATTTTAAT
5791936 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
28 3 0.09
29 1 0.03
30 11 0.32
31 6 0.18
32 10 0.29
33 3 0.09
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.65
Consensus pattern (28 bp):
TATTTTAATAATTATTTTATTTATATAT
Found at i:5792126 original size:16 final size:17
Alignment explanation
Indices: 5792105--5792146 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
5792095 ATTATTTATT
5792105 TATTTTTTA-TACAAAA
1 TATTTTTTACTACAAAA
*
5792121 TATTTTTTACTATAAAA
1 TATTTTTTACTACAAAA
*
5792138 TTTTTTTTA
1 TATTTTTTA
5792147 ATTACTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTTACTACAAAA
Found at i:5792634 original size:21 final size:20
Alignment explanation
Indices: 5792582--5792638 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
5792572 AGTTGTAAAA
*
5792582 ATTTATTTATTAATTATTTTT
1 ATTTATTT-TTAAATATTTTT
** *
5792603 ATTTAAGTTTAAATGTTTTT
1 ATTTATTTTTAAATATTTTT
5792623 ATTTTATTTTTAAATA
1 A-TTTATTTTTAAATA
5792639 AGTATTTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTAAATATTTTT
Found at i:5792736 original size:19 final size:21
Alignment explanation
Indices: 5792714--5792752 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5792704 AAATTTTATA
5792714 TTTTA-TTTA-TTTTAAATAT
1 TTTTATTTTATTTTTAAATAT
5792733 TTTTATTTTATTTTTAAATA
1 TTTTATTTTATTTTTAAATA
5792753 ATATATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 4 0.22
21 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTTTATTTTTAAATAT
Found at i:5792739 original size:24 final size:24
Alignment explanation
Indices: 5792700--5792745 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
5792690 GTAGAAAAAG
5792700 TTTAAAATTTTATATTTTATTTAT
1 TTTAAAATTTTATATTTTATTTAT
5792724 TTTAAATATTTT-TATTTTATTT
1 TTTAAA-ATTTTATATTTTATTT
5792746 TTAAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTAAAATTTTATATTTTATTTAT
Found at i:5792755 original size:24 final size:24
Alignment explanation
Indices: 5792706--5792761 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
5792696 AAAGTTTAAA
**
5792706 ATTTTATATTTTATTTATTTTAAAT
1 ATTTT-TATTTTATTTATTAAAAAT
5792731 ATTTTTATTTTATTT-TTAAATAAT
1 ATTTTTATTTTATTTATTAAA-AAT
*
5792755 ATATTTA
1 ATTTTTA
5792762 AAATTATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 19 0.70
25 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (24 bp):
ATTTTTATTTTATTTATTAAAAAT
Found at i:5795061 original size:20 final size:20
Alignment explanation
Indices: 5795038--5795083 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
5795028 TTATTTTTTG
5795038 ATTTTTGTTTAATTTT-ATA-C
1 ATTTTTG-TT-ATTTTCATATC
*
5795058 ATTTGTGTTATTTTCATATC
1 ATTTTTGTTATTTTCATATC
5795078 ATTTTT
1 ATTTTT
5795084 AAATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.23
19 5 0.23
20 12 0.55
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (20 bp):
ATTTTTGTTATTTTCATATC
Found at i:5795265 original size:17 final size:17
Alignment explanation
Indices: 5795245--5795278 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
5795235 TAACTCTCAA
*
5795245 TTTTATTTTAAAGTTTG
1 TTTTATTATAAAGTTTG
*
5795262 TTTTATTATAAATTTTG
1 TTTTATTATAAAGTTTG
5795279 ACATATTTAC
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:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (17 bp):
TTTTATTATAAAGTTTG
Found at i:5799910 original size:20 final size:20
Alignment explanation
Indices: 5799885--5800008 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
5799875 TTTAACTAGG
5799885 TGTATCGATACATTGAAAAA
1 TGTATCGATACATTGAAAAA
5799905 TGTATCGATACATCTGAGTAAAAAAACAGAA
1 TGTATCGATACAT-T--G-----AAA-A--A
*
5799936 TGTATCGATACATTGAAGAA
1 TGTATCGATACATTGAAAAA
* * * *
5799956 TGTATCGATATATTCATACA
1 TGTATCGATACATTGAAAAA
*
5799976 TGTATCAATACATTGAAAAA
1 TGTATCGATACATTGAAAAA
5799996 TGTATCGATACAT
1 TGTATCGATACAT
5800009 CTGGGTAAAA
Statistics
Matches: 81, Mismatches: 12, Indels: 22
0.70 0.10 0.19
Matches are distributed among these distances:
20 56 0.69
21 1 0.01
22 1 0.01
23 3 0.04
28 4 0.05
29 1 0.01
30 1 0.01
31 14 0.17
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATTGAAAAA
Found at i:5800823 original size:20 final size:20
Alignment explanation
Indices: 5800800--5800874 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
5800790 AAGTACCCAG
*
5800800 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * * *
5800820 ATGTATCCATATATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
5800840 CTGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
5800860 ATGTATTGATACATT
1 ATGTATCGATACATT
5800875 CTGTCTTTTT
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:5800915 original size:20 final size:20
Alignment explanation
Indices: 5800890--5800941 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5800880 TTTTTACCCA
5800890 GATGTATCGATATATTTTTC
1 GATGTATCGATATATTTTTC
5800910 GATGTATCGATATATTTTTC
1 GATGTATCGATATATTTTTC
*
5800930 AATGTATCGATA
1 GATGTATCGATA
5800942 CATCTAGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (20 bp):
GATGTATCGATATATTTTTC
Found at i:5807380 original size:50 final size:51
Alignment explanation
Indices: 5807329--5807494 Score: 201
Period size: 51 Copynumber: 3.3 Consensus size: 51
5807319 AAATAACGGG
* * * *** *
5807329 GTTGGAGTAT-CCCAATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGG
1 GTTGGAGTATCCCCAATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
* * *
5807379 GTTGGAATATCCCCGATTGT-GAGAAATTGGTGTTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCAATTGTGGA-AAATTGGTGTTTTAGAAATAAAATCGGA
* *
5807430 GTTGGAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCAATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
5807481 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
5807495 TCAGAAATAA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
50 11 0.11
51 86 0.88
52 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCAATTGTGGAAAATTGGTGTTTTAGAAATAAAATCGGA
Found at i:5807513 original size:28 final size:29
Alignment explanation
Indices: 5807482--5807550 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 29
5807472 AAAATCGGAG
5807482 TTGGAGTATCCCCTCA-GAAATAACGGGA
1 TTGGAGTATCCCCTCATGAAATAACGGGA
* * *
5807510 TTGGAGTATCCCC-GATGAAATAATGGGG
1 TTGGAGTATCCCCTCATGAAATAACGGGA
5807538 TTGGAGTA-CCCCT
1 TTGGAGTATCCCCT
5807551 GATTATGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 5 0.14
28 31 0.86
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (29 bp):
TTGGAGTATCCCCTCATGAAATAACGGGA
Found at i:5807613 original size:110 final size:110
Alignment explanation
Indices: 5807460--5807672 Score: 268
Period size: 110 Copynumber: 1.9 Consensus size: 110
5807450 GAAAAATTGG
* ** *
5807460 TATTTTAGAAATAAAATCGGAGTTGGAGTATCCCCTCAGAAATAA-CGGGATTGGAGTATCCCCG
1 TATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAATAAGG-TTAGAGTATCCCCG
* * *
5807524 ATGAAATAATGGGGTTGGAGTACCCCTGATTATGAAAAAAGATCAA
65 ATGAAATAACGGGGTCGGAGTACCCCTAATTATGAAAAAAGATCAA
* * * **
5807570 TATTTTAGATATAAAGCCGGGGTTGGAGTATCCCCTC-GAAAATAATAAGGTTAGAGTATTTCCG
1 TATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAG-AAATAATAAGGTTAGAGTATCCCCG
* *
5807634 ATGAAATAACGGGGTCGGAGTATCCCTAATTGTGAAAAA
65 ATGAAATAACGGGGTCGGAGTACCCCTAATTATGAAAAA
5807673 TTGGTGTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
109 1 0.01
110 84 0.97
111 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (110 bp):
TATTTTAGAAATAAAACCGGAGTTGGAGTATCCCCTCAGAAATAATAAGGTTAGAGTATCCCCGA
TGAAATAACGGGGTCGGAGTACCCCTAATTATGAAAAAAGATCAA
Found at i:5810654 original size:55 final size:55
Alignment explanation
Indices: 5810348--5811761 Score: 1404
Period size: 55 Copynumber: 24.9 Consensus size: 55
5810338 TTTCCTTTTA
* *
5810348 AAAGCCCCCACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA-TGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACT-CC-TTTC
*
5810404 TTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCC-TTTC
* * *
5810463 TTTTAAAGCCTACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCC-TTTC
* * *
5810522 TTTTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCCGGATGCTTTTTCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----TCCTTTC
5810586 AAAGCCCACACAAGTTGGTGGCACCTTTCAGT-CTCCAAAGAGCAGGA-TCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT-CAAAGAGCAGGACT-CCTTTC
** * *
5810641 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
* * *
5810696 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGCCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACTCCT-TTC
* * * *
5810751 AAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
* *
5810806 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACTCCTTTC
*
5810861 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAT-CTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-TCCT-TTC
* * * *
5810916 AAAGCCCACACAAGTTGGTGGCACATTTCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C---TCCTTTC
* *
5810976 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCC-TTTC
* *
5811031 TTTTAAAGCCCACCCAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAT-CTCTT-
1 ----AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-TCCT-TTC
* * * *
5811090 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCTTCAAAGAGTAGGATGCTTTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C---TCCTTTC
* *
5811150 AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCGGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCC-TTTC
* * *
5811205 TTTTAAAGCCCACCCAAGTTGGTGGCACC-TTCAGTCCTCAAAGAGCCGGATGCTTTTTCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----TCCTTTC
*
5811269 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGA-TCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACT-CCTTTC
** * *
5811324 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTTAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
* *
5811379 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACTCCT-TTC
* * * *
5811434 AAAGTCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAGAGCAGGACCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
* *
5811489 AAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACTCCTTTC
* *
5811544 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGTAGGACAT-CTCTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGAC-TCCT-TTC
* *
5811599 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGCTTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA--C----TCCTTTC
* * *
5811660 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGAATGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
* * * * *
5811715 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAAAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
5811762 TACACTTTAT
Statistics
Matches: 1185, Mismatches: 95, Indels: 153
0.83 0.07 0.11
Matches are distributed among these distances:
54 24 0.02
55 640 0.54
56 27 0.02
57 5 0.00
59 243 0.21
60 152 0.13
61 84 0.07
64 8 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACTCCTTTC
Found at i:5811543 original size:27 final size:27
Alignment explanation
Indices: 5811403--5811543 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
5811393 TTGGTGGCAT
*
5811403 TTTCTAGTCCTCAAAGAGCAGGACACC
1 TTTCTAGTCCACAAAGAGCAGGACACC
** * **
5811430 TCTTAAAGTCCACACAAGTTGGTGG-CACC
1 T-TTCTAGTCCACA-AAG-AGCAGGACACC
* *
5811459 TTT-TAGTCCCCAAAGAGCAGGACCCC
1 TTTCTAGTCCACAAAGAGCAGGACACC
* * * ** *
5811485 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-TAGTCCACA-AAG-AGCAGGACACC
*
5811513 TTTCTAGTCCTCAAAGAGCAGGACACC
1 TTTCTAGTCCACAAAGAGCAGGACACC
5811540 TTTC
1 TTTC
5811544 AAAGCCCACA
Statistics
Matches: 77, Mismatches: 27, Indels: 20
0.62 0.22 0.16
Matches are distributed among these distances:
25 6 0.08
26 14 0.18
27 18 0.23
28 21 0.27
29 12 0.16
30 6 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TTTCTAGTCCACAAAGAGCAGGACACC
Found at i:5811950 original size:40 final size:42
Alignment explanation
Indices: 5811854--5811950 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
5811844 GAAGTACTCT
* *
5811854 TTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTC
1 TTTTC-CTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
* * * *
5811897 TCTTCCTTGGTCCTCAAGGAGCAAGAC-CTATTTC-ATTC-TC
1 TTTTCCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATTCTTC
5811937 TTTTCCTTTGTCCT
1 TTTTCCTTTGTCCT
5811951 TGAAAAGTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
40 14 0.31
41 5 0.11
42 22 0.49
43 4 0.09
ACGTcount: A:0.16, C:0.29, G:0.12, T:0.42
Consensus pattern (42 bp):
TTTTCCTTTGTCCTCAAGAAGCAAGACACTTTCCTATTCTTC
Found at i:5812628 original size:19 final size:18
Alignment explanation
Indices: 5812604--5812664 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
5812594 CAATGATTTG
5812604 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
5812622 ATATCGATAC--AA-TG--
1 -TATCGATACATAAGTGTT
5812636 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
5812654 GTATCGATACA
1 -TATCGATACA
5812665 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.25
15 2 0.06
16 4 0.11
17 2 0.06
19 19 0.53
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (18 bp):
TATCGATACATAAGTGTT
Found at i:5812643 original size:32 final size:32
Alignment explanation
Indices: 5812602--5812672 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
5812592 TTCAATGATT
5812602 TGTATCGATACATAAGTGTTATATCGATACAA
1 TGTATCGATACATAAGTGTTATATCGATACAA
*
5812634 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTATATCGATACAA
5812666 TGTATCG
1 TGTATCG
5812673 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTATATCGATACAA
Found at i:5812760 original size:34 final size:33
Alignment explanation
Indices: 5812696--5812762 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
5812686 GCCAAGGAAA
* * *
5812696 TGTATCGATATATTTTTCTGTGTATTGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
5812729 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
5812763 CTAGGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 12 0.41
34 17 0.59
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:5815166 original size:51 final size:52
Alignment explanation
Indices: 5815109--5815493 Score: 225
Period size: 52 Copynumber: 7.4 Consensus size: 52
5815099 CAATTCTCTG
* * * *
5815109 CAATCGGGGATATTCCATC-CCTGATTTTATTTTC-AAAACACTAA-TTTTCTA
1 CAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTTTC-A
* *
5815160 TAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCA
* * * *** * * **
5815213 CAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAATCCCGTTATTTT
1 CAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT----TT-TTCA
* * * ** * *** *
5815270 CAA--GGGGATACTCCAACCCCTACTTTA-TTCTTAAAATATTGATTTCTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
* * * * * * *
5815319 TAATCGAGGATACTCCAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT-CA
* * * *
5815371 CAATCGGGGATACTCCAAC-CCCAGTTTTATTTTC-AAAACACCAATTTTCCTT
1 CAATCGGGGATACTCCAACTCCGA-TTTTATTTCCAAAAACACCAATTTTTC-A
*
5815423 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
1 CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
*
5815475 CAATCGAGGATACTCCAAC
1 CAATCGGGGATACTCCAAC
5815494 CTCGTTATTT
Statistics
Matches: 254, Mismatches: 59, Indels: 41
0.72 0.17 0.12
Matches are distributed among these distances:
49 3 0.01
50 2 0.01
51 67 0.26
52 93 0.37
53 51 0.20
54 9 0.04
55 19 0.07
56 2 0.01
57 8 0.03
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
Found at i:5815245 original size:27 final size:28
Alignment explanation
Indices: 5815215--5815289 Score: 100
Period size: 27 Copynumber: 2.7 Consensus size: 28
5815205 ATTTTTCACA
5815215 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
5815242 ATCGGGGATACTCCAATCCCGTTATTTTC
1 ATCGGGGATACTCCAACCCCGTTA-TATC
*
5815271 A-AGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
5815290 TACTTTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 23 0.55
28 16 0.38
29 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:5815505 original size:31 final size:28
Alignment explanation
Indices: 5815477--5815553 Score: 86
Period size: 28 Copynumber: 2.8 Consensus size: 28
5815467 ATTTTTCACA
*
5815477 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
5815505 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
5815533 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
5815554 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 2 0.05
28 40 0.95
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:5815575 original size:263 final size:262
Alignment explanation
Indices: 5815109--5815604 Score: 762
Period size: 263 Copynumber: 1.9 Consensus size: 262
5815099 CAATTCTCTG
* * * *
5815109 CAATCGGGGATATTCCATCCCTGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACC
1 CAATCGGGGATACTCCACCCCAGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACC
*
5815174 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA
66 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTA
* ** * * **
5815239 ATCATCGGGGATACTCCAATCCCGTTATTTTCAAGGGGATACTCCAACCCCTACTTTATTCTTAA
131 ATCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGACTTTATTCCCAA
5815304 AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTC
196 AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTC
5815369 CA
261 CA
*
5815371 CAATCGGGGATACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATACTCC-ACCCCAGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
5815435 CTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGT
64 CCCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGT
* * *
5815499 TATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
129 TA-ATCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGACTTTATTCC
* * *
5815564 CAAAATATTGATTTCTTATAATTGGGGATACTCCAACCCCG
193 CAAAATATTGATTTCTCATAATCGAGGATACTCCAACCCCG
5815605 TTATTTCATC
Statistics
Matches: 210, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
262 80 0.38
263 130 0.62
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (262 bp):
CAATCGGGGATACTCCACCCCAGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACC
CCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGACTTTATTCCCAA
AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTC
CA
Found at i:5815615 original size:107 final size:107
Alignment explanation
Indices: 5815482--5815739 Score: 444
Period size: 107 Copynumber: 2.4 Consensus size: 107
5815472 TCACAATCGA
* *
5815482 GGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCC
1 GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCC
*
5815547 AACCCCGGCTTTATTCCCAAAATATTGATTTCTTATAATTGG
66 AACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGG
*
5815589 GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCAAGGGGATACTCC
1 GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCC
5815654 AACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGG
66 AACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGG
*** *
5815696 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCG
1 GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCG
5815740 ATTTTTTTCT
Statistics
Matches: 142, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 142 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (107 bp):
GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCC
AACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGG
Found at i:5815619 original size:28 final size:28
Alignment explanation
Indices: 5815587--5815660 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
5815577 TCTTATAATT
* * *
5815587 GGGGATACTCCAACCCCGTTA-TTTCATC
1 GGGGATACTCCAACCCCGTTACCTCCA-A
*
5815615 GGGGATACTCCAACCCCATTACCTCCAA
1 GGGGATACTCCAACCCCGTTACCTCCAA
5815643 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
5815661 GCTTTATTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 37 0.93
29 3 0.08
ACGTcount: A:0.24, C:0.36, G:0.19, T:0.20
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACCTCCAA
Found at i:5815711 original size:51 final size:51
Alignment explanation
Indices: 5815536--5815711 Score: 139
Period size: 51 Copynumber: 3.4 Consensus size: 51
5815526 TTACCTCCGA
*
5815536 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTTATAATT
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATT
** *** * *
5815587 GGGGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCCATT-A--CCTC-CAA--
1 GGGGATACTCCAACCCCG-GCTTT-AT------T-C-CCAA-AATATTGATTTCTCATAATT
5815643 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATT
1 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATT
5815694 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
5815712 TTATTTCCGA
Statistics
Matches: 93, Mismatches: 15, Indels: 34
0.65 0.11 0.24
Matches are distributed among these distances:
45 3 0.03
46 5 0.05
47 1 0.01
48 4 0.04
49 2 0.02
51 36 0.39
52 3 0.03
53 2 0.02
54 2 0.02
55 3 0.03
56 18 0.19
58 2 0.02
59 3 0.03
60 1 0.01
61 5 0.05
62 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATT
Found at i:5815718 original size:263 final size:259
Alignment explanation
Indices: 5815142--5815719 Score: 626
Period size: 263 Copynumber: 2.2 Consensus size: 259
5815132 ATTTTATTTT
* *
5815142 CAAAACACTAATTT-TCTATAATCGGGGATACCCCAACTCCGATTTTATTTCCAAAAAACACCAA
1 CAAAACACCAATTTCTC-ATAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAAAACACCAA
* * ** *
5815206 TTTTTCACAATCGGGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAATCCCGTTATTTTC
63 TTTTTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACCTCC
* **
5815271 AAGGGGATACTCCAACCCCTACTTTATTCTTAAAATATTGATTTCTCATAATCGAGGATACTCCA
128 AAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCA
* * * ** * *
5815336 ACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAACCCCAGTTTTAT
193 ACCCCGGTTTTATCGCGAAAACACCAACATTACCACAA-CGGGGATACTCCAACCCCAGCTTTAT
**
5815401 TTT
257 TCC
*
5815404 CAAAACACCAATTT-TCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCA
1 CAAAACACCAATTTCT-C-ATAATCGGGGATACTCCAACTCCG--TTTATTTCCAAAAAACACCA
* *
5815467 ATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACCT
62 ATTTTTCACAATCGAGGATACTCCAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACCT
* * * * *
5815532 CCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTTATAATTGGGGATACTC
126 CCAAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGAGGATACTC
* * * * * * *
5815597 CAACCCCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCAA-GGGGATACTCCAACCCCG
191 CAACCCCGGT-TTT-ATCGCGAAAACACCAA---CATTACC-ACAACGGGGATACTCCAACCCCA
5815661 GCTTTATTCC
250 GCTTTATTCC
* *** * *
5815671 CAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCG-TTATTTCC
1 CAAAACACCAATTTCTCATAATCGGGGATACTCCAACTCCGTTTATTTCC
5815720 GAGGGGATAC
Statistics
Matches: 266, Mismatches: 41, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
262 56 0.21
263 134 0.50
264 3 0.01
265 9 0.03
266 21 0.08
267 35 0.13
268 5 0.02
269 3 0.01
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (259 bp):
CAAAACACCAATTTCTCATAATCGGGGATACTCCAACTCCGTTTATTTCCAAAAAACACCAATTT
TTCACAATCGAGGATACTCCAACCCCGTTAATCATCGGGGATACTCCAACCCCGTTACCTCCAAG
GGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCATAATCGAGGATACTCCAACC
CCGGTTTTATCGCGAAAACACCAACATTACCACAACGGGGATACTCCAACCCCAGCTTTATTCC
Found at i:5821968 original size:14 final size:16
Alignment explanation
Indices: 5821937--5821983 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
5821927 AAAAAAAGTC
5821937 AAAA-GCAAAAGCACAA
1 AAAATGCAAAAGCA-AA
5821953 AAAATG-AAAAG-AAA
1 AAAATGCAAAAGCAAA
*
5821967 AAAGTGCAAAAGCAAA
1 AAAATGCAAAAGCAAA
5821983 A
1 A
5821984 TAAAAAAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 7 0.26
15 6 0.22
16 13 0.48
17 1 0.04
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (16 bp):
AAAATGCAAAAGCAAA
Found at i:5823432 original size:27 final size:28
Alignment explanation
Indices: 5823296--5823964 Score: 805
Period size: 28 Copynumber: 24.2 Consensus size: 28
5823286 CTGTGACCTC
* *
5823296 TTTAAAGTCCACAACTCTGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* * *
5823324 TTTAGAGTCCACAACTCTGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* * **
5823352 TTTTAAGTCCACAACTCTGTGGCACTTT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* ** *
5823380 TTTAAAGT---CTACTTTGTGGCATCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
*
5823405 TTTAAAGTCCACAAGTCCGTGGCA-CCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* *
5823432 TTTTAAGTCCACAAGTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823460 TTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
*
5823487 TTTAAA-TCCACAACTCTGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* *
5823514 TTT-AAGTCCACAAGTCCGTAGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823541 TTT-AAGTCCACAACTCCGTGGCATCCCT
1 TTTAAAGTCCACAACTCCGTGGCA-CCCT
5823569 TTT-AAGTCCACAACTCCGTGGCA-CCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
*
5823595 TTTTAAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823623 TTT-AAGTCCACAACTCCGTGGCATCCCT
1 TTTAAAGTCCACAACTCCGTGGCA-CCCT
5823651 TTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823678 TTTAAAGTCCACAACTCCGTGGCATCCCT
1 TTTAAAGTCCACAACTCCGTGGCA-CCCT
5823707 TTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823734 TTT-AAGTCCACAACTCCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* *
5823761 TTT-AAGTCCATAACTCCGTGGCATCTCT
1 TTTAAAGTCCACAACTCCGTGGCA-CCCT
*
5823789 TTT-AAGTCCACAACTCTGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* *
5823816 TTCAAAGTCCACAACTCCGTGGCACTCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* *
5823844 TTTAAGGTCCACAACTCTGTGGCA-CCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* * *
5823871 TTTTAAGTTCACAACTTCGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
* ** *
5823899 TTTTAAGTCCACAAGGCGGTGGCATTCCCT
1 TTTAAAGTCCACAACTCCGTGGCA--CCCT
* * * **
5823929 TCTAAAGCCCACAAGTTAGTGGCACCCT
1 TTTAAAGTCCACAACTCCGTGGCACCCT
5823957 TTTCAAAG
1 TTT-AAAG
5823965 CCTATAAGTT
Statistics
Matches: 570, Mismatches: 53, Indels: 35
0.87 0.08 0.05
Matches are distributed among these distances:
25 20 0.04
26 8 0.01
27 240 0.42
28 269 0.47
29 11 0.02
30 22 0.04
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.30
Consensus pattern (28 bp):
TTTAAAGTCCACAACTCCGTGGCACCCT
Found at i:5823488 original size:55 final size:54
Alignment explanation
Indices: 5823295--5823912 Score: 846
Period size: 55 Copynumber: 11.3 Consensus size: 54
5823285 ACTGTGACCT
* * * *
5823295 CTTTAAAGTCCACAACTCTGTGGCATCCTTTTAGAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGCA-CC
* * ** * ** *
5823351 TTTTTAAGTCCACAACTCTGTGGCACTTTTTTAAAGT---CTACTTTGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* * *
5823403 CTTTTAAAGTCCACAAGTCCGTGGCACCTTTTTAAGTCCACAAGTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5823458 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5823512 CTTTTAAGTCCACAAGTCCGTAGCACCCTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
5823567 CTTTTAAGTCCACAACTCCGTGGCACCTTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
5823621 CTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
5823676 CTTTTAAAGTCCACAACTCCGTGGCATCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5823732 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
* * *
5823787 CTTTTAAGTCCACAACTCTGTGGCACCCTTTCAAAGTCCACAACTCCGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTT-TAAGTCCACAACTCCGTGGCACC
* * * *
5823842 CTTTTAAGGTCCACAACTCTGTGGCACCTTTTTAAGTTCACAACTTCGTGGCACC
1 CTTTTAA-GTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
5823897 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
5823913 GGCGGTGGCA
Statistics
Matches: 510, Mismatches: 40, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
52 9 0.02
53 35 0.07
54 145 0.28
55 187 0.37
56 133 0.26
57 1 0.00
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (54 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5823922 original size:28 final size:27
Alignment explanation
Indices: 5823295--5823912 Score: 846
Period size: 27 Copynumber: 22.6 Consensus size: 27
5823285 ACTGTGACCT
* * *
5823295 CTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5823322 CTTTTAGAGTCCACAACTCTGTGGCATCC
1 CTTTTA-AGTCCACAACTCCGTGGCA-CC
* * *
5823351 TTTTTAAGTCCACAACTCTGTGGCACT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* * ** *
5823378 TTTTTAAAGT---CTACTTTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
5823403 CTTTTAAAGTCCACAAGTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5823431 TTTTTAAGTCCACAAGTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823458 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5823485 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5823512 CTTTTAAGTCCACAAGTCCGTAGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823539 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5823567 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5823594 TTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823621 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
5823649 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823676 CTTTTAAAGTCCACAACTCCGTGGCATCC
1 CTTTT-AAGTCCACAACTCCGTGGCA-CC
5823705 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823732 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5823759 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5823787 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5823814 CTTTCAAAGTCCACAACTCCGTGGCACT
1 CTTT-TAAGTCCACAACTCCGTGGCACC
*
5823842 CTTTTAAGGTCCACAACTCTGTGGCACC
1 CTTTTAA-GTCCACAACTCCGTGGCACC
* * *
5823870 TTTTTAAGTTCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5823897 CTTTTTAAGTCCACAA
1 C-TTTTAAGTCCACAA
5823913 GGCGGTGGCA
Statistics
Matches: 533, Mismatches: 44, Indels: 27
0.88 0.07 0.04
Matches are distributed among these distances:
25 20 0.04
27 265 0.50
28 235 0.44
29 13 0.02
ACGTcount: A:0.23, C:0.32, G:0.15, T:0.30
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5824001 original size:28 final size:28
Alignment explanation
Indices: 5823932--5824112 Score: 211
Period size: 28 Copynumber: 6.4 Consensus size: 28
5823922 ATTCCCTTCT
*
5823932 AAAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAAGCCCACAAGTTAGTGGCA-TCTTTTC
* *
5823961 AAAGCCTATAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
*
5823989 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
* * *
5824017 AAAGTCCACACAATTTGGTGGCATCCTTTC
1 AAAG-CC-CACAAGTTAGTGGCATCTTTTC
* *
5824047 AAAGCCCATAAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTTAGTGGCATCTTTTC
* * *
5824075 AAAGCTCACAAGTCAGTGGCACCATTTT-
1 AAAGCCCACAAGTTAGTGGCATC-TTTTC
5824103 AAAGCCCACA
1 AAAGCCCACA
5824113 CAAGTCGGTG
Statistics
Matches: 130, Mismatches: 19, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
28 82 0.63
29 26 0.20
30 22 0.17
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (28 bp):
AAAGCCCACAAGTTAGTGGCATCTTTTC
Found at i:5824068 original size:86 final size:87
Alignment explanation
Indices: 5823931--5824311 Score: 338
Period size: 96 Copynumber: 4.2 Consensus size: 87
5823921 CATTCCCTTC
* * * *
5823931 TAAAG-CC-CACAAGTTAGTGGCACCCTTTTCAAAGCCTATAAGTTAGTGGCATCTTTTCAAAGC
1 TAAAGCCCACACAAGTTGGTGGCACCCATTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGC
*
5823994 CCACAAGTCAGTGGCATC-TTT
66 CCACAAGTCAGTGGCACCATTT
* * *
5824015 TCAAAGTCCACACAATTTGGTGGCATCC-TTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAG
1 T-AAAGCCCACACAAGTTGGTGGCACCCATTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAG
*
5824079 CTCACAAGTCAGTGGCACCATTT
65 CCCACAAGTCAGTGGCACCATTT
* * ** *
5824102 TAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTC
1 TAAAGCCCACACAAGTTGGTGGC-ACCCATTTCAAAG-CC-CATAAGTTAGTGGC-ATCC-TTTC
* * *
5824167 AAAGCCGACATAAGTCGGTGGCAACCCATAT
61 AAAGCC--CACAAGTCAGTGGC-A-CCATTT
* * * * **
5824198 CAAAGCCCACACAAGTCGGTGGTAACCCATTTCAAAGCCCACACAAGTCGGTGGCAATCCATTTC
1 TAAAGCCCACACAAGTTGGTGG-CACCCATTTCAAAG-CC-CATAAGTTAGTGGC-ATCC-TTTC
* *
5824263 AAAGCCCACACAAGTCGGTGGCAACCCTTT
61 AAAG-CC-CACAAGTCAGTGGC-ACCATTT
5824293 TCAAAGCCCACACAAGTTG
1 T-AAAGCCCACACAAGTTG
5824312 ATGGGAACCT
Statistics
Matches: 253, Mismatches: 27, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
84 1 0.00
85 4 0.02
86 72 0.28
87 22 0.09
88 8 0.03
89 2 0.01
90 11 0.04
91 3 0.01
92 9 0.04
94 12 0.05
95 5 0.02
96 102 0.40
97 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (87 bp):
TAAAGCCCACACAAGTTGGTGGCACCCATTTCAAAGCCCATAAGTTAGTGGCATCCTTTCAAAGC
CCACAAGTCAGTGGCACCATTT
Found at i:5824139 original size:32 final size:32
Alignment explanation
Indices: 5823985--5824393 Score: 400
Period size: 32 Copynumber: 13.2 Consensus size: 32
5823975 AGTGGCATCT
* * *
5823985 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
5824013 TTTCAAAGTCCACACAATTTGGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* ** *
5824043 TTTCAAAG-CC-CATAAGTTAGTGGC-ATCC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
5824071 TTTCAAAG--CTCACAAGTCAGTGGC-A-CCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
5824099 TTTTAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
5824131 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
5824163 TTTCAAAGCCGACATAAGTCGGTGGCAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* *
5824195 TATCAAAGCCCACACAAGTCGGTGGTAACCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
5824227 TTTCAAAGCCCACACAAGTCGGTGGCAATCCA
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
*
5824259 TTTCAAAGCCCACACAAGTCGGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
* * *
5824291 TTTCAAAGCCCACACAAGTTGATGGGAACCTC-
1 TTTCAAAGCCCACACAAGTCGGTGGCAACC-CA
* ** * *
5824323 TTTCAAAAGTCCACAC-TTTCAGTGGCAACCCT
1 TTTC-AAAGCCCACACAAGTCGGTGGCAACCCA
* * * *
5824355 TTTAAAAGCCCACGCAAGTCAGTGGCAACCCT
1 TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
5824387 TTTCAAA
1 TTTCAAA
5824394 TCACCATTTT
Statistics
Matches: 328, Mismatches: 40, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
27 3 0.01
28 51 0.16
29 4 0.01
30 34 0.10
31 12 0.04
32 213 0.65
33 11 0.03
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.22
Consensus pattern (32 bp):
TTTCAAAGCCCACACAAGTCGGTGGCAACCCA
Found at i:5824528 original size:49 final size:45
Alignment explanation
Indices: 5824425--5824545 Score: 116
Period size: 49 Copynumber: 2.6 Consensus size: 45
5824415 TGTCCATATT
*
5824425 GCTGGCCTTGAATCAGCATATTGGCACCTTTCTAAGCCCAATGTC
1 GCTGACCTTGAATCAGCATATTGGCACCTTTCTAAGCCCAATGTC
* * * * *
5824470 GCTGGCCTTGAGTCAGCATATTGGTCCACTTTTTCCTTAGCCCGATGTC
1 GCTGACCTTGAATCAGCATATTGG--CAC-CTTT-CTAAGCCCAATGTC
* ** *
5824519 GTTGACCTTGAATTGGCACATTGGCAC
1 GCTGACCTTGAATCAGCATATTGGCAC
5824546 TCCTCTCATC
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
45 23 0.37
47 6 0.10
48 3 0.05
49 30 0.48
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.31
Consensus pattern (45 bp):
GCTGACCTTGAATCAGCATATTGGCACCTTTCTAAGCCCAATGTC
Found at i:5825637 original size:17 final size:15
Alignment explanation
Indices: 5825617--5825666 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
5825607 TTAGGTAAGA
5825617 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
5825634 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
5825648 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
5825661 AAGAAA
1 AAGAAA
5825667 AAAATATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:5825663 original size:16 final size:17
Alignment explanation
Indices: 5825634--5825668 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5825624 AAAGAAGATG
*
5825634 AAGAAGAAAGAAAGAAA
1 AAGAAGAAAAAAAGAAA
5825651 AAGAA-AAAAAAAGAAA
1 AAGAAGAAAAAAAGAAA
5825667 AA
1 AA
5825669 AATATGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAGAAAAAAAGAAA
Found at i:5825663 original size:20 final size:20
Alignment explanation
Indices: 5825620--5825670 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
5825610 GGTAAGAAAG
* * * *
5825620 AAAGAAAGAAGATGAAGAAG
1 AAAGAAAGAAAAAGAAAAAA
5825640 AAAGAAAGAAAAAGAAAAAA
1 AAAGAAAGAAAAAGAAAAAA
5825660 AAAGAAA-AAAA
1 AAAGAAAGAAAA
5825671 TATGAAATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AAAGAAAGAAAAAGAAAAAA
Found at i:5825664 original size:24 final size:24
Alignment explanation
Indices: 5825613--5825666 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
5825603 AAAGTTAGGT
** *
5825613 AAGAAAGAAAGAAAGAAGATGAAG
1 AAGAAAGAAAGAAAGAAGAAAAAA
5825637 AAGAAAGAAAGAAA-AAGAAAAAAA
1 AAGAAAGAAAGAAAGAAG-AAAAAA
5825661 AAGAAA
1 AAGAAA
5825667 AAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (24 bp):
AAGAAAGAAAGAAAGAAGAAAAAA
Found at i:5825677 original size:11 final size:10
Alignment explanation
Indices: 5825640--5825670 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5825630 GATGAAGAAG
*
5825640 AAAGAAAGAA
1 AAAGAAAAAA
5825650 AAAGAAAAAA
1 AAAGAAAAAA
5825660 AAAGAAAAAA
1 AAAGAAAAAA
5825670 A
1 A
5825671 TATGAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:5828787 original size:13 final size:13
Alignment explanation
Indices: 5828769--5828829 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 13
5828759 GTAAATCCAG
5828769 AATGTATCGATAC
1 AATGTATCGATAC
*
5828782 AATGTATCGATAT
1 AATGTATCGATAC
5828795 AATG-A--G---C
1 AATGTATCGATAC
*
5828802 AATGCATCGATAC
1 AATGTATCGATAC
*
5828815 AATGTATTGATAC
1 AATGTATCGATAC
5828828 AA
1 AA
5828830 CAACCAATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
7 4 0.11
8 1 0.03
10 2 0.05
12 1 0.03
13 30 0.79
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5828810 original size:20 final size:20
Alignment explanation
Indices: 5828781--5828818 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5828771 TGTATCGATA
* *
5828781 CAATGTATCGATATAATGAG
1 CAATGCATCGATACAATGAG
5828801 CAATGCATCGATACAATG
1 CAATGCATCGATACAATG
5828819 TATTGATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.26
Consensus pattern (20 bp):
CAATGCATCGATACAATGAG
Found at i:5828816 original size:33 final size:33
Alignment explanation
Indices: 5828769--5828851 Score: 112
Period size: 33 Copynumber: 2.5 Consensus size: 33
5828759 GTAAATCCAG
* ** *
5828769 AATGTATCGATACAATGTATCGATATAATGAGC
1 AATGTATCGATACAATGTATCGATACAACAACC
* *
5828802 AATGCATCGATACAATGTATTGATACAACAACC
1 AATGTATCGATACAATGTATCGATACAACAACC
5828835 AATGTATCGATACAATG
1 AATGTATCGATACAATG
5828852 CAAAATGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACAACAACC
Found at i:5828926 original size:115 final size:115
Alignment explanation
Indices: 5828720--5828931 Score: 343
Period size: 115 Copynumber: 1.8 Consensus size: 115
5828710 AAAATGCCTG
* * * *
5828720 AATGTATCGATACATTGTAAAATATATCGATACATCTGGGTAAATCCAGAATGTATCGATACAAT
1 AATGTATCGATACAATGCAAAATATATCGATACATCTGGGTAAACCCAAAATGTATCGATACAAT
* *
5828785 GTATCGATATAATGAGCAATGCATCGATACAATGTATTGATACAACAACC
66 GTATCGATACAATGAACAATGCATCGATACAATGTATTGATACAACAACC
* *
5828835 AATGTATCGATACAATGCAAAATGTATCGATACATCTGGGTAAACCCAAAATGTATCGATATAAT
1 AATGTATCGATACAATGCAAAATATATCGATACATCTGGGTAAACCCAAAATGTATCGATACAAT
*
5828900 GTATCGATACAATGAACAATGTATCGATACAA
66 GTATCGATACAATGAACAATGCATCGATACAA
5828932 ATTGTGAAAA
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 88 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (115 bp):
AATGTATCGATACAATGCAAAATATATCGATACATCTGGGTAAACCCAAAATGTATCGATACAAT
GTATCGATACAATGAACAATGCATCGATACAATGTATTGATACAACAACC
Found at i:5828931 original size:13 final size:13
Alignment explanation
Indices: 5828884--5828913 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5828874 GTAAACCCAA
*
5828884 AATGTATCGATAT
1 AATGTATCGATAC
5828897 AATGTATCGATAC
1 AATGTATCGATAC
5828910 AATG
1 AATG
5828914 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5829848 original size:83 final size:84
Alignment explanation
Indices: 5829656--5829909 Score: 261
Period size: 83 Copynumber: 3.0 Consensus size: 84
5829646 AGGGCAAAGG
* *
5829656 AAAAAAGGAAAATGAAATGCGTCCTGCTCTTTGAGGACAAA--AGAAAGAGGAAAATAAAGTGTG
1 AAAAAAGG-AAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAA-AGG--AA-AAA--GCG
*
5829719 TCATGCTCTTT-AAGGACAAAAAGGAA
59 TCCTGCTCTTTGAA-GACAAAAAGGAA
* *
5829745 AAAAAAGGGAATGAAGTGTGTCCTGCT-TTGTGAGGACAAAGGAGAAAA-GAAAAAGACGTCCTG
1 AAAAAAGGAAATGAAATGTGTCCTGCTCTT-TGAGGACAAAGGAGAAAAGGAAAAAG-CGTCCTG
*
5829808 CTCTTTGAAGAC-AAAAGGGA
64 CTCTTTGAAGACAAAAAGGAA
* * *
5829828 AAAAAAGGAAATGAAATGTGTCCTGCTCTTTGAAGG-TAAAGGAGAAAAGGAAAATGCGTCCTAC
1 AAAAAAGGAAATGAAATGTGTCCTGCTCTTTG-AGGACAAAGGAGAAAAGGAAAAAGCGTCCTGC
*
5829892 TCTTTGAGGACTAAAAAG
65 TCTTTGAAGAC-AAAAAG
5829910 TGCCACCAAC
Statistics
Matches: 143, Mismatches: 12, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
83 63 0.44
84 25 0.17
85 10 0.07
86 2 0.01
87 2 0.01
88 27 0.19
89 9 0.06
90 5 0.03
ACGTcount: A:0.43, C:0.12, G:0.26, T:0.20
Consensus pattern (84 bp):
AAAAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAAAGCGTCCTGCT
CTTTGAAGACAAAAAGGAA
Found at i:5829979 original size:61 final size:60
Alignment explanation
Indices: 5829872--5830238 Score: 354
Period size: 61 Copynumber: 6.1 Consensus size: 60
5829862 GGTAAAGGAG
* * * * *
5829872 AAAAGGAAAATGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * * * *
5829933 GAAAAGAAAAGGTGTCCTGCTCTTTAAGGACTGGAAGGTGCGACCAACTTGTATGGGCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * * * * * * * *
5829994 GCAAAGAAAAAGCATCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTCG-AGTAGTCTTT
1 -AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTA-TGGGCTTT
* * * *
5830055 AAAAGGAGAAA-GCATCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTT
1 AAAA-GA-AAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * *
5830116 ----G-AAATGCGTCCTGCTCTTTGAGGACTAGAAAA-TGCCACTAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTATGGGCTTT
*
5830171 AAAAGGAAAAGGCGTCCTGCTCTTTGAGTACTAGAAAAGTGCCACCAACTTGTATGGGCTTT
1 AAAA-GAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTATGGGCTTT
5830233 AAAAGA
1 AAAAGA
5830239 CGTCCTGCTT
Statistics
Matches: 255, Mismatches: 37, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
54 3 0.01
55 39 0.15
56 6 0.02
60 5 0.02
61 169 0.66
62 33 0.13
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (60 bp):
AAAAGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTT
Found at i:5830101 original size:122 final size:116
Alignment explanation
Indices: 5829877--5830259 Score: 394
Period size: 122 Copynumber: 3.2 Consensus size: 116
5829867 AGGAGAAAAG
* * *
5829877 GAAAATGCGTCCTACTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAA-GAA
1 GAAAA-GCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTT-AAAAGGAA
* * * * * *
5829941 AAGGTGTCCTGCTCTTTAAGGACTGGAAGGTGCGACCAACTTGTATGGGCTTT
64 AAGGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * * * * *
5829994 GCAAAGAAAAAGCATCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTCGAGTAGTCTTTAAAA
1 -----G-AAAAGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAA
* * *
5830059 GGAGAAA-GCATCCTGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTT
60 GGA-AAAGGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * * * *
5830116 GAAATGCGTCCTGCTCTTTGAGGACTAGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAA
1 GAAAAGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAA
* *
5830181 GGCGTCCTGCTCTTTGAGTACTAGAAAAGTGCCACCAACTTGTATGGGCTTT
66 GGCGTCCTGCTCTTTGAGGA-TTGAAAAGTGCCACCAACTTGTATGGGCTTT
* * *
5830233 -AAAAGACGTCCTGCTTTTTGATGACTA
1 GAAAAG-CATCCTGCTCTTTGAGGACTA
5830260 AAGGGCGAAA
Statistics
Matches: 218, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
115 3 0.01
116 71 0.33
117 48 0.22
121 4 0.02
122 85 0.39
123 7 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (116 bp):
GAAAAGCATCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTCGTGTGGGCTTTAAAAGGAAAA
GGCGTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTATGGGCTTT
Found at i:5830374 original size:61 final size:61
Alignment explanation
Indices: 5830279--5830393 Score: 185
Period size: 61 Copynumber: 1.9 Consensus size: 61
5830269 ATGAGAGAGC
*
5830279 GTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTCAAAAGAAGAAGGT
1 GTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTATGGGCTTCAAAAGAAGAAGGT
* * * *
5830340 GTCCTGCTCTTTGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGA
1 GTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTATGGGCTTCAAAAGA
5830394 CATCCTGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTATGGGCTTCAAAAGAAGAAGGT
Found at i:5830499 original size:55 final size:55
Alignment explanation
Indices: 5830277--5830525 Score: 250
Period size: 55 Copynumber: 4.4 Consensus size: 55
5830267 AAATGAGAGA
* * *
5830277 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTATGGGCTTCAAAAGAAGAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTT----TG-A-AAG
* * * *
5830338 GTGTCCTGCTCTTTGAGGATTGGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAG
1 GCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
* * * * * * *
5830393 ACATCCTGTTTTTTGAGGACTAAAAAAATGACACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACT-AGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
*
5830449 GCGTCCTGCTTTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 GCGTCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
* *
5830504 GCATCCTGCTCTTTAAGGACTA
1 GCGTCCTGCTCTTTGAGGACTA
5830526 AAGGGTGAAA
Statistics
Matches: 157, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
54 3 0.02
55 66 0.42
56 45 0.29
61 40 0.25
62 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG
Found at i:5830575 original size:266 final size:268
Alignment explanation
Indices: 5830008--5830629 Score: 772
Period size: 266 Copynumber: 2.3 Consensus size: 268
5829998 AGAAAAAGCA
* * * * * * *
5830008 TCCTGCTTTTTGAGGACTGGAAGGTGCCACCAACTCG-AGTAGTCTTTAAAAGGAGAAAGCATCC
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTA-TGGGCTTTAAAAGAAGAAAGCGTCC
* *
5830072 TGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTTGAAATGCGTCCTGCTCTTTGA
65 TGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTTGAAAAGCATCCTGCTCTTTGA
* * * *
5830137 GGACTAGAAAATGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGTAC
130 GGACTAAAAAATGACACCAACTTGTGTGGGCTTT---A-GAAAAGGCGTCCTGCTCTTTGAGGAC
* * * *
5830202 TAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGACGTCCTGCTTTTTGATGACTAAAGGGCG
191 TAGAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGACATCCTGCTCTTTAAGGACTAAAGGGCG
*
5830267 AAATGAGAGAGCG
256 AAAGGAGAGAGCG
* * *
5830280 TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTATGGGCTTCAAAAGAAGAAGGTGTCC
1 TCCTGCTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAGAAAGCGTCC
** * * * *
5830344 TGCTCTTTGAGGATTGGGAAATGCCACCAACTTGTGTGGGCTTT-AAAAGACATCCTGTTTTTTG
65 TGCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTTGAAAAG-CATCCTGCTCTTTG
*
5830408 AGGACTAAAAAAATGACACCAACTTGTGTGGGCTTT-G-AAAGGCGTCCTGCTTTTTGAGGACT-
129 AGGACT-AAAAAATGACACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTCTTTGAGGACTA
* * * * *
5830470 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTAAGGACTAAAGGGTGAA
193 GAAAAGTGCCACCAACTTGTATGGGCTTTAAAAGACATCCTGCTCTTTAAGGACTAAAGGGCGAA
*
5830535 AGGAGAGAGTG
258 AGGAGAGAGCG
* *
5830546 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAA-AAAACGTCC
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAA-GAAGAAAGCGTCC
* *
5830610 TGCTCTTTGAAGACTGAAAA
65 TGCTCTTTGAGGATTGAAAA
5830630 GTGAAAGGAT
Statistics
Matches: 301, Mismatches: 43, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
265 3 0.01
266 132 0.44
267 26 0.09
268 1 0.00
271 4 0.01
272 105 0.35
273 30 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (268 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGAAGAAAGCGTCCT
GCTCTTTGAGGATTGAAAAATGCCACCAACTTGTATAGGCTTTGAAAAGCATCCTGCTCTTTGAG
GACTAAAAAATGACACCAACTTGTGTGGGCTTTAGAAAAGGCGTCCTGCTCTTTGAGGACTAGAA
AAGTGCCACCAACTTGTATGGGCTTTAAAAGACATCCTGCTCTTTAAGGACTAAAGGGCGAAAGG
AGAGAGCG
Found at i:5831634 original size:1 final size:1
Alignment explanation
Indices: 5831614--5831674 Score: 59
Period size: 1 Copynumber: 61.0 Consensus size: 1
5831604 CTTTTCTCTC
* * * * * * *
5831614 TTTTTTCTTTGTTTTGTTTTTTTTTTGTTTTTTTATTTTTTTTTTATTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5831675 GAAAAAGAAT
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.03, C:0.02, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:5831638 original size:19 final size:18
Alignment explanation
Indices: 5831625--5831674 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
5831615 TTTTTCTTTG
*
5831625 TTTTGTTTTTTTTTTGTTT
1 TTTTGTTTTTTTTTT-ATT
*
5831644 TTTTATTTTTTTTTTATT
1 TTTTGTTTTTTTTTTATT
5831662 TTTTGTTTTTTTT
1 TTTTGTTTTTTTT
5831675 GAAAAAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.04, C:0.00, G:0.06, T:0.90
Consensus pattern (18 bp):
TTTTGTTTTTTTTTTATT
Found at i:5842002 original size:4 final size:4
Alignment explanation
Indices: 5841995--5842021 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
5841985 ACAAACAAGC
5841995 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
5842022 CACCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:5844198 original size:50 final size:51
Alignment explanation
Indices: 5844110--5844278 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 51
5844100 TCAAAAATAA
* * * * * **
5844110 CAGGGTTGGAGCATCCCCGATTATGAAAAATCGATGTTTTAGAAATAAGGC
1 CAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAAC
* * * *
5844161 CGGGGTT-GAGTATCCCTGATTGTGAGAAATTGGTGTTTTGGAAATAAAAT
1 CAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAAC
* * *
5844211 CAGAGTTGGAGTAT-CCTCGATTGTGAAAAATTGGTATTTTAGAAATAAAAT
1 CAGGGTTGGAGTATCCCT-GATTGTGAAAAATTGGTGTTTTAGAAATAAAAC
**
5844262 TGGGGTTGGAGTATCCC
1 CAGGGTTGGAGTATCCC
5844279 CTCGAAAATA
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
50 41 0.43
51 53 0.55
52 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCTGATTGTGAAAAATTGGTGTTTTAGAAATAAAAC
Found at i:5846989 original size:33 final size:33
Alignment explanation
Indices: 5846947--5847029 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
5846937 GTAAATCCAG
* * **
5846947 AATGTATCGATACATTGTATTAATACAATGAGC
1 AATGTATCGATACAATGTATCAATACAACAAGC
*
5846980 AATGTATCGATACAATGTATCGATACAACAAGC
1 AATGTATCGATACAATGTATCAATACAACAAGC
5847013 AATGTATCGATACAATG
1 AATGTATCGATACAATG
5847030 AACAATGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCAATACAACAAGC
Found at i:5846992 original size:20 final size:20
Alignment explanation
Indices: 5846991--5847040 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
5846981 ATGTATCGAT
5846991 ACAATGTATCGATACAACAA
1 ACAATGTATCGATACAACAA
* **
5847011 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAACAA
5847031 ACAATGTATC
1 ACAATGTATC
5847041 TATAGAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.24
Consensus pattern (20 bp):
ACAATGTATCGATACAACAA
Found at i:5846997 original size:13 final size:13
Alignment explanation
Indices: 5846979--5847007 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5846969 ATACAATGAG
5846979 CAATGTATCGATA
1 CAATGTATCGATA
5846992 CAATGTATCGATA
1 CAATGTATCGATA
5847005 CAA
1 CAA
5847008 CAAGCAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5851568 original size:49 final size:49
Alignment explanation
Indices: 5851503--5851659 Score: 190
Period size: 49 Copynumber: 3.2 Consensus size: 49
5851493 AGAAATGTTA
* * * *
5851503 AAGATGCCAATATGCTGATTCAAGGCTAATAATATCGGACTTAATGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATCGGACTTAAAGATG
* * * * * **
5851552 AAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATCGGACTTAAAGATG
*
5851601 AAGGTGCCAATATGCTGATTCAAGGCCAGTGATATC-GACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGTGATATCGGACTTAAAGATG
*
5851649 AAGATGTCAAT
1 AAGATGCCAAT
5851660 CCTCCACTTA
Statistics
Matches: 87, Mismatches: 21, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
48 18 0.21
49 69 0.79
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGTGATATCGGACTTAAAGATG
Found at i:5851586 original size:101 final size:97
Alignment explanation
Indices: 5851449--5851659 Score: 269
Period size: 101 Copynumber: 2.1 Consensus size: 97
5851439 TGGACTTGAA
**
5851449 GAAGAATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGAAATGTTAAAGATGCCAAT
1 GAAG-ATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTT--AAA-GACAAAGATGCCAAT
* *
5851514 ATGCTGATTCAAGGCTAATAATATCGGACTTAATGAT
62 ATGCTGATTCAAGGCCAATAATATC-GACTTAAAGAT
** * * *
5851551 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
1 GAAGATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAAAGACAAAGATGCCAATATGC
* *
5851616 TGATTCAAGGCCAGTGATATCGACTTAAAGAT
66 TGATTCAAGGCCAATAATATCGACTTAAAGAT
*
5851648 GAAGATGTCAAT
1 GAAGATGCCAAT
5851660 CCTCCACTTA
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
97 21 0.22
98 34 0.35
99 3 0.03
101 35 0.36
102 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (97 bp):
GAAGATGCCAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAAAGACAAAGATGCCAATATGC
TGATTCAAGGCCAATAATATCGACTTAAAGAT
Found at i:5854717 original size:27 final size:27
Alignment explanation
Indices: 5854676--5855133 Score: 467
Period size: 27 Copynumber: 16.7 Consensus size: 27
5854666 TTTCTTTTCA
*
5854676 AAGTCCACAAATCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * **
5854703 AAATCCATAACTCCGTGGCATTATTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
5854730 AAAGTCCACAACTCCATGGCA-CTCTTTT
1 -AAGTCCACAACTCCGTGGCATC-CTTTT
**
5854758 AAAGTCCACAACTTTGTGGCATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
5854786 AAGTCCACAACTCTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
5854813 AAGTCCACAACTCAGTGGCATCCGTTTC
1 AAGTCCACAACTCCGTGGCATCC-TTTT
** * *
5854841 AAGTCCACAACTCTATGGCGTTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
5854868 AAAGTCCACCACTCCGTGGCA-CCTTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
* * *
5854896 AAGTCCACCATTCCGTGACATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
5854923 AAGTCCACAACTTCGTGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* *
5854950 AAGTCCACAACTCCATGGCATCCATTTC
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* *
5854978 AAGTCCACAACTCCGTGGCGTTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
5855005 AAAGTCCACAACTCCGTGACACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* * **
5855033 AAATCTACAACTTTGTGGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
*
5855060 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
5855087 AAGTCCACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
5855114 AAG-CTCACAAGTCAGTGGCA
1 AAGTC-CACAACTCCGTGGCA
5855134 CTCTTCCAAA
Statistics
Matches: 359, Mismatches: 59, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.01
27 217 0.60
28 137 0.38
29 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:5854845 original size:110 final size:109
Alignment explanation
Indices: 5854645--5855245 Score: 504
Period size: 110 Copynumber: 5.4 Consensus size: 109
5854635 TGACCTCTTC
* * * * *
5854645 AAAGTCCACGA-TTCAGTGGCATTTCTTTTCAAAGTCCACAAATCCGTGGCATCCTTTTAAATCC
1 AAAGTCCACAACTTC-GTGGCA-TCCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * ** *
5854709 ATAACTCCGTGGCATTATTTTAAAGTCCACAACTCCATGGCACTCTTTT
62 ACAACTCAGTGGCATCCTTTTTAAGTCCACAACTCCATGGCA-TCTTTT
* *
5854758 AAAGTCCACAACTTTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAA
1 AAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
* * * *
5854823 CTCAGTGGCATCCGTTTCAAGTCCACAACTCTATGGCGTTCTTTT
66 CTCAGTGGCATCCTTTTTAAGTCCACAACTCCATGGC-ATCTTTT
* * * * * *
5854868 AAAGTCCACCACTCCGTGGCA-CCTTTTTAAGTCCACCATTCCGTGACATCCTTTTAAGTCCACA
1 AAAGTCCACAACTTCGTGGCATCC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
*
5854932 ACTTC-GTGGCA-CCTTTTTAAGTCCACAACTCCATGGCATCCATTT
65 AC-TCAGTGGCATCCTTTTTAAGTCCACAACTCCATGGCAT-CTTTT
* * * * * * *
5854977 CAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACAACTCCGTGACACCCTTTTAAATCTACA
1 AAAGTCCACAACTTCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACA
** **
5855042 ACTTTGTGGCA--CTCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
65 ACTCAGTGGCATCCT-TTTTAAGTCCACAACTCCATGGCAT-CTTTT
* * * ** *
5855087 -AAGTCCACAACTTCGTGGCATCCTTTTAAG-CTCACAAGTCAGTGGCACTCTTCCAAAGTTCAC
1 AAAGTCCACAACTTCGTGGCATCCTTTTAAGTC-CACAACTCCGTGGCACCCTT-TTAAGTCCAC
* * *
5855150 -ACTTCA-TGGCATCCTTTTTAAGCCCACAAGT-CAGTGGCACTCTTCT
64 AAC-TCAGTGGCATCCTTTTTAAGTCCACAACTCCA-TGGCA-TCTTTT
* * * * * * *
5855196 AAAGCCCACAAGTTAGTGGCACCCCTTTTTAAGCCCACAAGTCAGTGGCA
1 AAAGTCCACAACTTCGTGGCA-TCC-TTTTAAGTCCACAACTCCGTGGCA
5855246 TTATTTCAAA
Statistics
Matches: 404, Mismatches: 64, Indels: 41
0.79 0.13 0.08
Matches are distributed among these distances:
107 1 0.00
108 27 0.07
109 107 0.26
110 218 0.54
111 4 0.01
112 28 0.07
113 17 0.04
114 2 0.00
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (109 bp):
AAAGTCCACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAA
CTCAGTGGCATCCTTTTTAAGTCCACAACTCCATGGCATCTTTT
Found at i:5854918 original size:137 final size:136
Alignment explanation
Indices: 5854676--5855246 Score: 584
Period size: 137 Copynumber: 4.2 Consensus size: 136
5854666 TTTCTTTTCA
* * * * * * *
5854676 AAGTCCACAAATCCGTGGCATCCTTTTAAATCCATAACTCCGTGGCATTATTTTAAAGTCCACAA
1 AAGTCCACAACTCAGTGGCATCCTTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACAA
* *
5854741 CTCCATGGCACTCTTTTAAAGTCCACAACTTTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCA
66 CTCCGTGGCAC-CTTTTTAAGTCCACAACTTTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCA
5854806 CCCTTTT
130 CCCTTTT
** *
5854813 AAGTCCACAACTCAGTGGCATCCGTTTCAAGTCCACAACTCTATGGCGTTCTTTTAAAGTCCACC
1 AAGTCCACAACTCAGTGGCATCC-TTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACA
* * *
5854878 ACTCCGTGGCACCTTTTTAAGTCCACCA-TTCCGTGACATCCTTTTAAGTCCACAACT-TCGTGG
65 ACTCCGTGGCACCTTTTTAAGTCCACAACTT-TGTGGCATCCTTTTAAGTCCACAACTCT-GTGG
*
5854941 CACCTTTTT
128 CACCCTTTT
5854950 AAGTCCACAACTCCA-TGGCATCCATTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCAC
1 AAGTCCACAACT-CAGTGGCATCC-TTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCAC
* * * *
5855014 AACTCCGTGACACCCTTTTAAATCTACAACTTTGTGGCA-CTCTTTTAAGTCCACAACTCTGTGG
64 AACTCCGTGGCACCTTTTTAAGTCCACAACTTTGTGGCATC-CTTTTAAGTCCACAACTCTGTGG
*
5855078 CATCCTTTT
128 CACCCTTTT
* * * ** ** *
5855087 AAGTCCACAACTTC-GTGGCATCCTTTTAAG-CTCACAAGTCAGTGGCACTCTTCCAAAGTTCAC
1 AAGTCCACAAC-TCAGTGGCATCCTTTCAAGTC-CACAACTCCGTGGCGTTCTTTTAAAGTCCAC
* * * * ** * * *
5855150 -ACTTCATGGCATCCTTTTTAAGCCCACAAGTCAGTGGCA-CTCTTCTAAAGCCCACAAGT-TAG
64 AACTCCGTGGCA-CCTTTTTAAGTCCACAACTTTGTGGCATC-CTT-TTAAGTCCACAACTCT-G
5855212 TGGCACCCCTTTTT
125 TGGCA-CCC-TTTT
* *
5855226 AAGCCCACAAGTCAGTGGCAT
1 AAGTCCACAACTCAGTGGCAT
5855247 TATTTCAAAG
Statistics
Matches: 365, Mismatches: 53, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
135 9 0.02
136 60 0.16
137 222 0.61
138 54 0.15
139 20 0.05
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (136 bp):
AAGTCCACAACTCAGTGGCATCCTTTCAAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACAA
CTCCGTGGCACCTTTTTAAGTCCACAACTTTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCAC
CCTTTT
Found at i:5855187 original size:55 final size:56
Alignment explanation
Indices: 5854746--5855245 Score: 246
Period size: 54 Copynumber: 9.1 Consensus size: 56
5854736 CACAACTCCA
** ** * * *
5854746 TGGCACTCTTTTAAAGTCCACAACTTTGTGGCATCC-TTTTAAGTCCACAACTCTG
1 TGGCACTCTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
* ** * * * *
5854801 TGGCACCCTT-TTAAGTCCACAAC-TCAGTGGCATCCGTTTCAAGTCCACAACTCTA-
1 TGGCACTCTTCCAAAGTCCACAACTTCA-TGGCATCCTTTTTAAGCCCACAAGTC-AG
** ** * * * * * * *
5854856 TGGCGTTCTTTTAAAGTCCACCACTCCGTGGCA-CCTTTTTAAGTCCACCATTCCG
1 TGGCACTCTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
* ** * * *
5854911 TGACA-TCCTT-TTAAGTCCACAACTTCGTGGCA-CCTTTTTAAGTCCACAACTCCA-
1 TGGCACT-CTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGT-CAG
* * * * * * * * *
5854965 TGGCA-TCCATTTC-AAGTCCACAACTCCGTGGCGTTCTTTTAAAGTCCACAACTCCG
1 TGGCACT-C-TTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
* * ** * ** * * *
5855021 TGACACCCTTTTAAA-TCTACAACTTTGTGGCA--CTCTTTTAAGTCCACAACTCTG
1 TGGCACTCTTCCAAAGTCCACAACTTCATGGCATCCT-TTTTAAGCCCACAAGTCAG
** * *
5855075 TGGCA-TCCTT-TTAAGTCCACAACTTCGTGGCATCC-TTTTAAGCTCACAAGTCAG
1 TGGCACT-CTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
*
5855129 TGGCACTCTTCCAAAGTTCAC-ACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
1 TGGCACTCTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
* * * *
5855184 TGGCACTCTTCTAAAGCCCACAAGTT-AGTGGCACCCCTTTTTAAGCCCACAAGTCAG
1 TGGCACTCTTCCAAAGTCCACAACTTCA-TGGCA-TCCTTTTTAAGCCCACAAGTCAG
5855241 TGGCA
1 TGGCA
5855246 TTATTTCAAA
Statistics
Matches: 359, Mismatches: 61, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
53 6 0.02
54 139 0.39
55 137 0.38
56 49 0.14
57 28 0.08
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.30
Consensus pattern (56 bp):
TGGCACTCTTCCAAAGTCCACAACTTCATGGCATCCTTTTTAAGCCCACAAGTCAG
Found at i:5855188 original size:28 final size:28
Alignment explanation
Indices: 5855064--5856175 Score: 973
Period size: 28 Copynumber: 38.1 Consensus size: 28
5855054 TCTTTTAAGT
* * * *
5855064 CCACAACTCTGTGGCATCCTTT-TAAGT
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
5855091 CCACAACTTC-GTGGCATCCTTT-TAAGC
1 CCACAA-GTCAGTGGCATCCTTTCAAAGC
* * *
5855118 TCACAAGTCAGTGGCA-CTCTTCCAAAGT
1 CCACAAGTCAGTGGCATC-CTTTCAAAGC
* ** **
5855146 TCACACTTCA-TGGCATCCTTTTTAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5855173 CCACAAGTCAGTGGCA--CTCTTCTAAAGC
1 CCACAAGTCAGTGGCATCCT-TTC-AAAGC
* * **
5855201 CCACAAGTTAGTGGCACCCCTTTTTAAGC
1 CCACAAGTCAGTGGCA-TCCTTTCAAAGC
**
5855230 CCACAAGTCAGTGGCATTATTTCAAAGCC
1 CCACAAGTCAGTGGCATCCTTTCAAAG-C
** *
5855259 CACACAAGTCAGTGGCAACTTATTTGAAAGCC
1 C-CACAAGTCAGTGGC-A-TCCTTTCAAAG-C
* * * *
5855291 CACACAAGTCGGTGACAACCCATTTGAAAGC
1 C-CACAAGTCAGTGGC-ATCC-TTTCAAAGC
* * *
5855322 CTACACAAGTCGGTGGCAACCTATTTCAATGCC
1 C--CACAAGTCAGTGGCATCC--TTTCAAAG-C
* * **
5855355 CACACAAGTCAATGGCAACACATTTCAAAAT
1 C-CACAAGTCAGTGGCATC-C-TTTCAAAGC
*
5855386 CCATAAGTCAGTGGCATCCTTCTCAAAGCC
1 CCACAAGTCAGTGGCATCCTT-TCAAAG-C
** * *
5855416 CACACAAGTTGGTGGCCACTCATTTGAAAGCC
1 C-CACAAGTCAGTGG-CA-TCCTTTCAAAG-C
* *
5855448 CACACAAGTCGGTGGCAACCCATTTCAAAGCC
1 C-CACAAGTCAGTGGC-ATCC-TTTCAAAG-C
** * * *
5855480 CACACAAGTTGGTGGTAACCCATTTGAAAGC
1 C-CACAAGTCAGTGG-CATCC-TTTCAAAGC
* *
5855511 CCATACAAGTCGGTGGCAACCCATTTCAAAGC
1 CC--ACAAGTCAGTGGC-ATCC-TTTCAAAGC
*
5855543 CCATAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
5855571 CCACAAGTCAGAGGCATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
5855600 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5855628 CCACAAGTCAGTGGCATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
*
5855657 CCACAAGTTAGTGGCATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
*
5855686 CAACAAGTCAGTGGCATCCTTCTCAAAGCC
1 CCACAAGTCAGTGGCATCCTT-TCAAAG-C
* *
5855716 CACACAAATTAGTGGCATCCTTTCAAAGC
1 C-CACAAGTCAGTGGCATCCTTTCAAAGC
* *
5855745 CCACAAGTAAATGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
*
5855773 CCACAAGTCAATGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
5855801 CCACAAGTCAATGGCATCTTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
*
5855830 CCACAAGTCAGTGGCATCTTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5855858 CCACAAGTCAGTGGCATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* * *
5855887 CAACAAGTTAGTGGCATCCTTCTCAAAAC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* *
5855916 CAACAAGTCAGTGGCATCATTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* * * *
5855945 CTATACAAATCAGTGGCATCATTTCAAATC
1 C--CACAAGTCAGTGGCATCCTTTCAAAGC
* *
5855975 CCCCAAGTCAGCGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
* *
5856003 CCACAAATCAGCGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5856031 CCACAAGTCA-TGGCATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* *
5856059 CCATAAGTCAGTGACATCCTTCTCAAAGC
1 CCACAAGTCAGTGGCATCCTT-TCAAAGC
* *
5856088 CCATACAAATCAGTGGCATCTTTTCAAAG-
1 CC--ACAAGTCAGTGGCATCCTTTCAAAGC
*
5856117 CCACAAGTCAGTTGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5856145 CCACAAGTCAGTGGCATCCTTTCAAAGC
1 CCACAAGTCAGTGGCATCCTTTCAAAGC
5856173 CCA
1 CCA
5856176 TATAAGTTAG
Statistics
Matches: 931, Mismatches: 110, Indels: 87
0.83 0.10 0.08
Matches are distributed among these distances:
26 5 0.01
27 87 0.09
28 302 0.32
29 228 0.24
30 64 0.07
31 73 0.08
32 165 0.18
33 7 0.01
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (28 bp):
CCACAAGTCAGTGGCATCCTTTCAAAGC
Found at i:5855236 original size:29 final size:28
Alignment explanation
Indices: 5854746--5856198 Score: 345
Period size: 28 Copynumber: 50.5 Consensus size: 28
5854736 CACAACTCCA
* * * * **
5854746 TGGCACTCTTTTAAAGTCCACAACTTTG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * *
5854774 TGGCATCC-TTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* *
5854801 TGGCACCC-TTTTAAGTCCACAACTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * * *
5854828 TGGCATCCGTTTCAAGTCCACAACTCTA-
1 TGGCACCCTTTTTAAGCCCACAAGTC-AG
*** * * * * *
5854856 TGGCGTTCTTTTAAAGTCCACCACTCCG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * *
5854884 TGGCA-CCTTTTTAAGTCCACCATTCCG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * *
5854911 TGACATCC-TTTTAAGTCCACAACTTC-G
1 TGGCACCCTTTTTAAGCCCACAA-GTCAG
* *
5854938 TGGCA-CCTTTTTAAGTCCACAACTCCA-
1 TGGCACCCTTTTTAAGCCCACAAGT-CAG
* * * * * *
5854965 TGGCATCCATTTCAAGTCCACAACTCCG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
*** * * * *
5854993 TGGCGTTCTTTTAAAGTCCACAACTCCG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** * * **
5855021 TGACACCC-TTTTAAATCTACAACTTTG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * *
5855048 TGGCACTC-TTTTAAGTCCACAACTCTG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * *
5855075 TGGCATCC-TTTTAAGTCCACAACTTC-G
1 TGGCACCCTTTTTAAGCCCACAA-GTCAG
* *
5855102 TGGCATCC-TTTTAAGCTCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* *** ** **
5855129 TGGCACTCTTCCAAAGTTCACACTTCA-
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
*
5855156 TGGCATCCTTTTTAAGCCCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * * *
5855184 TGGCACTCTTCTAAAGCCCACAAGTTAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
5855212 TGGCACCCCTTTTTAAGCCCACAAGTCAG
1 TGGCA-CCCTTTTTAAGCCCACAAGTCAG
*** **
5855241 TGGCATTATTTCAAAGCCCACACAAGTCAG
1 TGGCACCCTTTTTAAG-CC-CACAAGTCAG
* *
5855271 TGGCA-ACTTATTTGAAAGCCCACACAAGTCGG
1 TGGCACCCTT-TTT--AAG-CC-CACAAGTCAG
* ** *
5855303 TGACAACCCATTTGAAAGCCTACACAAGTCGG
1 TGGC-ACCC-TTTTTAAGCC--CACAAGTCAG
* * *
5855335 TGGCAACCTATTTCAATGCCCACACAAGTCAA
1 TGGCACCCT-TTTTAA-G-CC-CACAAGTCAG
* ** ** *
5855367 TGGCAACACATTTCAAAATCCATAAGTCAG
1 TGGC-AC-CCTTTTTAAGCCCACAAGTCAG
* ** **
5855397 TGGCATCCTTCTCAAAGCCCACACAAGTTGG
1 TGGCACCCTT-TTTAAG-CC-CACAAGTCAG
* ** *
5855428 TGGCCACTCATTTGAAAGCCCACACAAGTCGG
1 TGG-CAC-CCTTTTTAAG-CC-CACAAGTCAG
** **
5855460 TGGCAACCCATTTCAAAGCCCACACAAGTTGG
1 TGGC-ACCC-TTTTTAAG-CC-CACAAGTCAG
* ** *
5855492 TGGTAACCCATTTGAAAGCCCATACAAGTCGG
1 TGG-CACCC-TTTTTAAGCCC--ACAAGTCAG
** *
5855524 TGGCAACCCATTTCAAAGCCCATAAGTCAG
1 TGGC-ACCC-TTTTTAAGCCCACAAGTCAG
* **
5855554 TGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * **
5855582 AGGCATCCTTCTCAAAGCCCACAAGTCAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* **
5855611 TGGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** *
5855639 TGGCATCCTTCTCAAAGCCCACAAGTTAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* ** *
5855668 TGGCATCCTTCTCAAAGCCAACAAGTCAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* ** * *
5855697 TGGCATCCTTCTCAAAGCCCACACAAATTAG
1 TGGCACCCTT-TTTAAG-CC-CACAAGTCAG
* ** * *
5855728 TGGCATCCTTTCAAAGCCCACAAGTAAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** *
5855756 TGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** *
5855784 TGGCATCCTTTCAAAGCCCACAAGTCAA
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* *
5855812 TGGCA-TCTTTCTCAAAGCCCACAAGTCAG
1 TGGCACCCTTT-T-TAAGCCCACAAGTCAG
* *
5855841 TGGCA-TCTTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTT-TAAGCCCACAAGTCAG
* ** * *
5855869 TGGCATCCTTCTCAAAGCCAACAAGTTAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* ** * *
5855898 TGGCATCCTTCTCAAAACCAACAAGTCAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* * ** * *
5855927 TGGCATCATTCTCAAAGCCTATACAAATCAG
1 TGGCACCCTT-TTTAAGCC--CACAAGTCAG
* * ** * *
5855958 TGGCATCATTTCAAATCCCCCAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * ** *
5855986 CGGCATCCTTTCAAAGCCCACAAATCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* * **
5856014 CGGCATCCTTTCAAAGCCCACAAGTCA-
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** *
5856041 TGGCATCCTTCTCAAAGCCCATAAGTCAG
1 TGGCACCCTT-TTTAAGCCCACAAGTCAG
* * ** *
5856070 TGACATCCTTCTCAAAGCCCATACAAATCAG
1 TGGCACCCTT-TTTAAGCCC--ACAAGTCAG
* *
5856101 TGGCA-TCTTTTCAAAG-CCACAAGTCAG
1 TGGCACCCTTTT-TAAGCCCACAAGTCAG
* * **
5856128 TTGCATCCTTTCAAAGCCCACAAGTCAG
1 TGGCACCCTTTTTAAGCCCACAAGTCAG
* ** * *
5856156 TGGCATCCTTTCAAAGCCCATATAAGTTAG
1 TGGCACCCTTTTTAAGCCC--ACAAGTCAG
*
5856186 TGGCACCATTTTT
1 TGGCACCCTTTTT
5856199 TTTAAAACCC
Statistics
Matches: 1186, Mismatches: 180, Indels: 116
0.80 0.12 0.08
Matches are distributed among these distances:
26 5 0.00
27 242 0.20
28 399 0.34
29 236 0.20
30 81 0.07
31 70 0.06
32 136 0.11
33 11 0.01
34 4 0.00
35 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (28 bp):
TGGCACCCTTTTTAAGCCCACAAGTCAG
Found at i:5855289 original size:32 final size:32
Alignment explanation
Indices: 5855248--5855749 Score: 353
Period size: 32 Copynumber: 16.5 Consensus size: 32
5855238 CAGTGGCATT
* **
5855248 ATTTCAAAGCCCACACAAGTCAGTGGCAACTT
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855280 ATTTGAAAGCCCACACAAGTCGGTGACAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* * *
5855312 ATTTGAAAGCCTACACAAGTCGGTGGCAACCT
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* ** *
5855344 ATTTCAATGCCCACACAAGTCAATGGCAACAC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
** * * *
5855376 ATTTCAAA-ATC-CATAAGTCAGTGGC-ATCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* * *
5855405 -TTCTCAAAGCCCACACAAGTTGGTGGCCACTC
1 ATT-TCAAAGCCCACACAAGTCGGTGGCAACCC
*
5855437 ATTTGAAAGCCCACACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855469 ATTTCAAAGCCCACACAAGTTGGTGGTAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855501 ATTTGAAAGCCCATACAAGTCGGTGGCAACCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* * *
5855533 ATTTCAAAG-CC-CATAAGTCAGTGGC-ATCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* * *
5855562 -TTTCAAAG-CC-CACAAGTCAGAGGC-ATCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855590 -TTCTCAAAG-CC-CACAAGTCAGTGGC-ATCC
1 ATT-TCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855619 -TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC
1 ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
** *
5855647 -TTCTCAAAG-CC-CACAAGTTAGTGGC-ATCC
1 ATT-TCAAAGCCCACACAAGTCGGTGGCAACCC
* *
5855676 -TTCTCAAAG-CCA-ACAAGTCAGTGGC-ATCC
1 ATT-TCAAAGCCCACACAAGTCGGTGGCAACCC
* ** *
5855705 -TTCTCAAAGCCCACACAAATTAGTGGC-ATCC
1 ATT-TCAAAGCCCACACAAGTCGGTGGCAACCC
5855736 -TTTCAAAGCCCACA
1 ATTTCAAAGCCCACA
5855750 AGTAAATGGC
Statistics
Matches: 408, Mismatches: 52, Indels: 22
0.85 0.11 0.05
Matches are distributed among these distances:
28 58 0.14
29 98 0.24
30 39 0.10
31 31 0.08
32 180 0.44
33 2 0.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (32 bp):
ATTTCAAAGCCCACACAAGTCGGTGGCAACCC
Found at i:5855454 original size:157 final size:156
Alignment explanation
Indices: 5855229--5855873 Score: 544
Period size: 157 Copynumber: 4.3 Consensus size: 156
5855219 CCTTTTTAAG
* ** *
5855229 CCCACAAGTCAGTGGCATTATTTCAAAGCCCACACAAGTCAGTGGCAACTTATTTGAAAGCCCAC
1 CCCATAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
* * * *
5855294 ACAAGTCGGTGACAACCCATTTGAAAGCCTACACAAGTCGGTGGCAACCTATTTCAATGCCCACA
66 ACAAGTCGGTGACAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACA
5855359 CAAGTCAATGGCAACACATTTCAAAA
131 CAAGTCAATGGCAACACATTTCAAAA
* ** *
5855385 TCCATAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTTGGTGGCCACTCATTTGAAAGCCCA
1 CCCATAAGTCAGTGGCATCCTT-TCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCA
* * * * *
5855450 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGTAACCCATTTGAAAGCCCAT
65 CACAAGTCGGTGACAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
** * *
5855515 ACAAGTCGGTGGCAACCCATTTCAAAG
130 ACAAGTCAATGGCAACACATTTCAAAA
* * *
5855542 CCCATAAGTCAGTGGCATCCTTTCAAAG-CC-CACAAGTCAGAGGC-A-TCCTTCTCAAAG-CC-
1 CCCATAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATT-TGAAAGCCCA
* * * * *
5855601 CACAAGTCAGTGGC-ATCC-TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC-TTCTCAAAG-CC-
65 CACAAGTCGGTGACAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATT-TCAAAGCCCA
* * * *
5855658 CACAAGTTAGTGGCATC-C-TTCTCAAAG
129 CACAAGTCAATGGCAACACATT-TCAAAA
* * * * * *
5855685 CCAACAAGTCAGTGGCATCCTTCTCAAAGCCCACACAAATTAGTGGC-A-TCCTTTCAAAG-CC-
1 CCCATAAGTCAGTGGCATCCTT-TCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCA
*** * * ** *
5855746 CACAAGTAAATGGC-ATCC-TTTCAAAG-CC-CACAAGTCAATGGC-ATCC-TTTCAAAG-CC-C
65 CACAAGTCGGTGACAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCAC
* * *
5855803 ACAAGTCAATGGC-A-TCTTTCTCAAAG
130 ACAAGTCAATGGCAACACATT-TCAAAA
* *
5855829 CCCACAAGTCAGTGGCATCTTTTCAAAG-CC-CACAAGTCAGTGGCA
1 CCCATAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCA
5855874 TCCTTCTCAA
Statistics
Matches: 426, Mismatches: 53, Indels: 34
0.83 0.10 0.07
Matches are distributed among these distances:
141 12 0.03
142 4 0.01
143 34 0.08
144 68 0.16
145 59 0.14
146 25 0.06
147 11 0.03
148 2 0.00
149 8 0.02
150 3 0.01
151 13 0.03
152 6 0.01
153 6 0.01
154 11 0.03
155 2 0.00
156 24 0.06
157 138 0.32
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.21
Consensus pattern (156 bp):
CCCATAAGTCAGTGGCATCCTTTCAAAGCCCACACAAGTCAGTGGCAACTCATTTGAAAGCCCAC
ACAAGTCGGTGACAACCCATTTCAAAGCCCACACAAGTCGGTGGCAACCCATTTCAAAGCCCACA
CAAGTCAATGGCAACACATTTCAAAA
Found at i:5855941 original size:230 final size:228
Alignment explanation
Indices: 5855390--5856190 Score: 998
Period size: 230 Copynumber: 3.4 Consensus size: 228
5855380 CAAAATCCAT
* * *
5855390 AAGTCAGTGGCATCCTTCTCAAAGCCCACACAAGTTGGTGGCCACTCATTTGAAAGCCCACACAA
1 AAGTCAGTGGCATCCTTCTCAAAG-CCA-ACAAGTTAGTGG-CA-TCCTTTCAAAG-CCA-ACAA
* * * * * * *
5855455 GTCGGTGGCAACCCATTTCAAAGCCCACACAAGTTGGTGGTAACCCATTTGAAAGCCCATACAAG
60 GTCAGTGGC-A-TCATTTCAAAGCCCACACAAATTAGTGG-CATCC-TTTCAAAGCCC--ACAAG
* * *
5855520 TCGGTGGCAACCCATTTCAAAGCCCATAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGA-G
119 TCAGTGGC-ATCC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCA-ATG
*
5855584 GCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCAC
181 GCATCCTTCTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAC
*
5855632 AAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTTAGTGGCATCCTTCTCAAAGCCAACAAGTCAG
1 AAGTCAGTGGCATCCTTCTCAAAGCCAACAAGTTAGTGGCATCCTT-TCAAAGCCAACAAGTCAG
* * *
5855697 TGGCATCCTTCTCAAAGCCCACACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTAAATGGCAT
65 TGGCATCATT-TCAAAGCCCACACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
5855762 CCTTTCAAAGCCCACAAGTCAATGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCTTTCTCAA
129 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAA
5855827 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAC
194 AGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAC
*
5855862 AAGTCAGTGGCATCCTTCTCAAAGCCAACAAGTTAGTGGCATCCTTCTCAAAACCAACAAGTCAG
1 AAGTCAGTGGCATCCTTCTCAAAGCCAACAAGTTAGTGGCATCCTT-TCAAAGCCAACAAGTCAG
* * * * * * *
5855927 TGGCATCATTCTCAAAGCCTATACAAATCAGTGGCATCATTTCAAATCCCCCAAGTCAGCGGCAT
65 TGGCATCATT-TCAAAGCCCACACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT
* *
5855992 CCTTTCAAAGCCCACAAATCAGCGGCATCCTTTCAAAGCCCACAAGTC-ATGGCATCCTTCTCAA
129 CCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAA
* * *
5856056 AGCCCATAAGTCAGTGACATCCTTCTCAAAGCCCATAC
194 AGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCC--AC
* * * * *
5856094 AAATCAGTGGCAT-CTTTTCAAAGCC-ACAAGTCAGTTGCATCCTTTCAAAGCCCACAAGTCAGT
1 AAGTCAGTGGCATCCTTCTCAAAGCCAACAAGTTAGTGGCATCCTTTCAAAGCCAACAAGTCAGT
* * * *
5856157 GGCATCCTTTCAAAGCCCATATAAGTTAGTGGCA
66 GGCATCATTTCAAAGCCCACACAAATTAGTGGCA
5856191 CCATTTTTTT
Statistics
Matches: 503, Mismatches: 50, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
228 21 0.04
229 59 0.12
230 284 0.56
231 14 0.03
232 24 0.05
234 10 0.02
235 6 0.01
236 22 0.04
237 12 0.02
238 7 0.01
239 7 0.01
240 11 0.02
241 2 0.00
242 24 0.05
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (228 bp):
AAGTCAGTGGCATCCTTCTCAAAGCCAACAAGTTAGTGGCATCCTTTCAAAGCCAACAAGTCAGT
GGCATCATTTCAAAGCCCACACAAATTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAATGGCATCCTTCTCAAAG
CCCACAAGTCAGTGGCATCTTTTCAAAGCCCAC
Done.