Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 41 of 129
Found at i:8316155 original size:20 final size:19
Alignment explanation
Indices: 8316116--8316159 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
8316106 CATTTTATTT
8316116 TATAAAAATTTAAAACATA
1 TATAAAAATTTAAAACATA
8316135 TATAAAAATTAATAAAA-ATA
1 TATAAAAATT--TAAAACATA
8316155 TATAA
1 TATAA
8316160 TTTAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TATAAAAATTTAAAACATA
Found at i:8316249 original size:5 final size:5
Alignment explanation
Indices: 8316239--8316269 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
8316229 TATATTTGAT
*
8316239 TTAAA TCAAA TTAAA TTAAA TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
8316270 CGAATCGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TTAAA
Found at i:8332730 original size:8 final size:8
Alignment explanation
Indices: 8332717--8332747 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8332707 AGACAGAATA
8332717 TTTTTTTC
1 TTTTTTTC
8332725 TTTTTTTC
1 TTTTTTTC
*
8332733 CTTTTTTC
1 TTTTTTTC
8332741 TTTTTTT
1 TTTTTTT
8332748 TTGAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:8332795 original size:9 final size:8
Alignment explanation
Indices: 8332783--8332848 Score: 55
Period size: 8 Copynumber: 8.0 Consensus size: 8
8332773 CTTTTTTTTC
8332783 TAAAAACAA
1 TAAAAA-AA
8332792 TAAAAAAA
1 TAAAAAAA
*
8332800 TCAAAAAA
1 TAAAAAAA
*
8332808 TAAAATATGA
1 TAAAA-A-AA
*
8332818 TTAAAAAA
1 TAAAAAAA
8332826 TAAAATAAA
1 TAAAA-AAA
8332835 -AAAAAAA
1 TAAAAAAA
8332842 -AAAAAAA
1 TAAAAAAA
8332849 AACCTGTGGT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
7 10 0.21
8 22 0.46
9 11 0.23
10 5 0.10
ACGTcount: A:0.80, C:0.03, G:0.02, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:8333330 original size:20 final size:19
Alignment explanation
Indices: 8333293--8333330 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8333283 TTTTATAACC
*
8333293 CTTGAATTCAGCCTAAAAA
1 CTTGAATTCACCCTAAAAA
8333312 CTTGAATTCACCTCTAAAA
1 CTTGAATTCACC-CTAAAA
8333331 TCCATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (19 bp):
CTTGAATTCACCCTAAAAA
Found at i:8333651 original size:6 final size:6
Alignment explanation
Indices: 8333642--8333731 Score: 65
Period size: 6 Copynumber: 15.2 Consensus size: 6
8333632 AGCAAAAAAG
* * * *
8333642 AAAACA AAAA-A AAAATA AAAATA AAAGTA AAAATA ATAATA ATAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
** * * * * * *
8333689 GTAATA ATAATA ATAATA ATAATA ATAATA ATAATA ATAATA A
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA A
8333732 TAATGATGAT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
5 5 0.06
6 73 0.94
ACGTcount: A:0.72, C:0.01, G:0.02, T:0.24
Consensus pattern (6 bp):
AAAATA
Found at i:8333681 original size:3 final size:3
Alignment explanation
Indices: 8333655--8333766 Score: 145
Period size: 3 Copynumber: 37.3 Consensus size: 3
8333645 ACAAAAAAAA
* * *
8333655 AAT AAA AAT AA- AAGT AAA AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
8333700 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8333748 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
8333767 GAATTTAATT
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.02
3 95 0.96
4 2 0.02
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:8335593 original size:31 final size:32
Alignment explanation
Indices: 8335505--8335594 Score: 105
Period size: 31 Copynumber: 2.9 Consensus size: 32
8335495 AAATAATCTT
* *
8335505 TATATTCATA-AAAATTTTAAAATTTAATTTT
1 TATATTCATATAAAATTTTAAAATTTAGTTTC
** *
8335536 TATATTCGCAT-ATATTTTAAAATTTAGTTTC
1 TATATTCATATAAAATTTTAAAATTTAGTTTC
*
8335567 TGTATTCATATAAAATTTT-AAATTTAGT
1 TATATTCATATAAAATTTTAAAATTTAGT
8335595 CTTTAATATG
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
31 42 0.88
32 6 0.12
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (32 bp):
TATATTCATATAAAATTTTAAAATTTAGTTTC
Found at i:8335647 original size:19 final size:20
Alignment explanation
Indices: 8335605--8335655 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
8335595 CTTTAATATG
8335605 AAAAATATTTTAAATATTTT
1 AAAAATATTTTAAATATTTT
* *
8335625 -AAAATTTTTTTAAT-TTTT
1 AAAAATATTTTAAATATTTT
8335643 AAAAAATATTTTA
1 -AAAAATATTTTA
8335656 GTCATTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AAAAATATTTTAAATATTTT
Found at i:8335738 original size:28 final size:27
Alignment explanation
Indices: 8335706--8335782 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 27
8335696 TTTATTATAT
8335706 ATAATTAATTATTAATAATTTCATATTA
1 ATAATTAATTATTAATAATTT-ATATTA
* *
8335734 ATAATATTATTATT-ATCATTTATATTA
1 ATAAT-TAATTATTAATAATTTATATTA
8335761 ATCAATTATATTATTAATAATT
1 AT-AATTA-ATTATTAATAATT
8335783 GAAATTAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
27 9 0.22
28 20 0.49
29 12 0.29
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (27 bp):
ATAATTAATTATTAATAATTTATATTA
Found at i:8336497 original size:31 final size:31
Alignment explanation
Indices: 8336414--8336497 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
8336404 TATTAAGGAG
* * * *
8336414 TTAAATTTTAAATTTTGTACGGGTATAGAAA
1 TTAAATTTCAAATTTTGTATGAGTACAGAAA
* *
8336445 CTAATTTTCAAATTTTGTATGAGTACAGAAA
1 TTAAATTTCAAATTTTGTATGAGTACAGAAA
*
8336476 TTAAATTTCAAATTTTATATGA
1 TTAAATTTCAAATTTTGTATGA
8336498 ATATAAGAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (31 bp):
TTAAATTTCAAATTTTGTATGAGTACAGAAA
Found at i:8336856 original size:22 final size:20
Alignment explanation
Indices: 8336809--8336847 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8336799 ATTATTTCAC
8336809 ATAATTATATTATTTAAAAA
1 ATAATTATATTATTTAAAAA
8336829 ATAATTAT-TTATTATAAAA
1 ATAATTATATTATT-TAAAA
8336848 TAGTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATTATATTATTTAAAAA
Found at i:8336896 original size:7 final size:7
Alignment explanation
Indices: 8336886--8336910 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8336876 CATTTAACTC
8336886 TAATATA
1 TAATATA
8336893 TAATATA
1 TAATATA
8336900 TAATATA
1 TAATATA
8336907 TAAT
1 TAAT
8336911 TAATTTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAATATA
Found at i:8343443 original size:2 final size:2
Alignment explanation
Indices: 8343399--8343423 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8343389 CAATGCACGG
8343399 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
8343424 GCAAAACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:8345691 original size:15 final size:16
Alignment explanation
Indices: 8345666--8345707 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8345656 CGTTAGTAAT
*
8345666 TTATAAAATAAATGTA
1 TTATTAAATAAATGTA
*
8345682 -TATTAAATAAATTTA
1 TTATTAAATAAATGTA
8345697 TTTATTAAATA
1 -TTATTAAATA
8345708 TTTAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
TTATTAAATAAATGTA
Found at i:8346124 original size:21 final size:20
Alignment explanation
Indices: 8346089--8346141 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
8346079 CTTGTATGTT
* *
8346089 ATTTTTATAATAATACATGAAT
1 ATTTTTA-AAAAATA-ATGAAA
* *
8346111 TTTTTTAAAAAATAATTAAA
1 ATTTTTAAAAAATAATGAAA
8346131 ATTTTTAAAAA
1 ATTTTTAAAAA
8346142 TTATTAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 14 0.54
21 6 0.23
22 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
ATTTTTAAAAAATAATGAAA
Found at i:8347204 original size:30 final size:31
Alignment explanation
Indices: 8347170--8347245 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
8347160 AATTTGCACC
8347170 CAAATAAACCATTAATCATTAATTTATA-TT
1 CAAATAAACCATTAATCATTAATTTATACTT
** ** *
8347200 CAAATAAACTTTTAATTTTTAATTTGTACTT
1 CAAATAAACCATTAATCATTAATTTATACTT
*
8347231 -AAATAAGCCATTAAT
1 CAAATAAACCATTAAT
8347246 GAAATCAATC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (31 bp):
CAAATAAACCATTAATCATTAATTTATACTT
Found at i:8347322 original size:28 final size:28
Alignment explanation
Indices: 8347291--8347350 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
8347281 TAGATAAATC
*
8347291 AAAAG-ATAATGATTTATTTAAGTATAA-T
1 AAAAGTATAAGGATTT-TTTAAGTA-AAGT
*
8347319 AAAAGTATAAGGCTTTTTTAAGTAAAGT
1 AAAAGTATAAGGATTTTTTAAGTAAAGT
8347347 AAAA
1 AAAA
8347351 TAGTTAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.07
28 18 0.64
29 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (28 bp):
AAAAGTATAAGGATTTTTTAAGTAAAGT
Found at i:8347980 original size:17 final size:17
Alignment explanation
Indices: 8347946--8347985 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
8347936 AATTTTAAAC
** *
8347946 AAATTTCCATTTTTTGA
1 AAATTTCCATCATATGA
8347963 AAATTTCCATCATATGA
1 AAATTTCCATCATATGA
8347980 AAATTT
1 AAATTT
8347986 TAAAGAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (17 bp):
AAATTTCCATCATATGA
Found at i:8348031 original size:17 final size:18
Alignment explanation
Indices: 8347992--8348033 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
8347982 ATTTTAAAGA
8347992 AAATTTTCATATTTTTTT
1 AAATTTTCATATTTTTTT
*
8348010 AAATTTT-ATGTTTTTCTT
1 AAATTTTCATATTTTT-TT
8348028 -AATTTT
1 AAATTTT
8348034 GGAATTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
AAATTTTCATATTTTTTT
Found at i:8349555 original size:17 final size:17
Alignment explanation
Indices: 8349533--8349569 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
8349523 TCAAATCACG
8349533 AGTAATAAGATCACCTT
1 AGTAATAAGATCACCTT
*
8349550 AGTAATAAGATCATCTT
1 AGTAATAAGATCACCTT
8349567 AGT
1 AGT
8349570 GATTATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (17 bp):
AGTAATAAGATCACCTT
Found at i:8354288 original size:10 final size:9
Alignment explanation
Indices: 8354262--8354310 Score: 71
Period size: 9 Copynumber: 5.3 Consensus size: 9
8354252 AGTTCAAAAG
*
8354262 TATTTTATA
1 TATTTTAAA
8354271 TATTTTAAA
1 TATTTTAAA
8354280 TATTTTTAAA
1 TA-TTTTAAA
8354290 TATTTTAAA
1 TATTTTAAA
*
8354299 TATTTTATA
1 TATTTTAAA
8354308 TAT
1 TAT
8354311 AACATAATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
9 28 0.76
10 9 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATTTTAAA
Found at i:8354292 original size:19 final size:19
Alignment explanation
Indices: 8354264--8354304 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
8354254 TTCAAAAGTA
*
8354264 TTTTATATATTTTAAATAT
1 TTTTAAATATTTTAAATAT
8354283 TTTTAAATATTTTAAATAT
1 TTTTAAATATTTTAAATAT
8354302 TTT
1 TTT
8354305 ATATATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTAAATATTTTAAATAT
Found at i:8360721 original size:18 final size:18
Alignment explanation
Indices: 8360698--8360749 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
8360688 CAACCCCAAA
8360698 TTAATAAAATATTAAATT
1 TTAATAAAATATTAAATT
* *
8360716 TTAATATAAACATT-ATTT
1 TTAATA-AAATATTAAATT
*
8360734 TTAAAAAAATA-TAAAT
1 TTAATAAAATATTAAAT
8360750 ATAAAATTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 1 0.04
17 6 0.22
18 14 0.52
19 6 0.22
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATAAAATATTAAATT
Found at i:8360751 original size:6 final size:6
Alignment explanation
Indices: 8360740--8360798 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
8360730 ATTTTTAAAA
* *
8360740 AAATAT AAATAT AAA-AT -TATAT AAATAT AAATAT AAATAT AAATAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
*
8360786 ATAATAT ATATAT
1 A-AATAT AAATAT
8360799 TGGGTGAGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 1 0.02
5 4 0.09
6 35 0.78
7 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:8360761 original size:16 final size:17
Alignment explanation
Indices: 8360742--8360797 Score: 71
Period size: 16 Copynumber: 3.3 Consensus size: 17
8360732 TTTTAAAAAA
8360742 ATATAAATATAAAAT-T
1 ATATAAATATAAAATAT
*
8360758 ATATAAATATAAATATAA
1 ATATAAATATAAA-ATAT
8360776 ATATAAATA-AATAATAT
1 ATATAAATATAA-AATAT
8360793 ATATA
1 ATATA
8360798 TTGGGTGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 13 0.37
17 12 0.34
18 10 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAATATAAAATAT
Found at i:8360785 original size:22 final size:22
Alignment explanation
Indices: 8360734--8360797 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
8360724 AACATTATTT
*
8360734 TTAAAAAAATATAAATATAAAA
1 TTAAATAAATATAAATATAAAA
*
8360756 TTATATAAATATAAATAT-AAA
1 TTAAATAAATATAAATATAAAA
*
8360777 TATAAATAAATAATATATATA
1 T-TAAATAAAT-ATAAATATA
8360798 TTGGGTGAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.11
22 24 0.69
23 7 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAAATAAATATAAATATAAAA
Found at i:8362733 original size:22 final size:23
Alignment explanation
Indices: 8362691--8362734 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8362681 GAGCAATAAC
* *
8362691 TGAAGAAAAAATAACATTGAAAT
1 TGAAAAAAAAAAAACATTGAAAT
8362714 TGAAAAAAAAAAAACA-TGAAA
1 TGAAAAAAAAAAAACATTGAAA
8362735 ACAACACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.68, C:0.05, G:0.11, T:0.16
Consensus pattern (23 bp):
TGAAAAAAAAAAAACATTGAAAT
Found at i:8364421 original size:404 final size:402
Alignment explanation
Indices: 8363608--8364786 Score: 1579
Period size: 404 Copynumber: 2.9 Consensus size: 402
8363598 AAATTAAATG
* **
8363608 GGTGTTTGGTTTACAGAATTTTAGATTTCGAGAAGGAAAACGATTTAAGGAGAAAGTGATATTGA
1 GGTGTTTGGTTTACAAAATTTTAGATTTC-AGAAGGAAAGTGATTTAAGGAGAAAGTGATATTGA
* *
8363673 AGAGGAATGTGTAATTCATGGGTTTTATTGGCTCAGAGAATGTAAGATTTTTATATTTGGTTCAT
65 AGAGGAATGTGTAATTCATGGGTTTTATTGGCTTAGAGAATGTAAGATTTTTATATTTGGTTCAC
* * *
8363738 AGGAATGTAAAATCACCTAATAAAGTCTTTTATTATATTATCTTTGATAACATGTGAATAACGTG
130 AGGAATGTAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAACATGTG----A----
* * *
8363803 TGACATTCATAATACTAATTGTCCTTATGCAAACAAAACAAAAAGATCAACCTTAAAAAAGTCAT
187 T---ATTCATAATACTAATTGTCCTTATGCAAAGAAAACAAAAGGATCAACCTTAGAAAAGTCAT
* **
8363868 CTTTTCAATAAAAAAAATTACATTTTTTTATCTAAGAAATGTTGTTTTTATTGAATTTT-AAAAA
249 CTTTTCAATAAAAAAAATTAC-GTTTTTTATCTAAGAAATGTCATTTTTATTGAATTTTAAAAAA
* * *
8363932 TTTATTTTTCATGCTTTCAACAAAAAGTACGTTTTTATCTTAGAAAATTCATCTTTTCAACGAAG
313 TTTATTTTTCATGCTTTCAACAAAAACTACATTTTTATCTTAAAAAATTCATCTTTTCAACGAAG
*
8363997 ACTATGTTTTTATATTTAAAATGCC
378 ACTATGTTTTTATATTTAAAATACC
* * * *
8364022 AGGTGTTCGGTTTGCAAAATTTTAAATTTCATGAAGGAAAGTGATTTGAGGAGAAAGTGATATTG
1 -GGTGTTTGGTTTACAAAATTTTAGATTTCA-GAAGGAAAGTGATTTAAGGAGAAAGTGATATTG
*
8364087 AAGAGGAATGTGTAATTCGTGGGTTTTATTGGCTTAGAGAATGTAAGATTTTTATATTTGGTTCA
64 AAGAGGAATGTGTAATTCATGGGTTTTATTGGCTTAGAGAATGTAAGATTTTTATATTTGGTTCA
*
8364152 CATGAATGTAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAACATGTGATATTCAT
129 CAGGAATGTAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAACATGTGATATTCAT
* * ** *
8364217 AATACCAATTGTCTTTATGCAAAGAAAACAAAAGGATCAACCTTAGAAAAGTTGTCTATTCAATA
194 AATACTAATTGTCCTTATGCAAAGAAAACAAAAGGATCAACCTTAGAAAAGTCATCTTTTCAATA
* *
8364282 AAAAAATTTACGTATTTTATCTAAGAAATGTCATTTTTATTGAATTTTAAAAAATTTATTTTTCA
259 AAAAAAATTACGTTTTTTATCTAAGAAATGTCATTTTTATTGAATTTTAAAAAATTTATTTTTCA
* *
8364347 TGCTTTCAACAAAAACTGCATTTTTATCTTAAAAAATTCATCTTTTCAATGAAGACTATGTTTTT
324 TGCTTTCAACAAAAACTACATTTTTATCTTAAAAAATTCATCTTTTCAACGAAGACTATGTTTTT
* *
8364412 ATCTTTAAAATATC
389 ATATTTAAAATACC
* * * *
8364426 GAGTGTTTGGTTTACAAAATTTTAGATTTCGGGATGAAAAGTGATTTAAAGAGAAAGTGATATTG
1 G-GTGTTTGGTTTACAAAATTTTAGATTTC-AGAAGGAAAGTGATTTAAGGAGAAAGTGATATTG
* * * *
8364491 AAGAAGAATGTGTAATTCCTGGATTTTATTGGCTTAGAGAATATAAGATTTTTATATTTGGTTCA
64 AAGAGGAATGTGTAATTCATGGGTTTTATTGGCTTAGAGAATGTAAGATTTTTATATTTGGTTCA
*
8364556 CAGGAATATAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAACATGTAAATAACGC
129 CAGGAATGTAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAAC------AT-----
* * * * *
8364621 GTGACATTCATAATACTGATTATCCTTACGTAAAGAAAACAAAAGGATCAACCTTAGAAAAGTCA
183 GTGATATTCATAATACTAATTGTCCTTATGCAAAGAAAACAAAAGGATCAACCTTAGAAAAGTCA
* * * *
8364686 TATTTTTAATAAAAAAAATTACGTTTTTTATCTAAAAAATGTCATTTTTATTTAATTTTAAAAAA
248 TCTTTTCAATAAAAAAAATTACGTTTTTTATCTAAGAAATGTCATTTTTATTGAATTTTAAAAAA
* * * *
8364751 ATTATTTTTCATGTTTTCAA-TAAAATTACATTTTTA
313 TTTATTTTTCATGCTTTCAACAAAAACTACATTTTTA
8364787 ACAAAGATCA
Statistics
Matches: 679, Mismatches: 70, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
403 34 0.05
404 325 0.48
407 1 0.00
410 2 0.00
411 1 0.00
414 14 0.02
415 302 0.44
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (402 bp):
GGTGTTTGGTTTACAAAATTTTAGATTTCAGAAGGAAAGTGATTTAAGGAGAAAGTGATATTGAA
GAGGAATGTGTAATTCATGGGTTTTATTGGCTTAGAGAATGTAAGATTTTTATATTTGGTTCACA
GGAATGTAAGATCACCTAATAAAGTCTTTTACTATATTGTCTTTGATAACATGTGATATTCATAA
TACTAATTGTCCTTATGCAAAGAAAACAAAAGGATCAACCTTAGAAAAGTCATCTTTTCAATAAA
AAAAATTACGTTTTTTATCTAAGAAATGTCATTTTTATTGAATTTTAAAAAATTTATTTTTCATG
CTTTCAACAAAAACTACATTTTTATCTTAAAAAATTCATCTTTTCAACGAAGACTATGTTTTTAT
ATTTAAAATACC
Found at i:8367138 original size:1 final size:1
Alignment explanation
Indices: 8367134--8367159 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
8367124 TTAGAATCTG
8367134 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
8367160 AAGAAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8368202 original size:27 final size:26
Alignment explanation
Indices: 8368143--8368208 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
8368133 TATATATATC
* **
8368143 TATATATTTTTTAATATTTTTATTTTT
1 TATA-ATTTTTTAATATTTTAATTACT
8368170 TATAATTTTTTAAATATTTTAATTACT
1 TATAATTTTTT-AATATTTTAATTACT
*
8368197 TGTAATATTTTT
1 TATAAT-TTTTT
8368209 TTCACAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 7 0.21
27 21 0.64
28 5 0.15
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (26 bp):
TATAATTTTTTAATATTTTAATTACT
Found at i:8372081 original size:13 final size:13
Alignment explanation
Indices: 8372063--8372088 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8372053 AACTAGAGAT
8372063 AACATAGAAGACA
1 AACATAGAAGACA
8372076 AACATAGAAGACA
1 AACATAGAAGACA
8372089 GTCTTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.08
Consensus pattern (13 bp):
AACATAGAAGACA
Found at i:8373007 original size:12 final size:12
Alignment explanation
Indices: 8372990--8373069 Score: 60
Period size: 12 Copynumber: 7.7 Consensus size: 12
8372980 AATAACATAA
8372990 AATATTTAATAT
1 AATATTTAATAT
8373002 AATA-TT--TA-
1 AATATTTAATAT
8373010 AA-ATTTAA-A-
1 AATATTTAATAT
8373019 AATATTTAATAT
1 AATATTTAATAT
8373031 AATATTTAATTAT
1 AATATTTAA-TAT
8373044 AA-ATTT-AT-T
1 AATATTTAATAT
8373053 -A-A-TTAATAT
1 AATATTTAATAT
8373062 AATATTTA
1 AATATTTA
8373070 TTTTACATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 24
0.70 0.00 0.30
Matches are distributed among these distances:
7 3 0.05
8 8 0.14
9 7 0.12
10 8 0.14
11 5 0.09
12 20 0.36
13 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATTTAATAT
Found at i:8373085 original size:31 final size:31
Alignment explanation
Indices: 8373024--8373087 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
8373014 TTAAAAATAT
*
8373024 TTAATATAATATTTAATTATAAATTTATTAA
1 TTAATATAATATTTAATTATAAATTGATTAA
* *
8373055 TTAATATAATATTT-ATTTTACATGTGATTAA
1 TTAATATAATATTTAATTATAAAT-TGATTAA
8373086 TT
1 TT
8373088 TCGAATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAATATAATATTTAATTATAAATTGATTAA
Found at i:8374526 original size:23 final size:24
Alignment explanation
Indices: 8374500--8374550 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
8374490 TTAATTATTA
*
8374500 TTAATTAAATTTA-AATATTAATT
1 TTAATAAAATTTATAATATTAATT
8374523 TTAATAAAATTTATTTAATATTAATT
1 TTAATAAAATTTA--TAATATTAATT
8374549 TT
1 TT
8374551 TTTTATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
26 12 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TTAATAAAATTTATAATATTAATT
Found at i:8374564 original size:19 final size:20
Alignment explanation
Indices: 8374532--8374598 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 20
8374522 TTTAATAAAA
*
8374532 TTTATTTAATATTAATT-TTT
1 TTTA-TTAAAATTAATTATTT
8374552 TTTATTAAAATT-ATTATTT
1 TTTATTAAAATTAATTATTT
* * * *
8374571 TTAATTACAATTATAATAATT
1 TTTATTAAAATTA-ATTATTT
8374592 TTTATTA
1 TTTATTA
8374599 TTATTTTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 3 0.08
19 20 0.53
20 4 0.11
21 11 0.29
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTATTAAAATTAATTATTT
Found at i:8374873 original size:25 final size:26
Alignment explanation
Indices: 8374816--8374876 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 26
8374806 GCCAGTGGAG
8374816 AATTTTTACCTGCAATCAAGGATAAGGAGAA
1 AATTTTTACCTGCAATCAAGGAT----A-AA
8374847 AATTTTTACCTGCAATCAAGGATAAA
1 AATTTTTACCTGCAATCAAGGATAAA
8374873 AATT
1 AATT
8374877 CTCAAATACC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 6 0.20
27 1 0.03
31 23 0.77
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (26 bp):
AATTTTTACCTGCAATCAAGGATAAA
Found at i:8376198 original size:7 final size:7
Alignment explanation
Indices: 8376186--8376211 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
8376176 TAATTTATGG
8376186 ACTGAGA
1 ACTGAGA
8376193 ACTGAGA
1 ACTGAGA
8376200 ACTGAGA
1 ACTGAGA
8376207 ACTGA
1 ACTGA
8376212 AAACCTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (7 bp):
ACTGAGA
Found at i:8376398 original size:6 final size:6
Alignment explanation
Indices: 8376387--8376412 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8376377 GAGGGGTAGA
8376387 GGGCGG GGGCGG GGGCGG GGGCGG GG
1 GGGCGG GGGCGG GGGCGG GGGCGG GG
8376413 AGGGGTGAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.85, T:0.00
Consensus pattern (6 bp):
GGGCGG
Found at i:8380084 original size:23 final size:23
Alignment explanation
Indices: 8380057--8380136 Score: 72
Period size: 23 Copynumber: 3.2 Consensus size: 23
8380047 AAATTTTTAA
8380057 ATTTTAATTTATATTTAAATAAT
1 ATTTTAATTTATATTTAAATAAT
* *
8380080 ATTTTAATTTTTAATTTGTATATGAAT
1 ATTTTAATTTAT-A-TT-TAAAT-AAT
8380107 AAATTTTTAATTTATATTTAAATAA-
1 --A-TTTTAATTTATATTTAAATAAT
8380132 ATTTT
1 ATTTT
8380137 TAATAAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
22 4 0.09
23 12 0.26
24 1 0.02
25 2 0.04
26 6 0.13
27 7 0.15
28 2 0.04
29 2 0.04
30 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (23 bp):
ATTTTAATTTATATTTAAATAAT
Found at i:8380117 original size:30 final size:30
Alignment explanation
Indices: 8380009--8380119 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 30
8379999 GGACTTCTAT
8380009 ATTTAT-T-TAAATAAA-TTTT-ATTTTT-
1 ATTTATATATAAATAAATTTTTAATTTTTA
* * *
8380034 A-TTACATCTAAATAAATTTTTAAATTTTA
1 ATTTATATATAAATAAATTTTTAATTTTTA
*
8380063 ATTTATATTTAAAT-AATATTTTAATTTTTA
1 ATTTATATATAAATAAAT-TTTTAATTTTTA
* *
8380093 ATTTGTATATGAATAAATTTTTAATTT
1 ATTTATATATAAATAAATTTTTAATTT
8380120 ATATTTAAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
24 3 0.04
25 2 0.03
26 8 0.11
27 4 0.06
28 5 0.07
29 4 0.06
30 41 0.59
31 3 0.04
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
ATTTATATATAAATAAATTTTTAATTTTTA
Found at i:8380137 original size:23 final size:23
Alignment explanation
Indices: 8380085--8380140 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
8380075 ATAATATTTT
* *
8380085 AATTTTTAATTTGTATATGAATA
1 AATTTTTAATTTATATATAAATA
*
8380108 AATTTTTAATTTATATTTAAATA
1 AATTTTTAATTTATATATAAATA
8380131 AATTTTTAAT
1 AATTTTTAAT
8380141 AAAATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
AATTTTTAATTTATATATAAATA
Found at i:8382269 original size:10 final size:10
Alignment explanation
Indices: 8382215--8382276 Score: 57
Period size: 10 Copynumber: 6.9 Consensus size: 10
8382205 GTTAAATTTT
8382215 TTTTAAAATA
1 TTTTAAAATA
*
8382225 TATTAAAATA
1 TTTTAAAATA
*
8382235 TTATAAAATA
1 TTTTAAAATA
8382245 ---TAAAA-A
1 TTTTAAAATA
8382251 -TTT--AATA
1 TTTTAAAATA
8382258 TTTTAAAATA
1 TTTTAAAATA
8382268 TTTTAAAAT
1 TTTTAAAAT
8382277 TAAATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
6 3 0.07
7 6 0.14
8 4 0.09
10 30 0.70
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:8382933 original size:17 final size:17
Alignment explanation
Indices: 8382907--8382961 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
8382897 AATTAAAATG
*
8382907 TTAA-ATAATAAATTTA
1 TTAATATAATAAATATA
*
8382923 TTAATATAATACATATA
1 TTAATATAATAAATATA
* * *
8382940 TAAATATAA-AAGTAAA
1 TTAATATAATAAATATA
8382956 TTAATA
1 TTAATA
8382962 ATAAAATATG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (17 bp):
TTAATATAATAAATATA
Found at i:8383383 original size:13 final size:13
Alignment explanation
Indices: 8383353--8383383 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
8383343 AAAAATAAAG
*
8383353 AAAAACAAAAACA
1 AAAAACAAAAAAA
8383366 AAAAACAAAAAAA
1 AAAAACAAAAAAA
8383379 AAAAA
1 AAAAA
8383384 GAGAGATCAT
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:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAA
Found at i:8385980 original size:15 final size:17
Alignment explanation
Indices: 8385948--8385987 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
8385938 TAAAAAAACT
8385948 AAAAAGTAAAAACGGTAA
1 AAAAAGTAAAAAC-GTAA
8385966 AAAAAG-AAAAA-GTAA
1 AAAAAGTAAAAACGTAA
8385981 AAAAAGT
1 AAAAAGT
8385988 TTGGTGTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 10 0.48
17 5 0.24
18 6 0.29
ACGTcount: A:0.72, C:0.03, G:0.15, T:0.10
Consensus pattern (17 bp):
AAAAAGTAAAAACGTAA
Found at i:8385984 original size:25 final size:25
Alignment explanation
Indices: 8385937--8385983 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
8385927 ATTAAATATT
*
8385937 GTAAAAAAACTAAAAAGTAAAAACG
1 GTAAAAAAACGAAAAAGTAAAAACG
8385962 GTAAAAAAA-GAAAAAGTAAAAA
1 GTAAAAAAACGAAAAAGTAAAAA
8385984 AAGTTTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.72, C:0.04, G:0.13, T:0.11
Consensus pattern (25 bp):
GTAAAAAAACGAAAAAGTAAAAACG
Found at i:8386267 original size:23 final size:22
Alignment explanation
Indices: 8386241--8386291 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
8386231 ATGTTAAAAA
8386241 TTAAAAAATCATAAAAAAT-AATT
1 TTAAAAAAT-A-AAAAAATAAATT
*
8386264 TTAAAATATAAAAAAATAAAATT
1 TTAAAAAATAAAAAAAT-AAATT
8386287 TTAAA
1 TTAAA
8386292 TATTAAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 7 0.28
22 1 0.04
23 17 0.68
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
TTAAAAAATAAAAAAATAAATT
Found at i:8386278 original size:22 final size:22
Alignment explanation
Indices: 8386253--8386299 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8386243 AAAAAATCAT
8386253 AAAAAAT--AATTTTAAAATATA
1 AAAAAATAAAATTTT-AAATATA
*
8386274 AAAAAATAAAATTTTAAATATT
1 AAAAAATAAAATTTTAAATATA
8386296 AAAA
1 AAAA
8386300 CTTTTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 10 0.43
23 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAAAATAAAATTTTAAATATA
Found at i:8386298 original size:23 final size:21
Alignment explanation
Indices: 8386245--8386299 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
8386235 TAAAAATTAA
8386245 AAAATCAT-AAAAAATAATTTT
1 AAAAT-ATAAAAAAATAATTTT
8386266 AAAATATAAAAAAATAAAATTTT
1 AAAATATAAAAAAAT--AATTTT
*
8386289 -AAATATTAAAA
1 AAAATATAAAAA
8386300 CTTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 10 0.33
23 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATATAAAAAAATAATTTT
Found at i:8387852 original size:12 final size:11
Alignment explanation
Indices: 8387835--8387890 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
8387825 GCTAAATTGG
8387835 ACAACAAAAAA
1 ACAACAAAAAA
8387846 TACAAC-AAAAA
1 -ACAACAAAAAA
8387857 ACAACAAAAAA
1 ACAACAAAAAA
* * *
8387868 AAAAGAGAAAA
1 ACAACAAAAAA
8387879 A-AA-AAAAAA
1 ACAACAAAAAA
8387888 ACA
1 ACA
8387891 CATAACTTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
9 6 0.16
10 8 0.21
11 19 0.50
12 5 0.13
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.02
Consensus pattern (11 bp):
ACAACAAAAAA
Found at i:8388498 original size:15 final size:16
Alignment explanation
Indices: 8388478--8388510 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
8388468 TAATTTAACA
8388478 ATTATAAA-AATTAAT
1 ATTATAAACAATTAAT
8388493 ATTATAAATCAATTAAT
1 ATTATAAA-CAATTAAT
8388510 A
1 A
8388511 ATTAGTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTATAAACAATTAAT
Found at i:8397747 original size:18 final size:18
Alignment explanation
Indices: 8397724--8397786 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
8397714 GTGATTTTTC
8397724 TTTTTTATTTTCTTTGTA
1 TTTTTTATTTTCTTTGTA
* *
8397742 TTTTTTGTTTTGATTTG--
1 TTTTTTATTTT-CTTTGTA
8397759 -TTTTTATTTTCTTTGTA
1 TTTTTTATTTTCTTTGTA
*
8397776 TTTTTTGTTTT
1 TTTTTTATTTT
8397787 GATTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
15 4 0.11
16 9 0.25
18 19 0.53
19 4 0.11
ACGTcount: A:0.08, C:0.03, G:0.10, T:0.79
Consensus pattern (18 bp):
TTTTTTATTTTCTTTGTA
Found at i:8397764 original size:34 final size:33
Alignment explanation
Indices: 8397724--8397801 Score: 138
Period size: 34 Copynumber: 2.3 Consensus size: 33
8397714 GTGATTTTTC
8397724 TTTTTTATTTTCTTTGTATTTTTTGTTTTGATT
1 TTTTTTATTTTCTTTGTATTTTTTGTTTTGATT
8397757 TGTTTTTATTTTCTTTGTATTTTTTGTTTTGATT
1 T-TTTTTATTTTCTTTGTATTTTTTGTTTTGATT
*
8397791 TTTTTTCTTTT
1 TTTTTTATTTT
8397802 TTATTTTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
33 10 0.23
34 33 0.77
ACGTcount: A:0.08, C:0.04, G:0.09, T:0.79
Consensus pattern (33 bp):
TTTTTTATTTTCTTTGTATTTTTTGTTTTGATT
Found at i:8397791 original size:24 final size:22
Alignment explanation
Indices: 8397755--8397808 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
8397745 TTTGTTTTGA
*
8397755 TTTGTTTTTATTTTCTTTGTATTT
1 TTTGTTTTGATTTT-TTT-TATTT
*
8397779 TTTGTTTTGATTTTTTTTCTTT
1 TTTGTTTTGATTTTTTTTATTT
*
8397801 TTTATTTT
1 TTTGTTTT
8397809 AGTCATTTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 11 0.41
23 3 0.11
24 13 0.48
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.81
Consensus pattern (22 bp):
TTTGTTTTGATTTTTTTTATTT
Found at i:8401481 original size:8 final size:8
Alignment explanation
Indices: 8401463--8401510 Score: 60
Period size: 8 Copynumber: 5.9 Consensus size: 8
8401453 AATTACTCAA
*
8401463 ATTCATGC
1 ATTCATAC
*
8401471 ATTCAAAC
1 ATTCATAC
8401479 ATTCATAC
1 ATTCATAC
*
8401487 ATACATAC
1 ATTCATAC
8401495 ATTTCATAC
1 A-TTCATAC
8401504 ATTCATA
1 ATTCATA
8401511 TGCATAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
8 27 0.79
9 7 0.21
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (8 bp):
ATTCATAC
Found at i:8409304 original size:15 final size:16
Alignment explanation
Indices: 8409278--8409308 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8409268 CTTTATTCCA
8409278 TTTTCATGCTTTTATT
1 TTTTCATGCTTTTATT
8409294 TTTTCAT-CTTTTATT
1 TTTTCATGCTTTTATT
8409309 GATCACTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.13, C:0.13, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTCATGCTTTTATT
Found at i:8409781 original size:13 final size:13
Alignment explanation
Indices: 8409747--8409808 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
8409737 ACAATTAGGG
*
8409747 TTGCATTCATAACA
1 TTGCATTCAT-GCA
8409761 TTGCATTCATGCA
1 TTGCATTCATGCA
* *
8409774 TTGAATTCATAAACA
1 TTGCATTCAT--GCA
8409789 TTGCATTCATGCA
1 TTGCATTCATGCA
*
8409802 TTCCATT
1 TTGCATT
8409809 TGTAAACATG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
13 19 0.47
14 10 0.25
15 11 0.28
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.39
Consensus pattern (13 bp):
TTGCATTCATGCA
Found at i:8409792 original size:28 final size:28
Alignment explanation
Indices: 8409747--8409884 Score: 163
Period size: 28 Copynumber: 4.9 Consensus size: 28
8409737 ACAATTAGGG
8409747 TTGCATTCAT-AACATTGCATTCATGCA
1 TTGCATTCATAAACATTGCATTCATGCA
*
8409774 TTGAATTCATAAACATTGCATTCATGCA
1 TTGCATTCATAAACATTGCATTCATGCA
* **
8409802 TTCCATTTGTAAACA-TGACATTCATGCA
1 TTGCATTCATAAACATTG-CATTCATGCA
* * *
8409830 TTGTATTCATAAAATATTACATTCATGCA
1 TTGCATTCAT-AAACATTGCATTCATGCA
* *
8409859 TTGCATTCATAAAGATTGCACTCATG
1 TTGCATTCATAAACATTGCATTCATG
8409885 TAATTTGTTT
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
27 11 0.12
28 57 0.62
29 23 0.25
30 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (28 bp):
TTGCATTCATAAACATTGCATTCATGCA
Found at i:8410525 original size:44 final size:44
Alignment explanation
Indices: 8410406--8410639 Score: 254
Period size: 44 Copynumber: 5.3 Consensus size: 44
8410396 TCTTTTATAT
*
8410406 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTT-TA
1 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
* * * * *
8410449 AAGTTATTAAGCTTATGTTGAGAGAAACTTTTTATATTTTTCAA
1 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
* * * * * *
8410493 AAGTTGTTGAGCTTCTATTAAGAGGAGTTTTTTGTATTTTTCAA
1 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
* * * * *
8410537 AAGTTATTGAGCCTCTGTTTAGGGGAACATTTTATATTTTTCTA
1 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
* * * *
8410581 ATGTTATTGAGCCTCTATTTAGAGGAGCCTTTTATATTTTTCAA
1 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
* *
8410625 AAGTTGTTAAGCCTC
1 AAGTTATTGAGCCTC
8410640 AATTCAAAGA
Statistics
Matches: 156, Mismatches: 34, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
43 36 0.23
44 120 0.77
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.45
Consensus pattern (44 bp):
AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTCAA
Found at i:8410591 original size:88 final size:88
Alignment explanation
Indices: 8410406--8410639 Score: 290
Period size: 88 Copynumber: 2.7 Consensus size: 88
8410396 TCTTTTATAT
* * * * *
8410406 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTT-TAAAGTTATTAAGCTTATGTTGA
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCTGTTGA
*
8410470 GAGAAACTTTTTATATTTTTCAA
66 GAGAAACATTTTATATTTTTCAA
* * * * * *
8410493 AAGTTGTTGAGCTTCTATTAAGAGGAGTTTTTTGTATTTTTCAAAAGTTATTGAGCCTCTGTTTA
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCTGTTGA
* * *
8410558 GGGGAACATTTTATATTTTTCTA
66 GAGAAACATTTTATATTTTTCAA
* * * *
8410581 ATGTTATTGAGCCTCTATTTAGAGGAGCCTTTTATATTTTTCAAAAGTTGTTAAGCCTC
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTC
8410640 AATTCAAAGA
Statistics
Matches: 122, Mismatches: 24, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 35 0.29
88 87 0.71
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.45
Consensus pattern (88 bp):
AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCTGTTGA
GAGAAACATTTTATATTTTTCAA
Found at i:8410657 original size:132 final size:131
Alignment explanation
Indices: 8410406--8410657 Score: 321
Period size: 132 Copynumber: 1.9 Consensus size: 131
8410396 TCTTTTATAT
* *
8410406 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTTTAAAGTTATTAAGCTTATGTTGAG
1 AAGTTATTGAGCCTCTGTTGAGAGGAACATTTTATATTTTTTAAAGTTATTAAGCTTATGTTGAG
* * * * * *
8410471 AGAAACTTTTTATATTTTTCAAAAGTTGTTGAGCTTCTATTAAGAGGAGTTTTTTGTATTTTTCA
66 AGAAACCTTTTATATTTTTCAAAAGTTGTTAAGCCTCAATTAAGAGAAGCTTTTTGTATTTTTCA
8410536 A
131 A
* * * *
8410537 AAGTTATTGAGCCTCTGTTTAGGGGAACATTTTATATTTTTCTAATGTTATTGAGCCTCTAT-TT
1 AAGTTATTGAGCCTCTGTTGAGAGGAACATTTTATATTTTT-TAAAGTTATTAAG-CT-TATGTT
* *
8410601 -AGAGGAGCCTTTTATATTTTTCAAAAGTTGTTAAGCCTCAATTCAA-AGAAGCTTTTT
63 GAGAGAAACCTTTTATATTTTTCAAAAGTTGTTAAGCCTCAATT-AAGAGAAGCTTTTT
8410658 ATGTTGTTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
131 37 0.36
132 57 0.55
133 6 0.06
134 3 0.03
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.45
Consensus pattern (131 bp):
AAGTTATTGAGCCTCTGTTGAGAGGAACATTTTATATTTTTTAAAGTTATTAAGCTTATGTTGAG
AGAAACCTTTTATATTTTTCAAAAGTTGTTAAGCCTCAATTAAGAGAAGCTTTTTGTATTTTTCA
A
Found at i:8410658 original size:44 final size:44
Alignment explanation
Indices: 8410406--8410673 Score: 238
Period size: 44 Copynumber: 6.1 Consensus size: 44
8410396 TCTTTTATAT
* * * *
8410406 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTT-TA
1 AAGTTATTGAGCCTCTATTTAGAGAAGCTTTTTATATTTTTCAA
* *
8410449 AAGTTATTAAG-CT-TATGTTGAGAGAAACTTTTTATATTTTTCAA
1 AAGTTATTGAGCCTCTAT-TT-AGAGAAGCTTTTTATATTTTTCAA
* * * * * *
8410493 AAGTTGTTGAGCTTCTATTAAGAGGAGTTTTTTGTATTTTTCAA
1 AAGTTATTGAGCCTCTATTTAGAGAAGCTTTTTATATTTTTCAA
* * * *
8410537 AAGTTATTGAGCCTCTGTTTAGGGGAA-CATTTTATATTTTTCTA
1 AAGTTATTGAGCCTCTATTTA-GAGAAGCTTTTTATATTTTTCAA
* * *
8410581 ATGTTATTGAGCCTCTATTTAGAGGAGCCTTTTATATTTTTCAA
1 AAGTTATTGAGCCTCTATTTAGAGAAGCTTTTTATATTTTTCAA
* * * * * * *
8410625 AAGTTGTTAAGCCTCAATTCAAAGAAGCTTTTTATGTTGTTTAAA
1 AAGTTATTGAGCCTCTATTTAGAGAAGCTTTTTATATT-TTTCAA
8410670 AAGT
1 AAGT
8410674 CTAGGTTTTC
Statistics
Matches: 177, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.01
42 3 0.02
43 32 0.18
44 123 0.69
45 14 0.08
46 3 0.02
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.45
Consensus pattern (44 bp):
AAGTTATTGAGCCTCTATTTAGAGAAGCTTTTTATATTTTTCAA
Found at i:8410658 original size:88 final size:87
Alignment explanation
Indices: 8410406--8410673 Score: 270
Period size: 88 Copynumber: 3.0 Consensus size: 87
8410396 TCTTTTATAT
* * * * *
8410406 AAGTTATTGAGCCTCTGTTGAGAGGAGCTTTTTATATTTTT-TAAAGTTATTAAG-CTTATGTTG
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCA-GTTC
8410469 AGAGAAACTTTTTATATTTTTCAA
65 AGAG-AACTTTTTATATTTTTCAA
* * * * * * *
8410493 AAGTTGTTGAGCTTCTATTAAGAGGAGTTTTTTGTATTTTTCAAAAGTTATTGAGCCTCTGTTTA
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCAGTTCA
* * *
8410558 GGGGAACATTTTATATTTTTCTA
66 -GAGAACTTTTTATATTTTTCAA
* * * * *
8410581 ATGTTATTGAGCCTCTATTTAGAGGAGCCTTTTATATTTTTCAAAAGTTGTTAAGCCTCAATTCA
1 AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCAGTTCA
* * *
8410646 AAGAAGCTTTTTATGTTGTTTAAA
66 GAGAA-CTTTTTATATT-TTTCAA
8410670 AAGT
1 AAGT
8410674 CTAGGTTTTC
Statistics
Matches: 143, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
87 38 0.27
88 94 0.66
89 11 0.08
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.45
Consensus pattern (87 bp):
AAGTTATTGAGCCTCTATTAAGAGGAGCTTTTTATATTTTTCAAAAGTTATTAAGCCTCAGTTCA
GAGAACTTTTTATATTTTTCAA
Found at i:8411116 original size:12 final size:12
Alignment explanation
Indices: 8411084--8411117 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
8411074 AATTTTTTTA
* *
8411084 AAGAAAGTCATC
1 AAGAAAGTTAGC
8411096 AAGAAAGTTAGC
1 AAGAAAGTTAGC
8411108 AAGAAAGTTA
1 AAGAAAGTTA
8411118 AAAAAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.09, G:0.21, T:0.18
Consensus pattern (12 bp):
AAGAAAGTTAGC
Found at i:8414820 original size:41 final size:44
Alignment explanation
Indices: 8414767--8414857 Score: 102
Period size: 44 Copynumber: 2.2 Consensus size: 44
8414757 TATAATTTTC
*
8414767 AAAA-TTAATTTTAA-AA-ATT-TTCATATAT-TTTATTTTTATA
1 AAAATTTAATTTTAATAATATTATTAATATATATTT-TTTTTATA
* *
8414807 AAAATTTATTTTTAATAATATTATTAATTTATATTTTTTTTATA
1 AAAATTTAATTTTAATAATATTATTAATATATATTTTTTTTATA
*
8414851 ATAATTT
1 AAAATTT
8414858 TTCAACATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
40 4 0.10
41 9 0.21
42 2 0.05
43 3 0.07
44 21 0.50
45 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (44 bp):
AAAATTTAATTTTAATAATATTATTAATATATATTTTTTTTATA
Found at i:8419440 original size:16 final size:17
Alignment explanation
Indices: 8419409--8419442 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8419399 TTTAATGCCC
*
8419409 ATTTTCATGTCAAAAAA
1 ATTTTCATGACAAAAAA
8419426 ATTTTCA-GACAAAAAA
1 ATTTTCATGACAAAAAA
8419442 A
1 A
8419443 GGTGTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTTTCATGACAAAAAA
Found at i:8419637 original size:17 final size:19
Alignment explanation
Indices: 8419615--8419660 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
8419605 GTCAGAAACC
8419615 AAAAGAGATCAAA-AAA-A
1 AAAAGAGATCAAATAAAGA
8419632 AAAAGAAGAATCAAATAAAGA
1 AAAAG-AG-ATCAAATAAAGA
*
8419653 GAAAGAGA
1 AAAAGAGA
8419661 AAATGAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 5 0.21
18 2 0.08
19 7 0.29
20 5 0.21
21 5 0.21
ACGTcount: A:0.72, C:0.04, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAGAGATCAAATAAAGA
Found at i:8425418 original size:42 final size:42
Alignment explanation
Indices: 8425348--8425448 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 42
8425338 ATGGATGACA
*
8425348 ATATTATTATATTATTTAACATTAATTATTAAAATGATAAAG
1 ATATTATTATATTATTTAACATTAATTATTAAAATAATAAAG
** * *
8425390 ATATTATTATA-TATGTTATTATTTATTATTAAAATAATAATATA
1 ATATTATTATATTAT-TTAACATTAATTATTAAAATAATAA-A-G
8425434 ATATTATT-TATTATT
1 ATATTATTATATTATT
8425449 GAAATATTAA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
41 3 0.06
42 32 0.64
43 4 0.08
44 11 0.22
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (42 bp):
ATATTATTATATTATTTAACATTAATTATTAAAATAATAAAG
Found at i:8425438 original size:29 final size:27
Alignment explanation
Indices: 8425406--8425470 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 27
8425396 TTATATATGT
8425406 TATTATTTATTATTAAAATAATAATATAA
1 TATTATTTATTATTAAAATAATAA-A-AA
* *
8425435 TATTATTTATTATTGAAATATTAAAAA
1 TATTATTTATTATTAAAATAATAAAAA
8425462 TATTTATTT
1 TA-TTATTT
8425471 TTAATAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 4 0.12
28 7 0.21
29 22 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTATTTATTATTAAAATAATAAAAA
Found at i:8425486 original size:25 final size:24
Alignment explanation
Indices: 8425424--8425488 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
8425414 ATTATTAAAA
* *
8425424 TAATAATATAATATTATTTATTAT
1 TAATAATATAAAAATATTTATTAT
* *
8425448 TGA-AATATTAAAAATATTTATTTT
1 TAATAATA-TAAAAATATTTATTAT
8425472 TAATAATATACAAAATA
1 TAATAATATA-AAAATA
8425489 AAAATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 4 0.12
24 19 0.58
25 10 0.30
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATAATATAAAAATATTTATTAT
Found at i:8425572 original size:18 final size:20
Alignment explanation
Indices: 8425551--8425587 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8425541 TTTTAATTAA
8425551 AATTAA-AT-AAAATATTTT
1 AATTAATATAAAAATATTTT
8425569 AATTAATATAAAAATATTT
1 AATTAATATAAAAATATTT
8425588 CAAGTCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
AATTAATATAAAAATATTTT
Found at i:8425952 original size:18 final size:19
Alignment explanation
Indices: 8425929--8425966 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
8425919 TTTTTTATTG
*
8425929 ATTAATAAGT-TATTTTTT
1 ATTAATAAGTAAATTTTTT
*
8425947 ATTAATTAGTAAATTTTTT
1 ATTAATAAGTAAATTTTTT
8425966 A
1 A
8425967 CCAAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
ATTAATAAGTAAATTTTTT
Found at i:8427525 original size:10 final size:10
Alignment explanation
Indices: 8427512--8427569 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
8427502 GTAATTAATC
8427512 ATTTATTAAA
1 ATTTATTAAA
*
8427522 ATTTATT--T
1 ATTTATTAAA
* *
8427530 TTTTAATAAA
1 ATTTATTAAA
*
8427540 ATAT-TTAAA
1 ATTTATTAAA
*
8427549 ATTAATTAAA
1 ATTTATTAAA
8427559 ATTTATTAAA
1 ATTTATTAAA
8427569 A
1 A
8427570 AAATAATTTT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
8 5 0.14
9 6 0.17
10 24 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:8430961 original size:5 final size:5
Alignment explanation
Indices: 8430951--8430986 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
8430941 TATAAACCTT
*
8430951 TTTTA TTTTA TTTTA TTTTA TTTTA TCTTTT TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
8430987 AACAAAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:8440895 original size:14 final size:13
Alignment explanation
Indices: 8440853--8440895 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
8440843 GACTTTATGA
8440853 TAATTTTATGTTTT
1 TAATTTTAT-TTTT
8440867 T-ATTTTAATTTTT
1 TAATTTT-ATTTTT
8440880 TAATTTTATTTGTT
1 TAATTTTATTT-TT
8440894 TA
1 TA
8440896 GTTATTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 14 0.54
14 12 0.46
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (13 bp):
TAATTTTATTTTT
Found at i:8440904 original size:17 final size:17
Alignment explanation
Indices: 8440882--8440915 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
8440872 TAATTTTTTA
8440882 ATTTTAT-TTGTTTAGTT
1 ATTTTATCTT-TTTAGTT
8440899 ATTTTATCTTTTTAGTT
1 ATTTTATCTTTTTAGTT
8440916 TGTTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (17 bp):
ATTTTATCTTTTTAGTT
Found at i:8442027 original size:18 final size:16
Alignment explanation
Indices: 8441997--8442045 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
8441987 TTTTCATTTG
*
8441997 TATTTATTTATTTTTT
1 TATTTACTTATTTTTT
* *
8442013 TAGTTTAGGTTATTTGTT
1 TA-TTTA-CTTATTTTTT
8442031 TATTTACTTATTTTT
1 TATTTACTTATTTTT
8442046 ATAAGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 9 0.33
17 8 0.30
18 10 0.37
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (16 bp):
TATTTACTTATTTTTT
Found at i:8444479 original size:19 final size:19
Alignment explanation
Indices: 8444437--8444479 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
8444427 TACATTGGTA
*
8444437 ACATCAAAAGAATTTTTCG
1 ACATCAAAAGAATTTTTAG
* * *
8444456 TCATCTAAAGATTTTTTAG
1 ACATCAAAAGAATTTTTAG
8444475 ACATC
1 ACATC
8444480 GTTACTTGTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
ACATCAAAAGAATTTTTAG
Found at i:8444678 original size:19 final size:18
Alignment explanation
Indices: 8444642--8444679 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8444632 TAGAAGAAAA
*
8444642 TAAAAATTTTTATTATAT
1 TAAAAATTTTTATAATAT
8444660 TAAAAATTTTTATAAATAT
1 TAAAAATTTTTAT-AATAT
8444679 T
1 T
8444680 CTAATACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAAAAATTTTTATAATAT
Found at i:8445018 original size:18 final size:18
Alignment explanation
Indices: 8444992--8445027 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8444982 ATCGAATAAG
* *
8444992 AATTTTTTTTTATTTTTT
1 AATTATTTTTAATTTTTT
8445010 AATTATTTTTAATTTTTT
1 AATTATTTTTAATTTTTT
8445028 TCACATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
AATTATTTTTAATTTTTT
Found at i:8446108 original size:19 final size:19
Alignment explanation
Indices: 8446084--8446122 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
8446074 GTTGCTGTTA
*
8446084 GGGCAATTGATGACTCAGG
1 GGGCAAGTGATGACTCAGG
* *
8446103 GGGCAAGTGGTGGCTCAGG
1 GGGCAAGTGATGACTCAGG
8446122 G
1 G
8446123 AATAGGTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.15, G:0.46, T:0.18
Consensus pattern (19 bp):
GGGCAAGTGATGACTCAGG
Found at i:8447391 original size:18 final size:18
Alignment explanation
Indices: 8447364--8447398 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8447354 AATTAACTTC
8447364 ATGAACTTCACATAAAAT
1 ATGAACTTCACATAAAAT
*
8447382 ATGAATTTCACATAAAA
1 ATGAACTTCACATAAAA
8447399 CTTCATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.14, G:0.06, T:0.29
Consensus pattern (18 bp):
ATGAACTTCACATAAAAT
Found at i:8451332 original size:18 final size:17
Alignment explanation
Indices: 8451309--8451361 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 17
8451299 TTTATTCACA
*
8451309 TGTTATTCACGTGTCATG
1 TGTTATT-AAGTGTCATG
8451327 TGTTA-TAAGTGTCATG
1 TGTTATTAAGTGTCATG
* *
8451343 TGTTA-TAAATGTCACG
1 TGTTATTAAGTGTCATG
8451359 TGT
1 TGT
8451362 CATCAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 26 0.81
17 1 0.03
18 5 0.16
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTTATTAAGTGTCATG
Found at i:8451338 original size:16 final size:16
Alignment explanation
Indices: 8451319--8451361 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
8451309 TGTTATTCAC
8451319 GTGTCATGTGTTATAA
1 GTGTCATGTGTTATAA
8451335 GTGTCATGTGTTATAA
1 GTGTCATGTGTTATAA
* *
8451351 ATGTCACGTGT
1 GTGTCATGTGT
8451362 CATCAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.23, C:0.09, G:0.26, T:0.42
Consensus pattern (16 bp):
GTGTCATGTGTTATAA
Found at i:8454749 original size:2 final size:2
Alignment explanation
Indices: 8454744--8454768 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8454734 ATATATAAGT
8454744 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
8454769 AACAACCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:8455402 original size:26 final size:26
Alignment explanation
Indices: 8455366--8455427 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
8455356 TATTTGATAT
*
8455366 ATAAAATTATGATAAAATTAAATTAA
1 ATAATATTATGATAAAATTAAATTAA
8455392 ATAATATTATGATAAAATTAAATTAA
1 ATAATATTATGATAAAATTAAATTAA
8455418 ATAATATTAT
1 ATAATATTAT
8455428 CATATCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
ATAATATTATGATAAAATTAAATTAA
Found at i:8455497 original size:20 final size:20
Alignment explanation
Indices: 8455459--8455498 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
8455449 ACAAAAATTA
8455459 TGATAAAATAATTTATTTAT
1 TGATAAAATAATTTATTTAT
*
8455479 TGATCAAAATTATTT-TTTAT
1 TGAT-AAAATAATTTATTTAT
8455499 ATAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
TGATAAAATAATTTATTTAT
Found at i:8455592 original size:24 final size:23
Alignment explanation
Indices: 8455565--8455632 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
8455555 CTCATAAATT
* * *
8455565 AAAAATAATTCTTTTTACTTTAAA
1 AAAAATAAATCATTTTA-TATAAA
*
8455589 AAAATTAAATCATTTTATATAAA
1 AAAAATAAATCATTTTATATAAA
*
8455612 AAATAATTAATCATCTTTATA
1 AAA-AATAAATCAT-TTTATA
8455633 ATTTTATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 8 0.22
24 22 0.61
25 6 0.17
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAAATAAATCATTTTATATAAA
Found at i:8455611 original size:23 final size:25
Alignment explanation
Indices: 8455586--8455632 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
8455576 TTTTTACTTT
8455586 AAAAA-AATTAAATCAT-TTTATATA
1 AAAAATAATT-AATCATCTTTATATA
8455610 AAAAATAATTAATCATCTTTATA
1 AAAAATAATTAATCATCTTTATA
8455633 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAATAATTAATCATCTTTATATA
Found at i:8455680 original size:16 final size:18
Alignment explanation
Indices: 8455644--8455681 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
8455634 TTTTATAAAA
8455644 AATATACAAATCAAATAT
1 AATATACAAATCAAATAT
*
8455662 AATATA-AAAT-AATTAT
1 AATATACAAATCAAATAT
8455678 AATA
1 AATA
8455682 ACCCTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATACAAATCAAATAT
Found at i:8459551 original size:9 final size:9
Alignment explanation
Indices: 8459537--8459566 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
8459527 ACTTAGATTT
8459537 AAAAAAAGA
1 AAAAAAAGA
*
8459546 AAAAAAAAA
1 AAAAAAAGA
8459555 AAAAAAAGA
1 AAAAAAAGA
8459564 AAA
1 AAA
8459567 CTTGAAGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:8461297 original size:17 final size:17
Alignment explanation
Indices: 8461275--8461311 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
8461265 TTTAATTATA
* *
8461275 ATTTGAATAATTTTGAT
1 ATTTGAATAAATTTAAT
8461292 ATTTGAATAAATTTAAT
1 ATTTGAATAAATTTAAT
8461309 ATT
1 ATT
8461312 ATTTAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (17 bp):
ATTTGAATAAATTTAAT
Found at i:8461448 original size:2 final size:2
Alignment explanation
Indices: 8461441--8461471 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8461431 GTATGTTGTA
8461441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8461472 ATTTTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8464558 original size:3 final size:3
Alignment explanation
Indices: 8464550--8464575 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8464540 CTCCAACGGA
8464550 CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CT
8464576 GTGGTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:8474556 original size:25 final size:25
Alignment explanation
Indices: 8474526--8474581 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
8474516 ATAAATTTAG
*
8474526 ATAAAATTTCTCACTTAAAAATTT-T
1 ATAAAATTTATCA-TTAAAAATTTCT
*
8474551 ATAAAAATTTATCATTTAAAATTTCT
1 AT-AAAATTTATCATTAAAAATTTCT
8474577 ATAAA
1 ATAAA
8474582 TTCCATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (25 bp):
ATAAAATTTATCATTAAAAATTTCT
Found at i:8474557 original size:26 final size:26
Alignment explanation
Indices: 8474528--8474581 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
8474518 AAATTTAGAT
*
8474528 AAAATTTCTCACTTAAAAATTT-TATA
1 AAAATTTATCA-TTAAAAATTTCTATA
*
8474554 AAAATTTATCATTTAAAATTTCTATA
1 AAAATTTATCATTAAAAATTTCTATA
8474580 AA
1 AA
8474582 TTCCATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATTTATCATTAAAAATTTCTATA
Found at i:8474643 original size:206 final size:203
Alignment explanation
Indices: 8474243--8474628 Score: 504
Period size: 206 Copynumber: 1.9 Consensus size: 203
8474233 TCAACCCAAA
8474243 TTTTTTATTTGAAAAAGAATATAATTATTTGTATTGAAATTTCATCTAAATTATTTCACAATTTG
1 TTTTTTATTTGAAAAAGAATATAATTATTTGTATTGAAATTTCATCTAAATTATTTCACAATTTG
* * *
8474308 GGCCAAATTTAGAGAAAATTTCTCACTTAAAGATTTTTAGAAAATTTACTATTTGAAATTTTTAA
66 GGACAAATTTAGAGAAAATTTCTCACTTAAAAATTTTTAGAAAATTTACTATTTAAAATTTTTAA
* * **
8474373 GAATCTCATCCTTGGATAATTTGTATTTAATTCCAAAATTTTTTATATTTTTATGTTTTTTTTAA
131 GAATCTCATCATTAGATAATTAATATTTAATTCCAAAA-TTTTTATATTTTTATGTTTTTTTTAA
8474438 TATTCTAAT
195 TATTCTAAT
8474447 TTTTTTATTTTGAAAATA-AATATTAATTA-TTGTTATTGAAACTTT-ATCTAAATTATTTCACA
1 TTTTTTA-TTTGAAAA-AGAATA-TAATTATTTG-TATTGAAA-TTTCATCTAAATTATTTCACA
* *
8474509 ATTTGGGATAAATTTAGATAAAATTTCTCACTTAAAAATTTTATA-AAAATTTA-TCATTTAAAA
61 ATTTGGGACAAATTTAGAGAAAATTTCTCACTTAAAAATTTT-TAGAAAATTTACT-ATTTAAAA
* *
8474572 TTTCTATA-AAT-TCCATCATTAGATAATTAATATTT-ATTCTC-AAA-TTTTATTTTTTTA
124 TTTTTA-AGAATCT-CATCATTAGATAATTAATATTTAATTC-CAAAATTTTTATATTTTTA
8474629 CTTTTTATTT
Statistics
Matches: 161, Mismatches: 11, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
203 12 0.07
204 7 0.04
205 24 0.15
206 112 0.70
207 6 0.04
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (203 bp):
TTTTTTATTTGAAAAAGAATATAATTATTTGTATTGAAATTTCATCTAAATTATTTCACAATTTG
GGACAAATTTAGAGAAAATTTCTCACTTAAAAATTTTTAGAAAATTTACTATTTAAAATTTTTAA
GAATCTCATCATTAGATAATTAATATTTAATTCCAAAATTTTTATATTTTTATGTTTTTTTTAAT
ATTCTAAT
Found at i:8474723 original size:20 final size:21
Alignment explanation
Indices: 8474695--8474733 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8474685 AAAAATAAAA
*
8474695 TAAATAAAATAATAAAAAACC
1 TAAATAAAAAAATAAAAAACC
8474716 TAAA-AAAAAAATAAAAAA
1 TAAATAAAAAAATAAAAAA
8474734 GGCTTGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.15
Consensus pattern (21 bp):
TAAATAAAAAAATAAAAAACC
Found at i:8475216 original size:32 final size:31
Alignment explanation
Indices: 8475146--8475217 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
8475136 CTAGAATACC
*
8475146 TTGTCGAAAAATTCAACCGACGTTGAAAAAT
1 TTGTCAAAAAATTCAACCGACGTTGAAAAAT
** * *
8475177 TCATCAAAAAATTCAATCGACGTATGAAAATT
1 TTGTCAAAAAATTCAACCGACGT-TGAAAAAT
8475209 TTGTCAAAA
1 TTGTCAAAA
8475218 TCTAAAAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 19 0.58
32 14 0.42
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.28
Consensus pattern (31 bp):
TTGTCAAAAAATTCAACCGACGTTGAAAAAT
Found at i:8475244 original size:21 final size:18
Alignment explanation
Indices: 8475203--8475251 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 18
8475193 TCGACGTATG
8475203 AAAATTTTGTCAAAATCTA
1 AAAATTTT-TCAAAATCTA
8475222 AAAATTTTTCAAAATTTTCTA
1 AAAATTTTTCAAAA---TCTA
8475243 AAAATTTTT
1 AAAATTTTT
8475252 TTTTATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.22
19 8 0.30
21 13 0.48
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (18 bp):
AAAATTTTTCAAAATCTA
Found at i:8475954 original size:84 final size:83
Alignment explanation
Indices: 8475822--8476028 Score: 276
Period size: 84 Copynumber: 2.5 Consensus size: 83
8475812 TTAAACAAAA
* *
8475822 CTCCTCTAAACAGAGGCTCAATAACTTTGAAACAATAAA-TGCTTCTCTAAATAGAGGC-ACCAC
1 CTCCTCTAAACAGAGGCACCATAACTTTGAAA-AATAAATTGCTTCTCTAAATAGAGGCAACCAC
*
8475885 AGCTTTTGAAAAATAAAAATG
65 AAC-TTTGAAAAAT-AAAATG
* *
8475906 CTCCTCTAAACAAAGGCACCATAACTTTGGAAAATAAATTG-TTCCTCTAAATAGAGGCAACCAC
1 CTCCTCTAAACAGAGGCACCATAACTTTGAAAAATAAATTGCTT-CTCTAAATAGAGGCAACCAC
*
8475970 AACTTTGAAAAATAAATTG
65 AACTTTGAAAAATAAAATG
* *
8475989 CTCCTCTAAACAGAGACAACCACAACTTTGAAAAATAAAT
1 CTCCTCTAAACAGAGGC-ACCATAACTTTGAAAAATAAAT
8476029 ACTCTTTAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
83 28 0.26
84 74 0.68
85 7 0.06
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (83 bp):
CTCCTCTAAACAGAGGCACCATAACTTTGAAAAATAAATTGCTTCTCTAAATAGAGGCAACCACA
ACTTTGAAAAATAAAATG
Found at i:8475974 original size:42 final size:41
Alignment explanation
Indices: 8475822--8476028 Score: 245
Period size: 42 Copynumber: 5.0 Consensus size: 41
8475812 TTAAACAAAA
* * *
8475822 CTCCTCTAAACAGAGGCTCAATAACTTTGAAACAATAAA-TG
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAA-AATAAATTG
* * * *
8475863 CTTCTCTAAATAGAGGCACCACAGCTTTTGAAAAATAAAAATG
1 CTCCTCTAAACAGAGGCACCACAAC-TTTGAAAAAT-AAATTG
* * *
8475906 CTCCTCTAAACAAAGGCACCATAACTTTGGAAAATAAATTG
1 CTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATTG
* *
8475947 TTCCTCTAAATAGAGGCAACCACAACTTTGAAAAATAAATTG
1 CTCCTCTAAACAGAGGC-ACCACAACTTTGAAAAATAAATTG
*
8475989 CTCCTCTAAACAGAGACAACCACAACTTTGAAAAATAAAT
1 CTCCTCTAAACAGAGGC-ACCACAACTTTGAAAAATAAAT
8476029 ACTCTTTAAT
Statistics
Matches: 141, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
41 41 0.29
42 78 0.55
43 22 0.16
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.24
Consensus pattern (41 bp):
CTCCTCTAAACAGAGGCACCACAACTTTGAAAAATAAATTG
Found at i:8476228 original size:23 final size:24
Alignment explanation
Indices: 8476188--8476232 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
8476178 AACTTCAGTT
8476188 TCTCAAGAATTCAAATTTGCAAGA
1 TCTCAAGAATTCAAATTTGCAAGA
**
8476212 TCTCAAG-ATTCGCATTTGCAA
1 TCTCAAGAATTCAAATTTGCAA
8476233 ATTGCAAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (24 bp):
TCTCAAGAATTCAAATTTGCAAGA
Found at i:8476480 original size:21 final size:21
Alignment explanation
Indices: 8476441--8476500 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
8476431 GATTTCACAC
* * *
8476441 CTCAAAGATCCTTACTTGAAA
1 CTCAAAGATTCTCATTTGAAA
*
8476462 CTCAAAGATTCTCATTTG-AG
1 CTCAAAGATTCTCATTTGAAA
* *
8476482 TTCGAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
8476501 TAAATTTTGG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:8476639 original size:58 final size:58
Alignment explanation
Indices: 8476462--8476655 Score: 289
Period size: 58 Copynumber: 3.3 Consensus size: 58
8476452 TTACTTGAAA
* *
8476462 CTCAAAGATTCTCATTTGAGTTCGAAGATTCTCATTTGATAAATTTTGGGTTTCACAC
1 CTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACAC
* ** * *
8476520 CTTAAAGATTCTCATTTGAAACTCAAAGATTCACATTCGACAAATTTTGGGTTTCACAC
1 CTCAAAGATTCTCATTTG-AGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACAC
* * *
8476579 CTCAAAGATTCTCATTTGAGTTTGAAGATTCACATTCGATAAATTTTGAGTTTCATAC
1 CTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACAC
8476637 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
8476656 AATTCAAAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
58 69 0.57
59 51 0.43
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (58 bp):
CTCAAAGATTCTCATTTGAGTTCGAAGATTCACATTCGATAAATTTTGGGTTTCACAC
Found at i:8476664 original size:21 final size:22
Alignment explanation
Indices: 8476637--8476694 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
8476627 AGTTTCATAC
8476637 CTCAAAGATTCTCATTTGA-AA
1 CTCAAAGATTCTCATTTGAGAA
* *
8476658 TTCAAAGATTCTCCTTTGAGAA
1 CTCAAAGATTCTCATTTGAGAA
*
8476680 CTCAAAAATTCTCAT
1 CTCAAAGATTCTCAT
8476695 CAAAAGATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTGAGAA
Found at i:8480890 original size:73 final size:73
Alignment explanation
Indices: 8480810--8480959 Score: 248
Period size: 73 Copynumber: 2.1 Consensus size: 73
8480800 TGCATGAATG
* * *
8480810 GAATGTGGATCTTCATAGATGAAATGAGAATGATGCCAATGATAATGTTAAACATGGTCATGAAA
1 GAATGTGGATCTTCATAGATGAAATGAGAATGATGCAAATGATAATATTAAACATGATCATGAAA
8480875 ATGATGCA
66 ATGATGCA
*
8480883 GAATGTGGATCTTCATGGATGAAATGAGAATGATGCAAATGATAATATTAAACATGATCATGAAA
1 GAATGTGGATCTTCATAGATGAAATGAGAATGATGCAAATGATAATATTAAACATGATCATGAAA
*
8480948 ATTATGCA
66 ATGATGCA
8480956 -AATG
1 GAATG
8480960 CACAAAATCA
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
72 4 0.06
73 68 0.94
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (73 bp):
GAATGTGGATCTTCATAGATGAAATGAGAATGATGCAAATGATAATATTAAACATGATCATGAAA
ATGATGCA
Found at i:8482789 original size:23 final size:23
Alignment explanation
Indices: 8482762--8482806 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8482752 AAAAATACCA
*
8482762 AAAATAAACACATAAATAAAATT
1 AAAATAAACAAATAAATAAAATT
* *
8482785 AAAATCAATAAATAAATAAAAT
1 AAAATAAACAAATAAATAAAAT
8482807 ACTAAAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (23 bp):
AAAATAAACAAATAAATAAAATT
Found at i:8484279 original size:130 final size:131
Alignment explanation
Indices: 8484045--8484305 Score: 479
Period size: 130 Copynumber: 2.0 Consensus size: 131
8484035 TCGAGATCTG
*
8484045 TCTTTACAGGAAATGGTCTTGACTTAATCGAACAAAAAGAGATAATTGACCTAAGACTGGACTCG
1 TCTTTACAGGAAATGGTCTTGACTTAATCGAACAAAAAGAGATAATTGAACTAAGACTGGACTCG
8484110 GATGAAAATTGACTTAAACCAGCTAAAAATCTCATAGCTATACCATTTTAGGACAGCATCCTTAA
66 GATGAAAATTGACTTAAACCAGCTAAAAATCTCATAGCTATACCATTTTAGGACAGCATCCTTAA
8484175 A
131 A
8484176 TCTTTACAGGAAATGGTCTTGACTTAATCGAACAAAAAGAG-TAATTGAACTAAGACTGGACTCG
1 TCTTTACAGGAAATGGTCTTGACTTAATCGAACAAAAAGAGATAATTGAACTAAGACTGGACTCG
* * *
8484240 GATGAAAATTGACTTAAACCAGCTAAAGATCTTATAGCTATACCATTTTAGGATAGCATCCTTAA
66 GATGAAAATTGACTTAAACCAGCTAAAAATCTCATAGCTATACCATTTTAGGACAGCATCCTTAA
8484305 A
131 A
8484306 AAACACATGC
Statistics
Matches: 126, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
130 85 0.67
131 41 0.33
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (131 bp):
TCTTTACAGGAAATGGTCTTGACTTAATCGAACAAAAAGAGATAATTGAACTAAGACTGGACTCG
GATGAAAATTGACTTAAACCAGCTAAAAATCTCATAGCTATACCATTTTAGGACAGCATCCTTAA
A
Found at i:8487564 original size:17 final size:17
Alignment explanation
Indices: 8487542--8487574 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8487532 TTTTGATGAC
8487542 GCTTACACTTACTCAGA
1 GCTTACACTTACTCAGA
8487559 GCTTACACTTACTCAG
1 GCTTACACTTACTCAG
8487575 GGCTCACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (17 bp):
GCTTACACTTACTCAGA
Found at i:8487583 original size:17 final size:17
Alignment explanation
Indices: 8487546--8487583 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
8487536 GATGACGCTT
*
8487546 ACACTTACTCAGAGCTT
1 ACACTTACTCAGAGCTC
*
8487563 ACACTTACTCAGGGCTC
1 ACACTTACTCAGAGCTC
8487580 ACAC
1 ACAC
8487584 CCAATCGATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.24
Consensus pattern (17 bp):
ACACTTACTCAGAGCTC
Found at i:8492126 original size:2 final size:2
Alignment explanation
Indices: 8492119--8492155 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8492109 TCAAATCGAA
8492119 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
8492156 TTTCGATTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8495249 original size:87 final size:87
Alignment explanation
Indices: 8495103--8495277 Score: 314
Period size: 87 Copynumber: 2.0 Consensus size: 87
8495093 AGTCTTCTGT
*
8495103 AGGAACGATGGCATATGTAAGCATTCTTATCATCTTTACATTGAATTTATTTTGGCCGAGTTTTT
1 AGGAACGATGGCATATGTAAGCATTCTTATCATCTTTACATTGAATTTAGTTTGGCCGAGTTTTT
8495168 TCAATGAATTTCCATGAAGCCA
66 TCAATGAATTTCCATGAAGCCA
* *
8495190 AGGAACGGTGGCATATGTAAGCATTCTTATCATCTTTACATTGAATTTAGTTTGTCCGAGTTTTT
1 AGGAACGATGGCATATGTAAGCATTCTTATCATCTTTACATTGAATTTAGTTTGGCCGAGTTTTT
*
8495255 TCAATGAATTTCCCTGAAGCCA
66 TCAATGAATTTCCATGAAGCCA
8495277 A
1 A
8495278 CTCAAAGTCT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (87 bp):
AGGAACGATGGCATATGTAAGCATTCTTATCATCTTTACATTGAATTTAGTTTGGCCGAGTTTTT
TCAATGAATTTCCATGAAGCCA
Found at i:8498922 original size:74 final size:75
Alignment explanation
Indices: 8498775--8498954 Score: 247
Period size: 74 Copynumber: 2.4 Consensus size: 75
8498765 CTAAGGTAAG
* * * *
8498775 GGATCGATACCCTCTTAAAGAGATTGATCGATTGCTCAGATAGAATGTTTCCCAAGTTCGAAAAC
1 GGATCGATCCCCTCTTAAAGGGATTGATCGGTTGCTCAGACAGAATGTTTCCCAAGTTCGAAAAC
* *
8498840 CTAGAAAAAA
66 CCAAAAAAAA
* * * *
8498850 -GATCGATCCCCTCTTAAAAGGGATCGATCGGTTGCTCAGACAGAATGTTT-TCGAGTTTGAAAA
1 GGATCGATCCCCTCTT-AAAGGGATTGATCGGTTGCTCAGACAGAATGTTTCCCAAGTTCGAAAA
8498913 CCCAAAAAAAA
65 CCCAAAAAAAA
8498924 GGATCGATCCCCTCTTAAAGGGATTGATCGG
1 GGATCGATCCCCTCTTAAAGGGATTGATCGG
8498955 GTAAGGCAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
74 47 0.51
75 45 0.49
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (75 bp):
GGATCGATCCCCTCTTAAAGGGATTGATCGGTTGCTCAGACAGAATGTTTCCCAAGTTCGAAAAC
CCAAAAAAAA
Found at i:8507473 original size:74 final size:74
Alignment explanation
Indices: 8507333--8507511 Score: 256
Period size: 74 Copynumber: 2.4 Consensus size: 74
8507323 CTAAAGCAAG
* * * *
8507333 GGATCGATCTCCTCTTAAAGGAATCGATCGATTGCTCAGCTAGAATGTTTCCCAAGTTTAAAAAC
1 GGATCGATCTCCTCTTAAAGGGATCGATCGGTTGCTCAACTAGAATGTTTCCCAAGTTCAAAAAC
8507398 CCAAAAAAA
66 CCAAAAAAA
*
8507407 TGATCGATCTCCTCTTAAAAGGGATCGATCGGTTGCTCAAAC-AGAATGTTTCCCAA-TTCAAAA
1 GGATCGATCTCCTCTT-AAAGGGATCGATCGGTTGCTC-AACTAGAATGTTTCCCAAGTTCAAAA
*
8507470 ACCCAAAAAAG
64 ACCCAAAAAAA
8507481 GGATCGATC-CCTTCTTAAAGGGATCGATCGG
1 GGATCGATCTCC-TCTTAAAGGGATCGATCGG
8507512 GTAAGGTAAA
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
73 17 0.18
74 43 0.45
75 33 0.35
76 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.25
Consensus pattern (74 bp):
GGATCGATCTCCTCTTAAAGGGATCGATCGGTTGCTCAACTAGAATGTTTCCCAAGTTCAAAAAC
CCAAAAAAA
Found at i:8508539 original size:16 final size:16
Alignment explanation
Indices: 8508520--8508553 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8508510 TATAAATCCA
*
8508520 TATATATATATATATG
1 TATATACATATATATG
*
8508536 TATATGCATATATATG
1 TATATACATATATATG
8508552 TA
1 TA
8508554 AAGGGATATT
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:0.03, G:0.09, T:0.47
Consensus pattern (16 bp):
TATATACATATATATG
Found at i:8511139 original size:11 final size:11
Alignment explanation
Indices: 8511123--8511148 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
8511113 TAAGATTTTA
8511123 TTATAAAATAT
1 TTATAAAATAT
8511134 TTATAAAATAT
1 TTATAAAATAT
8511145 TTAT
1 TTAT
8511149 TTTTGAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAAAATAT
Found at i:8511463 original size:16 final size:17
Alignment explanation
Indices: 8511439--8511496 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 17
8511429 TGTATTTTTT
*
8511439 TAATTAAAACAAA-AAA
1 TAATAAAAACAAATAAA
*
8511455 TAATAAAAATAAATAAA
1 TAATAAAAACAAATAAA
*
8511472 -AATAAACA-AAATAACA
1 TAATAAAAACAAATAA-A
8511488 TAAATAAAA
1 T-AATAAAA
8511497 TAAGAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
15 6 0.18
16 19 0.56
17 3 0.09
18 6 0.18
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.19
Consensus pattern (17 bp):
TAATAAAAACAAATAAA
Found at i:8511496 original size:14 final size:14
Alignment explanation
Indices: 8511451--8511516 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
8511441 ATTAAAACAA
*
8511451 AAAATAATAAAAAT
1 AAAATAAAAAAAAT
*
8511465 -AAATAAAAATAAAC
1 AAAATAAAAA-AAAT
* *
8511479 AAAATAACATAAAT
1 AAAATAAAAAAAAT
*
8511493 AAAATAAGAAAAAT
1 AAAATAAAAAAAAT
8511507 AAAATCAAAA
1 AAAAT-AAAA
8511517 TAGAAAATGA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 8 0.20
14 23 0.56
15 10 0.24
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Done.