Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 150 of 226
Found at i:47090680 original size:32 final size:32
Alignment explanation
Indices: 47090608--47090778 Score: 159
Period size: 32 Copynumber: 5.4 Consensus size: 32
47090598 GAATAACTAC
* * * *
47090608 AAGCCATAAGT-ACAGTAATGTGATTGGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
47090639 AAGCTATCAGTAGCAGTGATATGACCAGCACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
47090671 CAGCCATCAGTAATAGTGAAATGATCGGTACA
1 AAGCCATCAGTAACAGTGATATGATCGGCACA
* * * *
47090703 TAGCCATC-GATAACGGTAATATGATCGACACA
1 AAGCCATCAG-TAACAGTGATATGATCGGCACA
47090735 AAGCCATCAGTAACAGT-ACTATGATCGGCACA
1 AAGCCATCAGTAACAGTGA-TATGATCGGCACA
47090767 AAGCCATCAGTA
1 AAGCCATCAGTA
47090779 GCATCGCAGC
Statistics
Matches: 110, Mismatches: 26, Indels: 7
0.77 0.18 0.05
Matches are distributed among these distances:
31 11 0.10
32 98 0.89
33 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.20
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTGATATGATCGGCACA
Found at i:47090956 original size:24 final size:23
Alignment explanation
Indices: 47090924--47090996 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 23
47090914 TCATGCTTAG
47090924 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* * *
47090948 AATCAGTCATACCAAACATAGATA
1 AATCAGTCAT-TCAAACACAGACA
* *
47090972 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
47090995 AA
1 AA
47090997 ATAATCATTT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 10 0.25
24 26 0.65
25 4 0.10
ACGTcount: A:0.48, C:0.23, G:0.08, T:0.21
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:47091411 original size:27 final size:27
Alignment explanation
Indices: 47091043--47091408 Score: 471
Period size: 27 Copynumber: 13.6 Consensus size: 27
47091033 TACCCACCAA
*
47091043 GGCATTACGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091070 GACATTATGGTCATTCTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
*
47091097 GGCATTACGGTCGTTCTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
47091124 GGCATTACGGTCATTCTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091151 GGCATTACGGTTATTCTACCTTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
*** * * *
47091178 GGCATTATAATTATTTTACCCTATAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091205 GGCATTACGGTCATTTTTCCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
*
47091232 GGCATTACGGTTATTCTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
*
47091259 GGCATTACGGTCATTCTACCCTACATG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091286 AGCATTATGGTCATTCTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091313 GGCATTATGGTCATTTTACCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* ** *
47091340 GGCATTACGGTCATTTTTTCCTATAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* * *
47091367 GGCATTATGGTCATTTTATCCTACAGG
1 GGCATTACGGTCATTCTACCCTACAGG
* *
47091394 GGCATTTCGATCATT
1 GGCATTACGGTCATT
47091409 TTACAACCTT
Statistics
Matches: 298, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 298 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (27 bp):
GGCATTACGGTCATTCTACCCTACAGG
Found at i:47102165 original size:36 final size:36
Alignment explanation
Indices: 47102113--47102185 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
47102103 CCAAAACACA
47102113 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
1 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
* *
47102149 TAACTACTAAAGCTGACAGATATTTGTGTCATATTT
1 TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
47102185 T
1 T
47102186 CATAATAACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (36 bp):
TAACCACTAAAGCTGACAGATATTTGTGTAATATTT
Found at i:47114137 original size:26 final size:26
Alignment explanation
Indices: 47114101--47114160 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
47114091 TGTACACCAG
*
47114101 TAAACTTTTGATGATTTTACCCCCAA
1 TAAAATTTTGATGATTTTACCCCCAA
* * *
47114127 TAAAATTTTGATGATTTTTCCCTCAG
1 TAAAATTTTGATGATTTTACCCCCAA
47114153 TAAAATTT
1 TAAAATTT
47114161 CTAGAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (26 bp):
TAAAATTTTGATGATTTTACCCCCAA
Found at i:47121030 original size:27 final size:30
Alignment explanation
Indices: 47120970--47121031 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
47120960 TTAATTAACA
*
47120970 TTTTTAATTAATAAACTTGCTATTTTCAAG
1 TTTTTAATTAATAAACATGCTATTTTCAAG
*
47121000 TTTTTAGTTAATAAACATG-T-TTTT-AAG
1 TTTTTAATTAATAAACATGCTATTTTCAAG
47121027 TTTTT
1 TTTTT
47121032 TATTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 8 0.27
28 4 0.13
29 1 0.03
30 17 0.57
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (30 bp):
TTTTTAATTAATAAACATGCTATTTTCAAG
Found at i:47121511 original size:24 final size:24
Alignment explanation
Indices: 47121446--47121511 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
47121436 TCTAATATAA
47121446 AAAAAATTTACAAAAAATTTAACACC
1 AAAAAATTT--AAAAAATTTAACACC
* *
47121472 AAAAAACTCT-ATAAATTTAACACC
1 AAAAAA-TTTAAAAAATTTAACACC
*
47121496 AAAAAATTTAAGAAAT
1 AAAAAATTTAAAAAAT
47121512 CATCAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
23 2 0.06
24 24 0.71
26 6 0.18
27 2 0.06
ACGTcount: A:0.61, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAATTTAAAAAATTTAACACC
Found at i:47125559 original size:25 final size:26
Alignment explanation
Indices: 47125509--47125565 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
47125499 TATTTTTAAT
*
47125509 TTTTTTAAAAATAAAATAGAAAAAATA
1 TTTTCTAAAAATAAAATAG-AAAAATA
47125536 TTTTCTAAAAATAAAATAG-AAAATA
1 TTTTCTAAAAATAAAATAGAAAAATA
47125561 TTTTC
1 TTTTC
47125566 AGAAATCAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 11 0.38
27 18 0.62
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (26 bp):
TTTTCTAAAAATAAAATAGAAAAATA
Found at i:47129866 original size:19 final size:18
Alignment explanation
Indices: 47129842--47129884 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
47129832 TTTCCTATAA
47129842 AAATATTTAAAAAATTATT
1 AAATATTTAAAAAA-TATT
47129861 AAATA-TT-AAAAATATT
1 AAATATTTAAAAAATATT
47129877 AAA-ATTTA
1 AAATATTTA
47129885 TAATAACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.05
16 9 0.41
17 5 0.23
18 2 0.09
19 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATATTTAAAAAATATT
Found at i:47129897 original size:10 final size:9
Alignment explanation
Indices: 47129837--47129946 Score: 66
Period size: 9 Copynumber: 11.9 Consensus size: 9
47129827 ATATTTTTCC
47129837 TATAAAAAT
1 TATAAAAAT
*
47129846 ATTTAAAAAAT
1 -TAT-AAAAAT
*
47129857 TAT-TAAA-
1 TATAAAAAT
47129864 TATTAAAAA-
1 TA-TAAAAAT
*
47129873 TATTAAAATT
1 TA-TAAAAAT
*
47129883 TATAATAACT
1 TATAA-AAAT
47129893 TATAAAAAT
1 TATAAAAAT
47129902 TATAAAAA-
1 TATAAAAAT
* *
47129910 AATAAAAGCT
1 TATAAAA-AT
*
47129920 TATAAATAT
1 TATAAAAAT
47129929 TATAATAAAT
1 TATAA-AAAT
47129939 TATAAAAA
1 TATAAAAA
47129947 AATCTAAAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
7 2 0.03
8 10 0.13
9 34 0.43
10 27 0.34
11 6 0.08
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (9 bp):
TATAAAAAT
Found at i:47129899 original size:46 final size:47
Alignment explanation
Indices: 47129849--47129957 Score: 116
Period size: 45 Copynumber: 2.4 Consensus size: 47
47129839 TAAAAATATT
* * * * *
47129849 TAAAAAATTATTAAATATTAAAAATATTA-AAAT-TTATAATAACTTA
1 TAAAAAATTATAAAAAAAT-AAAAGATTATAAATATTATAATAAATTA
*
47129895 T-AAAAATTATAAAAAAATAAAAGCTTATAAATATTATAATAAATTA
1 TAAAAAATTATAAAAAAATAAAAGATTATAAATATTATAATAAATTA
* *
47129941 TAAAAAAATCTAAAAAA
1 TAAAAAATTATAAAAAA
47129958 TTGATATCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
44 7 0.13
45 18 0.35
46 14 0.27
47 13 0.25
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (47 bp):
TAAAAAATTATAAAAAAATAAAAGATTATAAATATTATAATAAATTA
Found at i:47129908 original size:37 final size:37
Alignment explanation
Indices: 47129867--47129947 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
47129857 TATTAAATAT
*
47129867 TAAAAATATTAAAA-TTTAT-AATAACTTATAA-AAATTA
1 TAAAAA-ATTAAAAGCTTATAAAT-A-TTATAATAAATTA
*
47129904 TAAAAAAATAAAAGCTTATAAATATTATAATAAATTA
1 TAAAAAATTAAAAGCTTATAAATATTATAATAAATTA
47129941 TAAAAAA
1 TAAAAAA
47129948 ATCTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 12 0.31
37 24 0.62
38 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (37 bp):
TAAAAAATTAAAAGCTTATAAATATTATAATAAATTA
Found at i:47129941 original size:19 final size:19
Alignment explanation
Indices: 47129842--47129944 Score: 54
Period size: 19 Copynumber: 5.2 Consensus size: 19
47129832 TTTCCTATAA
*
47129842 AAATATT-TAAAAAATTATT
1 AAATATTATAATAAATTA-T
47129861 AAATATTA-AA-AATATTA-
1 AAATATTATAATAA-ATTAT
*
47129878 AAAT-TTATAATAACTTAT
1 AAATATTATAATAAATTAT
*
47129896 AAAAATTATAAAAAAATAAAAGCTTAT
1 AAATATTAT-----AAT-AAA--TTAT
47129923 AAATATTATAATAAATTAT
1 AAATATTATAATAAATTAT
47129942 AAA
1 AAA
47129945 AAAATCTAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
16 3 0.05
17 9 0.14
18 7 0.11
19 24 0.36
21 3 0.05
22 3 0.05
24 3 0.05
25 2 0.03
27 12 0.18
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (19 bp):
AAATATTATAATAAATTAT
Found at i:47130373 original size:21 final size:21
Alignment explanation
Indices: 47130350--47130423 Score: 73
Period size: 23 Copynumber: 3.5 Consensus size: 21
47130340 ATTTTTAATA
*
47130350 TTTTTTTATAATTTATTAGAA-
1 TTTTTTTATAATTT-TTATAAG
*
47130371 -TTTGTTAT-ATTTTTATAAG
1 TTTTTTTATAATTTTTATAAG
*
47130390 TTTTTTCTATGAATTCTTATAAG
1 TTTTTT-TAT-AATTTTTATAAG
47130413 TTTTTTTATAA
1 TTTTTTTATAA
47130424 AAATTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
18 5 0.11
19 4 0.09
20 11 0.25
21 5 0.11
22 3 0.07
23 16 0.36
ACGTcount: A:0.28, C:0.03, G:0.07, T:0.62
Consensus pattern (21 bp):
TTTTTTTATAATTTTTATAAG
Found at i:47130573 original size:9 final size:9
Alignment explanation
Indices: 47130446--47130590 Score: 55
Period size: 10 Copynumber: 15.6 Consensus size: 9
47130436 ATTTTGTTAA
47130446 TTTTATATAT
1 TTTTATA-AT
47130456 TTTTAATAAT
1 TTTT-ATAAT
*
47130466 TTATTAAAAT
1 TT-TTATAAT
*
47130476 TTATTA-GAT
1 TT-TTATAAT
47130485 TTTTATAAT
1 TTTTATAAT
* *
47130494 ATTTATAGGT
1 TTTTATA-AT
* *
47130504 TTCTATTAT
1 TTTTATAAT
*
47130513 ATTTTATAAG
1 -TTTTATAAT
*
47130523 TTTTATACGT
1 TTTTATA-AT
*
47130533 TTATATCAAT
1 TTTTAT-AAT
* * *
47130543 TTTGAGATT
1 TTTTATAAT
47130552 TTTTA-AAT
1 TTTTATAAT
*
47130560 ATTTATAA-
1 TTTTATAAT
47130568 TTTT-TAAT
1 TTTTATAAT
*
47130576 ATTTTATAAG
1 -TTTTATAAT
47130586 TTTTA
1 TTTTA
47130591 AAGAATTTTT
Statistics
Matches: 99, Mismatches: 25, Indels: 23
0.67 0.17 0.16
Matches are distributed among these distances:
7 3 0.03
8 12 0.12
9 37 0.37
10 41 0.41
11 6 0.06
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.59
Consensus pattern (9 bp):
TTTTATAAT
Found at i:47130680 original size:38 final size:38
Alignment explanation
Indices: 47130637--47130727 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
47130627 TTTAAGCATG
47130637 TTTTATTAATTTTATAAAAAATTAGAA-TTTATTAGAAT
1 TTTTA-TAATTTTATAAAAAATTAGAATTTTATTAGAAT
* * * * *
47130675 TTTTATAATATTTAT-AATATTTATAATTTTTTTATAAT
1 TTTTATAAT-TTTATAAAAAATTAGAATTTTATTAGAAT
47130713 TTTTATAATTTTATA
1 TTTTATAATTTTATA
47130728 TAAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
37 17 0.38
38 28 0.62
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (38 bp):
TTTTATAATTTTATAAAAAATTAGAATTTTATTAGAAT
Found at i:47130771 original size:9 final size:9
Alignment explanation
Indices: 47130662--47130815 Score: 124
Period size: 9 Copynumber: 17.0 Consensus size: 9
47130652 AAAAAATTAG
*
47130662 AATTTATTAG
1 AATTT-TTAT
47130672 AATTTTTAT
1 AATTTTTAT
*
47130681 AATATTTAT
1 AATTTTTAT
*
47130690 AATATTTAT
1 AATTTTTAT
47130699 AATTTTTTTAT
1 AA--TTTTTAT
47130710 AATTTTTAT
1 AATTTTTAT
47130719 AATTTTATAT
1 AATTTT-TAT
*
47130729 AAATTTTAT
1 AATTTTTAT
*
47130738 --TTTTTTT
1 AATTTTTAT
47130745 AA--TTTA-
1 AATTTTTAT
47130751 AATTTTTAAT
1 AATTTTT-AT
47130761 AATTTTTAT
1 AATTTTTAT
47130770 AA-TTTTAT
1 AATTTTTAT
*
47130778 AATTGTTTCT
1 AATT-TTTAT
47130788 AATTTTTTAT
1 AA-TTTTTAT
*
47130798 TATTTTTA-
1 AATTTTTAT
47130806 ATATTTTTAT
1 A-ATTTTTAT
47130816 TGAAAAATAT
Statistics
Matches: 119, Mismatches: 11, Indels: 28
0.75 0.07 0.18
Matches are distributed among these distances:
6 2 0.02
7 8 0.07
8 11 0.09
9 57 0.48
10 31 0.26
11 10 0.08
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:47130795 original size:20 final size:19
Alignment explanation
Indices: 47130339--47130805 Score: 132
Period size: 20 Copynumber: 24.4 Consensus size: 19
47130329 GCTTTTTCAG
*
47130339 AATTTTTAATATTTTTTTAT
1 AATTTTT-ATAATTTTTTAT
* *
47130359 AATTTATTAGAATTTGTTAT
1 AATTT-TTATAATTTTTTAT
47130379 -ATTTTTATAAGTTTTTTCTAT
1 AATTTTTATAA--TTTTT-TAT
*
47130400 GAATTCTTATAAGTTTTTTTAT
1 -AATTTTTATAA--TTTTTTAT
** *
47130422 AAAAATTTA-AATATATTTTGTT
1 -AATTTTTATAAT-T-TTTT-AT
*
47130444 AA-TTTTATATATTTTTAAT
1 AATTTTTATA-ATTTTTTAT
* *
47130463 AATTTATTAAAATTTATTA-
1 AATTT-TTATAATTTTTTAT
* *
47130482 GATTTTTATAA-TATTTAT
1 AATTTTTATAATTTTTTAT
* * * *
47130500 AGGTTTCTATTATATTTTAT
1 A-ATTTTTATAATTTTTTAT
* ** *
47130520 AAGTTTTATACGTTTATAT
1 AATTTTTATAATTTTTTAT
* *
47130539 CAATTTTGA-GATTTTTTA-
1 -AATTTTTATAATTTTTTAT
* *
47130557 AATATTTATAATTTTTAAT
1 AATTTTTATAATTTTTTAT
** *
47130576 -A-TTTTATAAGTTTTAAAG
1 AATTTTTATAA-TTTTTTAT
* * **
47130594 AATTTTTGTAGGTTTCGGTA-
1 AATTTTTATA-ATTT-TTTAT
* *
47130614 AAATTTTA-AATATTTTA-
1 AATTTTTATAATTTTTTAT
*
47130631 AGCATGTTTTATTAATTTTATA-
1 A--AT-TTTTA-TAATTTTTTAT
*** * * *
47130653 AAAAATTAGAATTTATTAG
1 AATTTTTATAATTTTTTAT
*
47130672 AATTTTTATAA-TATTTAT
1 AATTTTTATAATTTTTTAT
*
47130690 AATATTTATAATTTTTTTAT
1 AATTTTTATAA-TTTTTTAT
*
47130710 AATTTTTATAATTTTATAT
1 AATTTTTATAATTTTTTAT
*
47130729 AAATTTTAT--TTTTTT-T
1 AATTTTTATAATTTTTTAT
*
47130745 AA--TTTA-AATTTTTAAT
1 AATTTTTATAATTTTTTAT
47130761 AATTTTTATAA--TTTTAT
1 AATTTTTATAATTTTTTAT
*
47130778 AATTGTTTCTAATTTTTTAT
1 AATT-TTTATAATTTTTTAT
*
47130798 TATTTTTA
1 AATTTTTA
47130806 ATATTTTTAT
Statistics
Matches: 320, Mismatches: 86, Indels: 83
0.65 0.18 0.17
Matches are distributed among these distances:
14 4 0.01
15 5 0.02
16 6 0.02
17 34 0.11
18 57 0.18
19 67 0.21
20 92 0.29
21 20 0.06
22 19 0.06
23 16 0.05
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.58
Consensus pattern (19 bp):
AATTTTTATAATTTTTTAT
Found at i:47131360 original size:15 final size:15
Alignment explanation
Indices: 47131340--47131368 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47131330 AATAAAATTA
47131340 TGTCTTTTATATTTC
1 TGTCTTTTATATTTC
47131355 TGTCTTTTATATTT
1 TGTCTTTTATATTT
47131369 TGCATGCATA
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:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (15 bp):
TGTCTTTTATATTTC
Found at i:47133027 original size:12 final size:12
Alignment explanation
Indices: 47133010--47133034 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47133000 ATTTTATAAG
47133010 ATTTAATATTAA
1 ATTTAATATTAA
47133022 ATTTAATATTAA
1 ATTTAATATTAA
47133034 A
1 A
47133035 GTAATTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:47148420 original size:19 final size:17
Alignment explanation
Indices: 47148405--47148495 Score: 57
Period size: 17 Copynumber: 5.4 Consensus size: 17
47148395 ATTTTTATAG
47148405 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
47148422 TTTAATACTT--ATCTTAA
1 TTTAATA-TTAAAT-TTAA
* **
47148439 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
* *
47148453 TTGAATATTAAAGTTATTA
1 TTTAATATTAAA-TT-TAA
47148472 TCTTAATATTAAATTTAA
1 T-TTAATATTAAATTTAA
47148490 TTTAAT
1 TTTAAT
47148496 GTTGATCTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 20
0.67 0.10 0.24
Matches are distributed among these distances:
14 6 0.11
15 4 0.07
16 9 0.16
17 16 0.29
18 6 0.11
19 5 0.09
20 10 0.18
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:47154438 original size:57 final size:55
Alignment explanation
Indices: 47154336--47154445 Score: 132
Period size: 57 Copynumber: 2.0 Consensus size: 55
47154326 TATTTCACAT
* ** *
47154336 TTTCATTCTCATTTTCATTTCTATTTTGGAGATCACCATATTCATTTCCAAATCA
1 TTTCATTCTCATTTTCATTTCTATTTTGGAAAAAACCATAATCATTTCCAAATCA
* *
47154391 TTTCATTTCTCTATTTTCAATTT-TATTTTGGAAAAAACCTTAATCATTTTCAAAT
1 TTTCA-TTCTC-ATTTTC-ATTTCTATTTTGGAAAAAACCATAATCATTTCCAAAT
47154446 GTTTCCTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 5 0.11
56 5 0.11
57 32 0.70
58 4 0.09
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (55 bp):
TTTCATTCTCATTTTCATTTCTATTTTGGAAAAAACCATAATCATTTCCAAATCA
Found at i:47156352 original size:17 final size:17
Alignment explanation
Indices: 47156330--47156364 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47156320 ATTACAAAAT
*
47156330 CAAATCTTATCAGATTA
1 CAAATCTTATAAGATTA
*
47156347 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
47156364 C
1 C
47156365 TTTCCCTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:47159568 original size:30 final size:31
Alignment explanation
Indices: 47159534--47159592 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
47159524 AACGTCCAAT
47159534 ATGAACTTAGACAA-ATTTATCCATATTTAA
1 ATGAACTTAGACAACATTTATCCATATTTAA
*
47159564 ATGAACTTGGACAACTATTTATCCATATT
1 ATGAACTTAGACAAC-ATTTATCCATATT
47159593 CATTCTAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.50
32 13 0.50
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.37
Consensus pattern (31 bp):
ATGAACTTAGACAACATTTATCCATATTTAA
Found at i:47160742 original size:68 final size:73
Alignment explanation
Indices: 47160649--47160830 Score: 221
Period size: 75 Copynumber: 2.5 Consensus size: 73
47160639 TTTTATTCCG
* * * * * *
47160649 AAATGTATAAACTTAATTTAATAAAATATTTCATTATTTC-A-AAC-TATT-TA-TAAAAATCTT
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTTCAACAACTTATTAAATTAAAAACCCT
47160709 TATTCAAA
66 TATTCAAA
* *
47160717 AAATATATAAACTTAATTTAATAAAACATCTCATTGTTTCAAACAACTTATTAAAATTTAAAACC
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTTC-AACAACTTATT-AAATTAAAAACC
47160782 CTTATTCAAA
64 CTTATTCAAA
* *
47160792 AAATATATAAACTTAATTTAATAACACATCTCCTTATTT
1 AAATATATAAACTTAATTTAATAAAACATCTCATTATTT
47160831 TTGTTTTTGT
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
68 36 0.38
70 1 0.01
71 3 0.03
72 4 0.04
74 1 0.01
75 51 0.53
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.40
Consensus pattern (73 bp):
AAATATATAAACTTAATTTAATAAAACATCTCATTATTTCAACAACTTATTAAATTAAAAACCCT
TATTCAAA
Found at i:47161271 original size:67 final size:65
Alignment explanation
Indices: 47161189--47161451 Score: 321
Period size: 67 Copynumber: 3.9 Consensus size: 65
47161179 TCCCGAAGTC
* * * * * *
47161189 AAACTACTTACTAAAATCCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTT
1 AAACTACTTACTAAAA-CCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTATT
47161254 CT
65 -T
* * *
47161256 AAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTATT
1 AAACTACTTACTAAAACC-TTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTA-T
47161321 TT
64 TT
* *
47161323 AAACTACTTACTAAAACATTTATCCTG-AAATGTATAAACTTAATTTAATAAAACATCTCATTAT
1 AAACTACTTACTAAAAC-CTTATTC-GAAAATGTATAAACTTAATTTAATAAAACATCTCATTAT
47161387 TT
64 TT
* * *
47161389 CAAACTACTTACTAAAATCTTTATTCGGAAATGTATAAACTTAATTTAATAACACATCTCATT
1 -AAACTACTTACTAAAA-CCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATT
47161452 GTTTTTGTTT
Statistics
Matches: 173, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
66 6 0.03
67 164 0.95
68 3 0.02
ACGTcount: A:0.43, C:0.15, G:0.03, T:0.39
Consensus pattern (65 bp):
AAACTACTTACTAAAACCTTATTCGAAAATGTATAAACTTAATTTAATAAAACATCTCATTATTT
Found at i:47161429 original size:134 final size:134
Alignment explanation
Indices: 47161189--47161456 Score: 355
Period size: 134 Copynumber: 2.0 Consensus size: 134
47161179 TCCCGAAGTC
* * * * *
47161189 AAACTACTTACTAAAATCCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTT
1 AAACTACTTACTAAAATCCTTATCCGAAAATATATAAACTTAATTTAATAAAACATCTCATTGTT
*
47161254 CTAAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTA
66 CTAAACTACTTACTAAAACCTTTATTCGAAACTGTATAAACTTAATTTAATAAAACATCACATTA
47161319 TTTT
131 TTTT
* * *
47161323 AAACTACTTACTAAAA-CATTTATCCTG-AAATGTATAAACTTAATTTAATAAAACATCTCATTA
1 AAACTACTTACTAAAATC-CTTATCC-GAAAATATATAAACTTAATTTAATAAAACATCTCATTG
* * *
47161386 TT-TCAAACTACTTACTAAAATCTTTATTCGGAAA-TGTATAAACTTAATTTAATAACACATCTC
64 TTCT-AAACTACTTACTAAAACCTTTATTC-GAAACTGTATAAACTTAATTTAATAAAACATCAC
*
47161449 ATTGTTTT
127 ATTATTTT
47161457 TGTTTCTGTG
Statistics
Matches: 117, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
133 2 0.02
134 111 0.95
135 4 0.03
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (134 bp):
AAACTACTTACTAAAATCCTTATCCGAAAATATATAAACTTAATTTAATAAAACATCTCATTGTT
CTAAACTACTTACTAAAACCTTTATTCGAAACTGTATAAACTTAATTTAATAAAACATCACATTA
TTTT
Found at i:47161932 original size:640 final size:626
Alignment explanation
Indices: 47160621--47161970 Score: 1764
Period size: 640 Copynumber: 2.1 Consensus size: 626
47160611 ATCCCAAAGT
* * * *
47160621 TAAATTACTTACTAAAA-TTTTTATTCCGAAATGTATAAACTTAATTTAATAAAATATTTCATTA
1 TAAACTACTTACTAAAACCTTTT-TT-CGAAATGTATAAACTTAATTTAATAAAACA-TACATTA
*
47160685 TTTCAAACTATTTATAAAAATCTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCA
63 TTTCAAACTACTTATAAAAA-CTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCA
* *
47160750 TTGTTTCAAACAACTTATTAAAATTTAAAACCCTTATTCAAAAAATATATAAACTTAATTTAATA
127 TTATTTCAAACAACTTACTAAAA-TT---A-CCTTATTCAAAAAATATATAAACTTAATTTAATA
* * *
47160815 ACACATCTCCTTATTTTTGTTTTTGTGTATATGCTCATTTAGTATTGACAGCAAATCTCTTTCCA
187 ACACATCTCATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCTCTTTCCA
* * *** *
47160880 CAATTTTCATATTTCAGGCGCTGGTTGAGTGAAAAAATCGAAAAAAAATTTATCTTTTTTACAGA
252 CAATTTTCATATTTCAAGCACTGGTTGAGTGAAAAAATCGAAAAAAAAAACATCCTTTTTACAGA
*
47160945 AGTATACCAATTGTCACCATCAAATTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATT
317 AGTATACCAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATT
* * ** * *
47161010 ACTTGGATACACAAAACAAAATATTTGCAAAGCTGCATCAAATTATACAAAAAAGGCTTTTCTAT
382 ACTCGCATACACAAAACAAAATATTTGCAAAGCCACATCAAATTATACAAAAAAAGCTTTCCTAT
*
47161075 TTCAAGATATATTTCCATGTCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAA
447 TTCAAGATATATTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAA
47161140 AAAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAA
512 AAAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAA
* * * * *
47161205 TCCTTATTCGAAAATATATTAATTTAATTTAATAAAATATCTTATTGTTC
577 CCCTAATTCGAAAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
* *
47161255 TAAACTACTTACTAAAACCTTTATTCTAAACTGTATAAACTTAATTTAATAAAACATCACATTAT
1 TAAACTACTTACTAAAACCTTTTTTCGAAA-TGTATAAACTTAATTTAATAAAACAT-ACATTAT
* *** *
47161320 TTTAAACTACTTACT-AAAACATTTA-TCCTGAAATGTATAAACTTAATTTAATAAAACATCTCA
64 TTCAAACTACTTA-TAAAAAC-TTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCA
* * ** *
47161383 TTATTTCAAACTACTTACTAAAA-T-CTTTATTC-GGAAATGTATAAACTTAATTTAATAACACA
127 TTATTTCAAACAACTTACTAAAATTACCTTATTCAAAAAATATATAAACTTAATTTAATAACACA
* *
47161445 TCTCATTGTTTTTGTTTCTGTGTATCTGCCCATTTAGTATTGACAGCAAATCTCTTTCCACATTG
192 TCTCATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCTCTTT---C----
* * * *
47161510 CACTCAATTTTCCTGTTTCAAGCACTGGTTTAGTGAAAGAAA-GGAAAAAAAAACAACATCCTTT
250 CA--CAATTTTCATATTTCAAGCACTGGTTGAGTGAAA-AAATCG-AAAAAAAA-AACATCCTTT
* ** * * *
47161574 TTAGAGGGGTCTACCAATTGTCCCCATCAAACTTATCTCCTAACTGAAAGTACCATGTTTGGCTT
310 TTACAGAAGTATACCAATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTT
*
47161639 ATATATTACTCGCATACACAAAACAAAATATTTGCAAAGCCATATCAAATTATACAAAAAAAAAA
375 ATATATTACTCGCATACACAAAACAAAATATTTGCAAAGCCACATCAAATTATAC---AAAAAAA
* * *
47161704 GCTTTCCTATTTCAAGATATCTTTCCATGCCAATATGGGTTATTTGAAATCAAATAGAGAATAGT
437 GCTTTCCTATTTCAAGATATATTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGT
* * * * *
47161769 TATTACTTTAAGAAAACAATATATATTGAAAAGGAAGGTAAGGGAGAGGATCTCTAGGTCAAACT
502 TATTA-TTTAAAAAAACAACATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACT
*
47161834 ACTTACTAAAACCCTAATTC-ATAAATGTATAAATTTAATTTAATAAAACATCTCATTGTT-
566 ACTTACTAAAACCCTAATTCGA-AAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
*
47161894 TCAAACTACTTACTAAAACCTTTGTTTCGAAATGTATAAACTTAATTTAATAAAACATATCATTG
1 T-AAACTACTTACTAAAACCTTT-TTTCGAAATGTATAAACTTAATTTAATAAAACATA-CATTA
47161959 TTTCAAACTACT
63 TTTCAAACTACT
47161971 GACGTGGATG
Statistics
Matches: 624, Mismatches: 67, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
625 79 0.13
626 7 0.01
628 1 0.00
631 1 0.00
632 2 0.00
633 60 0.10
634 97 0.16
635 15 0.02
636 114 0.18
639 74 0.12
640 168 0.27
641 6 0.01
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (626 bp):
TAAACTACTTACTAAAACCTTTTTTCGAAATGTATAAACTTAATTTAATAAAACATACATTATTT
CAAACTACTTATAAAAACTTTATTCAAAAAATATATAAACTTAATTTAATAAAACATCTCATTAT
TTCAAACAACTTACTAAAATTACCTTATTCAAAAAATATATAAACTTAATTTAATAACACATCTC
ATTATTTTTGTTTCTGTGTATATGCCCATTTAGTATTGACAGCAAATCTCTTTCCACAATTTTCA
TATTTCAAGCACTGGTTGAGTGAAAAAATCGAAAAAAAAAACATCCTTTTTACAGAAGTATACCA
ATTGTCACCATCAAACTTATCACCTAACTGAAAGTACCATGTTTGGCTTATATATTACTCGCATA
CACAAAACAAAATATTTGCAAAGCCACATCAAATTATACAAAAAAAGCTTTCCTATTTCAAGATA
TATTTCCATGCCAATATGGGTTATTCGAAAACAAATAGAGAATAGTTATTATTTAAAAAAACAAC
ATATATTGAAAAGGAAGGTAAGGGAGAGGATCCCGAAGTCAAACTACTTACTAAAACCCTAATTC
GAAAATATATAAATTTAATTTAATAAAACATCTCATTGTTC
Found at i:47161939 original size:67 final size:67
Alignment explanation
Indices: 47161827--47161970 Score: 218
Period size: 67 Copynumber: 2.1 Consensus size: 67
47161817 GATCTCTAGG
* * *
47161827 TCAAACTACTTACTAAAACCCTAATTCATAAATGTATAAATTTAATTTAATAAAACATCTCATTG
1 TCAAACTACTTACTAAAACCCTAATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATTG
47161892 TT
66 TT
* **
47161894 TCAAACTACTTACTAAAACCTTTGTTTC-GAAATGTATAAACTTAATTTAATAAAACATATCATT
1 TCAAACTACTTACTAAAACC-CTAATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATT
47161958 GTT
65 GTT
47161961 TCAAACTACT
1 TCAAACTACT
47161971 GACGTGGATG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
67 66 0.94
68 4 0.06
ACGTcount: A:0.42, C:0.17, G:0.04, T:0.38
Consensus pattern (67 bp):
TCAAACTACTTACTAAAACCCTAATTCAGAAATGTATAAACTTAATTTAATAAAACATATCATTG
TT
Found at i:47168881 original size:21 final size:20
Alignment explanation
Indices: 47168871--47168929 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
47168861 ATATTTAGAG
47168871 TTTTAAATTTTAAATTTTAAA
1 TTTTAAA-TTTAAATTTTAAA
47168892 TTTTAAATTTTAAATTTTAAA
1 TTTTAAA-TTTAAATTTTAAA
*
47168913 TTTTCAAATTCAAATTT
1 TTTT-AAATTTAAATTT
47168930 ACTTGTAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTAAATTTAAATTTTAAA
Found at i:47168883 original size:7 final size:7
Alignment explanation
Indices: 47168871--47168922 Score: 95
Period size: 7 Copynumber: 7.3 Consensus size: 7
47168861 ATATTTAGAG
47168871 TTTTAAA
1 TTTTAAA
47168878 TTTTAAA
1 TTTTAAA
47168885 TTTTAAA
1 TTTTAAA
47168892 TTTTAAA
1 TTTTAAA
47168899 TTTTAAA
1 TTTTAAA
47168906 TTTTAAA
1 TTTTAAA
47168913 TTTTCAAA
1 TTTT-AAA
47168921 TT
1 TT
47168923 CAAATTTACT
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 39 0.89
8 5 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (7 bp):
TTTTAAA
Found at i:47177246 original size:19 final size:19
Alignment explanation
Indices: 47177223--47177262 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47177213 GACAGTAGAC
47177223 AAAAAACGAAAAAACAAATG
1 AAAAAA-GAAAAAACAAATG
* *
47177243 AAAAAAGACAAAAGAAATG
1 AAAAAAGAAAAAACAAATG
47177262 A
1 A
47177263 TGAAAATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.75, C:0.07, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAAAGAAAAAACAAATG
Found at i:47181084 original size:7 final size:7
Alignment explanation
Indices: 47181072--47181126 Score: 62
Period size: 7 Copynumber: 8.1 Consensus size: 7
47181062 AATTCAATTA
*
47181072 AAAAAAC
1 AAAAAAG
47181079 AAAAAAG
1 AAAAAAG
47181086 AAAAAA-
1 AAAAAAG
*
47181092 AAGAAAG
1 AAAAAAG
47181099 AAAAAAG
1 AAAAAAG
47181106 -AAAAAG
1 AAAAAAG
47181112 AAAAGAA-
1 AAAA-AAG
47181119 AAAAAAG
1 AAAAAAG
47181126 A
1 A
47181127 TGAGAGGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
6 13 0.32
7 26 0.63
8 2 0.05
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:47181089 original size:6 final size:6
Alignment explanation
Indices: 47181080--47181121 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
47181070 TAAAAAAACA
*
47181080 AAAAAG AAAAAA AAGAAAG AAAAAAG AAAAAG -AAAAG AAAAA
1 AAAAAG AAAAAG AA-AAAG -AAAAAG AAAAAG AAAAAG AAAAA
47181122 AAAGATGAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
5 5 0.16
6 17 0.55
7 7 0.23
8 2 0.06
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:47181102 original size:11 final size:10
Alignment explanation
Indices: 47181079--47181124 Score: 67
Period size: 11 Copynumber: 4.5 Consensus size: 10
47181069 TTAAAAAAAC
47181079 AAAAAAG-AA
1 AAAAAAGAAA
47181088 AAAAAAGAAA
1 AAAAAAGAAA
47181098 GAAAAAAGAAA
1 -AAAAAAGAAA
47181109 AAGAAAAGAAA
1 AA-AAAAGAAA
47181120 AAAAA
1 AAAAA
47181125 GATGAGAGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 20 0.59
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:47181110 original size:27 final size:27
Alignment explanation
Indices: 47181072--47181126 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
47181062 AATTCAATTA
*
47181072 AAAAAACAAAAAAGAAAA-AAAAGAAAG
1 AAAAAAC-AAAAAGAAAAGAAAAAAAAG
*
47181099 AAAAAAGAAAAAGAAAAGAAAAAAAAG
1 AAAAAACAAAAAGAAAAGAAAAAAAAG
47181126 A
1 A
47181127 TGAGAGGCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAAAGAAAAGAAAAAAAAG
Found at i:47181126 original size:20 final size:21
Alignment explanation
Indices: 47181071--47181124 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
47181061 GAATTCAATT
*
47181071 AAAA-AAACAAAAAAG-AAAA
1 AAAAGAAAGAAAAAAGAAAAA
47181090 AAAAGAAAGAAAAAAGAAAAA
1 AAAAGAAAGAAAAAAGAAAAA
47181111 GAAAAGAAA-AAAAA
1 -AAAAGAAAGAAAAA
47181125 GATGAGAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 9 0.29
22 8 0.26
ACGTcount: A:0.87, C:0.02, G:0.11, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAAAAAAGAAAAA
Found at i:47181487 original size:108 final size:107
Alignment explanation
Indices: 47181291--47181511 Score: 291
Period size: 108 Copynumber: 2.1 Consensus size: 107
47181281 AGGGCACCTG
* * * * * *
47181291 TTTTCATCTTATTCATTTTGTATCTTAGCAAAATTTGCTATCTTGATTATTTATTTATTTCGAGC
1 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATTATTTATTTATTTAGAGC
**
47181356 TTTGTTCTCAATAAAATTCCATCTTCTCC-ATTGTGATAATCC
66 TTTACTCTCAATAAAATTCCATCTT-TCCTATTGTGATAATCC
* * *
47181398 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGTTATCCTGTTTAATTTATTTGTTTAGAG
1 TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATT-ATTTATTTATTTAGAG
* * *
47181463 CTTTACTCTTAATAAAATTTCATCTTTCCTATTGTGATAATCT
65 CTTTACTCTCAATAAAATTCCATCTTTCCTATTGTGATAATCC
47181506 TTTTCA
1 TTTTCA
47181512 AGCATTTTCC
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 44 0.45
108 54 0.55
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.50
Consensus pattern (107 bp):
TTTTCATCTTATTCATTTCGAATATTAGCAAAATTCGCTATCCTGATTATTTATTTATTTAGAGC
TTTACTCTCAATAAAATTCCATCTTTCCTATTGTGATAATCC
Found at i:47182016 original size:24 final size:24
Alignment explanation
Indices: 47181984--47182041 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
47181974 ATGTCCCAAA
*
47181984 ATTATAGTGGATTGAACCTTGAAG
1 ATTAAAGTGGATTGAACCTTGAAG
* *
47182008 ATTACAGTGGATTGAACTTTGAAG
1 ATTAAAGTGGATTGAACCTTGAAG
47182032 ATTAAAGTGG
1 ATTAAAGTGG
47182042 GGGCAATCCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (24 bp):
ATTAAAGTGGATTGAACCTTGAAG
Found at i:47182608 original size:131 final size:130
Alignment explanation
Indices: 47182374--47182842 Score: 688
Period size: 131 Copynumber: 3.6 Consensus size: 130
47182364 TATCAAGCCT
* * * * *
47182374 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAAATCTTACCTCCCTAAGCAGTAGTAG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
47182439 AGCAGATCGAAGATGGCGAATCTTATCTTCCCGAGATAGTAGAAAGCAAATTTAAGCCACCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTT-CCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
47182504 C
130 C
* * * *
47182505 TATCTCCCTGAACAGCAGTGAAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* *
47182570 AGCAGATCGAAGACGGCGAATCTTATCTTCCTGAGATAGTAGGAAGCAAACTTAAGCCATCAGTC
66 AGCAGATCGAAGACGGCGAATCTTATCTTCC-GAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
47182635 C
130 C
* *
47182636 TATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* ** ***
47182701 AGAAGATCGAAGACAACGAATCTTATCTTTCCGAGATAGTAGGAAGTGGATTTAAGCCACCAG-C
66 AGCAGATCGAAGACGGCGAATCTTATC-TTCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTC
47182765 C
130 C
*
47182766 TTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 -TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
*
47182831 GAGTAGATCGAA
65 GAGCAGATCGAA
47182843 AACACCAGCC
Statistics
Matches: 306, Mismatches: 29, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
130 4 0.01
131 298 0.97
132 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (130 bp):
TATCTCCCTGAGCAGCAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGACGGCGAATCTTATCTTCCGAGATAGTAGGAAGCAAATTTAAGCCACCAGTCC
Found at i:47182849 original size:87 final size:87
Alignment explanation
Indices: 47182758--47182929 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
47182748 GGATTTAAGC
*
47182758 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
*
47182823 CAGTAGTGGAGTAGATCGAAAA
66 CAGTAGTGGAGCAGATCGAAAA
47182845 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
1 CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
47182910 CAGTAGTGGAGCAGATCGAA
66 CAGTAGTGGAGCAGATCGAA
47182930 GACGGCAAAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (87 bp):
CACCAGCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAG
CAGTAGTGGAGCAGATCGAAAA
Found at i:47182882 original size:218 final size:219
Alignment explanation
Indices: 47182636--47183139 Score: 645
Period size: 218 Copynumber: 2.3 Consensus size: 219
47182626 CCATCAGTCC
*
47182636 TATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* * ****
47182701 AGAAGATCGAAGACAACGAATCTTATCTTTCCGAGATAGTAGGAAGTGGATTTAAGCCACCAG-C
66 AGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAGCCACCAGTC
* * * *
47182765 CTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCT-AAGC-AGTA
131 C-TATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCTGAA-CTAGCA
* *
47182828 GTGGAGTAGATCGAAAACACCAGCCT
194 GTGAAGCAGATCGAAAACACCAGCCT
* * *
47182854 TATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAGATCTTATCTACCTAAGCAGTAGTGG
1 TATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
* **
47182919 AGCAGATCGAAGACGGCAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAGCCACCAGTC
66 AGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAGCCACCAGTC
* * * * * * *
47182984 CTATCTCCCTGAGTAGCAGTGAAGTTGGTCAAAGATTATAGATCTTGTCTTCCTGTACTGGCAGT
131 CTATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCTGAACTAGCAGT
*
47183049 GAAGCAGATCGAAAGCACCAGCCT
196 GAAGCAGATCGAAAACACCAGCCT
* * * * * * * * *
47183073 TACCTCCTTGGGCAGTAGTGGAGTAGGTTGAAAATTGTAGATCCTGTCTCCCTAAGTAGTAGTGG
1 TATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
47183138 AG
66 AG
47183140 CGGATTGAAG
Statistics
Matches: 245, Mismatches: 38, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
218 161 0.66
219 84 0.34
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (219 bp):
TATCTCCCTGAGCAGAAGTGGAGTAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGG
AGAAGATCGAAGACAACAAATCTTATCTTCCCGAGATAGTAGGAAACAAATTTAAGCCACCAGTC
CTATCTCCCTGAGCAGCAGCGAAGTAGGTCAAAGATTATAGATCTTATCTCCCTGAACTAGCAGT
GAAGCAGATCGAAAACACCAGCCT
Found at i:47182942 original size:44 final size:43
Alignment explanation
Indices: 47182545--47182946 Score: 172
Period size: 44 Copynumber: 9.2 Consensus size: 43
47182535 AAGATTATAG
* *
47182545 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAA
* * * * *
47182589 ATCTTATCTTCCTGAG-A-TAGTAGGAAGCA-AACTTAAG-C-CATCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGTAGATC-GAAGACGCA--A
* * * * * * * * *
47182632 GTCCTATCTCCCTGAGCAGAAGTGGTGTAGGTCGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAA
* * *
47182676 ATCTTATCTCCCTAAGCAGTAGTGGAGAAGATCGAAGACAACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAA
* * * ** * * *
47182720 ATCTTATCTTTCC-GAG-A-TAGTAGGAAGTGGATTTAAGCCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGTAGATCGAAGACGCAA
** * * * * * * *
47182763 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAA
* * *
47182807 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAAACACCA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGCAA
** * * * * * * *
47182850 GCCTTATCTCCCTGAGCAGCAGCGGAGTAGGTCGAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CGCAA
* *
47182894 ATCTTATCTACCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GCAA
47182938 ATCTTATCT
1 ATCTTATCT
47182947 TCCCGAGATA
Statistics
Matches: 250, Mismatches: 87, Indels: 42
0.66 0.23 0.11
Matches are distributed among these distances:
41 1 0.00
42 11 0.04
43 79 0.32
44 150 0.60
45 8 0.03
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGCAA
Found at i:47183392 original size:44 final size:43
Alignment explanation
Indices: 47183161--47183536 Score: 263
Period size: 44 Copynumber: 8.8 Consensus size: 43
47183151 CAGACTACAA
* * * *
47183161 ATCTCATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAT
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAA-CACAG
* ** ** *
47183205 ATATTATCTTTCTGAAGTTGCAGTAGAGCAGATCGCATCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACAG
** * * *
47183247 -TCTTATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGAAACTA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCA-AA-ACAC-AG
* ** *
47183289 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC-CAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACAG
* * * *
47183331 -TCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAAC-ACAG
* * *
47183374 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATC-CA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACAG
* *
47183415 ATCTTATATCCCTGAAGTTGTAGTAGAGCAGA-CAGAAGA-AGCCA-
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCA-AA-ACA--CAG
* * * * * *
47183459 ATCCTATCTCCCTAAAATTGCAGTGGAGCAGATTAAAGCCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAA-ACACAG
*
47183503 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC
1 ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC
47183537 GCATTAGACT
Statistics
Matches: 249, Mismatches: 64, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
39 1 0.00
40 17 0.07
41 71 0.29
42 4 0.02
43 19 0.08
44 134 0.54
45 3 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (43 bp):
ATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCAAAACACAG
Found at i:47183413 original size:85 final size:84
Alignment explanation
Indices: 47183166--47183535 Score: 361
Period size: 85 Copynumber: 4.3 Consensus size: 84
47183156 TACAAATCTC
* * *
47183166 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACATATATTATCTTTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACA-ATCTTATCTCTCTGAAGTTGCAGTAG
*
47183231 AGCAGATCGCATCAAGTCTT
65 AGCAGATCGCATCCAGTCTT
** * *
47183251 ATCTCCCT-AAGCAGTAGTGGAGCAGA-CAGAAGA-AACTAATCTTATCTCTCTGAAGTTGCAGT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-ACAAC-AATCTTATCTCTCTGAAGTTGCAGT
47183313 AGAGCAGATCGCATCCAGTCTT
63 AGAGCAGATCGCATCCAGTCTT
* *
47183335 ATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACAACAGATCTTATCTCTCTGAAGTTGCAGTAG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACA-ATCTTATCTCTCTGAAGTTGCAGTAG
* *
47183400 AGCAGATCACATCCAATCTT
65 AGCAGATCGCATCCAGTCTT
* * * * * * * * * * *
47183420 ATATCCCTGAAGTTGTAGTAGAGCAGA-CAGAAGAAGCCAATCCTATCTCCCTAAAATTGCAGTG
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAA--CAATCTTATCTCTCTGAAGTTGCAGTA
*** *
47183484 GAGCAGATTAAAGCCACAGATCTT
64 GAGCAGATCGCA-TC-CAG-TCTT
* *
47183508 ATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGAT
47183536 CGCATTAGAC
Statistics
Matches: 237, Mismatches: 35, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
83 1 0.00
84 77 0.32
85 125 0.53
86 4 0.02
87 2 0.01
88 28 0.12
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (84 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACAACAATCTTATCTCTCTGAAGTTGCAGTAGA
GCAGATCGCATCCAGTCTT
Found at i:47185176 original size:3 final size:3
Alignment explanation
Indices: 47185163--47185198 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
47185153 ACATCACTAA
47185163 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
47185199 GCTATGTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:47197019 original size:97 final size:97
Alignment explanation
Indices: 47196853--47197043 Score: 285
Period size: 97 Copynumber: 2.0 Consensus size: 97
47196843 ATTCATTTTG
* * * * *
47196853 TATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAGTTTTACTCTCAATAAAATTT
1 TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGTCTTACTCTCAAAAAAATTT
47196918 CATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* *
47196950 TATCTCAGCAGAATTTGCTATCTTGATTAATTTATTCATTTCGAG-CTTAGTTCTCAAAAAAATT
1 TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGTCTTA-CTCTCAAAAAAATT
* *
47197014 TCATCTTGTCTATTGTGATAATCTTTTTCA
65 TCATCTTATCCATTGTGATAATCTTTTTCA
47197044 AGCATTTTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
96 3 0.04
97 81 0.96
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (97 bp):
TATCTCAGCAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGTCTTACTCTCAAAAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:47197744 original size:131 final size:131
Alignment explanation
Indices: 47197510--47198342 Score: 1242
Period size: 131 Copynumber: 6.4 Consensus size: 131
47197500 GAAACCAACA
* * *
47197510 TTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGAAGTAGTT
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
* **
47197575 GAGAAGATTAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
66 GAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
47197640 C
131 C
47197641 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
* * *
47197706 GAGCAGATCGAAGACGGTAAATCTTTTCTTTCCAAGATAGTGAGGAGCAGATTTAAGCCACCAGC
66 GAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
47197771 C
131 C
* * *
47197772 TCGA-CTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGTAGTAAT
1 T-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGT
* * *
47197836 GGAGCAGATCGAAGACAGTAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACTAG
65 GGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAG
47197901 CC
130 CC
* * * *
47197903 TTGTCTCCCTGAGCAACAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAATCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
* * *
47197968 GAACAGATCGAAGACGGCAAATCTTATCTTTTCAAGATAGTGGGGAGCAAATTTAAGCCACCAGC
66 GAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
47198033 C
131 C
* * * *
47198034 TTGTCTCCCTGAGCAGTAGTGGAGTAGGTTGAATATTATAGATCTTATCTCCCTAAGCAGTAGTG
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
* *
47198099 GAGCAGATCGAAGACGGCAAATTTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAAC
66 GAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
47198164 C
131 C
* * *
47198165 TTGTCTCCCTGAGCAGCAGTGAAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTA
1 TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
* * * * **
47198230 GAGCAGATCGAAGACGAG-AAATCTTATCTTCCCAAGGTAATAGGGAAGCAGATTTAAGCCACTG
66 GAGCAGATCGAAGACG-GCAAATCTTATCTTTCCAAGATAGT-GGGGAGCAGATTTAAGCCACCA
47198294 GTCC
129 G-CC
* *
47198298 -TATCTCCCTGAGCAGCAGTGGTA-TACGTTGAAGAATGTAGATCTT
1 TTATCTCCCTGAGCAGCAGTGG-AGTAGGTTGAAGATTGTAGATCTT
47198343 GTCTTCCTGT
Statistics
Matches: 641, Mismatches: 55, Indels: 11
0.91 0.08 0.02
Matches are distributed among these distances:
131 578 0.90
132 60 0.09
133 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
TTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTG
GAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCACCAGC
C
Found at i:47200200 original size:12 final size:12
Alignment explanation
Indices: 47200162--47200201 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47200152 AAATTTAGAT
47200162 TTATTATTATGG
1 TTATTATTATGG
* * *
47200174 TTATTGTTCTTG
1 TTATTATTATGG
47200186 TTATTATTATGG
1 TTATTATTATGG
47200198 TTAT
1 TTAT
47200202 ATTGTCATTG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.03, G:0.15, T:0.62
Consensus pattern (12 bp):
TTATTATTATGG
Found at i:47200627 original size:107 final size:107
Alignment explanation
Indices: 47200441--47200640 Score: 328
Period size: 107 Copynumber: 1.9 Consensus size: 107
47200431 AAAAAATTAT
* *
47200441 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAATGTGCCCCAACGTGTTGGGTTTCGATT
1 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
*
47200506 TCTCGTTCGACCAAATAGTCAAATATCCCTTTTAAACTTTCA
66 TCTCGTTCGACCAAATAGCCAAATATCCCTTTTAAACTTTCA
* * * * *
47200548 AAGTAAGGCAATATTTTGCGTTTGGAAATTCGGGAGAACGTGCCCTAACGTGCTGGGTTTCGATT
1 AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
47200613 TCTCGTTCGACCAAATAGCCAAATATCC
66 TCTCGTTCGACCAAATAGCCAAATATCC
47200641 TATTAAATCT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
107 85 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (107 bp):
AAGTAAGGCAATATTTTACATTTGGAAATTCGAGAAAACGTGCCCCAACGTGCTGGGTTTCGATT
TCTCGTTCGACCAAATAGCCAAATATCCCTTTTAAACTTTCA
Found at i:47205794 original size:31 final size:31
Alignment explanation
Indices: 47205756--47205831 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
47205746 TTACACCAAC
47205756 AATCACTCAACTTTGATCTCAATGACAAAAA
1 AATCACTCAACTTTGATCTCAATGACAAAAA
* *
47205787 AATCACTCAAATTTGATCTCAATGACAAAAC
1 AATCACTCAACTTTGATCTCAATGACAAAAA
*
47205818 AGTCACTCAACTTT
1 AATCACTCAACTTT
47205832 CAAAACAGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.28
Consensus pattern (31 bp):
AATCACTCAACTTTGATCTCAATGACAAAAA
Found at i:47205837 original size:20 final size:20
Alignment explanation
Indices: 47205812--47205856 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
47205802 ATCTCAATGA
* *
47205812 CAAAACAGTCACTCAACTTT
1 CAAAACAGCCACCCAACTTT
*
47205832 CAAAACAGCCACCCAATTTT
1 CAAAACAGCCACCCAACTTT
47205852 CAAAA
1 CAAAA
47205857 AATAACAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.20
Consensus pattern (20 bp):
CAAAACAGCCACCCAACTTT
Found at i:47206171 original size:73 final size:74
Alignment explanation
Indices: 47206033--47206184 Score: 252
Period size: 73 Copynumber: 2.1 Consensus size: 74
47206023 GTTGCTGACC
*
47206033 ATCTCCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
1 ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
*
47206098 GACTTTGGG
66 GACTTTAGG
* * *
47206107 ATCTTCGCTGCTCTTCTTCTAATCTATCTCTCATCCT-TTTTGCTATAATACCTAGTCCAATTTT
1 ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
47206171 GACTTTAGG
66 GACTTTAGG
47206180 ATCTT
1 ATCTT
47206185 GTTAATCACT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
73 39 0.53
74 34 0.47
ACGTcount: A:0.19, C:0.28, G:0.10, T:0.43
Consensus pattern (74 bp):
ATCTTCGCCGCTCTTCTTCTAATCTATATCTCATCCTCTTTTGCTACAATACCTAGTCCAATTTT
GACTTTAGG
Found at i:47207085 original size:30 final size:32
Alignment explanation
Indices: 47207016--47207090 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 32
47207006 AAAATGTTAA
* *
47207016 TGAGTGACTGATTTGTCACTTTTTGATAGCGT
1 TGAGTGACTAATTTGTCACTTTTTGATAGAGT
* * *
47207048 T-AATGACTAATTTGTTATTTTTTGA-A-AGT
1 TGAGTGACTAATTTGTCACTTTTTGATAGAGT
47207077 TGAGTGACTGAATT
1 TGAGTGACT-AATT
47207091 GGAATCAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 3 0.09
30 7 0.20
31 24 0.69
32 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.45
Consensus pattern (32 bp):
TGAGTGACTAATTTGTCACTTTTTGATAGAGT
Found at i:47210986 original size:24 final size:24
Alignment explanation
Indices: 47210929--47210980 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47210919 GTGGCTGGCT
* *
47210929 GCTGCTGCTGAGGCTGGGATTGCG
1 GCTGCTGCTGAGGCTGAGACTGCG
*
47210953 GCTGCTGCTGAGGCTGAGACTGTG
1 GCTGCTGCTGAGGCTGAGACTGCG
47210977 GCTG
1 GCTG
47210981 TGGCTGTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.10, C:0.21, G:0.44, T:0.25
Consensus pattern (24 bp):
GCTGCTGCTGAGGCTGAGACTGCG
Found at i:47214146 original size:29 final size:29
Alignment explanation
Indices: 47214089--47214148 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
47214079 ATAAAATATG
* * *
47214089 GAACTCGTCGAAGGAAGCTCCTAAACTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
* *
47214118 GAACTCGTCAAAGGGAGCACCGAACCTTA
1 GAACTCGTCAAAGGAAGCACCGAAACTTA
47214147 GA
1 GA
47214149 CTCAAAAGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (29 bp):
GAACTCGTCAAAGGAAGCACCGAAACTTA
Found at i:47220350 original size:119 final size:119
Alignment explanation
Indices: 47220214--47220561 Score: 499
Period size: 116 Copynumber: 2.9 Consensus size: 119
47220204 ACTTCCAGCA
* * *
47220214 CTAACCACCACAATACCTAAGTAGGGAAAATTTCGACTGTTCTTCCATTGAATATTTTAATGTGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
47220279 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
* * * *
47220333 CTAACCACCACAATACCTAGGTAGGCAAAACTTCCACAGTTCTCCCATTGAATATCTTAATGTGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
* *
47220398 CCCAACT---AACACAATTGATTTTCCGAAACACAGTACACCAAGACTCCAGTC
66 CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
*
47220449 CTAACCACCACAATACCTCAGTAGGCAAAACTTCCACAT-TTCTTCCATTGAAT-TCTTTAATGT
1 CTAACCACCACAATACCTAAGTAGGCAAAACTTCCAC-TGTTCTTCCATTGAATAT-TTTAATGT
** * * * *
47220512 GTCTGAACTCCCCACAAAATTGATTTTCTGAAACACAATACACCGAGACT
64 GTCCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACT
47220562 TTCTATAGGA
Statistics
Matches: 203, Mismatches: 21, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
115 1 0.00
116 104 0.51
119 98 0.48
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.26
Consensus pattern (119 bp):
CTAACCACCACAATACCTAAGTAGGCAAAACTTCCACTGTTCTTCCATTGAATATTTTAATGTGT
CCCAACTCCCAACACAATTGATTTTCAGAAACACAATACACCAAGACTCCAGTC
Found at i:47221122 original size:21 final size:21
Alignment explanation
Indices: 47221098--47221137 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
47221088 TTCAATTCCA
47221098 CTTCTACTTATTTTCTTAGAG
1 CTTCTACTTATTTTCTTAGAG
47221119 CTTCTACTTATTTTCTTAG
1 CTTCTACTTATTTTCTTAG
47221138 CAGCCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.55
Consensus pattern (21 bp):
CTTCTACTTATTTTCTTAGAG
Found at i:47222570 original size:52 final size:52
Alignment explanation
Indices: 47222513--47222615 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
47222503 TACCCATTTT
*
47222513 TATTTTAAAATTTTTAAAAAATTAAAAAA-AGTATTTT-AAAATATTTTAAAAA
1 TATTTTAAAA-TTTAAAAAAATTAAAAAATA-TATTTTAAAAATATTTTAAAAA
47222565 TATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAAATATTTTAAAA
47222616 TTTAAAAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
51 23 0.48
52 25 0.52
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (52 bp):
TATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAAATATTTTAAAAA
Found at i:47222616 original size:51 final size:50
Alignment explanation
Indices: 47222513--47222696 Score: 178
Period size: 50 Copynumber: 3.8 Consensus size: 50
47222503 TACCCATTTT
*
47222513 TATTTTAAAATTTTTAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAAA
1 TATTTTAAAA-TTTAAAAAAATTAAAAAAAGTATTTTAAAATATTTT-AAAA
*
47222565 TATTTTAAAATTTAAAAAAATT-AAAAAA-TA---T---AT-TTTAAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAA
47222606 TATTTTAAAATTT-AAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTT-AAAATATTTTAAAA
** *
47222656 T-TTAAAAAAATTTAAAAAGTATGT-AAAAAA-TATTTTAAAAT
1 TATT-TTAAAATTTAAAAA-AAT-TAAAAAAAGTATTTTAAAAT
47222697 TAAAAAAAAT
Statistics
Matches: 112, Mismatches: 6, Indels: 30
0.76 0.04 0.20
Matches are distributed among these distances:
40 8 0.07
41 23 0.21
42 5 0.04
43 2 0.02
45 1 0.01
46 1 0.01
49 6 0.05
50 26 0.23
51 21 0.19
52 18 0.16
53 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (50 bp):
TATTTTAAAATTTAAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAA
Found at i:47222639 original size:40 final size:40
Alignment explanation
Indices: 47222550--47222706 Score: 244
Period size: 40 Copynumber: 3.9 Consensus size: 40
47222540 AAAGTATTTT
47222550 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
1 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
47222590 AAATATATTTTAAAAATATTTTAAAATTT-AAAAAATTAAA
1 AAA-ATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
*
47222630 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTTAA
1 AAAA-TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
* * * *
47222671 AAAGTATGTAAAAAATATTTTAAAATTAAAAAAAAT
1 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAAT
47222707 AAATATATTT
Statistics
Matches: 109, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 70 0.64
41 38 0.35
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (40 bp):
AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAA
Found at i:47222651 original size:81 final size:79
Alignment explanation
Indices: 47222550--47222709 Score: 248
Period size: 81 Copynumber: 2.0 Consensus size: 79
47222540 AAAGTATTTT
* *
47222550 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAATATATTTTAAAAATATTTTAAA
1 AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAA-ATATGTAAAAAATATTTTAAA
* *
47222615 ATTTAAAAAATTAAA
65 ATTAAAAAAAATAAA
* *
47222630 AAAAGTATTTTAAAAATATTTTAAAATTTAAAAAAATTTAAAAAGTATGTAAAAAATATTTTAAA
1 AAAA-TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAATATGTAAAAAATATTTTAAA
47222695 ATTAAAAAAAATAAA
65 ATTAAAAAAAATAAA
47222710 TATATTTATT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
80 35 0.48
81 38 0.52
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (79 bp):
AAAATATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAATATGTAAAAAATATTTTAAAA
TTAAAAAAAATAAA
Found at i:47222656 original size:91 final size:92
Alignment explanation
Indices: 47222513--47222695 Score: 259
Period size: 91 Copynumber: 2.0 Consensus size: 92
47222503 TACCCATTTT
**
47222513 TATTTTAAAATTTTTAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAAATATT-TTAAAATT
1 TATTTTAAAA-TTTTAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAAAT-TTAAAAAAATT
47222577 TAAAAA-AAT-TAAAAAATATATTTTAAAAA
64 TAAAAAGAATGT-AAAAA-ATATTTTAAAAA
47222606 TATTTTAAAA-TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAAATTTAAAAAAATTT
1 TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTT-AAAATATTTTAAAAATTTAAAAAAATTT
*
47222669 AAAAAGTATGTAAAAAATATTTTAAAA
65 AAAAAGAATGTAAAAAATATTTTAAAA
47222696 TTAAAAAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 10
0.86 0.03 0.10
Matches are distributed among these distances:
90 2 0.02
91 53 0.64
92 17 0.20
93 11 0.13
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.39
Consensus pattern (92 bp):
TATTTTAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAATATTTTAAAAATTTAAAAAAATTTA
AAAAGAATGTAAAAAATATTTTAAAAA
Found at i:47222704 original size:41 final size:40
Alignment explanation
Indices: 47222513--47222706 Score: 225
Period size: 40 Copynumber: 4.8 Consensus size: 40
47222503 TACCCATTTT
**
47222513 TATTTT-AAAAT-TTTTAAAAAATTAAAAAAAGTATTTTAAAA-
1 TATTTTAAAAATATTTT--AAAATTAAAAAAA--ATTAAAAAAG
* *
47222554 TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAATA
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAA-G
*
47222595 TATTTTAAAAATATTTTAAAATT-TAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATT-AAAAAAG
* *
47222635 TATTTTAAAAATATTTTAAAATTTAAAAAAATTTAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAG
* *
47222675 TATGTAAAAAATATTTTAAAATTAAAAAAAAT
1 TATTTTAAAAATATTTTAAAATTAAAAAAAAT
47222707 AAATATATTT
Statistics
Matches: 137, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
39 7 0.05
40 66 0.48
41 55 0.40
42 5 0.04
43 4 0.03
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (40 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAATTAAAAAAG
Found at i:47225819 original size:16 final size:16
Alignment explanation
Indices: 47225794--47225824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47225784 ATTAGGAAAC
*
47225794 TAATTTAAAATTTTTA
1 TAATTAAAAATTTTTA
47225810 TAATTAAAAATTTTT
1 TAATTAAAAATTTTT
47225825 TATTTGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TAATTAAAAATTTTTA
Found at i:47228291 original size:27 final size:27
Alignment explanation
Indices: 47228261--47228315 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
47228251 TATTATAAAA
47228261 TTAAATAAAATTTAA-TATGTTACTAAT
1 TTAAATAAAATTTAAGTATGTTA-TAAT
* * *
47228288 TTAAGTACAATTTAAGTATTTTATAAT
1 TTAAATAAAATTTAAGTATGTTATAAT
47228315 T
1 T
47228316 ATATTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (27 bp):
TTAAATAAAATTTAAGTATGTTATAAT
Found at i:47250695 original size:6 final size:6
Alignment explanation
Indices: 47250684--47250731 Score: 69
Period size: 6 Copynumber: 7.7 Consensus size: 6
47250674 TTTTCATATA
*
47250684 AAAAAT AAAAAT AAAAAT AAAAAT AAGAAAA AACAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA-AAAT AA-AAAT AAAAAT AAAA
47250732 TCTAACCTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 28 0.74
7 10 0.26
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:47250714 original size:20 final size:20
Alignment explanation
Indices: 47250684--47250729 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
47250674 TTTTCATATA
*
47250684 AAAAATAA-AAATAA-AAAT
1 AAAAATAAGAAAAAACAAAT
47250702 AAAAATAAGAAAAAACAAAT
1 AAAAATAAGAAAAAACAAAT
47250722 AAAAATAA
1 AAAAATAA
47250730 AATCTAACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 12 0.48
ACGTcount: A:0.83, C:0.02, G:0.02, T:0.13
Consensus pattern (20 bp):
AAAAATAAGAAAAAACAAAT
Found at i:47251195 original size:26 final size:26
Alignment explanation
Indices: 47251159--47251208 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
47251149 CAATGGCTAG
47251159 TTTGACCAACTAATTCTATTAACTAA
1 TTTGACCAACTAATTCTATTAACTAA
* *
47251185 TTTGACCAACTGATTTTATTAACT
1 TTTGACCAACTAATTCTATTAACT
47251209 GTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.42
Consensus pattern (26 bp):
TTTGACCAACTAATTCTATTAACTAA
Found at i:47252201 original size:32 final size:32
Alignment explanation
Indices: 47252165--47252230 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
47252155 CAAATTTGGT
47252165 AATTAAAAAATTATGCAAACTTTACAGAAAAC
1 AATTAAAAAATTATGCAAACTTTACAGAAAAC
* *
47252197 AATTAAAATATTATGCAAACTTTACATAAAAC
1 AATTAAAAAATTATGCAAACTTTACAGAAAAC
47252229 AA
1 AA
47252231 ATTTTTTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (32 bp):
AATTAAAAAATTATGCAAACTTTACAGAAAAC
Found at i:47254683 original size:35 final size:35
Alignment explanation
Indices: 47254644--47254718 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
47254634 CCTTATTTTA
*
47254644 CTAGATTAGAGTATCAACATTACATAAAGTATATG
1 CTAGATTAGAATATCAACATTACATAAAGTATATG
47254679 CTAGATTAGAATATCAACATTACATAAAGTATATG
1 CTAGATTAGAATATCAACATTACATAAAGTATATG
*
47254714 TTAGA
1 CTAGA
47254719 AAAAAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (35 bp):
CTAGATTAGAATATCAACATTACATAAAGTATATG
Found at i:47255371 original size:19 final size:19
Alignment explanation
Indices: 47255323--47255372 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
47255313 TTTTGCAAAA
47255323 AAAATGCCAAAATAAATTTT
1 AAAATGCC-AAATAAATTTT
* *
47255343 AACATCCCAAATAAA-TTT
1 AAAATGCCAAATAAATTTT
47255361 AAAATGTCCAAA
1 AAAATG-CCAAA
47255373 AGTCATGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 7 0.28
19 12 0.48
20 6 0.24
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAATGCCAAATAAATTTT
Found at i:47257463 original size:30 final size:30
Alignment explanation
Indices: 47257427--47257489 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
47257417 ATATTTTTTA
47257427 AAACCACCCATATCCCCACTAACTCCCACT
1 AAACCACCCATATCCCCACTAACTCCCACT
* * *
47257457 AAACCACCTATATCCCTACTAATTCCCACT
1 AAACCACCCATATCCCCACTAACTCCCACT
47257487 AAA
1 AAA
47257490 TATGATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (30 bp):
AAACCACCCATATCCCCACTAACTCCCACT
Found at i:47259868 original size:38 final size:37
Alignment explanation
Indices: 47259799--47259871 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 37
47259789 TTTTCATAAT
* *
47259799 TTCACTTTTTCACTTTTAATCACTATTCAATTCAAAA
1 TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
47259836 TTCACTTTTCCA-TTTTCAAGTCAATATTCAATTCAA
1 TTCACTTTTCCACTTTT-AA-TCAATATTCAATTCAA
47259872 TTCCACACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 4 0.12
37 13 0.41
38 15 0.47
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (37 bp):
TTCACTTTTCCACTTTTAATCAATATTCAATTCAAAA
Found at i:47260027 original size:23 final size:23
Alignment explanation
Indices: 47260001--47260053 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
47259991 ATAAGTGCCA
47260001 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
47260024 CACTAATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
47260047 CACTGAT
1 CACTGAT
47260054 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:47260533 original size:30 final size:30
Alignment explanation
Indices: 47260499--47260557 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
47260489 TCCTTGACTC
47260499 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
47260529 AAACTTTTGCATATTTACACTTTTGCCCC
1 AAACTTTTGCAAAATTACAATTTTGCCCC
47260558 AAAGCTCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:47265927 original size:16 final size:16
Alignment explanation
Indices: 47265906--47265940 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
47265896 CCACAACCTT
*
47265906 ACAATCTTACATTAGA
1 ACAATCTTACATCAGA
47265922 ACAATCTTACATCAGA
1 ACAATCTTACATCAGA
47265938 ACA
1 ACA
47265941 CACCCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (16 bp):
ACAATCTTACATCAGA
Found at i:47272201 original size:16 final size:14
Alignment explanation
Indices: 47272170--47272208 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
47272160 AAACATATTA
47272170 AATTAATTTAAATT
1 AATTAATTTAAATT
47272184 AATTAATTTCATAATT
1 AATTAATTT-A-AATT
*
47272200 AAATAATTT
1 AATTAATTT
47272209 TCTCAATCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTAATTTAAATT
Found at i:47274114 original size:16 final size:16
Alignment explanation
Indices: 47274093--47274126 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47274083 CTTTTCTCCT
*
47274093 TTTAATTATAAACTCA
1 TTTAATCATAAACTCA
*
47274109 TTTAATCATAAATTCA
1 TTTAATCATAAACTCA
47274125 TT
1 TT
47274127 CCACTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTAATCATAAACTCA
Found at i:47281316 original size:41 final size:41
Alignment explanation
Indices: 47281258--47281470 Score: 266
Period size: 41 Copynumber: 5.1 Consensus size: 41
47281248 CTTAATTTAA
*
47281258 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* * * *
47281300 CAGATCATCGACACTTAGCCTACTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
* *
47281341 CAGATCACTGGCACTTAGCCCGCTAGG-TTCATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTT-ATAACCTGATT
* * *
47281382 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACTTAATTT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGA-TT
*
47281424 AACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 --CAGA-TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
47281468 CAG
1 CAG
47281471 TTTATAACCT
Statistics
Matches: 147, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.01
41 97 0.66
42 11 0.07
44 6 0.04
45 31 0.21
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT
Found at i:47281408 original size:82 final size:85
Alignment explanation
Indices: 47281250--47281470 Score: 315
Period size: 82 Copynumber: 2.6 Consensus size: 85
47281240 TATAATCACT
*
47281250 TAATTTAACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCATCGACACT
1 TAATTT-ACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACT
47281315 TAGCCTACTAGGTTTATAACC
65 TAGCCTACTAGGTTTATAACC
* * * * *
47281336 TGA-TT-CAGA-TCACTGGCACTTAGCCCGCTAGG-TTCATAACCTGATTCAGATCACCGGCACT
1 TAATTTACAGATTCACCGGCACTTAGCCTGCTAGGCTT-ATAGCCTGATTCAGATCACCGACACT
* *
47281397 TAGCCTGCTAGGTTTATAACT
65 TAGCCTACTAGGTTTATAACC
47281418 TAATTTAACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TAATTT-ACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
47281471 TTTATAACCT
Statistics
Matches: 117, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
81 2 0.02
82 65 0.56
83 6 0.05
85 6 0.05
86 36 0.31
87 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (85 bp):
TAATTTACAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGACACTT
AGCCTACTAGGTTTATAACC
Found at i:47281481 original size:17 final size:17
Alignment explanation
Indices: 47281455--47281487 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47281445 CCTGCTAGGC
*
47281455 TTATAGCCTGATTCAGT
1 TTATAACCTGATTCAGT
47281472 TTATAACCTGATTCAG
1 TTATAACCTGATTCAG
47281488 ATCACTGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (17 bp):
TTATAACCTGATTCAGT
Found at i:47281498 original size:103 final size:99
Alignment explanation
Indices: 47281371--47281569 Score: 290
Period size: 103 Copynumber: 2.0 Consensus size: 99
47281361 CGCTAGGTTC
* * *
47281371 ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACTTAATTTAACAGATTCACC
1 ATAACCTGATTCAGATCACCGGCACTTAGCCCGCTAGGTTCATAACCTAA-TT--CAGA-TCACC
*
47281436 GGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTT
62 GGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGTTT
* *
47281474 ATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACCGGCA
1 ATAACCTGATTCAGATCACCGGCACTTAGCCCGCTAGGTTCATAACCTAATTCAGATCACCGGCA
* *
47281539 CTTAGCCTGCTAGGTTTATAACTTGATTCAG
66 CTTAGCCTGCTAGGCTTATAACCTGATTCAG
47281570 ATCACCGGCA
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 37 0.42
100 4 0.05
102 2 0.02
103 45 0.51
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (99 bp):
ATAACCTGATTCAGATCACCGGCACTTAGCCCGCTAGGTTCATAACCTAATTCAGATCACCGGCA
CTTAGCCTGCTAGGCTTATAACCTGATTCAGTTT
Found at i:47281519 original size:41 final size:41
Alignment explanation
Indices: 47281474--47281592 Score: 202
Period size: 41 Copynumber: 2.9 Consensus size: 41
47281464 GATTCAGTTT
* *
47281474 ATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTC
1 ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTC
*
47281515 ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTT
1 ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTC
*
47281556 ATAACTTGATTCAGATCACCGGCACTTAGCCTGCTAG
1 ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAG
47281593 ACGTATAGTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (41 bp):
ATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGGTTC
Found at i:47281531 original size:144 final size:140
Alignment explanation
Indices: 47281326--47281592 Score: 489
Period size: 144 Copynumber: 1.9 Consensus size: 140
47281316 AGCCTACTAG
47281326 GTTTATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACC
1 GTTTATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACC
47281391 GGCACTTAGCCTGCTAGGTTTATAACTTAATTTAACAGATTCACCGGCACTTAGCCTGCTAGGCT
66 GGCACTTAGCCTGCTAGGTTTATAACTTAA-TT--CAGA-TCACCGGCACTTAGCCTGCTAGGCT
47281456 TATAGCCTGATTCA
127 TATAGCCTGATTCA
47281470 GTTTATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACC
1 GTTTATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACC
*
47281535 GGCACTTAGCCTGCTAGGTTTATAACTTGATTCAGATCACCGGCACTTAGCCTGCTAG
66 GGCACTTAGCCTGCTAGGTTTATAACTTAATTCAGATCACCGGCACTTAGCCTGCTAG
47281593 ACGTATAGTC
Statistics
Matches: 122, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
140 22 0.18
141 4 0.03
143 2 0.02
144 94 0.77
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (140 bp):
GTTTATAACCTGATTCAGATCACTGGCACTTAGCCCGCTAGGTTCATAACCTGATTCAGATCACC
GGCACTTAGCCTGCTAGGTTTATAACTTAATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATA
GCCTGATTCA
Found at i:47285108 original size:61 final size:61
Alignment explanation
Indices: 47285043--47285233 Score: 221
Period size: 61 Copynumber: 3.2 Consensus size: 61
47285033 ATTTTATAGT
*
47285043 ATTATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
* * ** * * * * *
47285104 ATTATATATTTTTATTAAATTATATTCA-ATAATAATTATTTTAA-ATT-A-TATTTTA-TAGT
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATATTAAGAATTTTATTA-A
*
47285163 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAA
1 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
47285224 ATTATATATT
1 ATTATATATT
47285234 TTAATTAAAA
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 32 0.31
60 14 0.14
61 42 0.41
62 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
Found at i:47285114 original size:120 final size:119
Alignment explanation
Indices: 47284981--47285268 Score: 486
Period size: 120 Copynumber: 2.4 Consensus size: 119
47284971 GCAATAAATG
*
47284981 TAAATTATGTATTTCTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
1 TAAATTATATATTT-TATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
* *
47285046 ATATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTAT
65 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
*
47285101 TAAATTATATATTTTTATTAAATTATATTCAATAATAATTATTTTAAATTATATTTTATAGTATT
1 TAAATTATATA-TTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATT
47285166 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
65 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
* * *
47285221 TAAATTATATATTTTAATTAAAATATATTTTATAATAATTATGTTAAA
1 TAAATTATATATTTT-ATTAAATTATATTTAATAATAATTATTTTAAA
47285269 ATATGATTAA
Statistics
Matches: 158, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
119 4 0.03
120 151 0.96
121 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (119 bp):
TAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTA
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTAT
Found at i:47285190 original size:59 final size:59
Alignment explanation
Indices: 47285020--47285203 Score: 212
Period size: 59 Copynumber: 3.1 Consensus size: 59
47285010 TAATAATAAT
*
47285020 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTTATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
* * * * ** * * *
47285079 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTATATTCA-ATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
47285139 TTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
47285199 TATTT
1 TATTT
47285204 AATACTAAGA
Statistics
Matches: 98, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
58 7 0.07
59 38 0.39
60 14 0.14
61 32 0.33
62 7 0.07
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
Found at i:47285230 original size:59 final size:58
Alignment explanation
Indices: 47285047--47285230 Score: 180
Period size: 59 Copynumber: 3.1 Consensus size: 58
47285037 TATAGTATTA
47285047 TATATTATGATTTTAGTAAATTTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAA-TTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
* * * * * *
47285106 TATA-TAT--TTTTATTAAATTATATTCAATAATAATT-ATTTTAAATTATATTTTA-TAGTATT
1 TATATTATGATTTTAGTAAATTATA-T-AAGAATATTTAATATT-AA-GA-ATTTTATTA--AAT
*
47285166 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAGAATTTTATTAAAT
1 -TATATTATGATTTTAGTAAATT-ATATAAGAATATTTAATATTAAGAATTTTATTAAAT
47285226 TATAT
1 TATAT
47285231 ATTTTAATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
55 5 0.05
56 14 0.14
57 10 0.10
58 6 0.06
59 15 0.15
60 4 0.04
61 10 0.10
62 6 0.06
63 10 0.10
64 15 0.15
65 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
TATATTATGATTTTAGTAAATTATATAAGAATATTTAATATTAAGAATTTTATTAAAT
Found at i:47285248 original size:16 final size:17
Alignment explanation
Indices: 47285214--47285252 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
47285204 AATACTAAGA
47285214 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
47285231 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAATATAT
47285247 ATTTTA
1 ATTTTA
47285253 TAATAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:47285256 original size:18 final size:18
Alignment explanation
Indices: 47285214--47285248 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
47285204 AATACTAAGA
*
47285214 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
47285231 ATTTTAATTAAAATATAT
1 ATTTTAATTAAAATATAT
47285249 TTTATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:47290647 original size:24 final size:25
Alignment explanation
Indices: 47290610--47290661 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
47290600 CAAAAAATTT
** *
47290610 AATATAAACTAAAAACTC-AACCCA
1 AATATAAAAAAAAAACCCAAACCCA
47290634 AATATAAAAAAAAAACCCAAACCCA
1 AATATAAAAAAAAAACCCAAACCCA
47290659 AAT
1 AAT
47290662 TAATAGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.63, C:0.23, G:0.00, T:0.13
Consensus pattern (25 bp):
AATATAAAAAAAAAACCCAAACCCA
Found at i:47294352 original size:9 final size:9
Alignment explanation
Indices: 47294338--47294368 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47294328 GTTAAACGAA
47294338 TCGAGTTAT
1 TCGAGTTAT
*
47294347 TCGAGTTAA
1 TCGAGTTAT
47294356 TCGAGTTAT
1 TCGAGTTAT
47294365 TCGA
1 TCGA
47294369 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47294436 original size:9 final size:9
Alignment explanation
Indices: 47294419--47294455 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47294409 TGAGTTTTCG
47294419 AATTCGAAT
1 AATTCGAAT
*
47294428 AACTCGAAT
1 AATTCGAAT
*
47294437 AATTCGAAA
1 AATTCGAAT
47294446 AATTCGAAT
1 AATTCGAAT
47294455 A
1 A
47294456 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.27
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47296318 original size:13 final size:14
Alignment explanation
Indices: 47296287--47296319 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47296277 ATATTACGTT
47296287 TTTTTCAAAACTAA
1 TTTTTCAAAACTAA
47296301 TTTTTCAAAA-TATA
1 TTTTTCAAAACTA-A
47296315 TTTTT
1 TTTTT
47296320 TAAGGATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTTCAAAACTAA
Found at i:47296558 original size:30 final size:30
Alignment explanation
Indices: 47296522--47296580 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
47296512 TTAATACAAA
*
47296522 AAAAAAATCAATCTTTGTGAGTCAAATTTT
1 AAAAAAATCAACCTTTGTGAGTCAAATTTT
47296552 AAAAAAATCAACCTTTGTGAGTCAAATTT
1 AAAAAAATCAACCTTTGTGAGTCAAATTT
47296581 CTCTCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
AAAAAAATCAACCTTTGTGAGTCAAATTTT
Found at i:47298465 original size:27 final size:27
Alignment explanation
Indices: 47298400--47298695 Score: 243
Period size: 27 Copynumber: 11.0 Consensus size: 27
47298390 AAACCCTAAA
*
47298400 ATAGGGTAAAATGA-TCGAAATATCCC-
1 ATAGGGTAAAATGACT-GAAATACCCCT
*
47298426 ATAAGGTAAAATGACTGAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCCT
**
47298453 ATAGGGTAAAATGACCAAAATA-CCCT
1 ATAGGGTAAAATGACTGAAATACCCCT
*
47298479 CATAGGGTAAAATGA-TCGAAATACCCCC
1 -ATAGGGTAAAATGACT-GAAATACCCCT
* * *
47298507 ATAGGATAAAATAACCGAAATACCCC-
1 ATAGGGTAAAATGACTGAAATACCCCT
** **
47298533 ATAACGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACTGAAATACCCCT
* * *
47298560 TTAAGGTAAAATGA-TCGAAATACCCCC
1 ATAGGGTAAAATGACT-GAAATACCCCT
* *
47298587 ATAGGATAAAATGACCGAAATA-CCCT
1 ATAGGGTAAAATGACTGAAATACCCCT
* *
47298613 CATAGGGTAGAATGACAGAAATACTCCC-
1 -ATAGGGTAAAATGACTGAAATAC-CCCT
* *
47298641 ATAAGGTAAAATGAC-CAAACTA-CCCT
1 ATAGGGTAAAATGACTGAAA-TACCCCT
**
47298667 CATAGGGTAAAATGACTGTTATACCCCT
1 -ATAGGGTAAAATGACTGAAATACCCCT
47298695 A
1 A
47298696 GGAGATGAAA
Statistics
Matches: 217, Mismatches: 36, Indels: 33
0.76 0.13 0.12
Matches are distributed among these distances:
25 3 0.01
26 53 0.24
27 150 0.69
28 8 0.04
29 3 0.01
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATGACTGAAATACCCCT
Found at i:47298504 original size:54 final size:52
Alignment explanation
Indices: 47298400--47298682 Score: 311
Period size: 54 Copynumber: 5.3 Consensus size: 52
47298390 AAACCCTAAA
* *
47298400 ATAGGGTAAAATGATCGAAATATCCCATAAGGTAAAATGACTGAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGAC-GAAATACCCCT
* * *
47298453 ATAGGGTAAAATGACCAAAATACCCTCATAGGGTAAAATGATCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCC-CATAAGGTAAAATGA-CGAAATACCCCT
* * * *
47298507 ATAGGATAAAATAACCGAAATACCCCATAACGTAAAATGACCAAAATACCCCT
1 ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGA-CGAAATACCCCT
* * *
47298560 TTAAGGTAAAATGATCGAAATACCCCCAT-AGGATAAAATGACCGAAATA-CCCT
1 ATAGGGTAAAATGACCGAAATA-CCCCATAAGG-TAAAATGA-CGAAATACCCCT
* * *
47298613 CATAGGGTAGAATGACAGAAATACTCCCATAAGGTAAAATGACCAAACTA-CCCT
1 -ATAGGGTAAAATGACCGAAATAC-CCCATAAGGTAAAATGACGAAA-TACCCCT
47298667 CATAGGGTAAAATGAC
1 -ATAGGGTAAAATGAC
47298683 TGTTATACCC
Statistics
Matches: 195, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
53 73 0.37
54 118 0.61
55 4 0.02
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.19
Consensus pattern (52 bp):
ATAGGGTAAAATGACCGAAATACCCCATAAGGTAAAATGACGAAATACCCCT
Found at i:47298542 original size:80 final size:79
Alignment explanation
Indices: 47298404--47298682 Score: 359
Period size: 80 Copynumber: 3.5 Consensus size: 79
47298394 CCTAAAATAG
* *
47298404 GGTAAAATGATCGAAATA-TCCCATAAGG-TAAAATGACTGAAATACCCCTATAGGGTAAAATGA
1 GGTAAAATGATCGAAATACCCCCAT-AGGATAAAATGACCGAAATACCCC-ATAGGGTAAAATGA
*
47298467 CCAAAATACCCTCATAG
64 CCAAAATACCC-CATAA
* **
47298484 GGTAAAATGATCGAAATACCCCCATAGGATAAAATAACCGAAATACCCCATAACGTAAAATGACC
1 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAGGGTAAAATGACC
*
47298549 AAAATACCCCTTTAA
66 AAAATACCCC-ATAA
*
47298564 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGGTAGAATGA-
1 GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCC-CATAGGGTAAAATGAC
47298628 CAGAAATACTCCCATAA
65 CA-AAATAC-CCCATAA
* * *
47298645 GGTAAAATGA-CCAAACTACCCTCATAGGGTAAAATGAC
1 GGTAAAATGATCGAAA-TACCCCCATAGGATAAAATGAC
47298683 TGTTATACCC
Statistics
Matches: 177, Mismatches: 15, Indels: 13
0.86 0.07 0.06
Matches are distributed among these distances:
79 1 0.01
80 99 0.56
81 74 0.42
82 3 0.02
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (79 bp):
GGTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCATAGGGTAAAATGACC
AAAATACCCCATAA
Found at i:47303979 original size:91 final size:91
Alignment explanation
Indices: 47303821--47304001 Score: 222
Period size: 91 Copynumber: 2.0 Consensus size: 91
47303811 GGTGGTCTAT
* * * * * * **
47303821 CCACATATTATCTGACAACTTTTATCTGTAATTAAGTTGTGTATTCACAACCATTTGGTAGTGTA
1 CCACATATTATATGACAACTTTTATATGCAATTAAGTTGTGTACTCACAACCATCTGGCAGCATA
*
47303886 TTAACTTGCAAC-TTTAGGTGGTTCAC
66 TTAACCTGCAACATTT-GGTGGTTCAC
* * *
47303912 CCACCTATTATATGA-AAGCTTTTATATGCAATTATGTTGTGTGCTCACAACCATCTGGCAGCAT
1 CCACATATTATATGACAA-CTTTTATATGCAATTAAGTTGTGTACTCACAACCATCTGGCAGCAT
47303976 ATTAACCTGCAACATTTGGTGGTTCA
65 ATTAACCTGCAACATTTGGTGGTTCA
47304002 TCCATAACCC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
90 2 0.03
91 71 0.93
92 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (91 bp):
CCACATATTATATGACAACTTTTATATGCAATTAAGTTGTGTACTCACAACCATCTGGCAGCATA
TTAACCTGCAACATTTGGTGGTTCAC
Found at i:47305874 original size:17 final size:17
Alignment explanation
Indices: 47305854--47305887 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47305844 TTAGAATTGG
47305854 ATTGAGAAATTAATTTA
1 ATTGAGAAATTAATTTA
47305871 ATTGAGAAATTAATTTA
1 ATTGAGAAATTAATTTA
47305888 GCTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTGAGAAATTAATTTA
Found at i:47311406 original size:778 final size:778
Alignment explanation
Indices: 47309912--47311460 Score: 3089
Period size: 778 Copynumber: 2.0 Consensus size: 778
47309902 GTTCAAAACA
47309912 AAATAGTCTCGAATGTCTGAAATAGATCAACAATACCAAAATAGTATAAACCAAGTTTTGAATAA
1 AAATAGTCTCGAATGTCTGAAATAGATCAACAATACCAAAATAGTATAAACCAAGTTTTGAATAA
47309977 CATAATTCAATTTGTTTAACCGAGCTCTTGTTGCATTGACCCATCCTAGGTTTGGGGGTTACCTG
66 CATAATTCAATTTGTTTAACCGAGCTCTTGTTGCATTGACCCATCCTAGGTTTGGGGGTTACCTG
47310042 AAAGTAAATAGACGGAGGTGAGCTTTCGAGTTCAGTGTGTAACTTATAAAAATAAAAACCACAGG
131 AAAGTAAATAGACGGAGGTGAGCTTTCGAGTTCAGTGTGTAACTTATAAAAATAAAAACCACAGG
47310107 TATAATTTTAAACATGCTTTTAGATATCATTTAGACATATTTTATAAATAGAACAAAAATAGTAC
196 TATAATTTTAAACATGCTTTTAGATATCATTTAGACATATTTTATAAATAGAACAAAAATAGTAC
47310172 ACATTAGATACAGATTAACAATCCTATCCCCATCTTCTACATATCATATTTGACCATCTCTACAC
261 ACATTAGATACAGATTAACAATCCTATCCCCATCTTCTACATATCATATTTGACCATCTCTACAC
47310237 ATCTTAAAGGGTATTAAATGCCCAACCAACCTCACACACCAATTAGTGTCGGTATGGCACTTTTC
326 ATCTTAAAGGGTATTAAATGCCCAACCAACCTCACACACCAATTAGTGTCGGTATGGCACTTTTC
47310302 AGAATATTTGTAGCTTAGCTGTTGAATCAAAAAGTGATATACCGCCAAATACAGATATACGTGGC
391 AGAATATTTGTAGCTTAGCTGTTGAATCAAAAAGTGATATACCGCCAAATACAGATATACGTGGC
47310367 CGAGCCACCAAATTAGGCAGATAAATTAAATTGCCCTCACTTCCTCCAAACATATACCTCCCATC
456 CGAGCCACCAAATTAGGCAGATAAATTAAATTGCCCTCACTTCCTCCAAACATATACCTCCCATC
47310432 CCAATGCACATGCAGAAATAACAAATATCAGAAATGTATATGAAATACATACTTTTTATAATAGA
521 CCAATGCACATGCAGAAATAACAAATATCAGAAATGTATATGAAATACATACTTTTTATAATAGA
47310497 TTTAGATCATGCTTAGCAAATAATAGTGTAACACCCCGAATTTTGGGCCTAGAAGAAATAGGTTT
586 TTTAGATCATGCTTAGCAAATAATAGTGTAACACCCCGAATTTTGGGCCTAGAAGAAATAGGTTT
47310562 TGAACAAGGTAACAGTTAGGAGACTGCACATAAATATTTAGTTGAGTAAGGAAGTGACACAAATA
651 TGAACAAGGTAACAGTTAGGAGACTGCACATAAATATTTAGTTGAGTAAGGAAGTGACACAAATA
47310627 TCTGTCAGCTTTAGTGGTTATGTGTTCTGAGAGTGTTTGGGAGGTCTCAAGTTCGAATGTCTG
716 TCTGTCAGCTTTAGTGGTTATGTGTTCTGAGAGTGTTTGGGAGGTCTCAAGTTCGAATGTCTG
47310690 AAATAGTCTCGAATGTCTGAAATAGATCAACAATACCAAAATAGTATAAACCAAGTTTTGAATAA
1 AAATAGTCTCGAATGTCTGAAATAGATCAACAATACCAAAATAGTATAAACCAAGTTTTGAATAA
47310755 CATAATTCAATTTGTTTAACCGAGCTCTTGTTGCATTGACCCATCCTAGGTTTGGGGGTTACCTG
66 CATAATTCAATTTGTTTAACCGAGCTCTTGTTGCATTGACCCATCCTAGGTTTGGGGGTTACCTG
47310820 AAAGTAAATAGACGGAGGTGAGCTTTCGAGTTCAGTGTGTAACTTATAAAAATAAAAACCACAGG
131 AAAGTAAATAGACGGAGGTGAGCTTTCGAGTTCAGTGTGTAACTTATAAAAATAAAAACCACAGG
47310885 TATAATTTTAAACATGCTTTTAGATATCATTTAGACATATTTTATAAATAGAACAAAAATAGTAC
196 TATAATTTTAAACATGCTTTTAGATATCATTTAGACATATTTTATAAATAGAACAAAAATAGTAC
47310950 ACATTAGATACAGATTAACAATCCTATCCCCATCTTCTACATATCATATTTGACCATCTCTACAC
261 ACATTAGATACAGATTAACAATCCTATCCCCATCTTCTACATATCATATTTGACCATCTCTACAC
47311015 ATCTTAAAGGGTATTAAATGCCCAACCAACCTCACACACCAATTAGTGTCGGTATGGCACTTTTC
326 ATCTTAAAGGGTATTAAATGCCCAACCAACCTCACACACCAATTAGTGTCGGTATGGCACTTTTC
47311080 AGAATATTTGTAGCTTAGCTGTTGAATCAAAAAGTGATATACCGCCAAATACAGATATACGTGGC
391 AGAATATTTGTAGCTTAGCTGTTGAATCAAAAAGTGATATACCGCCAAATACAGATATACGTGGC
*
47311145 CGAGCCACCAAATTAGGCAGATAAATTAAATTGCCCTCACTTCTTCCAAACATATACCTCCCATC
456 CGAGCCACCAAATTAGGCAGATAAATTAAATTGCCCTCACTTCCTCCAAACATATACCTCCCATC
47311210 CCAATGCACATGCAGAAATAACAAATATCAGAAATGTATATGAAATACATACTTTTTATAATAGA
521 CCAATGCACATGCAGAAATAACAAATATCAGAAATGTATATGAAATACATACTTTTTATAATAGA
47311275 TTTAGATCATGCTTAGCAAATAATAGTGTAACACCCCGAATTTTGGGCCTAGAAGAAATAGGTTT
586 TTTAGATCATGCTTAGCAAATAATAGTGTAACACCCCGAATTTTGGGCCTAGAAGAAATAGGTTT
47311340 TGAACAAGGTAACAGTTAGGAGACTGCACATAAATATTTAGTTGAGTAAGGAAGTGACACAAATA
651 TGAACAAGGTAACAGTTAGGAGACTGCACATAAATATTTAGTTGAGTAAGGAAGTGACACAAATA
47311405 TCTGTCAGCTTTAGTGGTTATGTGTTCTGAGAGTGTTTGGGAGGTCTCAAGTTCGA
716 TCTGTCAGCTTTAGTGGTTATGTGTTCTGAGAGTGTTTGGGAGGTCTCAAGTTCGA
47311461 GCCTTCGCTT
Statistics
Matches: 770, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
778 770 1.00
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (778 bp):
AAATAGTCTCGAATGTCTGAAATAGATCAACAATACCAAAATAGTATAAACCAAGTTTTGAATAA
CATAATTCAATTTGTTTAACCGAGCTCTTGTTGCATTGACCCATCCTAGGTTTGGGGGTTACCTG
AAAGTAAATAGACGGAGGTGAGCTTTCGAGTTCAGTGTGTAACTTATAAAAATAAAAACCACAGG
TATAATTTTAAACATGCTTTTAGATATCATTTAGACATATTTTATAAATAGAACAAAAATAGTAC
ACATTAGATACAGATTAACAATCCTATCCCCATCTTCTACATATCATATTTGACCATCTCTACAC
ATCTTAAAGGGTATTAAATGCCCAACCAACCTCACACACCAATTAGTGTCGGTATGGCACTTTTC
AGAATATTTGTAGCTTAGCTGTTGAATCAAAAAGTGATATACCGCCAAATACAGATATACGTGGC
CGAGCCACCAAATTAGGCAGATAAATTAAATTGCCCTCACTTCCTCCAAACATATACCTCCCATC
CCAATGCACATGCAGAAATAACAAATATCAGAAATGTATATGAAATACATACTTTTTATAATAGA
TTTAGATCATGCTTAGCAAATAATAGTGTAACACCCCGAATTTTGGGCCTAGAAGAAATAGGTTT
TGAACAAGGTAACAGTTAGGAGACTGCACATAAATATTTAGTTGAGTAAGGAAGTGACACAAATA
TCTGTCAGCTTTAGTGGTTATGTGTTCTGAGAGTGTTTGGGAGGTCTCAAGTTCGAATGTCTG
Found at i:47313706 original size:81 final size:79
Alignment explanation
Indices: 47313557--47314100 Score: 520
Period size: 81 Copynumber: 6.7 Consensus size: 79
47313547 GCCAAAAATA
* * * * *
47313557 GGTAAAATGACCG-AATACCCCATAGGGTAGAATGACCGAAATACTCTCGTAAGGTAGAATGACC
1 GGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACC
47313621 AAAATATCCCTATAG
66 AAAATA-CCCTATAG
* * * *
47313636 GGTAAAATGACCGAAATAACCCCAAAGGGTAAAATGACCCAAATACCCCCATAGGGTAAAATAAC
1 GGTAAAATGACCGAAAT-ACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGAC
*
47313701 TAAAATACCTCTATAG
65 CAAAATACC-CTATAG
* * ** * *
47313717 GGTAAAATGACCAAAATACCCCAATAGGGTAAAATGATCGAAATACCCTTATAGGGTAGAATGAT
1 GGTAAAATGACCGAAATACCCCAA-AGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGAC
*
47313782 CGAAATACCCATATAG
65 CAAAATACCC-TATAG
* * ** * *
47313798 GGTAAAATGATCGAAATACTCTCCATAGGGTAAAATGACCGAAATGTCCCTATAAGATAGAATGA
1 GGTAAAATGACCGAAATAC-C-CCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGA
*
47313863 CCAAAATACCCTCATAT
64 CCAAAATACCCT-ATAG
* ** *
47313880 GGTAGAATGATTGAAATACCCCAATAGGGGTAAAATGACCGAAATACCCCCATAAGATA-AATTG
1 GGTAAAATGACCGAAATACCCCAA-A-GGGTAAAATGACCGAAATACCCCCATAAGGTAGAA-TG
*
47313944 ACCGAAATACCCCTATAG
63 ACCAAAATA-CCCTATAG
** * * * *** * *
47313962 TTTAAAATAACCAAAATACCCTCATAA-GATAAAATGAAAAAAATACCCTCATAAGGTAGGATGA
1 GGTAAAATGACCGAAATACCC-CA-AAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGA
47314026 CCAAAATACCCCTATAG
64 CCAAAATA-CCCTATAG
* * * *
47314043 GGTAAAATGATCGAAATACCTCCATAA-GGTCAAATGACCGAAATAGCCCCATAGGGTA
1 GGTAAAATGACCGAAATACC-CCA-AAGGGTAAAATGACCGAAATACCCCCATAAGGTA
47314101 CAATAATTGA
Statistics
Matches: 381, Mismatches: 68, Indels: 30
0.80 0.14 0.06
Matches are distributed among these distances:
79 13 0.03
80 16 0.04
81 220 0.58
82 121 0.32
83 10 0.03
84 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (79 bp):
GGTAAAATGACCGAAATACCCCAAAGGGTAAAATGACCGAAATACCCCCATAAGGTAGAATGACC
AAAATACCCTATAG
Found at i:47314133 original size:27 final size:26
Alignment explanation
Indices: 47313557--47314131 Score: 468
Period size: 27 Copynumber: 21.3 Consensus size: 26
47313547 GCCAAAAATA
47313557 GGTAAAATGACCG-AATACCCCATAG
1 GGTAAAATGACCGAAATACCCCATAG
* * * *
47313582 GGTAGAATGACCGAAATACTCTCGTAA
1 GGTAAAATGACCGAAATAC-CCCATAG
* * *
47313609 GGTAGAATGACCAAAATATCCCTATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
47313636 GGTAAAATGACCGAAATAACCCCAAAG
1 GGTAAAATGACCGAAAT-ACCCCATAG
*
47313663 GGTAAAATGACCCAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* ** *
47313690 GGTAAAATAACTAAAATACCTCTATAG
1 GGTAAAATGACCGAAATACC-CCATAG
*
47313717 GGTAAAATGACCAAAATACCCCAATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
47313744 GGTAAAATGATCGAAATACCCTTATAG
1 GGTAAAATGACCGAAATACCC-CATAG
* * *
47313771 GGTAGAATGATCGAAATACCCATATAG
1 GGTAAAATGACCGAAATACCC-CATAG
*
47313798 GGTAAAATGATCGAAATACTCTCCATAG
1 GGTAAAATGACCGAAATAC-C-CCATAG
* * *
47313826 GGTAAAATGACCGAAATGTCCCTATAA
1 GGTAAAATGACCGAAAT-ACCCCATAG
* * * *
47313853 GATAGAATGACCAAAATACCCTCATAT
1 GGTAAAATGACCGAAATACCC-CATAG
* **
47313880 GGTAGAATGATTGAAATACCCCAATAGG
1 GGTAAAATGACCGAAATACCCC-ATA-G
*
47313908 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATA-CCCCATAG
* *
47313935 GATAAATTGACCGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
** * * *
47313962 TTTAAAATAACCAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCC-CATAG
* *** *
47313989 GATAAAATGAAAAAAATACCCTCATAA
1 GGTAAAATGACCGAAATACCC-CATAG
** *
47314016 GGTAGGATGACCAAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
47314043 GGTAAAATGATCGAAATACCTCCATAA
1 GGTAAAATGACCGAAATACC-CCATAG
*
47314070 GGTCAAATGACCGAAATAGCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* * **
47314097 GGTACAATAATTGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACC-CCATAG
47314124 GGTAAAAT
1 GGTAAAAT
47314132 AACTGTTATA
Statistics
Matches: 447, Mismatches: 82, Indels: 40
0.79 0.14 0.07
Matches are distributed among these distances:
25 12 0.03
26 20 0.04
27 362 0.81
28 47 0.11
29 6 0.01
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:47315509 original size:15 final size:14
Alignment explanation
Indices: 47315486--47315521 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47315476 CACATTTCAC
*
47315486 TATTTTGTCTTTTG
1 TATTTTGTCTTTTA
47315500 TATTTATGTCTTTTA
1 TATTT-TGTCTTTTA
47315515 TATTTTG
1 TATTTTG
47315522 CATGCACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (14 bp):
TATTTTGTCTTTTA
Found at i:47320263 original size:22 final size:23
Alignment explanation
Indices: 47320228--47320285 Score: 82
Period size: 22 Copynumber: 2.5 Consensus size: 23
47320218 GTGACTAAGC
*
47320228 GTGCAAGTGATAGTGGCACTACA
1 GTGCAAGTGATAGTGACACTACA
*
47320251 GTGCAAGTG-TAGTGACACTTCA
1 GTGCAAGTGATAGTGACACTACA
47320273 GTGCAAAGTGATA
1 GTGC-AAGTGATA
47320286 TCCACACGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.48
23 14 0.45
24 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (23 bp):
GTGCAAGTGATAGTGACACTACA
Found at i:47321224 original size:11 final size:11
Alignment explanation
Indices: 47321208--47321239 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
47321198 GTAACTAATA
*
47321208 GATCCAAGTCT
1 GATCCAAATCT
47321219 GATCCAAATCT
1 GATCCAAATCT
47321230 GATCCAAATC
1 GATCCAAATC
47321240 GTAGGATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (11 bp):
GATCCAAATCT
Found at i:47331461 original size:31 final size:32
Alignment explanation
Indices: 47331426--47331488 Score: 119
Period size: 31 Copynumber: 2.0 Consensus size: 32
47331416 AGGCAAATTA
47331426 CAAGAGTAATTGAATCCTAAT-AAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
47331457 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAAACTCTTT
47331489 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 21 0.68
32 10 0.32
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (32 bp):
CAAGAGTAATTGAATCCTAATAAAAACTCTTT
Found at i:47335142 original size:32 final size:32
Alignment explanation
Indices: 47335101--47335164 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
47335091 AAAATAATAA
47335101 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
1 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
47335133 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
1 ACACTTAATTAAAATTGTTCCTTTTCGATTTG
47335165 TCCAGGATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (32 bp):
ACACTTAATTAAAATTGTTCCTTTTCGATTTG
Found at i:47335660 original size:37 final size:36
Alignment explanation
Indices: 47335591--47335682 Score: 96
Period size: 37 Copynumber: 2.4 Consensus size: 36
47335581 TTAAATTTAA
*
47335591 TATTAAAATAATCACTTTAATCTTAAATTAATA-AAATAC
1 TATTAAAATAAT-A-TTAAAT-TTAAATTAATATAAA-AC
* * *
47335630 TATTAAGATAAGTATTAAATTTAATTTAATATTAAAC
1 TATTAAAATAA-TATTAAATTTAAATTAATATAAAAC
47335667 TATTAAAATAATATTA
1 TATTAAAATAATATTA
47335683 TTTTTACAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 7 0.15
39 11 0.24
40 1 0.02
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (36 bp):
TATTAAAATAATATTAAATTTAAATTAATATAAAAC
Found at i:47341202 original size:13 final size:13
Alignment explanation
Indices: 47341184--47341214 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
47341174 CACATGACTA
47341184 ATTTCATATAACC
1 ATTTCATATAACC
*
47341197 ATTTCATATATCC
1 ATTTCATATAACC
47341210 ATTTC
1 ATTTC
47341215 CATTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (13 bp):
ATTTCATATAACC
Found at i:47357867 original size:46 final size:46
Alignment explanation
Indices: 47357777--47357890 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
47357767 AAACTGCCAA
*
47357777 TGGCTATGGATACACAACAAA-ATCCCTACAGACGAAATTAACCTT
1 TGGCTATGGATACACAACAAATATACCTACAGACGAAATTAACCTT
* * *
47357822 TGGCTATGGATTACACAACAAATA-ACCTATAGATGGAATCT-ACCTT
1 TGGCTATGGA-TACACAACAAATATACCTACAGACGAAAT-TAACCTT
* * *
47357868 TGGCTGTAGATACACAAAAAATA
1 TGGCTATGGATACACAACAAATA
47357891 CCCGCAAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
45 22 0.37
46 35 0.59
47 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (46 bp):
TGGCTATGGATACACAACAAATATACCTACAGACGAAATTAACCTT
Found at i:47357890 original size:45 final size:44
Alignment explanation
Indices: 47357817--47357933 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
47357807 GACGAAATTA
* * *
47357817 ACCTTTGGCTATGGATTACACAACAAATAACC-TATAGATGGAATCT
1 ACCTTTGGCTGTGGA-TACACAAAAAATAACCGCA-A-ATGGAATCT
* * *
47357863 ACCTTTGGCTGTAGATACACAAAAAATACCCGCAAATGGAATTT
1 ACCTTTGGCTGTGGATACACAAAAAATAACCGCAAATGGAATCT
* * *
47357907 GCCTCTAGCTGTGGATACACAAAAAAT
1 ACCTTTGGCTGTGGATACACAAAAAAT
47357934 TTTGCAAATA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 31 0.52
45 15 0.25
46 14 0.23
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.26
Consensus pattern (44 bp):
ACCTTTGGCTGTGGATACACAAAAAATAACCGCAAATGGAATCT
Found at i:47360115 original size:20 final size:19
Alignment explanation
Indices: 47360071--47360127 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
47360061 AACACTATGA
* *
47360071 ACCACTCCATTCACTTTCTT
1 ACCA-TCCATTTACTTACTT
47360091 ACCATTCCATTTACTTACTT
1 ACCA-TCCATTTACTTACTT
*
47360111 TCCATCTCATTTACTTA
1 ACCATC-CATTTACTTA
47360128 GCATAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (19 bp):
ACCATCCATTTACTTACTT
Found at i:47363201 original size:20 final size:20
Alignment explanation
Indices: 47363163--47363201 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47363153 TAATCTTAAT
*
47363163 TTTTTAAGATAATTTAATTA
1 TTTTTAAGATAATTAAATTA
47363183 TTTTTAA-ATATATTAAATT
1 TTTTTAAGATA-ATTAAATT
47363202 TTATCTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTAAGATAATTAAATTA
Found at i:47363575 original size:23 final size:24
Alignment explanation
Indices: 47363532--47363576 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
47363522 AACACATTAT
47363532 ATATTATTTATAAAAATTATAAAA
1 ATATTATTTATAAAAATTATAAAA
47363556 ATATTA-TTATAATAAA-TATAA
1 ATATTATTTATAA-AAATTATAA
47363577 TATTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATTATTTATAAAAATTATAAAA
Found at i:47364157 original size:23 final size:22
Alignment explanation
Indices: 47364109--47364159 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
47364099 TTTAATTAAA
* *
47364109 ATTAAAGAGAATATCATGTGTC
1 ATTAAAGAGAATATCACGTATC
*
47364131 ATTAAAGAGAAGTATCACGTATT
1 ATTAAAGAGAA-TATCACGTATC
47364154 ATTAAA
1 ATTAAA
47364160 ATAAATCGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (22 bp):
ATTAAAGAGAATATCACGTATC
Found at i:47365480 original size:41 final size:41
Alignment explanation
Indices: 47365375--47365480 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 41
47365365 TTTTTATTTC
*
47365375 ATATTGTTTCAAACTTTTTTTATTTTTAAATTAATGTTTTGATG
1 ATATT-TTT-AAATTTTTTTTATTTTTAAATTAATGTTTT-ATG
* *
47365419 ATATTTTTTAATTATTTTTATTTTT-AATTAATGTATTT-T-
1 ATATTTTTAAATTTTTTTTATTTTTAAATTAATGT-TTTATG
*
47365458 TTATTTTTAAATATTTTATTTAT
1 ATATTTTTAAAT-TTTT-TTTAT
47365481 AAAATCAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
39 10 0.19
40 4 0.08
41 14 0.26
42 17 0.32
43 3 0.06
44 5 0.09
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (41 bp):
ATATTTTTAAATTTTTTTTATTTTTAAATTAATGTTTTATG
Found at i:47365703 original size:139 final size:142
Alignment explanation
Indices: 47365542--47365812 Score: 379
Period size: 141 Copynumber: 1.9 Consensus size: 142
47365532 TTGTAAAAAT
* * *
47365542 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAATAC-AAATGTAAGTAGTAGAAGAACCAAA
1 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACAAAATATAAGGAGTAGAAGAACCAAA
* *
47365606 CTCGAGACTCAAGGATA-TAATTACAACTATCTAACCATCTAA-TAAAAAACTAGTATGTTAAAA
66 CTCGAGACTCAAGGA-AGTAATTACAACTATCTAACAATCTAACTAAAAAACTAATATGTTAAAA
47365669 AACATTAATTAAA
130 AACATTAATTAAA
* * * * *
47365682 AATT-AAAAAAATTTGAAGCAACATGAAATAAAAAACACATAAATATGAGGAGTAGAGGTATCAA
1 AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACA-AAATATAAGGAGTAGAAGAACCAA
* * *
47365746 ACTCGAGACTTAAGGAAGTAATTGCAACTATCTAACAATCTAACTAAATAACTAATATGTTAAAA
65 ACTCGAGACTCAAGGAAGTAATTACAACTATCTAACAATCTAACTAAAAAACTAATATGTTAAAA
47365811 AA
130 AA
47365813 TTAAAAAGCT
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
139 32 0.28
140 5 0.04
141 56 0.49
142 21 0.18
ACGTcount: A:0.53, C:0.12, G:0.11, T:0.23
Consensus pattern (142 bp):
AATTAAAAAAAACTTGAAGCAACATGAAATAAAAAACACAAAATATAAGGAGTAGAAGAACCAAA
CTCGAGACTCAAGGAAGTAATTACAACTATCTAACAATCTAACTAAAAAACTAATATGTTAAAAA
ACATTAATTAAA
Found at i:47372467 original size:52 final size:53
Alignment explanation
Indices: 47372409--47372512 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 53
47372399 TAATTTTTGT
* **
47372409 AAAATAGGGG-AAAATTTACAAAATTTAAAAAA-ATGGGCAAAACTATAAAATA
1 AAAATAGGGGTAAAA-CTACAAAATTTAAAAAATAAAGGCAAAACTATAAAATA
*
47372461 AAAATAGGGGTAAAACTATAAAATTTAAAAAATAAAGGCAAAACTATAAAAT
1 AAAATAGGGGTAAAACTACAAAATTTAAAAAATAAAGGCAAAACTATAAAAT
47372513 CTAAAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
52 25 0.54
53 21 0.46
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (53 bp):
AAAATAGGGGTAAAACTACAAAATTTAAAAAATAAAGGCAAAACTATAAAATA
Done.