Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 37 of 75
Found at i:11707318 original size:22 final size:22
Alignment explanation
Indices: 11707290--11707335 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
11707280 CTTTCAAAAG
11707290 AATGATGATATAAACGTTTATC
1 AATGATGATATAAACGTTTATC
11707312 AATGATGATATAAACGTTTATC
1 AATGATGATATAAACGTTTATC
11707334 AA
1 AA
11707336 ACTCGTTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (22 bp):
AATGATGATATAAACGTTTATC
Found at i:11708501 original size:5 final size:5
Alignment explanation
Indices: 11708468--11708584 Score: 57
Period size: 5 Copynumber: 24.0 Consensus size: 5
11708458 AGAAGGAGAG
* * * *
11708468 GGAAA GGAGAA -GAAA -GAAA -GAAA GAAAA GGAAA GGAGA GGAGA GGGAA
1 GGAAA GGA-AA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA
* * * * * *
11708516 -GAAA GAAAA AG-AA GGAAA GAAAA GGAAA GGAGAA GAAAAA AGAAA GAAAA
1 GGAAA GGAAA GGAAA GGAAA GGAAA GGAAA GGA-AA G-GAAA GGAAA GGAAA
* *
11708566 AG-AA GGAAA GAAAA GGAAA
1 GGAAA GGAAA GGAAA GGAAA
11708585 AGGAGAAAAA
Statistics
Matches: 83, Mismatches: 22, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
4 19 0.23
5 56 0.67
6 7 0.08
7 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (5 bp):
GGAAA
Found at i:11708509 original size:33 final size:33
Alignment explanation
Indices: 11708468--11708575 Score: 112
Period size: 37 Copynumber: 3.2 Consensus size: 33
11708458 AGAAGGAGAG
*
11708468 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
* * *
11708501 GGAGAGGAGAGGGAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGA-A--AG-GAGAAGAAAGAAAGA-AAGAAAAGAAAA
*
11708539 GGAAAGGAGAAGAAA-AAAGAAAGAAAA-AGAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
11708570 GGAAAG
1 GGAAAG
11708576 AAAAGGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
31 9 0.15
32 6 0.10
33 7 0.11
34 9 0.15
35 2 0.03
36 2 0.03
37 14 0.23
38 13 0.21
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (33 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAGAAAA
Found at i:11708559 original size:41 final size:41
Alignment explanation
Indices: 11708475--11708637 Score: 181
Period size: 41 Copynumber: 3.9 Consensus size: 41
11708465 GAGGGAAAGG
* ***
11708475 AGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAGAGGGAAGAA
1 AGAA-AAAGAAGGAAAGAAAAGGAAAGGAGA--AGAAAAAAGAA
11708519 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
1 AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
11708560 AGAAAAAGAAGGAAAGAAAAGGAAAAGGAGAA-AAAAAA-AA
1 AGAAAAAGAAGGAAAGAAAAGG-AAAGGAGAAGAAAAAAGAA
** *
11708600 AGAAAGAAGAA-GAAGAGGGAAGGAAAAGA-AAGAAAAAA
1 AGAAA-AAGAAGGAA-AGAAAAGGAAAGGAGAAGAAAAAA
11708638 AGATAATTTT
Statistics
Matches: 108, Mismatches: 7, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
39 2 0.02
40 21 0.19
41 47 0.44
42 9 0.08
43 25 0.23
44 4 0.04
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (41 bp):
AGAAAAAGAAGGAAAGAAAAGGAAAGGAGAAGAAAAAAGAA
Found at i:11708596 original size:71 final size:71
Alignment explanation
Indices: 11708468--11708636 Score: 179
Period size: 71 Copynumber: 2.4 Consensus size: 71
11708458 AGAAGGAGAG
* * * * * * *
11708468 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAGAGGGAAGAAAGAAAAAGAAGGAA
1 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAAGGAAAGAAAAGGAAAGAAAGAAAAAAAAAGAA
11708533 AGAA-AA
65 AGAAGAA
11708539 GGAAAGGAGAAGAAAAAAGAAAGAAAAAG-AAGGAAAGAAAAGGAAAAGGAGAA-AAAAAAAAAG
1 GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAAGGAAAGAAAAGG-AAA-GA-AAGAAAAAAAAAG
11708602 AAAGAAGAA
63 AAAGAAGAA
*
11708611 -GAAGAGG-GAAG-GAAAAGAAAGAAAAA
1 GGAA-AGGAGAAGAAAAAAGAAAGAAAAA
11708637 AAGATAATTT
Statistics
Matches: 85, Mismatches: 8, Indels: 11
0.82 0.08 0.11
Matches are distributed among these distances:
69 11 0.13
70 29 0.34
71 38 0.45
72 7 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (71 bp):
GGAAAGGAGAAGAAAAAAGAAAGAAAAAGAAAGGAAAGAAAAGGAAAGAAAGAAAAAAAAAGAAA
GAAGAA
Found at i:11708610 original size:74 final size:71
Alignment explanation
Indices: 11708468--11708640 Score: 179
Period size: 77 Copynumber: 2.4 Consensus size: 71
11708458 AGAAGGAGAG
* * * * *
11708468 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGGAGAGGAGAGGGAAGAAAGAAAAAGAAGGAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGGAAGAAAAAAAAAGAAAGAA
11708533 AGAAAA
66 AGAAAA
11708539 GGAAAGGAGAAGAAA-AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAAGGAGAA-AAAAAAAAAG
1 GGAAAGGAGAAGAAAGAAAGAAAG---AA-AAGGAAAGAAAAGG-AAAGG-GAAGAAAAAAAAAG
*
11708602 AAAGAAGAAGAAGA
60 AAAG-A-AAGAAAA
* * *
11708616 GGGAAGGAAAAGAAAGAAAAAAAGA
1 GGAAAGGAGAAGAAAGAAAGAAAGA
11708641 TAATTTTTGT
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
70 8 0.10
71 15 0.18
73 2 0.02
74 12 0.14
75 17 0.20
76 4 0.05
77 19 0.23
78 7 0.08
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (71 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAGGAAAGAAAAGGAAAGGGAAGAAAAAAAAAGAAAGAA
AGAAAA
Found at i:11708612 original size:10 final size:10
Alignment explanation
Indices: 11708469--11708613 Score: 63
Period size: 10 Copynumber: 14.3 Consensus size: 10
11708459 GAAGGAGAGG
*
11708469 GAAAGGAGAA
1 GAAAGAAGAA
11708479 GAAAG-A-AA
1 GAAAGAAGAA
11708487 GAAAGAA-AA
1 GAAAGAAGAA
*
11708496 GGAAAGGAGAGGA
1 -GAAA-GA-AGAA
**
11708509 GAGGGAAGAAA
1 GAAAGAAG-AA
11708520 GAAA-AAGAA
1 GAAAGAAGAA
11708529 GGAAAGAA-AA
1 -GAAAGAAGAA
*
11708539 GGAAAGGAGAA
1 -GAAAGAAGAA
*
11708550 GAAAAAAGAAA
1 GAAAGAAG-AA
11708561 GAAA-AAGAA
1 GAAAGAAGAA
11708570 GGAAAGAA-AA
1 -GAAAGAAGAA
*
11708580 GGAAAAGGAGAA
1 -G-AAAGAAGAA
* *
11708592 -AAAAAAAAA
1 GAAAGAAGAA
11708601 GAAAGAAGAA
1 GAAAGAAGAA
11708611 GAA
1 GAA
11708614 GAGGGAAGGA
Statistics
Matches: 105, Mismatches: 15, Indels: 30
0.70 0.10 0.20
Matches are distributed among these distances:
8 7 0.07
9 14 0.13
10 54 0.51
11 24 0.23
12 5 0.05
13 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:11708636 original size:10 final size:10
Alignment explanation
Indices: 11708514--11708636 Score: 67
Period size: 10 Copynumber: 12.2 Consensus size: 10
11708504 GAGGAGAGGG
11708514 AAGAAAGAAA
1 AAGAAAGAAA
*
11708524 AAGAAGGAAA
1 AAGAAAGAAA
* *
11708534 GA-AAAGGAA
1 AAGAAAGAAA
*
11708543 AGGAGAAGAAAA
1 AAGA-AAG-AAA
11708555 AAGAAAGAAA
1 AAGAAAGAAA
*
11708565 AAGAAGGAAA
1 AAGAAAGAAA
*
11708575 GAA-AAGGAAA
1 -AAGAAAGAAA
11708585 AGGAGAAA-AAA
1 A--AGAAAGAAA
11708596 AA-AAAGAAA
1 AAGAAAGAAA
*
11708605 GAAG-AAGAAG
1 -AAGAAAGAAA
* * *
11708615 AGGGAAGGAA
1 AAGAAAGAAA
11708625 AAGAAAGAAA
1 AAGAAAGAAA
11708635 AA
1 AA
11708637 AAGATAATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
8 3 0.04
9 12 0.14
10 50 0.59
11 13 0.15
12 7 0.08
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:11712509 original size:27 final size:27
Alignment explanation
Indices: 11712471--11712535 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
11712461 ATAACACGAG
11712471 TGGTGCCGCCTATGGAAAAGGCACCTT
1 TGGTGCCGCCTATGGAAAAGGCACCTT
11712498 TGGTGCCGCCTATGGAAAAGGCACCTT
1 TGGTGCCGCCTATGGAAAAGGCACCTT
11712525 TGGTGCCGCCT
1 TGGTGCCGCCT
11712536 GTCCCATCCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCTATGGAAAAGGCACCTT
Found at i:11713030 original size:22 final size:22
Alignment explanation
Indices: 11712998--11713045 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
11712988 TTAGGATGTG
11712998 TTTA-TTTTACA-GAAAATATTT
1 TTTATTTTTACAGGAAAA-ATTT
11713019 TTTATTTTTACAGGAAAAATTT
1 TTTATTTTTACAGGAAAAATTT
11713041 TTTAT
1 TTTAT
11713046 GAATAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.16
22 16 0.64
23 5 0.20
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTATTTTTACAGGAAAAATTT
Found at i:11720243 original size:29 final size:28
Alignment explanation
Indices: 11720185--11720249 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 28
11720175 GATTTCGCGG
*
11720185 AAAATGGACCATTCCGGTAAATAATCAA
1 AAAATGGACCATTCCGGTAAATAATAAA
* * **
11720213 AAAATCGGCCCATTTCGGTAAATTTTAAA
1 AAAAT-GGACCATTCCGGTAAATAATAAA
11720242 AAAA-GGAC
1 AAAATGGAC
11720250 TTTTTCTGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 3 0.10
28 5 0.17
29 22 0.73
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (28 bp):
AAAATGGACCATTCCGGTAAATAATAAA
Found at i:11722409 original size:24 final size:24
Alignment explanation
Indices: 11722374--11722419 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11722364 AATGTTACAT
11722374 AAATTTACTATGT-TCTATTATTCA
1 AAATTTACTATGTCTC-ATTATTCA
*
11722398 AAATTTATTATGTCTCATTATT
1 AAATTTACTATGTCTCATTATT
11722420 TAAATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.33, C:0.11, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACTATGTCTCATTATTCA
Found at i:11722744 original size:28 final size:28
Alignment explanation
Indices: 11722670--11722745 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 28
11722660 TTTCCGCTAC
11722670 TTTAACATTTTAATTTATCTCAACTTAT
1 TTTAACATTTTAATTTATCTCAACTTAT
* * * *
11722698 TTCAATATTGTTAGTTTAT-TCAAATTTAT
1 TTTAACATT-TTAATTTATCTC-AACTTAT
*
11722727 TTTAACCTTTTAATTTATC
1 TTTAACATTTTAATTTATC
11722746 CATGTTATAC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
28 17 0.46
29 20 0.54
ACGTcount: A:0.30, C:0.12, G:0.03, T:0.55
Consensus pattern (28 bp):
TTTAACATTTTAATTTATCTCAACTTAT
Found at i:11735340 original size:44 final size:44
Alignment explanation
Indices: 11735272--11735686 Score: 298
Period size: 44 Copynumber: 9.0 Consensus size: 44
11735262 TAGATCGCAT
* *
11735272 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
*
11735316 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * * * *
11735360 CGGATT-AAAATAAAG-GATCTTATCTCTCTGAAGTTACTGTAGAGTAGATCGCAT
1 CAGATTGAAGCT--AGTAATCTTATCTCCCTG-AG--A-T-TACAGT-G---G-AG
* *
11735414 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * **
11735458 TAGATTGAAACAAGTAATCCCATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* ** * * *
11735502 CGGATT-AAAATAAATGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCG
1 CAGATTGAAGCT-AGTAATCTTATCTCCCTGAGA-TTACAGT---G--GA--G
* *
11735553 CATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAG
1 C---AGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* **
11735600 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTATAGCAGAG
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
* * * *
11735644 CAGATTGAAGCTGGTAATCCTATTTCCCTAAGATTACAGTGGA
1 CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGA
11735687 ACGGATTAAA
Statistics
Matches: 288, Mismatches: 55, Indels: 56
0.72 0.14 0.14
Matches are distributed among these distances:
43 7 0.02
44 195 0.68
45 5 0.02
47 4 0.01
48 2 0.01
49 13 0.05
50 2 0.01
51 4 0.01
53 5 0.02
54 45 0.16
55 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
CAGATTGAAGCTAGTAATCTTATCTCCCTGAGATTACAGTGGAG
Found at i:11735430 original size:142 final size:142
Alignment explanation
Indices: 11735197--11735635 Score: 763
Period size: 142 Copynumber: 3.1 Consensus size: 142
11735187 TAAGTCTTAG
*
11735197 CTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTA-TAGTAGA
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACT-GTAGA
11735261 GTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
65 GTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
11735326 CTAGTAATCCTAT
130 CTAGTAATCCTAT
11735339 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGAG
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGAG
* * * *
11735404 TAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAAC
66 TAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC
* *
11735469 AAGTAATCCCAT
131 TAGTAATCCTAT
* *
11735481 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAG
1 CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGAG
*
11735546 TAGATCGCATTAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC
66 TAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC
*
11735611 TAGTAATCTTAT
131 TAGTAATCCTAT
11735623 CTCCCTGAGATTA
1 CTCCCTGAGATTA
11735636 TAGCAGAGCA
Statistics
Matches: 279, Mismatches: 17, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
142 278 1.00
143 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
CTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGAG
TAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGC
TAGTAATCCTAT
Found at i:11737616 original size:24 final size:24
Alignment explanation
Indices: 11737581--11737626 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11737571 AATGTTACAT
11737581 AAATTTACTATGT-TCTATTATTCA
1 AAATTTACTATGTATC-ATTATTCA
*
11737605 AAATTTATTATGTATCATTATT
1 AAATTTACTATGTATCATTATT
11737627 TAAATTTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACTATGTATCATTATTCA
Found at i:11737910 original size:29 final size:29
Alignment explanation
Indices: 11737865--11737943 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
11737855 TTCTTTCCGC
* *
11737865 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTCAACATTTTAATTTATCTCAAAAT
*
11737893 TATTTCAATATTGTTAATTTAT-TCAAAAT
1 TATTTCAACATT-TTAATTTATCTCAAAAT
*
11737922 TATTTTAACATTTTAATTTATC
1 TATTTCAACATTTTAATTTATC
11737944 CATGTACTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
28 21 0.49
29 22 0.51
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.54
Consensus pattern (29 bp):
TATTTCAACATTTTAATTTATCTCAAAAT
Found at i:11738914 original size:21 final size:22
Alignment explanation
Indices: 11738874--11738915 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11738864 AATGATTTAT
11738874 AATATTTTATAATATAAAATTA
1 AATATTTTATAATATAAAATTA
*
11738896 AATATTTTAT-ATTTAAAATT
1 AATATTTTATAATATAAAATT
11738916 GTGAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATAATATAAAATTA
Found at i:11749571 original size:21 final size:20
Alignment explanation
Indices: 11749525--11749563 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11749515 AACCTATTGT
11749525 ATTAATAGTTTTTTATAATA
1 ATTAATAGTTTTTTATAATA
11749545 ATTAATA-TTATTTT-TAATA
1 ATTAATAGTT-TTTTATAATA
11749564 TATTTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTAATAGTTTTTTATAATA
Found at i:11758932 original size:171 final size:172
Alignment explanation
Indices: 11758637--11758980 Score: 681
Period size: 171 Copynumber: 2.0 Consensus size: 172
11758627 TTATAATATT
11758637 TTAAAAAATAAATTAAATTTATATTATTTTTGGAGTCAAAATATTATTTTACTATTATTATTTTA
1 TTAAAAAATAAATTAAATTTATATTATTTTTGGAGTCAAAATATTATTTTACTATTATTATTTTA
11758702 AAATTTTATAAATTATAAAAAGACTAAAATGAAAAATTTTCATTTTAACCCCTCCACCCCTAGTA
66 AAATTTTATAAATTATAAAAAGACTAAAATGAAAAATTTTCATTTTAACCCCTCCACCCCTAGTA
11758767 TCAACCAAAATGTTTGTTATTATTGGGAAATAGTGATTAGAG
131 TCAACCAAAATGTTTGTTATTATTGGGAAATAGTGATTAGAG
11758809 TTAAAAAAT-AATTAAATTTATATTATTTTTGGAGTCAAAATATTATTTTACTATTATTATTTTA
1 TTAAAAAATAAATTAAATTTATATTATTTTTGGAGTCAAAATATTATTTTACTATTATTATTTTA
11758873 AAATTTTATAAATTATAAAAAGACTAAAATGAAAAATTTTCATTTTAACCCCTCCACCCCTAGTA
66 AAATTTTATAAATTATAAAAAGACTAAAATGAAAAATTTTCATTTTAACCCCTCCACCCCTAGTA
11758938 TCAACCAAAATGTTTGTTATTATTGGGAAATAGTGATTAGAG
131 TCAACCAAAATGTTTGTTATTATTGGGAAATAGTGATTAGAG
11758980 T
1 T
11758981 GGTTTACACT
Statistics
Matches: 172, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
171 163 0.95
172 9 0.05
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (172 bp):
TTAAAAAATAAATTAAATTTATATTATTTTTGGAGTCAAAATATTATTTTACTATTATTATTTTA
AAATTTTATAAATTATAAAAAGACTAAAATGAAAAATTTTCATTTTAACCCCTCCACCCCTAGTA
TCAACCAAAATGTTTGTTATTATTGGGAAATAGTGATTAGAG
Found at i:11760797 original size:48 final size:48
Alignment explanation
Indices: 11760741--11760836 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
11760731 CTATTAGGAG
11760741 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
*
11760789 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
11760837 GAAACATTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (48 bp):
ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGAAACTTAATACAA
Found at i:11771325 original size:25 final size:26
Alignment explanation
Indices: 11771291--11771341 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
11771281 TTTTAATTTT
*
11771291 AATTTTAAAAATATTTA-AAATATTA
1 AATTTGAAAAATATTTATAAATATTA
*
11771316 AATTTGAAAAATATTTATATATATTA
1 AATTTGAAAAATATTTATAAATATTA
11771342 CAAGGATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
AATTTGAAAAATATTTATAAATATTA
Found at i:11771488 original size:31 final size:30
Alignment explanation
Indices: 11771426--11771489 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
11771416 ATAAATTTGG
* ** *
11771426 AATTTAGTCCTTATACTTTTATTTTTTAAA
1 AATTTAGTCCCTATACTTTTAGATTTCAAA
*
11771456 AATTTAGTCCCTCTACTTTTTAGATTTCAAA
1 AATTTAGTCCCTATAC-TTTTAGATTTCAAA
11771487 AAT
1 AAT
11771490 CCAGGTTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.31, C:0.14, G:0.05, T:0.50
Consensus pattern (30 bp):
AATTTAGTCCCTATACTTTTAGATTTCAAA
Found at i:11791355 original size:19 final size:20
Alignment explanation
Indices: 11791331--11791370 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
11791321 CTTATATTCC
*
11791331 TTAATTAA-TATTTTAAACT
1 TTAATTAATTACTTTAAACT
11791350 TTAATTAATTACTTTAAACT
1 TTAATTAATTACTTTAAACT
11791370 T
1 T
11791371 GATTAACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATTAATTACTTTAAACT
Found at i:11793058 original size:24 final size:25
Alignment explanation
Indices: 11793031--11793077 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
11793021 GTAAATCAAA
11793031 AAAATATCTCTA-AAAATTTTCTGG
1 AAAATATCTCTAGAAAATTTTCTGG
* * *
11793055 AAAATCTCTTTAGAGAATTTTCT
1 AAAATATCTCTAGAAAATTTTCT
11793078 CTCTACAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
AAAATATCTCTAGAAAATTTTCTGG
Found at i:11793328 original size:20 final size:19
Alignment explanation
Indices: 11793281--11793341 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
11793271 CAAGATAAAC
11793281 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
*
11793298 ACTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
**
11793318 ATTAAATTAATAAAATAAT
1 ATTAAATTAATAATTTAAT
11793337 ATTAA
1 ATTAA
11793342 GATAAGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 12 0.34
20 16 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:11793844 original size:25 final size:25
Alignment explanation
Indices: 11793798--11793845 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
11793788 AAATATTATA
***
11793798 TTAATTTTAATTGATTTGATTTACT
1 TTAATTTTAATTGATCAAATTTACT
*
11793823 TTAATTTTACTTGATCAAATTTA
1 TTAATTTTAATTGATCAAATTTA
11793846 TTTTTTCCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.56
Consensus pattern (25 bp):
TTAATTTTAATTGATCAAATTTACT
Found at i:11795582 original size:14 final size:14
Alignment explanation
Indices: 11795560--11795619 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
11795550 TAAATAAACG
*
11795560 AAATTAATATAAAT
1 AAATAAATATAAAT
*
11795574 AAATAAATAAAAAT
1 AAATAAATATAAAT
*
11795588 AAAGAAATGA-AAAT
1 AAATAAAT-ATAAAT
*
11795602 GTAA-AAATATAAAT
1 -AAATAAATATAAAT
11795616 AAAT
1 AAAT
11795620 GAGCAACGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
13 3 0.08
14 31 0.84
15 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (14 bp):
AAATAAATATAAAT
Found at i:11797658 original size:132 final size:132
Alignment explanation
Indices: 11797495--11797921 Score: 698
Period size: 132 Copynumber: 3.2 Consensus size: 132
11797485 ATTCTCAATC
* * * * * *
11797495 TTCAATCTATTCCACTGCTGCCCAGGAAAGTAGAATTACTGGATTTAATGTACTCCGCTGTAACC
1 TTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
11797560 ACAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAA
66 ACAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAA
11797625 TT
131 TT
11797627 TTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
** * *
11797692 ACAGGGAGGTAAAATTTTCCATCTTCGATCTGCTCTGCTACTGCTTAGGGAGATAAGATCTG-AA
66 ACAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAA
*
11797756 TC
131 TT
11797758 TTCAATCTATTCCACTGTT-TCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 TTCAATCTATTCCACTGTTGT-CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* *
11797822 CACAGGGAGGTAAAA-TCGATCATTTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGA
65 CACAGGGAGGTAAAATTCGCT-ATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGA
11797886 AATT
129 AATT
11797890 TTCAATCTATTCCACTGTTGTCCAGGGAAGTA
1 TTCAATCTATTCCACTGTTGTCCAGGGAAGTA
11797922 NNNNNNNNNN
Statistics
Matches: 273, Mismatches: 18, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
130 2 0.01
131 120 0.44
132 150 0.55
133 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (132 bp):
TTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATTCGCTATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGAAA
TT
Found at i:11802399 original size:24 final size:24
Alignment explanation
Indices: 11802370--11802415 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11802360 ATAATCTTTT
* *
11802370 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATACATTTCCTTTTGAA
*
11802394 GCTGCTCCTACATTTCCTTTTG
1 GCTGCTCATACATTTCCTTTTG
11802416 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTGCTCATACATTTCCTTTTGAA
Found at i:11809144 original size:15 final size:15
Alignment explanation
Indices: 11809124--11809161 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
11809114 AGGATTTGGT
11809124 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
11809139 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
11809154 TTATTTAT
1 TTGTTTAT
11809162 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:11809181 original size:13 final size:13
Alignment explanation
Indices: 11809163--11809188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11809153 ATTATTTATC
11809163 ATTTAAATATATA
1 ATTTAAATATATA
11809176 ATTTAAATATATA
1 ATTTAAATATATA
11809189 TAAATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:11809229 original size:20 final size:19
Alignment explanation
Indices: 11809202--11809243 Score: 75
Period size: 20 Copynumber: 2.2 Consensus size: 19
11809192 ATAAAAATAA
11809202 AAATATATTAATAATATAG
1 AAATATATTAATAATATAG
11809221 AAATAATATTAATAATATAG
1 AAAT-ATATTAATAATATAG
11809241 AAA
1 AAA
11809244 GAAAATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AAATATATTAATAATATAG
Found at i:11813050 original size:89 final size:86
Alignment explanation
Indices: 11812849--11813051 Score: 216
Period size: 89 Copynumber: 2.3 Consensus size: 86
11812839 CTTAAGAGTG
* * *
11812849 CAAAAAG-CCTTC-AACATTTTTTAAAAAGCAATTAAGTCCCTATTTTTTTTTCACTCATTTAGG
1 CAAAAAGACCTTCAAAC-TTTTTAAAAAAGCAATTAAGCCCCTATTTTTTTTTCACTCATTGAGG
11812912 TACTTGAACTTTCAAAATGCAT
65 TACTTGAACTTTCAAAATGCAT
* ** * * *
11812934 -AAAAAAACCTTCAAACTTTAAAAAAAAATCAATTAAGCCCCTACTTTTTTTTTTTGATTCAATT
1 CAAAAAGACCTTCAAACTTT-TTAAAAAAGCAATTAAGCCCCTA---TTTTTTTTTCACTC-ATT
*
11812998 GA-GTACTTGTACTTTCAAAATGCAT
61 GAGGTACTTGAACTTTCAAAATGCAT
*
11813023 CAAAAAGACCCTCAAACTTTTTGAAAAAA
1 CAAAAAGACCTTCAAACTTTTT-AAAAAA
11813052 AAAACACAAT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
84 5 0.05
85 8 0.08
86 21 0.22
89 34 0.36
90 27 0.28
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.35
Consensus pattern (86 bp):
CAAAAAGACCTTCAAACTTTTTAAAAAAGCAATTAAGCCCCTATTTTTTTTTCACTCATTGAGGT
ACTTGAACTTTCAAAATGCAT
Found at i:11813371 original size:45 final size:46
Alignment explanation
Indices: 11813322--11813419 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
11813312 AGATAGAAAC
*
11813322 CAAAATATTATCTCTTAAAC-TTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
11813367 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
1 CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
*
11813413 GAAAATA
1 CAAAATA
11813420 GATATACACA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 19 0.38
46 31 0.62
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (46 bp):
CAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATTAAAA
Found at i:11818153 original size:9 final size:8
Alignment explanation
Indices: 11818139--11818182 Score: 52
Period size: 9 Copynumber: 5.0 Consensus size: 8
11818129 CAATAAATTT
11818139 TATAAAAA
1 TATAAAAA
11818147 TAGTAAAAAA
1 TA-T-AAAAA
11818157 TTATAAAATA
1 -TATAAAA-A
11818167 TATAAAAA
1 TATAAAAA
11818175 TATAAAAA
1 TATAAAAA
11818183 ATTATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 11 0.34
9 12 0.38
10 7 0.22
11 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:11818155 original size:10 final size:9
Alignment explanation
Indices: 11818142--11818191 Score: 57
Period size: 10 Copynumber: 5.3 Consensus size: 9
11818132 TAAATTTTAT
11818142 AAAAATAGTA
1 AAAAATA-TA
11818152 AAAAAT-TA
1 AAAAATATA
*
11818160 TAAAATATA
1 AAAAATATA
11818169 TAAAAATATA
1 -AAAAATATA
11818179 AAAAATTATA
1 AAAAA-TATA
11818189 AAA
1 AAA
11818192 TTTTATAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
8 7 0.20
9 7 0.20
10 21 0.60
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAAATATA
Found at i:11818163 original size:28 final size:28
Alignment explanation
Indices: 11818131--11818217 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
11818121 AGTAATTCCA
11818131 ATAAATTTTATAAAAATAGTAAAAAATT
1 ATAAATTTTATAAAAATAGTAAAAAATT
* *
11818159 ATAAAATATATAAAAATA-TAAAAAATT
1 ATAAATTTTATAAAAATAGTAAAAAATT
* *
11818186 ATAAAATTTTAT-AAAGTCGTAAGAAAATT
1 AT-AAATTTTATAAAAATAGTAA-AAAATT
11818215 ATA
1 ATA
11818218 CAAAATGTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 15 0.30
28 27 0.54
29 8 0.16
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (28 bp):
ATAAATTTTATAAAAATAGTAAAAAATT
Found at i:11818986 original size:21 final size:21
Alignment explanation
Indices: 11818962--11819011 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
11818952 TTTCGAATCG
*
11818962 AGTTGAGTAAAACGAAATTCA
1 AGTTAAGTAAAACGAAATTCA
* * *
11818983 AGTTAAGTGAAATGAAATTTA
1 AGTTAAGTAAAACGAAATTCA
11819004 AGTTAAGT
1 AGTTAAGT
11819012 CAAATCGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTTAAGTAAAACGAAATTCA
Found at i:11819016 original size:21 final size:21
Alignment explanation
Indices: 11818975--11819016 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11818965 TGAGTAAAAC
*
11818975 GAAATTCAAGTTAAGTGAAAT
1 GAAATTCAAGTTAAGTCAAAT
*
11818996 GAAATTTAAGTTAAGTCAAAT
1 GAAATTCAAGTTAAGTCAAAT
11819017 CGAGTGACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.31
Consensus pattern (21 bp):
GAAATTCAAGTTAAGTCAAAT
Found at i:11821491 original size:231 final size:231
Alignment explanation
Indices: 11821088--11821551 Score: 892
Period size: 231 Copynumber: 2.0 Consensus size: 231
11821078 CATGTAACGC
11821088 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
1 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
* *
11821153 ATGCTAGTCACTGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGTTC
66 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
11821218 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
131 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
11821283 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
196 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
*
11821319 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTTAGTGCATTGTATGAGCTTTTGCTCC
1 GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
11821384 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
66 ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
11821449 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
131 TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
*
11821514 AAAAGCAATGGCTTTTGTCCGTGATTCAGACGGTAA
196 AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
11821550 GC
1 GC
11821552 GTAGTGTGAA
Statistics
Matches: 229, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 229 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.41
Consensus pattern (231 bp):
GCATTTCATTCTTTAATTTTGTGGGGTTATTATTTTGTTAAGTGCATTGTATGAGCTTTTGCTCC
ATGCTAGTCACAGTCCCAAGTTCCAAATTGCCCATAACGTTTGATGCAGGAATTTCGGGTTGCTC
TTCTTTTCTTTTTTCTTTTTTTAAACAAGTTGGTCAGCTATTTGATGGATCAGATAATCCATGCA
AAAAGCAATGGCTTTTGTCCCTGATTCAGACGGTAA
Found at i:11822927 original size:18 final size:18
Alignment explanation
Indices: 11822891--11822929 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11822881 GACTTTTGAC
*
11822891 AGACATAATCCCTAGTCT
1 AGACATAATCCATAGTCT
11822909 AGACATAATCACATA-TCT
1 AGACATAATC-CATAGTCT
11822927 AGA
1 AGA
11822930 GATATACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (18 bp):
AGACATAATCCATAGTCT
Found at i:11827293 original size:263 final size:261
Alignment explanation
Indices: 11826821--11827340 Score: 896
Period size: 263 Copynumber: 2.0 Consensus size: 261
11826811 TTAGTCCGCC
* *
11826821 GAGTACTCTCTAAGAGGAGGTTAGTGGCACCAATGAGTCTCTTCAATAATATGCTCTAAGAGTTT
1 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
* *
11826886 ATATAAGGTGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACATTATTTGTTAAT
66 ATATAAGATGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACAGTATTTGTTAAT
* * *
11826951 CCATCGCATCCTATGATTGGCGACACTTATCCAGACATCTCACATAGTTCCCTCATATCAACTCC
131 CCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACTCC
* * *
11827016 AATAATGTTCCTAGCTAACATTCACCACTCTACCCTTTGCACCTATGAAGTAGAGTGCTTGACAC
196 AATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGACAC
11827081 T
261 T
11827082 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
1 GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
* *
11827147 ATATAAGATGGGCTTGCACAATCCCTAGAAGATATATAAGGAAGATCTACTGATAGTATTTGTTA
66 ATATAAGATGGGCTCGCACAAT-CCT-GAAGATATATAAGGAAGATCTACTGACAGTATTTGTTA
*
11827212 ATCCATTGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACT
129 ATCCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACT
*
11827277 CCAATAATGGTCCTAGCTAAAATTCACCACTTTACCCTCTGCACCTATGAAGTAGAGTGCTTGA
194 CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGA
11827341 TGGTTAGGAT
Statistics
Matches: 243, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
261 83 0.34
262 3 0.01
263 157 0.65
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (261 bp):
GAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGTTT
ATATAAGATGGGCTCGCACAATCCTGAAGATATATAAGGAAGATCTACTGACAGTATTTGTTAAT
CCATCGCATCCTAGGATTGGCGACACCTATCCAGACATCTCACATAGTTCCCTCACATCAACTCC
AATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTGCACCTATGAAGTAGAGTGCTTGACAC
T
Found at i:11830685 original size:13 final size:13
Alignment explanation
Indices: 11830663--11830696 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11830653 GCAATGTGGA
11830663 AAATAATAATTTT
1 AAATAATAATTTT
*
11830676 AAATACTAATTTT
1 AAATAATAATTTT
11830689 AAA-AATAA
1 AAATAATAA
11830697 AAAATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (13 bp):
AAATAATAATTTT
Found at i:11832891 original size:12 final size:12
Alignment explanation
Indices: 11832874--11832900 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11832864 TATGTATGTG
11832874 ATAGATTCAATT
1 ATAGATTCAATT
11832886 ATAGATTCAATT
1 ATAGATTCAATT
11832898 ATA
1 ATA
11832901 TATATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
ATAGATTCAATT
Found at i:11833452 original size:97 final size:97
Alignment explanation
Indices: 11833286--11833472 Score: 320
Period size: 97 Copynumber: 1.9 Consensus size: 97
11833276 AGGAATTATT
* *
11833286 TGTATATGTGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTGACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
*
11833351 GACATTACGTCTAGCACGCTTGATGTTTCACC
66 GACATTACATCTAGCACGCTTGATGTTTCACC
*
11833383 TGTATATATGAAATTAAAATTTTAGGCTTCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
* *
11833448 GACATTACATGTAGCAGGCTTGATG
66 GACATTACATCTAGCACGCTTGATG
11833473 CCGTTGAAAC
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 84 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (97 bp):
TGTATATATGAAATTAAAATTTTAGGCTGCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
GACATTACATCTAGCACGCTTGATGTTTCACC
Found at i:11833504 original size:41 final size:41
Alignment explanation
Indices: 11833445--11833627 Score: 276
Period size: 41 Copynumber: 4.5 Consensus size: 41
11833435 GTGAAGTAAT
* * *
11833445 CCAGACATTACATGTAGCAGGCTTGATGCCGTTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
11833486 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
11833527 CCAGACATTACGTCTAGCAAGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
11833568 CCAGACTTTACGTCTAGTAGGCTTGATGTCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
11833609 TCAGACTTTATGTCTAGCA
1 CCAGACATTACGTCTAGCA
11833628 AGCTAAGTGT
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:11833672 original size:82 final size:82
Alignment explanation
Indices: 11833445--11833672 Score: 208
Period size: 82 Copynumber: 2.8 Consensus size: 82
11833435 GTGAAGTAAT
* * * * * * * * * *
11833445 CCAGACATTACATGTAGCAGGCTTGATGCCGTTGAAACATACCAGACATTACGTCTAGCAGGCTT
1 CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
11833510 GATGCCGGTGAAACATA
66 GATGCCGGTGAAACATA
* * * * * *
11833527 CCAGACATTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGTAGGCTT
1 CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
*
11833592 GATGTCGGTGAAACATA
66 GATGCCGGTGAAACATA
* * * * ** *
11833609 TCAGACTTTATGTCTAGCAAGCTA-AGTGTCGGT-CTACTAAAACAGGCTTTAAGCCTAGCAGGC
1 CCAGACATTACGTCTAGCAAGCTAGA-TGCCGGTGAAAC-AAAACAGACTTTAAGCCTAGCAGGC
11833672 T
64 T
11833673 AAGTGTCGGT
Statistics
Matches: 124, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
81 3 0.02
82 121 0.98
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (82 bp):
CCAGACATTACGTCTAGCAAGCTAGATGCCGGTGAAACAAAACAGACTTTAAGCCTAGCAGGCTT
GATGCCGGTGAAACATA
Found at i:11834358 original size:13 final size:13
Alignment explanation
Indices: 11834340--11834364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11834330 AATTATATGA
11834340 TATTTATGTGTTT
1 TATTTATGTGTTT
11834353 TATTTATGTGTT
1 TATTTATGTGTT
11834365 GTTTTAGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (13 bp):
TATTTATGTGTTT
Found at i:11841610 original size:41 final size:41
Alignment explanation
Indices: 11841575--11841761 Score: 241
Period size: 41 Copynumber: 4.6 Consensus size: 41
11841565 GTGAAGTAAT
*
11841575 CCAGACATTACATCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
*
11841616 CCAGACATTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
11841657 CCAGA-ATTTACGTCTTGCAGGATTGATGCTGGTGAAACATA
1 CCAGACA-TTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
11841698 CCAGACTTTACGTCTAGCAGGCTTGATACCGGTGAAATATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
11841739 TCATACTTTATGTCTAGGAGGCT
1 CCAGACATTACGTCTAGCAGGCT
11841762 AAGTGTCGGT
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 127 0.99
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:11841772 original size:41 final size:41
Alignment explanation
Indices: 11841699--11841814 Score: 99
Period size: 41 Copynumber: 2.8 Consensus size: 41
11841689 TGAAACATAC
* * * * * *
11841699 CAGACTTTACGTCTAGCAGGCT-TGATACCGGTGAAATATAT
1 CAGACTTTAAGCCTAGCAGGCTAAG-TGCCGGTGAAATAAAA
* * * * * * *
11841740 CATACTTTATGTCTAGGAGGCTAAGTGTCGGTGTACTAAAA
1 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATAAAA
11841781 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGA
1 CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGA
11841815 TATTGTTTAT
Statistics
Matches: 58, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
41 57 0.98
42 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (41 bp):
CAGACTTTAAGCCTAGCAGGCTAAGTGCCGGTGAAATAAAA
Found at i:11841800 original size:123 final size:123
Alignment explanation
Indices: 11841575--11841800 Score: 258
Period size: 123 Copynumber: 1.8 Consensus size: 123
11841565 GTGAAGTAAT
* * *
11841575 CCAGACATTACATCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGTAGGCTT
1 CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * * * *
11841640 GATGCCGGTGAAACATACCAGAATTTACGTCTTGCAGGATTGATGCTGGTGAAACATA
66 GATGCCGGTGAAACAAAACAGAATTTAAGCCTAGCAGGATTGATGCTGGTGAAACATA
* * * * * * *
11841698 CCAGACTTTACGTCTAGCAGGCTTGATACCGGTGAAATATATCATACTTTATGTCTAGGAGGCTA
1 CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * *
11841763 -AGTGTCGGTG-TACTAAAACAGACTTTAAGCCTAGCAGG
66 GA-TGCCGGTGAAAC-AAAACAGAATTTAAGCCTAGCAGG
11841801 CTAAGTGCCG
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
122 3 0.04
123 80 0.96
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (123 bp):
CCAGACATTACATCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
GATGCCGGTGAAACAAAACAGAATTTAAGCCTAGCAGGATTGATGCTGGTGAAACATA
Found at i:11846651 original size:37 final size:37
Alignment explanation
Indices: 11846596--11846730 Score: 150
Period size: 37 Copynumber: 3.6 Consensus size: 37
11846586 AGGACATAGT
*
11846596 TTTAGCTCAAATGAGTAACCTAATGTTGTTTTAAAAG
1 TTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
* * * *
11846633 TTTAGCTCAGACGGGTAACCTGATATG-TG-TTT-ATAT
1 TTTAGCTCAAACGAGTAACCT-A-ATGTTGTTTTAAAAG
*
11846669 TATTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAG
1 T-TTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
**
11846707 TTTAGCTCGGACGAGTAACCTAAT
1 TTTAGCTCAAACGAGTAACCTAAT
11846731 ATGTGTTTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
35 3 0.04
36 6 0.08
37 61 0.77
38 6 0.08
39 3 0.04
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (37 bp):
TTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAG
Found at i:11846725 original size:74 final size:74
Alignment explanation
Indices: 11846597--11846748 Score: 259
Period size: 74 Copynumber: 2.1 Consensus size: 74
11846587 GGACATAGTT
** * *
11846597 TTAGCTCAAATGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGGGTAACCTGATATGTG
1 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
11846662 TTTATATTA
66 TTTATATTA
*
11846671 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGACGAGTAACCTAATATGTG
1 TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
11846736 TTTATATTA
66 TTTATATTA
11846745 TTAG
1 TTAG
11846749 ATCGAATGAG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (74 bp):
TTAGCTCAAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTAATATGTG
TTTATATTA
Found at i:11852455 original size:19 final size:19
Alignment explanation
Indices: 11852431--11852503 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
11852421 AATCTTCAGG
11852431 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11852450 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
**
11852469 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11852488 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
11852504 AGATATGATT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11856852 original size:24 final size:24
Alignment explanation
Indices: 11856825--11856870 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
11856815 AGAACAATCC
* *
11856825 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
11856849 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
11856871 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:11859157 original size:13 final size:13
Alignment explanation
Indices: 11859141--11859165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11859131 GGGGATGACA
11859141 AAAAAAACAAAAC
1 AAAAAAACAAAAC
11859154 AAAAAAACAAAA
1 AAAAAAACAAAA
11859166 TCTACCAGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:11870650 original size:132 final size:132
Alignment explanation
Indices: 11870410--11872715 Score: 3533
Period size: 132 Copynumber: 17.5 Consensus size: 132
11870400 TTGACAGCGA
* * * * * *
11870410 AGCAGATCGAAGATTGTGGATTTTCCCTCCTTGTGGTTATAGTGGAGTATATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
11870475 TCTACCTCCCTAGACAATAGTGGAATAGATTGAATATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11870540 GG
131 GG
* *
11870542 AGTAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
11870607 TCTACTTCCCTGGGA-AACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
66 TCTACTTCCCT-GGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
11870671 TGG
130 TGG
*
11870674 AGCAGATCGAAGATGGCGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * *
11870739 TCTACTTCCCTCAAGAATAGTGTAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11870804 GG
131 GG
*
11870806 AGCAGATCGAAGATGGCGGATTTCACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * * * *
11870871 TCTACTTCCCTCAAGAATAGTGTAATAGATTGAAGATTTCAAATCTTATCTCCCTAAGCAATAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
11870936 AG
131 GG
* * * *
11870938 AGCAGATCGAAGATGGCGGATTTTACCTCACTGTGGTTATAGTGGAGTATATTGGAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
11871003 TCTACTTCCCTGGACAAAAGTGGACTAGATTGAAGATTTCAGGTCTTATCTCGCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11871068 GG
131 GG
* * * * *
11871070 AGCAGATCAAATATGGCGGATTTTACCTCCATGTGGTTACAGTTGAGTACATTGAAGCCAATAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
11871135 TCTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11871200 GG
131 GG
* * * * *
11871202 AGCAGATCGAAGATGGTGGATTTTACCTCCCTATGGTTACAGTGCAGTGCATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
11871267 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTATT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11871332 GG
131 GG
* * * * *
11871334 AGCAGATCGAAGATGACGGATTTTACCTCCCTATGGTTACAGTGCAGTGCATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
11871399 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTA--T-CCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11871461 GG
131 GG
* *
11871463 AGCAGATCGAAGATGGAGGATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
11871528 TTTACTTCCCTGGACAATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
11871593 AG
131 GG
* *
11871595 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** *
11871660 TCTACTTCCCTCAACAACAGTGGAATAGACTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
11871725 AG
131 GG
* *
11871727 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
11871792 CCTACTTACCC-GGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCGCTAAGCAGTAG
66 TCTACTT-CCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAG
11871856 TGG
130 TGG
* * *
11871859 AGCAGATCAAAGATGGTGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * *
11871924 TCTACTTCTGTGGATAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11871989 GG
131 GG
* * * *
11871991 AGCAGATCGAAGATGGCAGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCTAGCAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
11872056 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11872121 GG
131 GG
** * *
11872123 AGCAGATCGAAGATTACGGATTTTACCTCACTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * * *
11872188 TCTACTTCCCTGGACAACAGTGGAATAGATTCAAGATTTCAGGTCTTATCTCACTAAGTAGCAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11872253 GG
131 GG
* **
11872255 AGCAGATCGAAGATGGCGGATTTTACATCGTTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** *
11872320 TCTACTTCCCTCAACAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
11872385 AG
131 GG
* * * *
11872387 AGCAGTTCGAAGATGGCGGATTTTGCCTCCCTGTGGTTATAGTGGAGTACATTAAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * * *
11872452 TCTACTTCCCTGGACAACAGTGGAATAGTTTCAAGATTTCAGGTCTTATCTCGCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
11872517 GG
131 GG
* * * *
11872519 AGCAGATCAAAGATGACAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
11872584 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
*
11872649 AG
131 GG
*
11872651 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
11872716 NNNNNNNNNN
Statistics
Matches: 1993, Mismatches: 174, Indels: 14
0.91 0.08 0.01
Matches are distributed among these distances:
129 117 0.06
130 1 0.00
131 3 0.00
132 1867 0.94
133 5 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:11872122 original size:44 final size:44
Alignment explanation
Indices: 11871942--11872137 Score: 123
Period size: 44 Copynumber: 4.5 Consensus size: 44
11871932 TGTGGATAAC
* *
11871942 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGGTCTTATCTCCCTAAGCAGT
* * * * * * *
11871986 AGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTATG--GTT
1 AGTGGAGTAGATTGAAGATTGCAGGTCTTATCTCCCTAAGCAG-T
* * * ** * **
11872029 ACAGTGGAGTACATTGAAGCTAGCAATTC-TA-CTTCCCT-GGACAAC
1 --AGTGGAGTAGATTGAAGATTGCAGGTCTTATC-TCCCTAAG-CAGT
* *
11872074 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGT
1 AGTGGAGTAGATTGAAGATTGCAGGTCTTATCTCCCTAAGCAGT
* *
11872118 AGTGGAGCAGATCGAAGATT
1 AGTGGAGTAGATTGAAGATT
11872138 ACGGATTTTA
Statistics
Matches: 109, Mismatches: 33, Indels: 20
0.67 0.20 0.12
Matches are distributed among these distances:
42 1 0.01
43 23 0.21
44 64 0.59
45 21 0.19
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AGTGGAGTAGATTGAAGATTGCAGGTCTTATCTCCCTAAGCAGT
Found at i:11872962 original size:132 final size:132
Alignment explanation
Indices: 11872800--11873117 Score: 521
Period size: 132 Copynumber: 2.4 Consensus size: 132
11872790 NNNNNNNNNN
* * *
11872800 ATTTTACGTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTACTTCCCT-AGACAAT
1 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTCA-ACAAC
* *
11872864 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGATGG
65 AGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGAAGTAGTAGAGCAGATAGAAGATGG
11872929 CAG
130 CAG
*
11872932 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTACTTCCCTCAACAACA
1 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTCAACAACA
* *
11872997 GTGGAATAGATTGAAGATTTCAGTTCTTATCTCCCTAAGCAGTAGTAGAGCAGATAGAAGATGGC
66 GTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGAAGTAGTAGAGCAGATAGAAGATGGC
11873062 AG
131 AG
* * *
11873064 ATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGTCAGAAATTCTACTTC
1 ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTC
11873118 NNNNNNNNNN
Statistics
Matches: 173, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
132 172 0.99
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (132 bp):
ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTCAACAACA
GTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGAAGTAGTAGAGCAGATAGAAGATGGC
AG
Found at i:11874035 original size:45 final size:43
Alignment explanation
Indices: 11873931--11874036 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 43
11873921 CCTGTGGTTA
* * *
11873931 CAGTGGAGTACATTGAAGCCAGTAATCATATCTCCTTGGTCAG
1 CAGTGGAGTAGATTGAAGACAGTAATCATATCTCCTTGATCAG
* * ** *
11873974 CAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCTTGAT-ATTG
1 CAGTGGAGTAGATTGAAGACAGTAA-TCATATCTCCTTGATCA--G
11874019 CAGTGGAGTAGATTGAAG
1 CAGTGGAGTAGATTGAAG
11874037 CACCAATTCT
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
43 20 0.40
44 13 0.26
45 17 0.34
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
CAGTGGAGTAGATTGAAGACAGTAATCATATCTCCTTGATCAG
Found at i:11874344 original size:19 final size:19
Alignment explanation
Indices: 11874320--11874390 Score: 115
Period size: 19 Copynumber: 3.7 Consensus size: 19
11874310 AATCTTCAGG
11874320 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
11874339 GATATGCAATCTTAGGTAT
1 GATATGCAATCTTAGATAT
**
11874358 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11874377 GATATGCAATCTTA
1 GATATGCAATCTTA
11874391 AAAGATATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11874418 original size:22 final size:20
Alignment explanation
Indices: 11874320--11874418 Score: 87
Period size: 19 Copynumber: 4.9 Consensus size: 20
11874310 AATCTTCAGG
*
11874320 GATATGCAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
* *
11874339 GATATGCAATCTT-AGGTAT
1 GATATGTAATCTTAAGATAT
*
11874358 GATATATAATCTT-AGATAT
1 GATATGTAATCTTAAGATAT
*
11874377 GATATGCAATCTTAAAAGATAT
1 GATATGTAATCTT--AAGATAT
*
11874399 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTA-AGAT
11874419 TTAATTTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
19 45 0.67
21 1 0.01
22 12 0.18
23 9 0.13
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (20 bp):
GATATGTAATCTTAAGATAT
Found at i:11878259 original size:27 final size:28
Alignment explanation
Indices: 11878218--11878271 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
11878208 CTTGGAGTCA
** *
11878218 GTAGTCCACCGGGATAG-TAAACAAGGG
1 GTAGTCCACAAGGATAGTTAAAAAAGGG
11878245 GTAGTCCACAAGGATAGTTAAAAAAGG
1 GTAGTCCACAAGGATAGTTAAAAAAGG
11878272 AAAATCACCG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.17
Consensus pattern (28 bp):
GTAGTCCACAAGGATAGTTAAAAAAGGG
Found at i:11878944 original size:20 final size:18
Alignment explanation
Indices: 11878919--11878957 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11878909 TTACATGATT
*
11878919 TTCATGTATATTTATATTAA
1 TTCATGT-TAATT-TATTAA
11878939 TTCATGTTAATTTATTAA
1 TTCATGTTAATTTATTAA
11878957 T
1 T
11878958 GTTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCATGTTAATTTATTAA
Found at i:11886295 original size:70 final size:70
Alignment explanation
Indices: 11886182--11886323 Score: 257
Period size: 70 Copynumber: 2.0 Consensus size: 70
11886172 ATAGGTACCA
*
11886182 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTGCTTACTCACGAAGAAAGATGCTAAACTG
1 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
11886247 AGGCT
66 AGGCT
* *
11886252 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCATGAAGAAAGATGCTAAAGTG
1 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
11886317 AGGCT
66 AGGCT
11886322 AA
1 AA
11886324 TTCAATGGAT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (70 bp):
AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTACTTACTCACGAAGAAAGATGCTAAACTG
AGGCT
Found at i:11887968 original size:6 final size:6
Alignment explanation
Indices: 11887949--11888016 Score: 55
Period size: 6 Copynumber: 11.0 Consensus size: 6
11887939 TTAAAAAAAA
* * * *
11887949 TTATTT TTAGTT TTATTT TTCATTT TTCATTT TTATCT TTATCT TTAATT
1 TTATTT TTATTT TTATTT TT-ATTT TT-ATTT TTATTT TTATTT TTATTT
* * *
11887999 TTAATT TAATTT TAATTT
1 TTATTT TTATTT TTATTT
11888017 GTTTATGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
6 41 0.76
7 13 0.24
ACGTcount: A:0.22, C:0.06, G:0.01, T:0.71
Consensus pattern (6 bp):
TTATTT
Found at i:11887980 original size:26 final size:26
Alignment explanation
Indices: 11887951--11888000 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
11887941 AAAAAAAATT
* *
11887951 ATTTTTAGT-TTTATTTTTCATTTTTC
1 ATTTTTA-TCTTTATCTTTAATTTTTC
11887977 ATTTTTATCTTTATCTTTAATTTT
1 ATTTTTATCTTTATCTTTAATTTT
11888001 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.18, C:0.08, G:0.02, T:0.72
Consensus pattern (26 bp):
ATTTTTATCTTTATCTTTAATTTTTC
Found at i:11888008 original size:11 final size:11
Alignment explanation
Indices: 11887992--11888016 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11887982 TATCTTTATC
11887992 TTTAATTTTAA
1 TTTAATTTTAA
11888003 TTTAATTTTAA
1 TTTAATTTTAA
11888014 TTT
1 TTT
11888017 GTTTATGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:11901925 original size:50 final size:50
Alignment explanation
Indices: 11901854--11901985 Score: 147
Period size: 50 Copynumber: 2.6 Consensus size: 50
11901844 GGGAATGAGA
* * * * * **
11901854 TCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * *
11901904 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
* **
11901954 TCCCATGTAAGACCATATCTGGGGTATGGCAT
1 TCCCACGTAAGACCATATCTGGGACATGGCAT
11901986 TGGTAGTGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 68 1.00
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (50 bp):
TCCCACGTAAGACCATATCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:11902256 original size:12 final size:12
Alignment explanation
Indices: 11902239--11902277 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11902229 ATGAGTTATT
11902239 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
11902251 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
11902263 TAAGTGAGTAAG
1 TAAGTAAGCAAG
11902275 TAA
1 TAA
11902278 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:11907889 original size:107 final size:108
Alignment explanation
Indices: 11907703--11907918 Score: 425
Period size: 107 Copynumber: 2.0 Consensus size: 108
11907693 TAATATTTTC
11907703 TTTATGTAACAACTCATTTTTTAATGGTGTCAGAAATGGTGGTTTCAAAACCCTCTTTTCGATGT
1 TTTATGTAACAACTCATTTTTTAATGGTGTCAGAAATGGTGGTTTCAAAACCCTCTTTTCGATGT
11907768 TTGAGTCCATAAATATTATTATTTAATATTTA-GAGGTTAGTA
66 TTGAGTCCATAAATATTATTATTTAATATTTACGAGGTTAGTA
11907810 TTTATGTAACAACTCATTTTTTAATGGTGTCAGAAATGGTGGTTTCAAAACCCTCTTTTCGATGT
1 TTTATGTAACAACTCATTTTTTAATGGTGTCAGAAATGGTGGTTTCAAAACCCTCTTTTCGATGT
11907875 TTGAGTCCATAAATATTATTATTTAATATTTACGAGGTTAGTA
66 TTGAGTCCATAAATATTATTATTTAATATTTACGAGGTTAGTA
11907918 T
1 T
11907919 AAATGTTAAT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
107 97 0.90
108 11 0.10
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.43
Consensus pattern (108 bp):
TTTATGTAACAACTCATTTTTTAATGGTGTCAGAAATGGTGGTTTCAAAACCCTCTTTTCGATGT
TTGAGTCCATAAATATTATTATTTAATATTTACGAGGTTAGTA
Found at i:11909528 original size:25 final size:25
Alignment explanation
Indices: 11909500--11909614 Score: 113
Period size: 25 Copynumber: 4.6 Consensus size: 25
11909490 TTCGCCATAT
*
11909500 AGGCTTTCCAGATAACGTGCCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * *
11909525 AGGCTTTCTATATAACATGCGACAA
1 AGGCTTTCCAGATAACATGCCACAA
* *
11909550 AGGCTATCCAGATAACATGTCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * * *
11909575 AGGTTTTCTAGATAATATGTCACAA
1 AGGCTTTCCAGATAACATGCCACAA
* * *
11909600 ACGTTTTCCAAATAA
1 AGGCTTTCCAGATAA
11909615 TATGAGACAA
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 74 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGCCACAA
Found at i:11909624 original size:25 final size:25
Alignment explanation
Indices: 11909556--11909624 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 25
11909546 ACAAAGGCTA
* * * *
11909556 TCCAGATAACATGTCACAAAGGTTT
1 TCCAAATAATATGACACAAACGTTT
* * *
11909581 TCTAGATAATATGTCACAAACGTTT
1 TCCAAATAATATGACACAAACGTTT
*
11909606 TCCAAATAATATGAGACAA
1 TCCAAATAATATGACACAA
11909625 TGGCTTTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (25 bp):
TCCAAATAATATGACACAAACGTTT
Found at i:11911462 original size:3 final size:3
Alignment explanation
Indices: 11911456--11911486 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
11911446 ATCAAAGCAA
11911456 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11911487 GATACTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11911645 original size:18 final size:18
Alignment explanation
Indices: 11911624--11911663 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
11911614 AAATGGAATT
*
11911624 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
11911642 TTTTAAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
11911660 TTTT
1 TTTT
11911664 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:11913057 original size:22 final size:22
Alignment explanation
Indices: 11913029--11913097 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
11913019 AACCAATACT
*
11913029 TATATGTTAATACATGTGAACC
1 TATATGTTATTACATGTGAACC
* *
11913051 TATATGTTATTTCATGCGAACC
1 TATATGTTATTACATGTGAACC
* * *
11913073 TGTATTTTATTACTTGTGAACC
1 TATATGTTATTACATGTGAACC
11913095 TAT
1 TAT
11913098 TACATGCGAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (22 bp):
TATATGTTATTACATGTGAACC
Found at i:11913146 original size:34 final size:34
Alignment explanation
Indices: 11913101--11913200 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
11913091 AACCTATTAC
* *
11913101 ATGCGAACCCTAGGAACATGTGAGACTATATGTT
1 ATGCAAACCCTAGGAACATGAGAGACTATATGTT
* *
11913135 GTGCAAACCCTAGGAACATGAGAGTCTATATGTT
1 ATGCAAACCCTAGGAACATGAGAGACTATATGTT
* * * *
11913169 ATGCGAACCCTAGGTACATGCGAGCCTATATG
1 ATGCAAACCCTAGGAACATGAGAGACTATATG
11913201 CGAACCTCTA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (34 bp):
ATGCAAACCCTAGGAACATGAGAGACTATATGTT
Found at i:11914872 original size:15 final size:15
Alignment explanation
Indices: 11914848--11914883 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11914838 GCATTCTCAG
*
11914848 AATACGGACAGATTC
1 AATACAGACAGATTC
*
11914863 AATACAGACAGATTT
1 AATACAGACAGATTC
11914878 AATACA
1 AATACA
11914884 CCAAGTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.14, T:0.22
Consensus pattern (15 bp):
AATACAGACAGATTC
Found at i:11924188 original size:29 final size:29
Alignment explanation
Indices: 11924121--11924203 Score: 78
Period size: 31 Copynumber: 2.8 Consensus size: 29
11924111 ATAAATCTTA
* *
11924121 AATTTATACATGAACTTTGATTTAATGTGC
1 AATTTATACATGAACTTTAATTT-AGGTGC
*
11924151 AATTCTATATATGAACTTTAATTT-GGTGC
1 AATT-TATACATGAACTTTAATTTAGGTGC
* *
11924180 AATTATATACGTGAAACTCTAATT
1 AATT-TATACATG-AACTTTAATT
11924204 GTTGTTCAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 14 0.32
30 13 0.30
31 17 0.39
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (29 bp):
AATTTATACATGAACTTTAATTTAGGTGC
Found at i:11924443 original size:13 final size:13
Alignment explanation
Indices: 11924427--11924451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11924417 TCATGTATAT
11924427 AATTGCACATTAC
1 AATTGCACATTAC
11924440 AATTGCACATTA
1 AATTGCACATTA
11924452 AACCATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
AATTGCACATTAC
Found at i:11931093 original size:44 final size:44
Alignment explanation
Indices: 11931042--11931152 Score: 154
Period size: 44 Copynumber: 2.5 Consensus size: 44
11931032 ATCTACTCTT
*
11931042 CTGCAACTTCAGAGG-GAT-GAGATCCATCATTTTGATCCGCTCCA
1 CTGCAACTTCAG-GGAGATAG-GATCCATCATTTTAATCCGCTCCA
* *
11931086 CTGCAACTTCAGGGAGATAGGATCTATTATTTTAATCCGCTCCA
1 CTGCAACTTCAGGGAGATAGGATCCATCATTTTAATCCGCTCCA
*
11931130 CTACAACTTCAGGGAGATAGGAT
1 CTGCAACTTCAGGGAGATAGGAT
11931153 TATCGGCTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.03
44 58 0.95
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAGGATCCATCATTTTAATCCGCTCCA
Found at i:11931173 original size:44 final size:43
Alignment explanation
Indices: 11931076--11931409 Score: 160
Period size: 44 Copynumber: 7.7 Consensus size: 43
11931066 CATCATTTTG
* * * *
11931076 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTATTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TATGACTTCA
* * *
11931120 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-GACTTCA
* * * * *
11931164 ATCTACTCCACTGCAACCTCAGGGAAATAAGATT-TGTCATCCTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATG--A-CTTCA
** * * **
11931209 AT-CTGTCCCACTGCAACTTCAGGGGGATAAGA-CCTG-CTTACTGA
1 ATCCACT-CCACTGCAACTTCAGGGAGATAGGATTATGACTT-C--A
* ** * * * * * * *
11931253 GTCTGCTTCGCTGCAACCTCAGGGAAATAAGATT-TGA-TGCG
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATGACTTCA
* ** * *
11931294 ATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACT-ACTTTA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGAT-TA-TGACTTCA
* * *
11931338 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTAT-GACTTCA
** *
11931382 ATCTGCTCCACTGCAACCTCAGGGAGAT
1 ATCCACTCCACTGCAACTTCAGGGAGAT
11931410 GAGATTCGCC
Statistics
Matches: 215, Mismatches: 57, Indels: 36
0.70 0.19 0.12
Matches are distributed among these distances:
41 25 0.12
42 4 0.02
43 8 0.04
44 147 0.68
45 31 0.14
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATGACTTCA
Found at i:11931359 original size:218 final size:218
Alignment explanation
Indices: 11931075--11931468 Score: 637
Period size: 218 Copynumber: 1.8 Consensus size: 218
11931065 CCATCATTTT
* ** * * *
11931075 GATCCGCTCCACTGCAACTTCAGGGAGATAGGATCTATTATTTTAATCCGCTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* *
11931140 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTTGTCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
11931205 CTCAATCTGTCCCACTGCAACTTCAGGGG-GATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAA
131 CTCAATCTGTCCCACTGCAACTT-AGGGGAGATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAA
11931269 CCTCAGGGAAATAAGATTTGATGC
195 CCTCAGGGAAATAAGATTTGATGC
*
11931293 GATCCACTCTACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
1 GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
* * *
11931358 AGGGAGATAGGATTATCGGCTTCAATCTGCTCCACTGCAACCTCAGGGAGATGAGATTCGCCATC
66 AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
* * *
11931423 TTCGATCTGTCCCACTGTAACTTAGGGGAGATAAGACCTGCTTACT
131 CTCAATCTGTCCCACTGCAACTTAGGGGAGATAAGACCTGCTTACT
11931469 CGTTGATTTG
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
217 5 0.03
218 155 0.97
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (218 bp):
GATCCACTCCACTGCAACTTCAAAGAGATAAGATCTACTACTTTAATCCGCTCCACTACAACTTC
AGGGAGATAGGATTATCGGCTTCAATCTACTCCACTGCAACCTCAGGGAAATAAGATTCGCCATC
CTCAATCTGTCCCACTGCAACTTAGGGGAGATAAGACCTGCTTACTGAGTCTGCTTCGCTGCAAC
CTCAGGGAAATAAGATTTGATGC
Found at i:11945389 original size:14 final size:14
Alignment explanation
Indices: 11945370--11945399 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11945360 ACATCAAAGT
11945370 AAAATAGGACTAAC
1 AAAATAGGACTAAC
11945384 AAAATAGGACTAAC
1 AAAATAGGACTAAC
11945398 AA
1 AA
11945400 GTTAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (14 bp):
AAAATAGGACTAAC
Found at i:11947548 original size:18 final size:18
Alignment explanation
Indices: 11947527--11947561 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11947517 AGACACAGAT
*
11947527 GAGGAAGAAGATGCAGCC
1 GAGGAAGAAGAGGCAGCC
11947545 GAGGAAGAAGAGGCAGC
1 GAGGAAGAAGAGGCAGC
11947562 AGATGCAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.14, G:0.43, T:0.03
Consensus pattern (18 bp):
GAGGAAGAAGAGGCAGCC
Found at i:11950321 original size:24 final size:25
Alignment explanation
Indices: 11950267--11950326 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 25
11950257 ATCCTCATTT
* *
11950267 TCTTCGTCTTCACCTCTACCCTCGG
1 TCTTCATCTTCACCTCAACCCTCGG
* *
11950292 AC-TCATCTTCACCTCAACCGTC-G
1 TCTTCATCTTCACCTCAACCCTCGG
11950315 TCTTCATCTTCA
1 TCTTCATCTTCA
11950327 TCTTTATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
23 2 0.07
24 26 0.90
25 1 0.03
ACGTcount: A:0.15, C:0.42, G:0.08, T:0.35
Consensus pattern (25 bp):
TCTTCATCTTCACCTCAACCCTCGG
Found at i:11950326 original size:6 final size:6
Alignment explanation
Indices: 11950315--11950363 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
11950305 TCAACCGTCG
* * *
11950315 TCTTCA TCTTCA TCTTTA T-TTCAA TCGTCA TCTTCA TCTTCG TCTTCA
1 TCTTCA TCTTCA TCTTCA TCTTC-A TCTTCA TCTTCA TCTTCA TCTTCA
11950363 T
1 T
11950364 TTCCTTCCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
5 2 0.06
6 31 0.89
7 2 0.06
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (6 bp):
TCTTCA
Found at i:11950366 original size:30 final size:30
Alignment explanation
Indices: 11950294--11950366 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11950284 ACCCTCGGAC
** *
11950294 TCATCTTCACCTCAACCGTCGTCTTCATCT
1 TCATCTTCATTTCAACCGTCATCTTCATCT
* *
11950324 TCATCTTTATTTCAATCGTCATCTTCATCT
1 TCATCTTCATTTCAACCGTCATCTTCATCT
*
11950354 TCGTCTTCATTTC
1 TCATCTTCATTTC
11950367 CTTCCTCTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.33, G:0.05, T:0.45
Consensus pattern (30 bp):
TCATCTTCATTTCAACCGTCATCTTCATCT
Found at i:11953123 original size:230 final size:231
Alignment explanation
Indices: 11952713--11953143 Score: 591
Period size: 230 Copynumber: 1.9 Consensus size: 231
11952703 CCAGCTGGGA
11952713 GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAAACGACATAAATGC
1 GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTT-AAAAAAAAACGACATAAATGC
* *
11952778 CTAATTTAACCTAAATTTTACTTATATTTTTTTTATTCTTCATGTTGATTTTACAATTTGTATTT
65 CTAATTTAACATAAATTTTACTTATA---TTTTTATTCTTCATATTGATTTTACAATTTGTATTT
* *
11952843 AATGTTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTCTTAAAGA
127 AATATTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGA
11952908 ATGCAATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
192 ATGCAATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
* * * ** * *
11952948 GTGCTTTCATACTCTCTATCCAAAAACGACCTATTTCCTTAATTT-AAAAAAAATGGCATAAATG
1 GTGCTTTCACACACTC--TCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAACGACATAAATG
*
11953012 CCTAATTTAATATAAATTTTTACTTATA-TTTT-TT-TTCATATTGATTTTACAATTTGTATTTA
64 CCTAATTTAACATAAA-TTTTACTTATATTTTTATTCTTCATATTGATTTTACAATTTGTATTTA
** ** * * **
11953074 ATATTTATTTTTGTTCCTCTCAATAACATCGTTTCTAAGGTTTGAACTTATGTATTATTAAAGAA
128 ATATTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGAA
11953139 TGCAA
193 TGCAA
11953144 GCCTTTCTGC
Statistics
Matches: 173, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
230 87 0.50
231 2 0.01
232 4 0.02
235 45 0.26
236 11 0.06
237 24 0.14
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (231 bp):
GTGCTTTCACACACTCTCCAAAAACAACCTATTTCCCCAATTTAAAAAAAAACGACATAAATGCC
TAATTTAACATAAATTTTACTTATATTTTTATTCTTCATATTGATTTTACAATTTGTATTTAATA
TTTATGGTCATTCCTCTCAATAACACCGTTTCTAAGATCCGAACTTATGTATTATTAAAGAATGC
AATGTGCCTTATTGCAACCAAATCTTGTTGGTTGGT
Found at i:11953564 original size:24 final size:24
Alignment explanation
Indices: 11953536--11953587 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
11953526 TTAGTAGGTC
* *
11953536 AAATAAACTATGCTAACAAATGCT
1 AAATAAACTATACTAACAAATACT
* * *
11953560 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAACAAATACT
11953584 AAAT
1 AAAT
11953588 TTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (24 bp):
AAATAAACTATACTAACAAATACT
Found at i:11959659 original size:26 final size:26
Alignment explanation
Indices: 11959610--11959670 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
11959600 ATTTTTTAAT
* **
11959610 TTTTTTAATTTTAAAATACTTTTTTG
1 TTTTTTATTTTTAAAATAAATTTTTG
11959636 TTTTTTATTTTTAAAATAAATTTTTG
1 TTTTTTATTTTTAAAATAAATTTTTG
* *
11959662 GTGTTTATT
1 TTTTTTATT
11959671 AAAAAAATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.66
Consensus pattern (26 bp):
TTTTTTATTTTTAAAATAAATTTTTG
Found at i:11963905 original size:17 final size:17
Alignment explanation
Indices: 11963883--11963918 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11963873 TCCCTATGGG
11963883 TATGATAACTCGACATT
1 TATGATAACTCGACATT
11963900 TATGATAACTCGACATT
1 TATGATAACTCGACATT
11963917 TA
1 TA
11963919 CTTGTCACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (17 bp):
TATGATAACTCGACATT
Found at i:11970235 original size:8 final size:8
Alignment explanation
Indices: 11970222--11970250 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
11970212 TTTAGTAACT
11970222 TTTTTATA
1 TTTTTATA
11970230 TTTTTATA
1 TTTTTATA
11970238 TTTTTATA
1 TTTTTATA
11970246 TTTTT
1 TTTTT
11970251 CCAACTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTATA
Found at i:11970787 original size:89 final size:91
Alignment explanation
Indices: 11970667--11970896 Score: 253
Period size: 87 Copynumber: 2.6 Consensus size: 91
11970657 AGTTCTTACT
* * * ** * * **
11970667 TTTTTTTTTACATTCAA-TGGGTATTTGAACTTTCAAAATATATCAAAAAGGCCCTCAAACTTTT
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCT-AAAATTAA
** * *
11970731 TCA-AA-AA-AAGCAATTACGCCTCTA
65 AAAGAAGAAGAAGCAATTAAGCCCCTA
*
11970755 TTTTTTTTTGCACTCAATTGGGTACTTAAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
11970820 AAGAAGAAGAAGCAATTAAGCCCCTA
66 AAGAAGAAGAAGCAATTAAGCCCCTA
*
11970846 ----TTTTTGCACTCAATTGGGTACTTGAACTGTCAAAATGCATCAAAAA-ACCCT
1 TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCT
11970897 TTAACCGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
86 5 0.04
87 44 0.36
88 21 0.17
89 35 0.29
90 2 0.02
91 15 0.12
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (91 bp):
TTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTAAAATTAAA
AAGAAGAAGAAGCAATTAAGCCCCTA
Found at i:11971081 original size:27 final size:27
Alignment explanation
Indices: 11970995--11971092 Score: 74
Period size: 27 Copynumber: 3.6 Consensus size: 27
11970985 ACATGTTACA
* *
11970995 AAAAAAATGATAAAAA-ATAAAAATCAG
1 AAAAAAAT-ATAAAAATATTAAAATTAG
* ** * *
11971022 TAAAAGTTATAAAATTATTAAATTTTA-
1 AAAAAAATATAAAAATATTAAA-ATTAG
*
11971049 ATAAAAATATAAAAATATTAAAATTAG
1 AAAAAAATATAAAAATATTAAAATTAG
*
11971076 AAAAAAATTCTAAAAAT
1 AAAAAAA-TATAAAAAT
11971093 CGTAAAAAAA
Statistics
Matches: 52, Mismatches: 15, Indels: 7
0.70 0.20 0.09
Matches are distributed among these distances:
26 9 0.17
27 33 0.63
28 10 0.19
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAAAAATATAAAAATATTAAAATTAG
Found at i:11971120 original size:19 final size:19
Alignment explanation
Indices: 11971105--11971150 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
11971095 TAAAAAAACT
*
11971105 ATAAAAAATTATAAAAATC
1 ATAAAAAAGTATAAAAATC
*
11971124 ATAAAAAAGTATAAAATTC
1 ATAAAAAAGTATAAAAATC
11971143 ATAAAAAA
1 ATAAAAAA
11971151 AACCTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAAAAGTATAAAAATC
Found at i:11975953 original size:39 final size:39
Alignment explanation
Indices: 11975891--11975965 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
11975881 GAGGTATATT
* *
11975891 AGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAATCAC
1 AGAATTAGCGGCGCTTATGAAAAAACGCCGCAAAATCAC
*
11975930 AGAATTAGCGGCGCATTAT-AAAAAGCGCCGCAAAAT
1 AGAATTAGCGGCGC-TTATGAAAAAACGCCGCAAAAT
11975966 ATCTTAACCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 28 0.88
40 4 0.12
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (39 bp):
AGAATTAGCGGCGCTTATGAAAAAACGCCGCAAAATCAC
Found at i:11975956 original size:114 final size:114
Alignment explanation
Indices: 11975838--11976344 Score: 838
Period size: 114 Copynumber: 4.4 Consensus size: 114
11975828 GTTTATTTGT
* *
11975838 AAGCGCCGCCAAATATCTTAACCAAAACACAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
11975903 GCTTATGAAAAAACGCCGCTAAATCACAGAATTAGCGGCGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
11975952 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
11976017 GCTTATTG-AAAAATGCCGCTAAAGCACAGAATTAGCAGCGCATTATAAA
66 GCTTA-TGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
* * *
11976066 AAGTGCCGCAAAATATCTTAACCAAAACGCAGCGTATGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
11976131 GCTTATGAAAAAATGCCGCTAAAGCACA-ACATTAGCGGCGCAATAGAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGA-ATTAGCGGCGCATTATAAA
* *
11976180 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
11976245 GCTTATGAAGAAACGCCGCTAAAGCACAGAATTAGCGGTGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
*
11976294 AAGCGCCGCAAAATATGTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA
11976345 GAGCCAATAG
Statistics
Matches: 366, Mismatches: 23, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
113 3 0.01
114 360 0.98
115 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAA
Found at i:11976534 original size:342 final size:341
Alignment explanation
Indices: 11975838--11976492 Score: 833
Period size: 342 Copynumber: 1.9 Consensus size: 341
11975828 GTTTATTTGT
* * * *
11975838 AAGCGCCGCCAAATATCTTAACCAAAACACAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
*
11975903 GCTTATGAAAAAACGCCGCTAAATCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* * *
11975968 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATTGAAAAATGC
131 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAGAATTAGCGGCGCTTATTGAAAAACGC
*** *
11976033 CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAGTGCCGCAAAATATCTTAACCAAAACGCAG
196 CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGCAA
* * * ** *
11976098 CGTATGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAATGCCGCTAAAGCACAACAT
261 CGTATCGTCTTGAGCTATA-TAGAATTAGCGGCGCTTACCAAAAAACGCCGCTAAAGCACAACAT
11976163 TAGCGGCGCAATAGAAA
325 TAGCGGCGCAATAGAAA
11976180 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
* *
11976245 GCTTATGAAGAAACGCCGCTAAAGCACAGAATTAGCGGTGCATTATAAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
* * * *
11976310 GTTAACCAAAACGCAACGTTTGGTCTTGAGGTATA-GAGCCAA-TAGCGGTGGTTGTTG-AAAAC
131 CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAG--AATTAGCGGCGCTTATTGAAAAAC
*** * * *
11976372 GCCGCT-ATTTACCGCAATTAGCAGTG-ATTAACTAAAAAACACCAG-AAAAT-T-TTAAACCGA
194 GCCGCTAAAGCACAG-AATTAGCAGCGCATT-A-TAAAAAACACC-GCAAAATATCTT-AACCAA
* * * ** *
11976432 AATGCAATGTTTCGTCTTGAGCTATA-ACGTCGTTAGCGGCGCTTACCAGAAAACGCCGCTA
254 AACGCAACGTATCGTCTTGAGCTATATA-G-AATTAGCGGCGCTTACCAAAAAACGCCGCTA
11976493 TATATAAACT
Statistics
Matches: 268, Mismatches: 36, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
339 1 0.00
340 10 0.04
341 73 0.27
342 181 0.68
343 3 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (341 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAACATTTGGTCTTGAGGTATATTAGAACTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACAGAATTAGCGGCGCATTATAAAAAGCGCCGCAAAATAT
CTTAACCAAAACGCAACGTTTGGTCTTGAGGTATATGAGAATTAGCGGCGCTTATTGAAAAACGC
CGCTAAAGCACAGAATTAGCAGCGCATTATAAAAAACACCGCAAAATATCTTAACCAAAACGCAA
CGTATCGTCTTGAGCTATATAGAATTAGCGGCGCTTACCAAAAAACGCCGCTAAAGCACAACATT
AGCGGCGCAATAGAAA
Found at i:11977125 original size:21 final size:21
Alignment explanation
Indices: 11977052--11977138 Score: 81
Period size: 21 Copynumber: 4.1 Consensus size: 21
11977042 TTTGGCTAGT
*
11977052 TTTAGGGTTTAGA-GTTTATGA
1 TTTAGGGTTTA-ATGTTTATGG
* *
11977073 TTTGGTGGTTGT--TGTTTGTGG
1 TTTAG-GGTT-TAATGTTTATGG
11977094 TTTATGGGTTTAATGTTTATGG
1 TTTA-GGGTTTAATGTTTATGG
*
11977116 TTTAGGGTTTAAGGTTTATGG
1 TTTAGGGTTTAATGTTTATGG
11977137 TT
1 TT
11977139 AATGTTTACG
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.02
21 35 0.65
22 17 0.31
23 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (21 bp):
TTTAGGGTTTAATGTTTATGG
Found at i:11977246 original size:7 final size:7
Alignment explanation
Indices: 11977209--11977260 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
11977199 AATTGACGGG
11977209 TTAGGGT
1 TTAGGGT
**
11977216 TTACAGT
1 TTAGGGT
*
11977223 TTGGGGT
1 TTAGGGT
*
11977230 TTGGGGT
1 TTAGGGT
11977237 TTAGGGT
1 TTAGGGT
**
11977244 TTATAGT
1 TTAGGGT
11977251 TTAGGGT
1 TTAGGGT
11977258 TTA
1 TTA
11977261 AGATTTACGG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (7 bp):
TTAGGGT
Found at i:11977267 original size:21 final size:21
Alignment explanation
Indices: 11977228--11977267 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11977218 ACAGTTTGGG
* * *
11977228 GTTTGGGGTTTAGGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
11977249 GTTTAGGGTTTAAGATTTA
1 GTTTAGGGTTTAAGATTTA
11977268 CGGTTAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:11977267 original size:28 final size:28
Alignment explanation
Indices: 11977209--11977272 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
11977199 AATTGACGGG
* ** *
11977209 TTAGGGTTTACAGTTTGGGGTTTGGGGT
1 TTAGGGTTTACAGTTTAGGGTTTAAGAT
*
11977237 TTAGGGTTTATAGTTTAGGGTTTAAGAT
1 TTAGGGTTTACAGTTTAGGGTTTAAGAT
*
11977265 TTACGGTT
1 TTAGGGTT
11977273 AAGGCTTAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.03, G:0.34, T:0.45
Consensus pattern (28 bp):
TTAGGGTTTACAGTTTAGGGTTTAAGAT
Found at i:11977272 original size:14 final size:14
Alignment explanation
Indices: 11977209--11977260 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
11977199 AATTGACGGG
*
11977209 TTAGGGTTTACAGT
1 TTAGGGTTTATAGT
* ***
11977223 TTGGGGTTTGGGGT
1 TTAGGGTTTATAGT
11977237 TTAGGGTTTATAGT
1 TTAGGGTTTATAGT
11977251 TTAGGGTTTA
1 TTAGGGTTTA
11977261 AGATTTACGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (14 bp):
TTAGGGTTTATAGT
Found at i:11977415 original size:15 final size:16
Alignment explanation
Indices: 11977395--11977430 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
11977385 GATATTTTAG
*
11977395 AATATACATATAAA-T
1 AATATAAATATAAATT
11977410 AATATAAATATAAATT
1 AATATAAATATAAATT
11977426 AATAT
1 AATAT
11977431 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:11977673 original size:21 final size:20
Alignment explanation
Indices: 11977633--11977670 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11977623 AATATATTGA
*
11977633 TGTATTTAGTTTTTAAAATG
1 TGTAATTAGTTTTTAAAATG
*
11977653 TGTAATTATTTTTTAAAA
1 TGTAATTAGTTTTTAAAA
11977671 ATGCATTACT
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:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (20 bp):
TGTAATTAGTTTTTAAAATG
Found at i:11978327 original size:17 final size:15
Alignment explanation
Indices: 11978293--11978321 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11978283 AAATTTGAAT
11978293 ATTGATAGTATTTAA
1 ATTGATAGTATTTAA
11978308 ATTGATAGTATTTA
1 ATTGATAGTATTTA
11978322 TAAATTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (15 bp):
ATTGATAGTATTTAA
Found at i:11978337 original size:16 final size:16
Alignment explanation
Indices: 11978275--11978344 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
11978265 CGCCGCAAAC
11978275 ATATTTATAAATTTGA
1 ATATTTATAAATTTGA
*
11978291 ATATTGATAGTATTTAAATTGA
1 ATATT--TA-TA---AATTTGA
11978313 TAGTATTTATAAATTTGA
1 -A-TATTTATAAATTTGA
*
11978331 ATATTTAGAAATTT
1 ATATTTATAAATTT
11978345 ATTAAATTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
16 17 0.40
17 1 0.02
18 8 0.19
19 2 0.05
21 2 0.05
22 8 0.19
23 1 0.02
24 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (16 bp):
ATATTTATAAATTTGA
Found at i:11978367 original size:25 final size:24
Alignment explanation
Indices: 11978317--11978367 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
11978307 AATTGATAGT
* *
11978317 ATTTATAAATTTGAATATTTAGAA
1 ATTTATAAATTTGAATAATTAAAA
*
11978341 ATTTATTAAATTTGTATAATTAAAA
1 ATTTA-TAAATTTGAATAATTAAAA
11978366 AT
1 AT
11978368 AATATCTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (24 bp):
ATTTATAAATTTGAATAATTAAAA
Found at i:11978888 original size:49 final size:49
Alignment explanation
Indices: 11978816--11978912 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
11978806 ATATTTCTGT
11978816 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
1 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
11978865 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATA
1 TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATA
11978913 CATTCGATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.37
Consensus pattern (49 bp):
TTGTTTCTTTTGATTTCTTGCAAAAAAACCAATAAAAAAAGCTTCATAA
Found at i:11980258 original size:9 final size:9
Alignment explanation
Indices: 11980227--11980948 Score: 197
Period size: 9 Copynumber: 82.4 Consensus size: 9
11980217 TTTTGTTATA
11980227 AACTTACAT
1 AACTTACAT
*
11980236 GACTTACATAAT
1 AACTTAC---AT
11980248 AACTTACAT
1 AACTTACAT
**
11980257 AACTTATTT
1 AACTTACAT
11980266 AAACTTACAT
1 -AACTTACAT
**
11980276 AACTTATTT
1 AACTTACAT
11980285 AAACTTACAT
1 -AACTTACAT
*
11980295 AA--TACAA
1 AACTTACAT
11980302 AACTTA-AT
1 AACTTACAT
** **
11980310 TCCAGA-AT
1 AACTTACAT
11980318 AACTTACAT
1 AACTTACAT
* *
11980327 AACTTATAAAGA
1 AAC-T-TACA-T
*
11980339 AACTTATATAT
1 AAC-T-TACAT
*
11980350 AAACTTGCAT
1 -AACTTACAT
11980360 AACTTACATAGT
1 AACTTAC--A-T
*
11980372 AACATA-AT
1 AACTTACAT
*
11980380 AAATTACAT
1 AACTTACAT
11980389 AA--TACAT
1 AACTTACAT
*
11980396 AA-TAACAT
1 AACTTACAT
11980404 AA--TACAT
1 AACTTACAT
*
11980411 AACTTATATAT
1 AAC-T-TACAT
*
11980422 AAGCTTGCAT
1 AA-CTTACAT
11980432 AACTTACATAAT
1 AACTTAC---AT
11980444 AACTTACAT
1 AACTTACAT
11980453 AACTTACAT
1 AACTTACAT
*
11980462 AA--TACAC
1 AACTTACAT
*
11980469 CACTTACAT
1 AACTTACAT
11980478 AACTTACAT
1 AACTTACAT
11980487 AACTTACAT
1 AACTTACAT
*
11980496 AGCTTACAT
1 AACTTACAT
* *
11980505 -TC-TACAC
1 AACTTACAT
11980512 AACTTACAT
1 AACTTACAT
* *
11980521 AGCATACAT
1 AACTTACAT
*
11980530 AA--TACAG
1 AACTTACAT
11980537 AACTTACAT
1 AACTTACAT
**
11980546 AAAATAC--
1 AACTTACAT
11980553 AACTTACAT
1 AACTTACAT
*
11980562 ATCTTACAT
1 AACTTACAT
11980571 AA--TACAT
1 AACTTACAT
11980578 AACTTACAT
1 AACTTACAT
*
11980587 AA--TACAG
1 AACTTACAT
* * *
11980594 CACTTGCAC
1 AACTTACAT
*
11980603 AACTTAAAT
1 AACTTACAT
*
11980612 AACTTGCAT
1 AACTTACAT
11980621 AA--TACAT
1 AACTTACAT
* *
11980628 AGCCTACAT
1 AACTTACAT
*
11980637 AACTTATAT
1 AACTTACAT
* *
11980646 AGCTTTCAT
1 AACTTACAT
**
11980655 AAAATAC--
1 AACTTACAT
* *
11980662 AGCTTATAT
1 AACTTACAT
**
11980671 ATTTTACAT
1 AACTTACAT
*
11980680 AAAACTTATAT
1 --AACTTACAT
11980691 AA--TACAT
1 AACTTACAT
11980698 AACTTACAT
1 AACTTACAT
11980707 AAC--ACA-
1 AACTTACAT
*
11980713 ACACTTACAC
1 A-ACTTACAT
*
11980723 AACTTAAAT
1 AACTTACAT
* *
11980732 AACTTGCAC
1 AACTTACAT
11980741 AA--TACAT
1 AACTTACAT
* * *
11980748 AGCCTCCAT
1 AACTTACAT
*
11980757 AACTTATAT
1 AACTTACAT
* *
11980766 AACTTTCAC
1 AACTTACAT
**
11980775 AAAATAC--
1 AACTTACAT
11980782 AACTTACAT
1 AACTTACAT
*
11980791 ATCTTACAT
1 AACTTACAT
*
11980800 AAAACTTATAT
1 --AACTTACAT
11980811 AA--TACAT
1 AACTTACAT
11980818 AACTTACAT
1 AACTTACAT
11980827 AA--TACA-
1 AACTTACAT
*
11980833 ACACTTACAC
1 A-ACTTACAT
*
11980843 AACTTAAAT
1 AACTTACAT
*
11980852 AACTTGCAT
1 AACTTACAT
11980861 AA--TACAT
1 AACTTACAT
* *
11980868 AGCCTACAT
1 AACTTACAT
*
11980877 AACTTATAT
1 AACTTACAT
*
11980886 -A-GTACAT
1 AACTTACAT
11980893 AACTTACAT
1 AACTTACAT
* *
11980902 AACGTACTT
1 AACTTACAT
11980911 AA--TACAT
1 AACTTACAT
* *
11980918 AA-ATATAT
1 AACTTACAT
* *
11980926 ATCATATCAT
1 AACTTA-CAT
11980936 AACTTACAT
1 AACTTACAT
11980945 AACT
1 AACT
11980949 CATTTAATTT
Statistics
Matches: 511, Mismatches: 134, Indels: 136
0.65 0.17 0.17
Matches are distributed among these distances:
6 2 0.00
7 105 0.21
8 27 0.05
9 285 0.56
10 31 0.06
11 25 0.05
12 36 0.07
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:11980272 original size:19 final size:19
Alignment explanation
Indices: 11980225--11980296 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
11980215 ATTTTTGTTA
* *
11980225 TAAACTTACATGACTTACAT
1 TAAACTTACATAACTTA-TT
*
11980245 AATAACTTACATAACTTATT
1 TA-AACTTACATAACTTATT
11980265 TAAACTTACATAACTTATT
1 TAAACTTACATAACTTATT
11980284 TAAACTTACATAA
1 TAAACTTACATAA
11980297 TACAAAACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 30 0.64
20 3 0.06
21 14 0.30
ACGTcount: A:0.44, C:0.17, G:0.01, T:0.38
Consensus pattern (19 bp):
TAAACTTACATAACTTATT
Found at i:11980386 original size:20 final size:19
Alignment explanation
Indices: 11980358--11980400 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
11980348 ATAAACTTGC
* *
11980358 ATAACTTACATAGTAACATA
1 ATAAATTACATAAT-ACATA
11980378 ATAAATTACATAATACATA
1 ATAAATTACATAATACATA
11980397 ATAA
1 ATAA
11980401 CATAATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAATTACATAATACATA
Found at i:11980405 original size:15 final size:15
Alignment explanation
Indices: 11980364--11980412 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
11980354 TTGCATAACT
*
11980364 TACATAGTAACATAA
1 TACATAATAACATAA
*
11980379 T--A-AATTACATAA
1 TACATAATAACATAA
11980391 TACATAATAACATAA
1 TACATAATAACATAA
11980406 TACATAA
1 TACATAA
11980413 CTTATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.32
13 1 0.04
14 1 0.04
15 17 0.61
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (15 bp):
TACATAATAACATAA
Found at i:11980473 original size:25 final size:21
Alignment explanation
Indices: 11980358--11980504 Score: 119
Period size: 21 Copynumber: 7.0 Consensus size: 21
11980348 ATAAACTTGC
* *
11980358 ATAACTTACAT-AGTAACATA
1 ATAACTTACATAACTTACATA
*
11980378 ATAAATTACATAA--TACATA
1 ATAACTTACATAACTTACATA
*
11980397 ATAACATAATACATAACTTATAT-
1 ATAAC-T--TACATAACTTACATA
*
11980420 ATAAGCTTGCATAACTTACATA
1 ATAA-CTTACATAACTTACATA
11980442 ATAACTTACATAACTTACATA
1 ATAACTTACATAACTTACATA
11980463 ATACACCACTTACATAACTTAC---
1 AT--A--ACTTACATAACTTACATA
*
11980485 ATAACTTACATAGCTTACAT
1 ATAACTTACATAACTTACAT
11980505 TCTACACAAC
Statistics
Matches: 105, Mismatches: 8, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
18 14 0.13
19 9 0.09
20 12 0.11
21 31 0.30
22 13 0.12
23 6 0.06
24 5 0.05
25 15 0.14
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (21 bp):
ATAACTTACATAACTTACATA
Found at i:11980535 original size:16 final size:16
Alignment explanation
Indices: 11980378--11980946 Score: 130
Period size: 16 Copynumber: 33.8 Consensus size: 16
11980368 TAGTAACATA
*
11980378 ATAAATTACATAATAC
1 ATAACTTACATAATAC
*
11980394 ATAA-TAACATAATAC
1 ATAACTTACATAATAC
* *
11980409 ATAACTTATATATAAGCTTGC
1 ATAAC-T-TACATAA---TAC
11980430 ATAACTTACATAATAACTTAC
1 ATAACTTAC---ATAA--TAC
11980451 ATAACTTACATAATAC
1 ATAACTTACATAATAC
**
11980467 ACCACTTACATAACTTAC
1 ATAACTTACATAA--TAC
*
11980485 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
* *
11980503 AT-TC-TACACAACTTAC
1 ATAACTTACATAA--TAC
* *
11980519 ATAGCATACATAATAC
1 ATAACTTACATAATAC
*
11980535 AGAACTTACATAA-A-
1 ATAACTTACATAATAC
*
11980549 AT-AC-AAC-T--TAC
1 ATAACTTACATAATAC
*
11980560 ATATCTTACATAATAC
1 ATAACTTACATAATAC
11980576 ATAACTTACATAATAC
1 ATAACTTACATAATAC
** * * *
11980592 AGCACTTGCACAACTTAA
1 ATAACTTACATAA--TAC
*
11980610 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
11980626 ATAGCCTACATAACTTAT
1 ATAACTTACATAA--TAC
* *
11980644 ATAGCTTTCATAA-A-
1 ATAACTTACATAATAC
* *
11980658 ATACAGCTTATATATTTTAC
1 ATA-A-CTTACATA--ATAC
*
11980678 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
*
11980696 ATAACTTACATAACAC
1 ATAACTTACATAATAC
* *
11980712 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
* *
11980730 ATAACTTGCACAATAC
1 ATAACTTACATAATAC
* * * *
11980746 ATAGCCTCCATAACTTAT
1 ATAACTTACATAA--TAC
*
11980764 ATAACTTTCACAAAATAC
1 ATAAC-TT-ACATAATAC
*
11980782 --AACTTACATATCTTAC
1 ATAACTTACATA--ATAC
*
11980798 ATAAAACTTATATAATAC
1 AT--AACTTACATAATAC
11980816 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
11980832 A-ACACTTACACAACTTAA
1 ATA-ACTTACATAA--TAC
*
11980850 ATAACTTGCATAATAC
1 ATAACTTACATAATAC
* * *
11980866 ATAGCCTACATAACT-T
1 ATAACTTACATAA-TAC
*
11980882 ATATA-GTACATAACTTAC
1 ATA-ACTTACATAA--TAC
* *
11980900 ATAACGTACTTAATAC
1 ATAACTTACATAATAC
* * *
11980916 ATAAATATATATCATATC
1 ATAACT-TACATAATA-C
11980934 ATAACTTACATAA
1 ATAACTTACATAA
11980947 CTCATTTAAT
Statistics
Matches: 404, Mismatches: 88, Indels: 121
0.66 0.14 0.20
Matches are distributed among these distances:
10 1 0.00
11 3 0.01
12 3 0.01
13 4 0.01
14 9 0.02
15 20 0.05
16 177 0.44
17 17 0.04
18 114 0.28
19 6 0.01
20 24 0.06
21 21 0.05
22 5 0.01
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.31
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:11980555 original size:41 final size:41
Alignment explanation
Indices: 11980510--11980588 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
11980500 TACATTCTAC
11980510 ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
1 ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
* * *
11980551 ACAACTTACATATCTTACATAATACATAACTTACATAA
1 ACAACTTACATAGCATACATAATACAGAACTTACATAA
11980589 TACAGCACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.28
Consensus pattern (41 bp):
ACAACTTACATAGCATACATAATACAGAACTTACATAAAAT
Found at i:11980587 original size:25 final size:26
Alignment explanation
Indices: 11980448--11980642 Score: 117
Period size: 25 Copynumber: 7.8 Consensus size: 26
11980438 CATAATAACT
* *
11980448 TACATAACTTACATAA--TACACCACT
1 TACATAACTTACATAACTTACA-TACA
*
11980473 TACATAACTTACATAACTTACATAGCT
1 TACATAACTTACATAACTTACATA-CA
* *
11980500 TACAT-TC-TACACAACTTACATAGCA
1 TACATAACTTACATAACTTACATA-CA
* *
11980525 TACATAA--TACAGAACTTACATAAAA
1 TACATAACTTACATAACTTACAT-ACA
*
11980550 TAC--AACTTACATATCTTACATA-A
1 TACATAACTTACATAACTTACATACA
* *
11980573 TACATAACTTACATAA--TACAGCACT
1 TACATAACTTACATAACTTACA-TACA
* * * *
11980598 TGCACAACTTAAATAACTTGCATA-A
1 TACATAACTTACATAACTTACATACA
* *
11980623 TACATAGCCTACATAACTTA
1 TACATAACTTACATAACTTA
11980643 TATAGCTTTC
Statistics
Matches: 133, Mismatches: 24, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
23 10 0.08
24 2 0.02
25 103 0.77
26 4 0.03
27 14 0.11
ACGTcount: A:0.44, C:0.23, G:0.04, T:0.29
Consensus pattern (26 bp):
TACATAACTTACATAACTTACATACA
Found at i:11980728 original size:120 final size:120
Alignment explanation
Indices: 11980564--11980887 Score: 549
Period size: 120 Copynumber: 2.7 Consensus size: 120
11980554 ACTTACATAT
* * *
11980564 CTTACATAATACATAACTTACATAATACAGCACTTGCACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
* * * *
11980629 GCCTACATAACTTATATAGCTTTCATAAAATACAGCTTATATATTTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
* *
11980684 CTTATATAATACATAACTTACATAACACAACACTTACACAACTTAAATAACTTGCACAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
* *
11980749 GCCTCCATAACTTATATAACTTTCACAAAATACAACTTACATATCTTACATAAAA
66 GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
11980804 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
1 CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
11980869 GCCTACATAACTTATATAG
66 GCCTACATAACTTATATAG
11980888 TACATAACTT
Statistics
Matches: 189, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
120 189 1.00
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (120 bp):
CTTATATAATACATAACTTACATAATACAACACTTACACAACTTAAATAACTTGCATAATACATA
GCCTACATAACTTATATAGCTTTCACAAAATACAACTTACATATCTTACATAAAA
Done.