Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 118 of 121
Found at i:20328050 original size:24 final size:23
Alignment explanation
Indices: 20328006--20328050 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
20327996 ATTTTATTGA
*
20328006 TTTTAAATTAATAAAATATTATT
1 TTTTAAATAAATAAAATATTATT
20328029 TTTTAATATAAATATAAA-ATTA
1 TTTTAA-ATAAATA-AAATATTA
20328051 AATAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 10 0.53
25 3 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTTAAATAAATAAAATATTATT
Found at i:20328057 original size:16 final size:16
Alignment explanation
Indices: 20328031--20328083 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
20328021 ATATTATTTT
20328031 TTAATATAAATATAAAA
1 TTAA-ATAAATATAAAA
20328048 TTAAATAAATAT-AAA
1 TTAAATAAATATAAAA
*
20328063 -T--ATAAATATATAA
1 TTAAATAAATATAAAA
20328076 TTAAATAA
1 TTAAATAA
20328084 TAATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 2 0.06
15 3 0.10
16 12 0.39
17 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TTAAATAAATATAAAA
Found at i:20331124 original size:89 final size:89
Alignment explanation
Indices: 20330973--20331153 Score: 274
Period size: 89 Copynumber: 2.0 Consensus size: 89
20330963 CTTATTCTTG
* * * *
20330973 ATTGTTTGCATTTTCATGTAAATTTTTCAGAACTGATTAAATGTATTAGCATTATGCCTTGTTTC
1 ATTGTTAGCATTCTCATGTAAATCTTTCAGAACTGATTAAATGTATTAGCATGATGCCTTGTTTC
20331038 TCAATTTCATAACCTCCTTCATAA
66 TCAATTTCATAACCTCCTTCATAA
* **
20331062 ATTGTTAGCATTCTCATGTTAATCTTTCAGAACTGATTCGATGTA-TATGCATGATGCCTTGTTT
1 ATTGTTAGCATTCTCATGTAAATCTTTCAGAACTGATTAAATGTATTA-GCATGATGCCTTGTTT
*
20331126 CTTAATTTCATAACCTCCTTCATAA
65 CTCAATTTCATAACCTCCTTCATAA
20331151 ATT
1 ATT
20331154 ACCATGTCAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 2 0.02
89 81 0.98
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (89 bp):
ATTGTTAGCATTCTCATGTAAATCTTTCAGAACTGATTAAATGTATTAGCATGATGCCTTGTTTC
TCAATTTCATAACCTCCTTCATAA
Found at i:20333064 original size:26 final size:27
Alignment explanation
Indices: 20333014--20333077 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
20333004 TTCGTTTCGA
*
20333014 TAAAATA-TATATTCGATTTTGATAT-
1 TAAAATATTATATTCGATTATGATATG
*
20333039 TAAAATATTATATTTGATTCAT-ATATG
1 TAAAATATTATATTCGATT-ATGATATG
20333066 TATAAA-ATTATA
1 TA-AAATATTATA
20333078 ATTAATTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 7 0.21
26 14 0.42
27 9 0.27
28 3 0.09
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (27 bp):
TAAAATATTATATTCGATTATGATATG
Found at i:20333140 original size:42 final size:40
Alignment explanation
Indices: 20333087--20333169 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 40
20333077 AATTAATTTG
**
20333087 AAATTAATTTAA-TATAATATTCATAAAATATTTTTAATAA
1 AAATTAATTTAATTAT-ATATAAATAAAATATTTTTAATAA
* *
20333127 AAATTATATTTTAATTATATATAAATATAATATTTTTATTAA
1 AAATTA-A-TTTAATTATATATAAATAAAATATTTTTAATAA
20333169 A
1 A
20333170 TTAACATCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
40 6 0.17
41 1 0.03
42 26 0.72
43 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (40 bp):
AAATTAATTTAATTATATATAAATAAAATATTTTTAATAA
Found at i:20333211 original size:14 final size:14
Alignment explanation
Indices: 20333192--20333245 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
20333182 ATTAAAGTAT
20333192 TAAATAATAATTTA
1 TAAATAATAATTTA
20333206 TAAAT-ATAATATTA
1 TAAATAATAAT-TTA
* *
20333220 TAAATATAAAATTAAA
1 TAAATA-ATAATT-TA
20333236 TAAATAATAA
1 TAAATAATAA
20333246 AAAATATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 5 0.15
14 13 0.39
15 4 0.12
16 11 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAATAATAATTTA
Found at i:20337643 original size:15 final size:15
Alignment explanation
Indices: 20337623--20337654 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20337613 CTGGCCTTAA
20337623 TTTCTCACATATTTG
1 TTTCTCACATATTTG
20337638 TTTCTCACATATTTG
1 TTTCTCACATATTTG
20337653 TT
1 TT
20337655 GTTATCAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTCTCACATATTTG
Found at i:20340567 original size:24 final size:22
Alignment explanation
Indices: 20340536--20340584 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
20340526 AGTCGGTGCC
20340536 ATTTAGTTTAA-TTACATTTGTGT
1 ATTTAG-TTAATTTACATTT-TGT
*
20340559 ATTTGAGTTAATTTATATTTTGT
1 ATTT-AGTTAATTTACATTTTGT
20340582 ATT
1 ATT
20340585 ATATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.27, C:0.02, G:0.12, T:0.59
Consensus pattern (22 bp):
ATTTAGTTAATTTACATTTTGT
Found at i:20340647 original size:30 final size:29
Alignment explanation
Indices: 20340571--20340647 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 29
20340561 TTGAGTTAAT
* *
20340571 TTATATTTTGTATTATATTTTATACAAAAA
1 TTATATTTTATATT-TTTTTTATACAAAAA
* * **
20340601 TTTTATATTATAATTTTTTTTATATGAAAA
1 TTATATTTTAT-ATTTTTTTTATACAAAAA
20340631 TATATATTTTATATTTT
1 T-TATATTTTATATTTT
20340648 ATTAAATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 26 0.70
31 11 0.30
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (29 bp):
TTATATTTTATATTTTTTTTATACAAAAA
Found at i:20344861 original size:19 final size:19
Alignment explanation
Indices: 20344837--20344881 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
20344827 CGAAACTCTA
*
20344837 ATGATAAAAATATTTAGAC
1 ATGATAAAAATATCTAGAC
*
20344856 ATGATAAAAATATCTATAC
1 ATGATAAAAATATCTAGAC
20344875 ATGATAA
1 ATGATAA
20344882 TTTATGTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (19 bp):
ATGATAAAAATATCTAGAC
Found at i:20345158 original size:19 final size:19
Alignment explanation
Indices: 20345118--20345160 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20345108 TTAACATTAA
*
20345118 AATATCTAATCAATAATTT
1 AATATCTAATCAATAATAT
*
20345137 AATATTTAATCAA-AATGAT
1 AATATCTAATCAATAAT-AT
20345156 AATAT
1 AATAT
20345161 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATCTAATCAATAATAT
Found at i:20345546 original size:19 final size:19
Alignment explanation
Indices: 20345506--20345548 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20345496 TTAACATTAA
*
20345506 AATATCTAATCAATAATTT
1 AATATCTAATCAATAATAT
*
20345525 AATATTTAATCAA-AATGAT
1 AATATCTAATCAATAAT-AT
20345544 AATAT
1 AATAT
20345549 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATCTAATCAATAATAT
Found at i:20345666 original size:388 final size:388
Alignment explanation
Indices: 20344950--20345731 Score: 1564
Period size: 388 Copynumber: 2.0 Consensus size: 388
20344940 TATAATATAA
20344950 ATAATTTTGATACAAATATTTAAATGATACGAATAATCAAAATACGAATATAATAAATTTATTAT
1 ATAATTTTGATACAAATATTTAAATGATACGAATAATCAAAATACGAATATAATAAATTTATTAT
20345015 ATGTGTTATATGTGATATGATATGATTAACATATTTTAATATATTTTAAGAATGAGTAACACAAC
66 ATGTGTTATATGTGATATGATATGATTAACATATTTTAATATATTTTAAGAATGAGTAACACAAC
20345080 ATGATATGATTAATACGATTAAATACTATTAACATTAAAATATCTAATCAATAATTTAATATTTA
131 ATGATATGATTAATACGATTAAATACTATTAACATTAAAATATCTAATCAATAATTTAATATTTA
20345145 ATCAAAATGATAATATAATAAAAATATTAAAGCACAATTATATGCGAGTTATAAGTGTATAATTT
196 ATCAAAATGATAATATAATAAAAATATTAAAGCACAATTATATGCGAGTTATAAGTGTATAATTT
20345210 ATACATGTTGATATAATAACATAATTAATTAATTAATAATATCTTAAACGTATAACAAAGGTAAG
261 ATACATGTTGATATAATAACATAATTAATTAATTAATAATATCTTAAACGTATAACAAAGGTAAG
20345275 ACATAAAACACAACAAATATGATATCATGTTTTAAATGTATCAATATGATTAAGACATGAAAT
326 ACATAAAACACAACAAATATGATATCATGTTTTAAATGTATCAATATGATTAAGACATGAAAT
20345338 ATAATTTTGATACAAATATTTAAATGATACGAATAATCAAAATACGAATATAATAAATTTATTAT
1 ATAATTTTGATACAAATATTTAAATGATACGAATAATCAAAATACGAATATAATAAATTTATTAT
20345403 ATGTGTTATATGTGATATGATATGATTAACATATTTTAATATATTTTAAGAATGAGTAACACAAC
66 ATGTGTTATATGTGATATGATATGATTAACATATTTTAATATATTTTAAGAATGAGTAACACAAC
20345468 ATGATATGATTAATACGATTAAATACTATTAACATTAAAATATCTAATCAATAATTTAATATTTA
131 ATGATATGATTAATACGATTAAATACTATTAACATTAAAATATCTAATCAATAATTTAATATTTA
20345533 ATCAAAATGATAATATAATAAAAATATTAAAGCACAATTATATGCGAGTTATAAGTGTATAATTT
196 ATCAAAATGATAATATAATAAAAATATTAAAGCACAATTATATGCGAGTTATAAGTGTATAATTT
20345598 ATACATGTTGATATAATAACATAATTAATTAATTAATAATATCTTAAACGTATAACAAAGGTAAG
261 ATACATGTTGATATAATAACATAATTAATTAATTAATAATATCTTAAACGTATAACAAAGGTAAG
20345663 ACATAAAACACAACAAATATGATATCATGTTTTAAATGTATCAATATGATTAAGACATGAAAT
326 ACATAAAACACAACAAATATGATATCATGTTTTAAATGTATCAATATGATTAAGACATGAAAT
20345726 ATAATT
1 ATAATT
20345732 ATAAAAAACA
Statistics
Matches: 394, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
388 394 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (388 bp):
ATAATTTTGATACAAATATTTAAATGATACGAATAATCAAAATACGAATATAATAAATTTATTAT
ATGTGTTATATGTGATATGATATGATTAACATATTTTAATATATTTTAAGAATGAGTAACACAAC
ATGATATGATTAATACGATTAAATACTATTAACATTAAAATATCTAATCAATAATTTAATATTTA
ATCAAAATGATAATATAATAAAAATATTAAAGCACAATTATATGCGAGTTATAAGTGTATAATTT
ATACATGTTGATATAATAACATAATTAATTAATTAATAATATCTTAAACGTATAACAAAGGTAAG
ACATAAAACACAACAAATATGATATCATGTTTTAAATGTATCAATATGATTAAGACATGAAAT
Found at i:20347290 original size:17 final size:18
Alignment explanation
Indices: 20347268--20347301 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20347258 TTTAATATAT
20347268 AAATTAAAATT-TTTTAA
1 AAATTAAAATTATTTTAA
*
20347285 AAATTATAATTATTTTA
1 AAATTAAAATTATTTTA
20347302 TATTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATTAAAATTATTTTAA
Found at i:20349481 original size:17 final size:18
Alignment explanation
Indices: 20349461--20349501 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
20349451 CTTTTTATTT
*
20349461 TATAAAAATTTA-AAAAA
1 TATAAAAATTAATAAAAA
20349478 TAT-AAAATTAATAAAAA
1 TATAAAAATTAATAAAAA
20349495 TATAAAA
1 TATAAAA
20349502 TTAGAGATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 7 0.33
17 11 0.52
18 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TATAAAAATTAATAAAAA
Found at i:20350550 original size:52 final size:52
Alignment explanation
Indices: 20350437--20350542 Score: 126
Period size: 51 Copynumber: 2.0 Consensus size: 52
20350427 AATTTGAAAT
* * * *
20350437 AAAAATAAAAATAATATAATTTAAAATTTTAATAATTATTATATATGTATCTA
1 AAAAAT-AAAATAATAAAATTTAAAATTTTAATAATTATAAAATATGTATATA
* *
20350490 AAAAATAAAA-AATAAAATTTATATTTTTATATAATTATAAAATATG-ATATA
1 AAAAATAAAATAATAAAATTTAAAATTTTA-ATAATTATAAAATATGTATATA
20350541 AA
1 AA
20350543 TACATAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
51 22 0.48
52 18 0.39
53 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.40
Consensus pattern (52 bp):
AAAAATAAAATAATAAAATTTAAAATTTTAATAATTATAAAATATGTATATA
Found at i:20350588 original size:27 final size:29
Alignment explanation
Indices: 20350531--20350590 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 29
20350521 TAATTATAAA
*
20350531 ATATGATATAAATACATAAATTTTATATTTT
1 ATATAATATAAATACATAAA--TTATATTTT
*
20350562 ATATAATATAAATACATAAATTATTTTTT
1 ATATAATATAAATACATAAATTATATTTT
20350591 TTTCAGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 8 0.30
31 19 0.70
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATAATATAAATACATAAATTATATTTT
Found at i:20354300 original size:31 final size:32
Alignment explanation
Indices: 20354228--20354302 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
20354218 ATTAAATATA
* *
20354228 ATTTCATTTGGTAAAATATTAATGCACATTTG
1 ATTTCATTTGATAAAATATTAATGCACATTGG
20354260 ATTTCATTTGATAAAATATTAATGCAC-TTGG
1 ATTTCATTTGATAAAATATTAATGCACATTGG
*
20354291 ATTTTATTTGAT
1 ATTTCATTTGAT
20354303 TTTATTTGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 14 0.35
32 26 0.65
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (32 bp):
ATTTCATTTGATAAAATATTAATGCACATTGG
Found at i:20358621 original size:33 final size:33
Alignment explanation
Indices: 20358561--20358658 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 33
20358551 TATTTTCGTA
* *** * *
20358561 AAAATATCACAATATTAGCAACGTTTGTATTTG
1 AAAATACCACAATATTAGTGGCATTTGTATCTG
20358594 AAAATACCACAATATTAGTGGCATTTGTATCTG
1 AAAATACCACAATATTAGTGGCATTTGTATCTG
* *** *
20358627 AAAATGCCGTTATATTAGTGGCATTTATATCT
1 AAAATACCACAATATTAGTGGCATTTGTATCT
20358659 TTGAGAGGCC
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (33 bp):
AAAATACCACAATATTAGTGGCATTTGTATCTG
Found at i:20358775 original size:100 final size:100
Alignment explanation
Indices: 20358608--20358799 Score: 260
Period size: 100 Copynumber: 1.9 Consensus size: 100
20358598 TACCACAATA
* ** *
20358608 TTAGTGGCATTTGTATCTGAAAATGCCGTTATATTAGTGGCATTTATATCTTTGAGAGGCCCTTA
1 TTAGTGGCATTTGTATCTGAAAATGCCGCTATATTAACGGCATTTATATCTTTGAAAGGCCCTTA
*
20358673 ATTTAGTGACATTCTTATGAGAAAAACTTATTGCT
66 ATTTAATGACATTCTTATGAGAAAAACTTATTGCT
* * * * * *
20358708 TTAGTGGCGTTTGTATTTGAAAATGCTGCTATATTAACGGCGTTTATATTTTTGAAATGCCGC-T
1 TTAGTGGCATTTGTATCTGAAAATGCCGCTATATTAACGGCATTTATATCTTTGAAAGGCC-CTT
*
20358772 AATTTAATGACATTTTTATGAGAAAAAC
65 AATTTAATGACATTCTTATGAGAAAAAC
20358800 ACCGTTGCTT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
100 78 0.99
101 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (100 bp):
TTAGTGGCATTTGTATCTGAAAATGCCGCTATATTAACGGCATTTATATCTTTGAAAGGCCCTTA
ATTTAATGACATTCTTATGAGAAAAACTTATTGCT
Found at i:20364636 original size:48 final size:47
Alignment explanation
Indices: 20364556--20364648 Score: 134
Period size: 48 Copynumber: 2.0 Consensus size: 47
20364546 ATTACACTAC
* *
20364556 TAAAATTTTAAGGAGTTATTAAAGGCATTTATTCTAGAAAAATGCTT
1 TAAAATTTTAAGGAGTTAGTAAAGGCATTTATTATAGAAAAATGCTT
*
20364603 TAAAATTTTAA-GACGGTTAGTGAAGGCATTTATTATAGAAAAATGC
1 TAAAATTTTAAGGA--GTTAGTAAAGGCATTTATTATAGAAAAATGC
20364649 CTTCACTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
46 2 0.05
47 11 0.27
48 28 0.68
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.35
Consensus pattern (47 bp):
TAAAATTTTAAGGAGTTAGTAAAGGCATTTATTATAGAAAAATGCTT
Found at i:20365690 original size:187 final size:184
Alignment explanation
Indices: 20364605--20365676 Score: 993
Period size: 187 Copynumber: 5.7 Consensus size: 184
20364595 AAATGCTTTA
* * * *
20364605 AAATTTTAAGACGGTTAGTGAAGGCATTTATTATAGAAAAATGCCTTCACTAATTCTTTTTAATT
1 AAATTTTAAGACGGTTAGTGAAGACGTTTATT-TAGAAAAATACCTTCACTAATTCGTTTTAATT
* * * * * *
20364670 TATGTACATAATTATTGTAGGC-ATTTTTTAAGAATAAATGCATTCAATAATTTTTTTATAAAAT
65 TTTGTACATAATTATTGAAGGCTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTA-AAAAT
* * * * *
20364734 TTTTGGTATGATTAAAGGTGTCTT-TCAGTGAAAAATG-CTCTCAATATTCCACTACTC
129 TTTTGG-ATTATTAAAGGCGTCTTCT-ACTGAAAAATGCCT-TCAATATACCAGTACTC
** ** * * * **
20364791 AAATTTTAAGACGGTTAGTGAAGGTGTTTATTTTAGAAAAATGTCATCATTGATTCCATTTAATT
1 AAATTTTAAGACGGTTAGTGAAGACGTTTA-TTTAGAAAAATACCTTCACTAATTCGTTTTAATT
* *
20364856 TATGTACATAATTATTGAAGG-TATTTTTTTGAGAACAAACGCCTTTAATAATTTTTTTTAAAAA
65 TTTGTACATAATTATTGAAGGCTA-TTTTTTGAGAACAAACGCCTTCAATAA-TTTTTTT-AAAA
* ** * * * * *
20364920 ATTTTGGGATTATTAAAGGTATTTTCTAATGAAAAACGCATTCAATATACCAGTACTT
127 ATTTTTGGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTCAATATACCAGTACTC
* * * * ** *
20364978 AAATTTTAAGATGATTAGTGAA-AGCGTTTATTTCAAAAAAATACCTTTACTAATTATTTTTAAA
1 AAATTTTAAGACGGTTAGTGAAGA-CGTTTATTT-AGAAAAATACCTTCACTAATTCGTTTTAAT
* * *
20365042 TTTTGTACATAATTTATTGAAGGCCTTTTTTTTTTTATATATAACAAACGCCTTCAATAATTTTC
64 TTTTGTACATAA-TTATTGAAGG-C----TATTTTT-T-GAGAACAAACGCCTTCAATAATTTT-
* * * *
20365107 TTCTAAAAATTTTTGAGATTATTAAAGGCGTCTTATAGTGAAAAACGCCTTCAATATACCATTAC
120 TT-TAAAAATTTTTG-GATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTCAATATACCAGTAC
*
20365172 TA
183 TC
* * * *
20365174 AAATTTTAAGACGGTTAGTGAATGTA--TTTATTTCAAAAAAATACTTTTAATAATTTC-TTTTA
1 AAATTTTAAGACGGTTAGTGAA-G-ACGTTTATTT-AGAAAAATACCTTCACTAA-TTCGTTTTA
* * * * * **
20365236 AATTTTGTACATAATTATGGAAAGC-ATTTTTTG-GTAACAAATGCCTTAAATAATTTTTTTTTA
62 ATTTTTGTACATAATTATTGAAGGCTATTTTTTGAG-AACAAACGCCTTCAATAATTTTTTTAAA
* *
20365299 AATTTTAGGATTATTAAAGGCGTCTTCTACTGAAAAATGCTTTCAATATACCAGTACTC
126 AATTTTTGGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTCAATATACCAGTACTC
* *** * * *
20365358 AACTTTTAAGATAATTAGTGAATG-CCTTTATTTTAGGAAAATGCCTTCACTAATTCGTTTTAAT
1 AAATTTTAAGACGGTTAGTGAA-GACGTTTA-TTTAGAAAAATACCTTCACTAATTCGTTTTAAT
* * * *
20365422 TTTTGTACATAATTATCGAAGG-TATTTTTTTATAACAAACGCCTTTAATAATTTTCTTTTAAAA
64 TTTTGTACATAATTATTGAAGGCTATTTTTTGAGAACAAACGCCTTCAATAA-TTT-TTTT-AAA
* * *
20365486 AATTTTTGGATTATTAAAGGCATCTTCTACTGAAAAATACCTTCAATATACTAGTACTC
126 AATTTTTGGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTCAATATACCAGTACTC
* * * *
20365545 AAATTTTAATATGGTTAGTGAAGACGTTTATTCTAGAAAAATACCTTTACTAATTCGTTGTAATT
1 AAATTTTAAGACGGTTAGTGAAGACGTTTATT-TAGAAAAATACCTTCACTAATTCGTTTTAATT
* * *
20365610 TTTGTACATAATTACT-AGAGGCGA-TTTTTGAGAACAAACGACTTCAATAATTTTTTTAAAAAT
65 TTTGTACATAATTATTGA-AGGCTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTAAAAAT
20365673 TTTT
129 TTTT
20365677 TTAAGAATAT
Statistics
Matches: 733, Mismatches: 114, Indels: 80
0.79 0.12 0.09
Matches are distributed among these distances:
183 3 0.00
184 141 0.19
185 19 0.03
186 91 0.12
187 281 0.38
188 31 0.04
189 6 0.01
193 5 0.01
194 7 0.01
195 38 0.05
196 108 0.15
197 2 0.00
199 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (184 bp):
AAATTTTAAGACGGTTAGTGAAGACGTTTATTTAGAAAAATACCTTCACTAATTCGTTTTAATTT
TTGTACATAATTATTGAAGGCTATTTTTTGAGAACAAACGCCTTCAATAATTTTTTTAAAAATTT
TTGGATTATTAAAGGCGTCTTCTACTGAAAAATGCCTTCAATATACCAGTACTC
Found at i:20366504 original size:28 final size:27
Alignment explanation
Indices: 20366473--20366554 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 27
20366463 CTGAACCTTG
20366473 TTGTTTGATATTATTTTGCTGAATGGT
1 TTGTTTGATATTATTTTGCTGAATGGT
* ** *
20366500 ATTGTATGATATTGCTATGCTGAATGGT
1 -TTGTTTGATATTATTTTGCTGAATGGT
*
20366528 TTG-TTGA-ATAATGTTT-CTGAATGGT
1 TTGTTTGATATTAT-TTTGCTGAATGGT
20366553 TT
1 TT
20366555 ACTGAAGGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
25 13 0.30
26 5 0.11
27 3 0.07
28 23 0.52
ACGTcount: A:0.22, C:0.05, G:0.23, T:0.50
Consensus pattern (27 bp):
TTGTTTGATATTATTTTGCTGAATGGT
Found at i:20368223 original size:21 final size:21
Alignment explanation
Indices: 20368179--20368223 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
20368169 GTAAGTTTAA
* *
20368179 TATTAATTGGTTTATTATATT
1 TATTAATTGGTTTATAATACT
20368200 TATTAATTTGGTTT-TAATACT
1 TATTAA-TTGGTTTATAATACT
20368221 TAT
1 TAT
20368224 ATTTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.29, C:0.02, G:0.09, T:0.60
Consensus pattern (21 bp):
TATTAATTGGTTTATAATACT
Found at i:20368749 original size:15 final size:17
Alignment explanation
Indices: 20368721--20368753 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
20368711 ATGCACAGTG
20368721 AATTATATTCCAACCTT
1 AATTATATTCCAACCTT
20368738 AATTAT-TT-CAACCTT
1 AATTATATTCCAACCTT
20368753 A
1 A
20368754 TCCAAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTATATTCCAACCTT
Found at i:20370331 original size:127 final size:127
Alignment explanation
Indices: 20370105--20370335 Score: 297
Period size: 127 Copynumber: 1.8 Consensus size: 127
20370095 TAACAAAATG
* **
20370105 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAATCATTCAAATTTATCATGTAAA
1 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTATCATGTAAA
* *
20370170 ATATTAAAGGCGTTTTGAGCCAAAAATGCCTTCAAGAATTTGTTCCAACTTTTGTGTATGAA
66 ATATTAAAGGCGGTTTGAGCCAAAAATACCTTCAAGAATTTGTTCCAACTTTTGTGTATGAA
* * * * **
20370232 TTATTAAAGGCGTTTTTGACAAAAATTGCCTTTAATAATCCAAAC-TAAAAATTTATTGAT-TGG
1 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTA-TCATGTAA
* *
20370295 ATTATTAAAGGCGAGTTT-CGCCTAAAAATACCTTCAAGAAT
65 AATATTAAAGGCG-GTTTGAGCC-AAAAATACCTTCAAGAAT
20370336 CGGTTCTATA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
126 24 0.27
127 64 0.73
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.35
Consensus pattern (127 bp):
TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTATCATGTAAA
ATATTAAAGGCGGTTTGAGCCAAAAATACCTTCAAGAATTTGTTCCAACTTTTGTGTATGAA
Found at i:20370362 original size:127 final size:127
Alignment explanation
Indices: 20370105--20370365 Score: 287
Period size: 127 Copynumber: 2.1 Consensus size: 127
20370095 TAACAAAATG
* **
20370105 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAATCATTCAAATTTATCATGTAAA
1 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTATCATGTAAA
* * ** *
20370170 ATATTAAAGGCGTTTTGAGCCAAAAATGCCTTCAAGAATTTGTTCCAACTTTTGTGTATGAA
66 ATATTAAAGGCGGTTTGAGCCAAAAATACCTTCAAGAATCGGTTCCAACTTTTGTCTATGAA
* * * * **
20370232 TTATTAAAGGCGTTTTTGACAAAAATTGCCTTTAATAATCCAAAC-TAAAAATTTATTGAT-TGG
1 TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTA-TCATGTAA
* * * * *
20370295 ATTATTAAAGGCGAGTTT-CGCCTAAAAATACCTTCAAGAATCGGTTCTATA-TTTTTTCTATGG
65 AATATTAAAGGCG-GTTTGAGCC-AAAAATACCTTCAAGAATCGGTTCCA-ACTTTTGTCTATGA
20370358 A
127 A
20370359 TTATTAA
1 TTATTAA
20370366 GGGTATTTTT
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
126 24 0.22
127 86 0.77
128 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.38
Consensus pattern (127 bp):
TTATTAAAGGCGTTTTTCAAAAAAATCGCCTTTAATAATCCAAACATAAAAATTTATCATGTAAA
ATATTAAAGGCGGTTTGAGCCAAAAATACCTTCAAGAATCGGTTCCAACTTTTGTCTATGAA
Found at i:20372536 original size:21 final size:21
Alignment explanation
Indices: 20372507--20372549 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20372497 TTGGTTTAAA
20372507 TTTGAAAAAAAACTAGGTTTT
1 TTTGAAAAAAAACTAGGTTTT
* *
20372528 TTTGGAAAAAAATTAGGTTTT
1 TTTGAAAAAAAACTAGGTTTT
20372549 T
1 T
20372550 CTGGGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.02, G:0.16, T:0.42
Consensus pattern (21 bp):
TTTGAAAAAAAACTAGGTTTT
Found at i:20372913 original size:6 final size:6
Alignment explanation
Indices: 20372874--20372958 Score: 57
Period size: 6 Copynumber: 13.8 Consensus size: 6
20372864 CAATCGTAGG
* * ** *
20372874 TTTTTT TTTTTG TTTTTA TTTTTCA TTTACA TTTTTA TTTTT- TTCTTA
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA
* *
20372922 TTTTCTA -TTTCA TTTTATT TGTTTTA TTTTTA TTTTT
1 TTTT-TA TTTTTA TTTT-TA T-TTTTA TTTTTA TTTTT
20372959 TAAATTTCAT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
5 5 0.08
6 44 0.72
7 9 0.15
8 3 0.05
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:20372923 original size:30 final size:29
Alignment explanation
Indices: 20372874--20372946 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 29
20372864 CAATCGTAGG
* *
20372874 TTTTTTTTTTTGTTTTTATTTT-TCATTTACA
1 TTTTTATTTTT-TTCTTATTTTCT-ATTT-CA
20372905 TTTTTATTTTTTTCTTATTTTCTATTTCA
1 TTTTTATTTTTTTCTTATTTTCTATTTCA
20372934 -TTTTATTTGTTTT
1 TTTTTATTT-TTTT
20372947 ATTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 8 0.21
29 6 0.16
30 13 0.34
31 11 0.29
ACGTcount: A:0.12, C:0.07, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTTTATTTTTTTCTTATTTTCTATTTCA
Found at i:20378545 original size:64 final size:64
Alignment explanation
Indices: 20378376--20378643 Score: 181
Period size: 64 Copynumber: 4.1 Consensus size: 64
20378366 AAAAATTTGA
* * * * * * *
20378376 ATTTTATTTTTCAGACCTGCGATTCAATCTCGATCACTCATTTTGATCTCGGCTCATTCTAAATC
1 ATTTTATTTTT-AGACCTGTGGTTCAATCTCGATCATTCATTTCGATCTCGACTCAGTCCAAATC
* * * * *
20378441 TTTTTATTTTTAG-CCT-TACAGTTCAATCCCAATC-TCTCATTTCGATCTTGACTCAGTCCAAA
1 ATTTTATTTTTAGACCTGT--GGTTCAATCTCGATCAT-TCATTTCGATCTCGACTCAGTCCAAA
20378503 TC
63 TC
* * *
20378505 ATTTTATTTTTAGACCTGTGGTTCAATCTTGATCATTCATTTCAATCTC-AGCTC-GATCCAGAT
1 ATTTTATTTTTAGACCTGTGGTTCAATCTCGATCATTCATTTCGATCTCGA-CTCAG-TCCAAAT
*
20378568 A
64 C
* ** ** * * *
20378569 ATTTTTATTTTTTGA-CTCACGGTTGGATCCCGATCATTCAGTTTTGATTTC-AGCTCAGTCCAA
1 A-TTTTATTTTTAGACCT-GTGGTTCAATCTCGATCATTCA-TTTCGATCTCGA-CTCAGTCCAA
20378632 ATC
62 ATC
20378635 ATTTTATTT
1 ATTTTATTT
20378644 GTTTGATTCA
Statistics
Matches: 158, Mismatches: 33, Indels: 24
0.73 0.15 0.11
Matches are distributed among these distances:
63 5 0.03
64 82 0.52
65 50 0.32
66 20 0.13
67 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.11, T:0.43
Consensus pattern (64 bp):
ATTTTATTTTTAGACCTGTGGTTCAATCTCGATCATTCATTTCGATCTCGACTCAGTCCAAATC
Found at i:20378670 original size:66 final size:63
Alignment explanation
Indices: 20378492--20378672 Score: 166
Period size: 66 Copynumber: 2.8 Consensus size: 63
20378482 TCGATCTTGA
* * * *
20378492 CTCAGTCCAAATCATTTTATTTTTAGACCTGTGGTTCAATCTTGATCATTCATTTCAATCTCAG
1 CTCAGTCCAAATCATTTTATTTTTTGATC-ATGGTTCAATCCTGATCATTCATTTCAATCTCAG
* * * ** * ** *
20378556 CTC-GATCCAGATAATTTTTATTTTTTGACTCACGGTTGGATCCCGATCATTCAGTTTTGATTTC
1 CTCAG-TCCAAATCA-TTTTATTTTTTGA-TCATGGTTCAATCCTGATCATTCA-TTTCAATCTC
20378620 AG
62 AG
*
20378622 CTCAGTCCAAATCATTTTATTTGTTTGATTCATGATTCAATCCTGATCATT
1 CTCAGTCCAAATCATTTTATTT-TTTGA-TCATGGTTCAATCCTGATCATT
20378673 TATCCCTAGT
Statistics
Matches: 90, Mismatches: 21, Indels: 10
0.74 0.17 0.08
Matches are distributed among these distances:
63 1 0.01
64 10 0.11
65 36 0.40
66 42 0.47
67 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.43
Consensus pattern (63 bp):
CTCAGTCCAAATCATTTTATTTTTTGATCATGGTTCAATCCTGATCATTCATTTCAATCTCAG
Found at i:20378977 original size:3 final size:3
Alignment explanation
Indices: 20378969--20379006 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
20378959 GAGTATTTAC
20378969 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20379007 AAAAAGGTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20379872 original size:5 final size:5
Alignment explanation
Indices: 20379859--20379949 Score: 57
Period size: 5 Copynumber: 17.8 Consensus size: 5
20379849 TTTTTTTCTT
*
20379859 TTTTCA TTTTA TTTTTCA TTTCA TTTT- TATTTA TTTTA TTTT- TTCTTA
1 TTTT-A TTTTA -TTTT-A TTTTA TTTTA T-TTTA TTTTA TTTTA TT-TTA
* *
20379907 TTTTCTA TTTCA TTTTA -TTTA TTTTA TTTT- TTAT- TTTTA TTTT
1 -TTT-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
20379950 TTAATTTCAT
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
4 13 0.19
5 35 0.51
6 16 0.23
7 5 0.07
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:20379899 original size:27 final size:26
Alignment explanation
Indices: 20379864--20379966 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 26
20379854 TTCTTTTTTC
20379864 ATTTTATTTTTCATTTCATTTTTATTT
1 ATTTTATTTTT-ATTTCATTTTTATTT
20379891 ATTTTATTTTT-TCTT-ATTTTCTATTT
1 ATTTTATTTTTAT-TTCATTTT-TATTT
*
20379917 CATTTTA--TTTATTTTATTTTTTATTT
1 -ATTTTATTTTTATTTCA-TTTTTATTT
*
20379943 -TTATT-TTTTAATTTCATTTATTAT
1 ATT-TTATTTTTATTTCATTT-TTAT
20379967 CATTAGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 21
0.74 0.02 0.24
Matches are distributed among these distances:
24 2 0.03
25 16 0.25
26 25 0.39
27 21 0.33
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (26 bp):
ATTTTATTTTTATTTCATTTTTATTT
Found at i:20384071 original size:18 final size:20
Alignment explanation
Indices: 20384048--20384090 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
20384038 CTTTTTATTT
*
20384048 TATAAAAATT-TTAAAAA-A
1 TATAAAAATTAATAAAAATA
20384066 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
20384086 TATAA
1 TATAA
20384091 TTAGAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:20384080 original size:10 final size:9
Alignment explanation
Indices: 20384047--20384090 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
20384037 TCTTTTTATT
20384047 TTATAAAAA
1 TTATAAAAA
*
20384056 TTTTAAAAA
1 TTATAAAAA
*
20384065 ATATAAAAA
1 TTATAAAAA
20384074 TTAATAAAAA
1 TT-ATAAAAA
20384084 TATATAA
1 T-TATAA
20384091 TTAGAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 16 0.55
10 12 0.41
11 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TTATAAAAA
Found at i:20384185 original size:18 final size:18
Alignment explanation
Indices: 20384164--20384199 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
20384154 TTAATATTTT
*
20384164 AAATTAATTTAAATAAAA
1 AAATTAATCTAAATAAAA
*
20384182 AAATTAATCTGAATAAAA
1 AAATTAATCTAAATAAAA
20384200 TAAACAAAGA
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:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
AAATTAATCTAAATAAAA
Found at i:20385425 original size:17 final size:17
Alignment explanation
Indices: 20385384--20385431 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
20385374 TCCAGTGAGT
*
20385384 TGATGTTTTTATTATTTA
1 TGAT-TTTTTATTTTTTA
*
20385402 TTATTTTTTATTTTTTA
1 TGATTTTTTATTTTTTA
*
20385419 TGCTTTTTT-TTTT
1 TGATTTTTTATTTT
20385432 ACTTTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 4 0.15
17 19 0.73
18 3 0.12
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (17 bp):
TGATTTTTTATTTTTTA
Found at i:20385429 original size:21 final size:24
Alignment explanation
Indices: 20385405--20385450 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
20385395 TTATTTATTA
20385405 TTTTTTA-TTTTT-TA-TGCTTTT
1 TTTTTTACTTTTTATATTGCTTTT
20385426 TTTTTTACTTTTTATATTGCTTTT
1 TTTTTTACTTTTTATATTGCTTTT
20385450 T
1 T
20385451 CCAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 2 0.09
24 8 0.36
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (24 bp):
TTTTTTACTTTTTATATTGCTTTT
Found at i:20385833 original size:29 final size:29
Alignment explanation
Indices: 20385788--20385849 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
20385778 ATAAATGTTA
**
20385788 ATATTTAAATCTTAAATATGTTGAATATT
1 ATATTTAAATCGCAAATATGTTGAATATT
20385817 ATATTTAAATCGCAAATATGTTGAATATT
1 ATATTTAAATCGCAAATATGTTGAATATT
20385846 ATAT
1 ATAT
20385850 ATTTAGAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.45
Consensus pattern (29 bp):
ATATTTAAATCGCAAATATGTTGAATATT
Found at i:20387609 original size:4 final size:4
Alignment explanation
Indices: 20387600--20387632 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
20387590 TGCCACGGAC
20387600 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
20387633 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:20388785 original size:42 final size:42
Alignment explanation
Indices: 20388733--20388818 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
20388723 TGTTATTATC
*
20388733 TAATTCATTTCATTAATAAGTTATCATCATCTAATTTATTGA
1 TAATTCATTTCATTAATAAGTTATCATCATCTAATTTACTGA
* * * ** * *
20388775 TAATTTATTTCGTTATTTCGTTATTATCATTTAATTTACTGA
1 TAATTCATTTCATTAATAAGTTATCATCATCTAATTTACTGA
20388817 TA
1 TA
20388819 GTATATAGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (42 bp):
TAATTCATTTCATTAATAAGTTATCATCATCTAATTTACTGA
Found at i:20391906 original size:30 final size:29
Alignment explanation
Indices: 20391872--20391934 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
20391862 TATTGTCTAT
20391872 TTAAAGATTTAATTGAATCGAAATAAAATA
1 TTAAAGATTTAATTG-ATCGAAATAAAATA
* * * * *
20391902 TTAAAGGTTTGATTGATTGTAATAACATA
1 TTAAAGATTTAATTGATCGAAATAAAATA
20391931 TTAA
1 TTAA
20391935 TTATTTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (29 bp):
TTAAAGATTTAATTGATCGAAATAAAATA
Found at i:20402962 original size:18 final size:18
Alignment explanation
Indices: 20402914--20402966 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 18
20402904 TATAAAATAA
* *
20402914 TAAATTTTTAATTAAAAT
1 TAAAATTTTAATTAAATT
* * *
20402932 AAAAAGTAT-ATTAAATT
1 TAAAATTTTAATTAAATT
20402949 TAAAATTTTAATTAAATT
1 TAAAATTTTAATTAAATT
20402967 CATGAATTAT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
TAAAATTTTAATTAAATT
Found at i:20403709 original size:21 final size:21
Alignment explanation
Indices: 20403685--20403727 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
20403675 TTCCGTCTTG
* *
20403685 TAAATTTTGGTGATTATAGTT
1 TAAAATTTGGTCATTATAGTT
20403706 TAAAATTTGGTCATTATAGTT
1 TAAAATTTGGTCATTATAGTT
20403727 T
1 T
20403728 GTGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.51
Consensus pattern (21 bp):
TAAAATTTGGTCATTATAGTT
Found at i:20405622 original size:23 final size:22
Alignment explanation
Indices: 20405594--20405649 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
20405584 CAACACATTC
20405594 ATTAATGATTTTAATAATAAATA
1 ATTAATGATTTTAATAA-AAATA
* * *
20405617 ATTAAT-TTTTTCATAAATATA
1 ATTAATGATTTTAATAAAAATA
20405638 ATTATATGATTT
1 ATTA-ATGATTT
20405650 GAATTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 8 0.30
22 10 0.37
23 9 0.33
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
ATTAATGATTTTAATAAAAATA
Found at i:20407978 original size:21 final size:21
Alignment explanation
Indices: 20407940--20407979 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20407930 ATAAAACTCC
* **
20407940 AAGAAAACAAAAGTAAAAAGA
1 AAGAAAAAAAAAAAAAAAAGA
20407961 AAGAAAAAAAAAAAAAAAA
1 AAGAAAAAAAAAAAAAAAA
20407980 AAGCTAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (21 bp):
AAGAAAAAAAAAAAAAAAAGA
Found at i:20410077 original size:24 final size:25
Alignment explanation
Indices: 20410029--20410078 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
20410019 ATAATAGTAC
* *
20410029 TTTTTTATATTTTATTTTTTCAAAT
1 TTTTTTATATTTTATTATATCAAAT
*
20410054 TTTTTTATTTTTTATTATAT-AAAT
1 TTTTTTATATTTTATTATATCAAAT
20410078 T
1 T
20410079 AAGTTTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTTATATTTTATTATATCAAAT
Found at i:20417750 original size:19 final size:19
Alignment explanation
Indices: 20417726--20417768 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
20417716 CAGTAGTCCA
* *
20417726 TGCCCACAAGTTGCCCATC
1 TGCCCACAAATTGCACATC
*
20417745 TGCCCACAAATTGTACATC
1 TGCCCACAAATTGCACATC
20417764 TGCCC
1 TGCCC
20417769 TCAATTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.23, C:0.40, G:0.14, T:0.23
Consensus pattern (19 bp):
TGCCCACAAATTGCACATC
Found at i:20419057 original size:18 final size:20
Alignment explanation
Indices: 20419034--20419076 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20419024 TATTTTATAT
20419034 TATAAAAAT-T-TAAAAATA
1 TATAAAAATCTATAAAAATA
20419052 TAT-AAAATCTAATAAAAATA
1 TATAAAAATCT-ATAAAAATA
20419072 TATAA
1 TATAA
20419077 TTAGATTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
20 11 0.52
21 1 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATCTATAAAAATA
Found at i:20419452 original size:6 final size:7
Alignment explanation
Indices: 20419437--20419461 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20419427 TAACATTCAG
20419437 AAAATAA
1 AAAATAA
20419444 AAAATAA
1 AAAATAA
20419451 AAAATAA
1 AAAATAA
20419458 AAAA
1 AAAA
20419462 CCGAAGAGAC
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:20422456 original size:14 final size:15
Alignment explanation
Indices: 20422418--20422462 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
20422408 TATTATTAAA
*
20422418 ATTTTAAATCGTATT
1 ATTTTATATCGTATT
*
20422433 ATTTTAATATCATATT
1 ATTTT-ATATCGTATT
20422449 -TTTTATATCGTATT
1 ATTTTATATCGTATT
20422463 CGTATCGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 8 0.31
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (15 bp):
ATTTTATATCGTATT
Found at i:20423841 original size:4 final size:4
Alignment explanation
Indices: 20423832--20423859 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
20423822 GCCATTGAAG
20423832 CTTC CTTC CTTC CTTC CTTC CTTC CTTC
1 CTTC CTTC CTTC CTTC CTTC CTTC CTTC
20423860 ACATGCACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (4 bp):
CTTC
Found at i:20424083 original size:22 final size:20
Alignment explanation
Indices: 20424051--20424094 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
20424041 AGATTGTCGG
*
20424051 AATTAAATTTTAATTATTAA
1 AATTAAATTTTAATTATCAA
*
20424071 AATTAACATTTTTTATTATCAA
1 AATTAA-A-TTTTAATTATCAA
20424093 AA
1 AA
20424095 GAAGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 1 0.05
22 13 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTAAATTTTAATTATCAA
Found at i:20424088 original size:19 final size:19
Alignment explanation
Indices: 20424051--20424088 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
20424041 AGATTGTCGG
20424051 AATTAAATTTTAATTATTAA
1 AATTAAATTTT-ATTATTAA
20424071 AATTAACATTTT-TTATTA
1 AATTAA-ATTTTATTATTA
20424089 TCAAAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAAATTTTATTATTAA
Found at i:20425223 original size:12 final size:12
Alignment explanation
Indices: 20425206--20425230 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20425196 ATAAAATATA
20425206 AAAATATTATTT
1 AAAATATTATTT
20425218 AAAATATTATTT
1 AAAATATTATTT
20425230 A
1 A
20425231 TAATTTAAAT
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):
AAAATATTATTT
Found at i:20425392 original size:20 final size:21
Alignment explanation
Indices: 20425367--20425408 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
20425357 TGATTAAATT
*
20425367 TTTTAATTTA-TCAATTTTAA
1 TTTTAATTTATTAAATTTTAA
20425387 TTTTAATTTATTAAATTTTAA
1 TTTTAATTTATTAAATTTTAA
20425408 T
1 T
20425409 AAAAAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTAATTTATTAAATTTTAA
Found at i:20430281 original size:2 final size:2
Alignment explanation
Indices: 20430274--20430303 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20430264 TTCCTACAAT
20430274 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
20430304 GGATTCTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20441865 original size:11 final size:10
Alignment explanation
Indices: 20441848--20441872 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
20441838 TTAATGAAAT
20441848 GAAAAAAAAA
1 GAAAAAAAAA
20441858 GAAAAAAAAA
1 GAAAAAAAAA
20441868 GAAAA
1 GAAAA
20441873 GTGACTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:20444546 original size:17 final size:18
Alignment explanation
Indices: 20444508--20444546 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20444498 AAAACGAAAT
*
20444508 TTTATCAATTTTATTTAA
1 TTTATCAATTTTATTAAA
*
20444526 TTTATCGATTTT-TTAAA
1 TTTATCAATTTTATTAAA
20444543 TTTA
1 TTTA
20444547 ATTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATCAATTTTATTAAA
Found at i:20447261 original size:13 final size:13
Alignment explanation
Indices: 20447237--20447277 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
20447227 TAATATTTTT
20447237 ATTTAAA-A-TAA
1 ATTTAAATATTAA
20447248 ATTTAAATATTAA
1 ATTTAAATATTAA
* *
20447261 ATGTATATATTAA
1 ATTTAAATATTAA
20447274 ATTT
1 ATTT
20447278 TAAGTAGACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 7 0.28
12 1 0.04
13 17 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTAAATATTAA
Found at i:20447353 original size:18 final size:17
Alignment explanation
Indices: 20447330--20447366 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
20447320 AATTGAATTA
*
20447330 TATATTTTTATTAATTTT
1 TATATTTTTA-AAATTTT
20447348 TATATTTTTAAAATTTT
1 TATATTTTTAAAATTTT
20447365 TA
1 TA
20447367 AAATAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATATTTTTAAAATTTT
Found at i:20447835 original size:22 final size:24
Alignment explanation
Indices: 20447795--20447839 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
20447785 ATAATTAAAA
*
20447795 AATATATATGATATAAATATACTC
1 AATATATATAATATAAATATACTC
20447819 AATA-ATATAATA-AAATATACT
1 AATATATATAATATAAATATACT
20447840 TTATATAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 7 0.35
24 4 0.20
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
AATATATATAATATAAATATACTC
Found at i:20448647 original size:31 final size:30
Alignment explanation
Indices: 20448581--20448639 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
20448571 TATATTTTAT
* *
20448581 ATTTTTATATTAATATAAATAATAACATGTA
1 ATTTTTATA-TAAAATAAATAATAACATATA
20448612 ATTTTTATATAAAATAAAT-ATAA-ATATA
1 ATTTTTATATAAAATAAATAATAACATATA
20448640 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 4 0.15
30 9 0.35
31 9 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (30 bp):
ATTTTTATATAAAATAAATAATAACATATA
Found at i:20448648 original size:30 final size:31
Alignment explanation
Indices: 20448583--20448653 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
20448573 TATTTTATAT
* * *
20448583 TTTTATATTAATATAAATAATAACATGTAAT
1 TTTTATATTAAAATAAATAATAACATATAAA
*
20448614 TTTTATA-TAAAATAAAT-ATAAATATATAAA
1 TTTTATATTAAAATAAATAAT-AACATATAAA
20448644 TTTTAATATT
1 TTTT-ATATT
20448654 TTAAGGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 2 0.06
30 20 0.61
31 10 0.30
32 1 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (31 bp):
TTTTATATTAAAATAAATAATAACATATAAA
Found at i:20451816 original size:141 final size:141
Alignment explanation
Indices: 20451560--20451842 Score: 469
Period size: 141 Copynumber: 2.0 Consensus size: 141
20451550 GGTTCTAATG
* * *
20451560 ATCCTGTCCTTGCTGCACAGGTTTCTGTCATTAAAGTTTCTGCTTCCACGATGTTATGGTGTTTA
1 ATCCTGTCCTTGCTGCACAGGTTTCTATCATTAAAGTTTCTGCCTCCACGATATTATGGTGTTTA
20451625 TTTTATAAATTTCAGTTGCCAACATTTAAATTTTCATGAAATTGCCTTATCATCTGTAAGGTCAA
66 TTTTATAAATTTCAGTTGCCAACATTTAAATTTTCATGAAATTGCCTTATCATCTGTAAGGTCAA
20451690 ACTATAATTTT
131 ACTATAATTTT
* * *
20451701 ATCCTGTCCTTGCTGTACAGGTTTCTATCATTCAAGTTTCTGCCTCCATGATATTATGGTGTTTA
1 ATCCTGTCCTTGCTGCACAGGTTTCTATCATTAAAGTTTCTGCCTCCACGATATTATGGTGTTTA
* * *
20451766 TTTTATAAATTTCCA-TTGCCAACATTTAAATTTTGATGAAATTGCTTTATCTTCTGTAAGGTCA
66 TTTTATAAATTT-CAGTTGCCAACATTTAAATTTTCATGAAATTGCCTTATCATCTGTAAGGTCA
20451830 AACTATAATTTT
130 AACTATAATTTT
20451842 A
1 A
20451843 CTCTTTGCTG
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
141 130 0.98
142 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (141 bp):
ATCCTGTCCTTGCTGCACAGGTTTCTATCATTAAAGTTTCTGCCTCCACGATATTATGGTGTTTA
TTTTATAAATTTCAGTTGCCAACATTTAAATTTTCATGAAATTGCCTTATCATCTGTAAGGTCAA
ACTATAATTTT
Found at i:20454560 original size:2 final size:2
Alignment explanation
Indices: 20454553--20454585 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
20454543 GGTAGGGTAG
20454553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
20454586 CACACACTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20455323 original size:25 final size:25
Alignment explanation
Indices: 20455295--20455349 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
20455285 ATAAAATAAA
*
20455295 ATATTAAAATATAAATATT-TATATT
1 ATATT-AAATATAAAAATTATATATT
**
20455320 ATATTTTATATAAAAATTATATATT
1 ATATTAAATATAAAAATTATATATT
20455345 ATATT
1 ATATT
20455350 TTATATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATATTAAATATAAAAATTATATATT
Found at i:20455350 original size:25 final size:24
Alignment explanation
Indices: 20455303--20455355 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
20455293 AAATATTAAA
*
20455303 ATATAAATATTTATATTATATTTT
1 ATATAAAAATTTATATTATATTTT
20455327 ATATAAAAATTATATATTATATTTT
1 ATATAAAAATT-TATATTATATTTT
20455352 ATAT
1 ATAT
20455356 TGATATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATAAAAATTTATATTATATTTT
Found at i:20455454 original size:13 final size:13
Alignment explanation
Indices: 20455425--20455486 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 13
20455415 AAATTTTAAG
* *
20455425 ATATTTTATATTC
1 ATATTTTATTTTT
20455438 ATATTTTATTTTT
1 ATATTTTATTTTT
20455451 ATA--TTATTTTT
1 ATATTTTATTTTT
* **
20455462 ATATTATATCATT
1 ATATTTTATTTTT
*
20455475 ATATCTTATTTT
1 ATATTTTATTTT
20455487 AAATTATCAA
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
11 11 0.29
13 27 0.71
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (13 bp):
ATATTTTATTTTT
Found at i:20455457 original size:11 final size:11
Alignment explanation
Indices: 20455443--20455468 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
20455433 TATTCATATT
20455443 TTATTTTTATA
1 TTATTTTTATA
20455454 TTATTTTTATA
1 TTATTTTTATA
20455465 TTAT
1 TTAT
20455469 ATCATTATAT
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTATTTTTATA
Found at i:20461807 original size:13 final size:14
Alignment explanation
Indices: 20461787--20461819 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
20461777 TCAGTACTAT
20461787 AATT-CATATTA-A
1 AATTACATATTACA
20461799 AATTACATATTACA
1 AATTACATATTACA
20461813 AATTACA
1 AATTACA
20461820 AAACAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 7 0.37
14 8 0.42
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (14 bp):
AATTACATATTACA
Found at i:20462075 original size:14 final size:13
Alignment explanation
Indices: 20462056--20462087 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
20462046 CATATTAATA
20462056 AAAAAAATAAAAG
1 AAAAAAATAAAAG
20462069 CAAAAAAATAAAAG
1 -AAAAAAATAAAAG
20462083 AAAAA
1 AAAAA
20462088 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.84, C:0.03, G:0.06, T:0.06
Consensus pattern (13 bp):
AAAAAAATAAAAG
Found at i:20462398 original size:19 final size:20
Alignment explanation
Indices: 20462358--20462395 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20462348 GTTACTTTAT
20462358 AAAAAAAAAAGTTATAATTG
1 AAAAAAAAAAGTTATAATTG
20462378 AAAAACAAAAA-TTATAAT
1 AAAAA-AAAAAGTTATAAT
20462396 GAATTATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (20 bp):
AAAAAAAAAAGTTATAATTG
Found at i:20465257 original size:24 final size:24
Alignment explanation
Indices: 20465228--20465275 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20465218 TTGATTTAGG
*
20465228 TAACTTATCATTATTCATAAAAAA
1 TAACTTATCATTATCCATAAAAAA
20465252 TAACTTATCATTATCCATAAAAAA
1 TAACTTATCATTATCCATAAAAAA
20465276 ATAATCATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (24 bp):
TAACTTATCATTATCCATAAAAAA
Found at i:20466753 original size:19 final size:18
Alignment explanation
Indices: 20466729--20466765 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
20466719 GATACGACAC
*
20466729 GATTAATATGATTATACAT
1 GATTAATACGATTA-ACAT
20466748 GATTAATACGATTAACAT
1 GATTAATACGATTAACAT
20466766 TAAAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (18 bp):
GATTAATACGATTAACAT
Found at i:20466809 original size:19 final size:19
Alignment explanation
Indices: 20466769--20466811 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20466759 TTAACATTAA
* *
20466769 AATATTTAATCAATAATTT
1 AATATTAAATCAATAATAT
20466788 AATATTAAATCAA-AATGAT
1 AATATTAAATCAATAAT-AT
20466807 AATAT
1 AATAT
20466812 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AATATTAAATCAATAATAT
Found at i:20468617 original size:131 final size:133
Alignment explanation
Indices: 20468356--20468621 Score: 509
Period size: 133 Copynumber: 2.0 Consensus size: 133
20468346 GTTAAACATT
*
20468356 TTCATTTGTTATCAATTAATTTTAAATTGGATGTTTAACAGGCATGAAAATAAAGTTTTCATATA
1 TTCATTTATTATCAATTAATTTTAAATTGGATGTTTAACAGGCATGAAAATAAAGTTTTCATATA
20468421 TATGATGGATCATTTAATAAAATTTTAATTTTTTGTAACTGTATATTCAAGTTGAATTTTTTCAT
66 TATGATGGATCATTTAATAAAATTTTAATTTTTTGTAACTGTATATTCAAGTTGAATTTTTTCAT
20468486 TTA
131 TTA
20468489 TTCATTTATTATCAATTAATTTTAAATTGGATGTTTAACAGGCATGAAAATAAAGTTTTCATATA
1 TTCATTTATTATCAATTAATTTTAAATTGGATGTTTAACAGGCATGAAAATAAAGTTTTCATATA
20468554 TATGAT-GATCATTTAATAAAA-TTTAATTTTTTGTAACTGTATATTCAAGTTGAATTTTTTCAT
66 TATGATGGATCATTTAATAAAATTTTAATTTTTTGTAACTGTATATTCAAGTTGAATTTTTTCAT
20468617 TTA
131 TTA
20468620 TT
1 TT
20468622 GTCAATTAAT
Statistics
Matches: 132, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
131 47 0.36
132 15 0.11
133 70 0.53
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (133 bp):
TTCATTTATTATCAATTAATTTTAAATTGGATGTTTAACAGGCATGAAAATAAAGTTTTCATATA
TATGATGGATCATTTAATAAAATTTTAATTTTTTGTAACTGTATATTCAAGTTGAATTTTTTCAT
TTA
Found at i:20473612 original size:29 final size:29
Alignment explanation
Indices: 20473568--20473637 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
20473558 ATAATCGTTT
*
20473568 AAATTTTTAATATTTTATTACGATTAATC
1 AAATTTTTAATTTTTTATTACGATTAATC
** *
20473597 AAATTTTTAATTTTTTATTTGGATTAATT
1 AAATTTTTAATTTTTTATTACGATTAATC
20473626 AAATTTTTAATT
1 AAATTTTTAATT
20473638 AAAAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (29 bp):
AAATTTTTAATTTTTTATTACGATTAATC
Found at i:20475698 original size:30 final size:30
Alignment explanation
Indices: 20475632--20475706 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
20475622 TTATAAATGA
* *
20475632 TTTTAAATTATAATGAAATATTTAATGTAAT
1 TTTTAAATTTTAA-GAAATATTTAAAGTAAT
* *
20475663 ATTTAAATTTTAA-AAATTTTTAAAAGTAAT
1 TTTTAAATTTTAAGAAATATTT-AAAGTAAT
20475693 TTTTAAATTATTAA
1 TTTTAAATT-TTAA
20475707 TTAAAATAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.19
30 15 0.41
31 15 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
TTTTAAATTTTAAGAAATATTTAAAGTAAT
Found at i:20475729 original size:24 final size:25
Alignment explanation
Indices: 20475669--20475729 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
20475659 TAATATTTAA
* *
20475669 ATTTTAAAAATT-TTTAAAAGTAAT
1 ATTTAAAAAATTAATTAAAAGTAAT
* **
20475693 TTTTAAATTATTAATTAAAA-TAAT
1 ATTTAAAAAATTAATTAAAAGTAAT
20475717 ATTTAAAAAATTA
1 ATTTAAAAAATTA
20475730 TTTATTTATC
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
ATTTAAAAAATTAATTAAAAGTAAT
Found at i:20475804 original size:16 final size:17
Alignment explanation
Indices: 20475782--20475821 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
20475772 AGTGATTATC
20475782 ATATTAATTAATAAATT
1 ATATTAATTAATAAATT
*
20475799 -TATTAATTAATATATT
1 ATATTAATTAATAAATT
20475815 ATATTAA
1 ATATTAA
20475822 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATATTAATTAATAAATT
Found at i:20476441 original size:29 final size:30
Alignment explanation
Indices: 20476388--20476457 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
20476378 AAATACGATA
20476388 TAAAAATATAATATGAAAGTAAT-AAAATT
1 TAAAAATATAATATGAAAGTAATAAAAATT
* *
20476417 TAAAAATATAATAT-TAATTATATAAAAATT
1 TAAAAATATAATATGAAAGTA-ATAAAAATT
20476447 TAATAAA-ATAA
1 TAA-AAATATAA
20476458 AAATTTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 4 0.11
29 16 0.44
30 13 0.36
31 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (30 bp):
TAAAAATATAATATGAAAGTAATAAAAATT
Found at i:20478540 original size:13 final size:13
Alignment explanation
Indices: 20478522--20478548 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20478512 ACAAGCAGCT
20478522 GATGAAGGAAAGC
1 GATGAAGGAAAGC
20478535 GATGAAGGAAAGC
1 GATGAAGGAAAGC
20478548 G
1 G
20478549 CAGCAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.41, T:0.07
Consensus pattern (13 bp):
GATGAAGGAAAGC
Found at i:20484618 original size:12 final size:12
Alignment explanation
Indices: 20484601--20484625 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20484591 GTAGCCTAGT
20484601 TTTTATACTTCA
1 TTTTATACTTCA
20484613 TTTTATACTTCA
1 TTTTATACTTCA
20484625 T
1 T
20484626 GGAGAGCTAG
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:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTATACTTCA
Found at i:20494751 original size:21 final size:21
Alignment explanation
Indices: 20494706--20494751 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
20494696 GAGCAGTGGT
**
20494706 TTTTTCTTTTTATTATCATTT
1 TTTTTCTTTTTATTATCATAA
20494727 TTTTTCTTTTTATTAAT-ATAA
1 TTTTTCTTTTTATT-ATCATAA
20494748 TTTT
1 TTTT
20494752 AAAAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCTTTTTATTATCATAA
Found at i:20510476 original size:2 final size:2
Alignment explanation
Indices: 20510446--20510497 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
20510436 AACATGCATA
* * * *
20510446 TG TG AG TG TG AG TG TG AG TG TG AG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
20510488 TG TG TG TG TG
1 TG TG TG TG TG
20510498 AGAGAGAGAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.08, C:0.00, G:0.50, T:0.42
Consensus pattern (2 bp):
TG
Found at i:20510502 original size:2 final size:2
Alignment explanation
Indices: 20510497--20510538 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
20510487 GTGTGTGTGT
*
20510497 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
20510539 TTGGGGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20516465 original size:15 final size:15
Alignment explanation
Indices: 20516442--20516488 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
20516432 ATTAAATTAT
*
20516442 ATTATTAAATAATCA
1 ATTAATAAATAATCA
*
20516457 ATTAATAAATTAT-A
1 ATTAATAAATAATCA
20516471 ATTTAACTAAATAATCA
1 A-TTAA-TAAATAATCA
20516488 A
1 A
20516489 ACCTTAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 15 0.58
16 7 0.27
17 2 0.08
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
ATTAATAAATAATCA
Found at i:20517630 original size:21 final size:21
Alignment explanation
Indices: 20517606--20517645 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
20517596 TCTTTTTATC
20517606 TTCTTGACCTTGTAAGACCTT
1 TTCTTGACCTTGTAAGACCTT
20517627 TTCTTGACCTTGTAAGACC
1 TTCTTGACCTTGTAAGACC
20517646 CCGTCCAGTG
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:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCTTGACCTTGTAAGACCTT
Found at i:20518200 original size:2 final size:2
Alignment explanation
Indices: 20518193--20518224 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20518183 TACATACATA
20518193 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20518225 TCTGACCTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20518399 original size:2 final size:2
Alignment explanation
Indices: 20518392--20518418 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20518382 TCAATTTGGC
20518392 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
20518419 AAACTAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20519671 original size:29 final size:29
Alignment explanation
Indices: 20519623--20519698 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
20519613 ATTTATTATT
*
20519623 TTAATCGTGTTCT-TAT-ATATATAT-TCGTG
1 TTAATCGTGTT-TAT-TCATATATATCT-GTA
20519652 TTAATCGTGTTTATTCATATATATCTGTA
1 TTAATCGTGTTTATTCATATATATCTGTA
* *
20519681 TTATTCGTATTTATTCAT
1 TTAATCGTGTTTATTCAT
20519699 GTTGTGTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.05
29 38 0.93
30 1 0.02
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (29 bp):
TTAATCGTGTTTATTCATATATATCTGTA
Found at i:20520385 original size:2 final size:2
Alignment explanation
Indices: 20520380--20520420 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
20520370 TAACAGTGTG
20520380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20520421 CACCCCCAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:20525650 original size:13 final size:13
Alignment explanation
Indices: 20525632--20525656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20525622 TCCAATGAAT
20525632 ATGATTTCTTGCC
1 ATGATTTCTTGCC
20525645 ATGATTTCTTGC
1 ATGATTTCTTGC
20525657 TACCCTTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (13 bp):
ATGATTTCTTGCC
Found at i:20526247 original size:25 final size:25
Alignment explanation
Indices: 20526204--20526258 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
20526194 TTTGATAATC
**
20526204 GATTTAAATTTGTAGTATTCAATTT
1 GATTTAAATTAATAGTATTCAATTT
* **
20526229 GATTTAAATTAATATTATTTTATTT
1 GATTTAAATTAATAGTATTCAATTT
20526254 GATTT
1 GATTT
20526259 GGATTAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (25 bp):
GATTTAAATTAATAGTATTCAATTT
Found at i:20526431 original size:33 final size:32
Alignment explanation
Indices: 20526394--20526463 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
20526384 AATAAAAAAT
*
20526394 AATTTTATATCAAAAT-TTAAATAAATATATTAA
1 AATTTTATATCAAAATAATAAATAAA-AT-TTAA
* *
20526427 AATTTTATATTAAAATAATATATAAAATTTAA
1 AATTTTATATCAAAATAATAAATAAAATTTAA
20526459 AATTT
1 AATTT
20526464 AAAAAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 9 0.27
33 17 0.52
34 7 0.21
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.44
Consensus pattern (32 bp):
AATTTTATATCAAAATAATAAATAAAATTTAA
Found at i:20526435 original size:13 final size:13
Alignment explanation
Indices: 20526419--20526456 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20526409 TTTAAATAAA
20526419 TATATTAAAATTT
1 TATATTAAAATTT
**
20526432 TATATTAAAATAA
1 TATATTAAAATTT
20526445 TATA-TAAAATTT
1 TATATTAAAATTT
20526457 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:20526465 original size:26 final size:27
Alignment explanation
Indices: 20526405--20526471 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 27
20526395 ATTTTATATC
20526405 AAAATTT-AAATAAATATATTAAAATTT
1 AAAATTTAAAAT-AATATATTAAAATTT
* *
20526432 TATA-TTAAAATAATATA-TAAAATTT
1 AAAATTTAAAATAATATATTAAAATTT
20526457 AAAATTTAAAA-AATA
1 AAAATTTAAAATAATA
20526472 AAAAAGATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 14 0.41
26 14 0.41
27 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
AAAATTTAAAATAATATATTAAAATTT
Found at i:20527618 original size:18 final size:18
Alignment explanation
Indices: 20527595--20527644 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
20527585 TTTTATGTTC
20527595 ATTTATAATTTATTTATT
1 ATTTATAATTTATTTATT
*
20527613 ATTTATAAATATATTTATT
1 ATTTAT-AATTTATTTATT
20527632 -TTTATATATTTAT
1 ATTTATA-ATTTAT
20527645 AAATATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.57
19 11 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATAATTTATTTATT
Found at i:20527629 original size:12 final size:12
Alignment explanation
Indices: 20527612--20527656 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
20527602 ATTTATTTAT
20527612 TATTTATAAATA
1 TATTTATAAATA
**
20527624 TATTTATTTTTATA
1 TATTTA--TAAATA
20527638 TATTTATAAATA
1 TATTTATAAATA
20527650 TATTTAT
1 TATTTAT
20527657 TTAATATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 17 0.63
14 10 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:20527646 original size:26 final size:25
Alignment explanation
Indices: 20527607--20527658 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 25
20527597 TTATAATTTA
20527607 TTTATTATTTATAAATATATTTATT
1 TTTATTATTTATAAATATATTTATT
20527632 TTTATATATTTATAAATATATTTATT
1 TTTAT-TATTTATAAATATATTTATT
20527658 T
1 T
20527659 AATATTTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTATTTATAAATATATTTATT
Found at i:20527683 original size:23 final size:23
Alignment explanation
Indices: 20527632--20527684 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
20527622 TATATTTATT
* * *
20527632 TTTATATATTTATAAATATATTTA
1 TTTA-ATATTTACAAATAAATTAA
20527656 TTTAATATTTACAAATAAATTAA
1 TTTAATATTTACAAATAAATTAA
20527679 TTTAAT
1 TTTAAT
20527685 TTAATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAATATTTACAAATAAATTAA
Found at i:20527692 original size:49 final size:51
Alignment explanation
Indices: 20527602--20527701 Score: 118
Period size: 49 Copynumber: 2.0 Consensus size: 51
20527592 TTCATTTATA
* * * *
20527602 ATTTATTTATTATTTATAAATATATTTATTTTTATATATTT-A-TAAATAT
1 ATTTATTTAATATTTACAAATAAATTAATTTTTATATATTTAATTAAATAT
20527651 ATTTATTTAATATTTACAAATAAATTAATTTAATT-TA-ATTTAATTAAATAT
1 ATTTATTTAATATTTACAAATAAATTAATTT--TTATATATTTAATTAAATAT
20527702 GAACCAAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
49 31 0.72
50 3 0.07
51 9 0.21
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (51 bp):
ATTTATTTAATATTTACAAATAAATTAATTTTTATATATTTAATTAAATAT
Found at i:20533420 original size:14 final size:16
Alignment explanation
Indices: 20533400--20533455 Score: 61
Period size: 14 Copynumber: 3.9 Consensus size: 16
20533390 TCAATTTGAA
20533400 ATTAATTTAATA-ATT
1 ATTAATTTAATATATT
20533415 -TTAATTTAATATATT
1 ATTAATTTAATATATT
*
20533430 ATTAA--TAAAATATT
1 ATTAATTTAATATATT
20533444 ATT--TTTAATATA
1 ATTAATTTAATATA
20533456 AATTATATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 28 0.80
15 3 0.09
16 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTAATTTAATATATT
Found at i:20533451 original size:17 final size:17
Alignment explanation
Indices: 20533422--20533469 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
20533412 ATTTTAATTT
*
20533422 AATA-TATTATTAATAA
1 AATATTATTTTTAATAA
*
20533438 AATATTATTTTTAATAT
1 AATATTATTTTTAATAA
20533455 AA-ATTATATTTTAAT
1 AATATTAT-TTTTAAT
20533470 TATATCTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATATTATTTTTAATAA
Found at i:20536252 original size:22 final size:23
Alignment explanation
Indices: 20536224--20536269 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
20536214 AATAGTAATA
* *
20536224 TTTTATTTGATTTGAA-TAAATT
1 TTTTATTTAATTTAAATTAAATT
20536246 TTTTATTTAATTTAAATTAAATT
1 TTTTATTTAATTTAAATTAAATT
20536269 T
1 T
20536270 AGATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (23 bp):
TTTTATTTAATTTAAATTAAATT
Found at i:20536377 original size:18 final size:18
Alignment explanation
Indices: 20536354--20536393 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
20536344 AAATGAATTA
20536354 TATATTTTTATT-AATTTT
1 TATATTTTT-TTAAATTTT
20536372 TATATTTTTTTAAATTTT
1 TATATTTTTTTAAATTTT
20536390 TATA
1 TATA
20536394 AAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TATATTTTTTTAAATTTT
Found at i:20536462 original size:13 final size:13
Alignment explanation
Indices: 20536431--20536466 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
20536421 TTTATTTAAA
20536431 TATATTAAAA-AT
1 TATATTAAAATAT
20536443 T-TATTAAAATAT
1 TATATTAAAATAT
20536455 TATATTAAAATA
1 TATATTAAAATA
20536467 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.36
12 4 0.18
13 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATTAAAATAT
Found at i:20536546 original size:33 final size:34
Alignment explanation
Indices: 20536509--20536573 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
20536499 ATAAATGGAT
*
20536509 AAAATTCAATTTGAA-TCAAATTA-ATTTTAAAAC
1 AAAA-TCAATTTAAATTCAAATTATATTTTAAAAC
20536542 AAAATCAATTTAAATTCAAATTATATTTTAAA
1 AAAATCAATTTAAATTCAAATTATATTTTAAA
20536574 TATTTATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.31
33 12 0.41
34 8 0.28
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (34 bp):
AAAATCAATTTAAATTCAAATTATATTTTAAAAC
Found at i:20537462 original size:24 final size:27
Alignment explanation
Indices: 20537415--20537468 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
20537405 ATTATCAAAA
*
20537415 TATTTAATATTTTATTACTAAATAATTT
1 TATTTAATATTTTA-TACTAAATAAATT
20537443 TATTTAATATTTTA-A-T-AATAAATT
1 TATTTAATATTTTATACTAAATAAATT
20537467 TA
1 TA
20537469 AATTAAACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 1 0.04
26 1 0.04
28 14 0.56
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TATTTAATATTTTATACTAAATAAATT
Found at i:20537851 original size:2 final size:2
Alignment explanation
Indices: 20537838--20537868 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20537828 AATAAGATTA
*
20537838 AT AT AT AC 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
20537869 ATGTAGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:20543644 original size:21 final size:21
Alignment explanation
Indices: 20543565--20543658 Score: 70
Period size: 21 Copynumber: 4.5 Consensus size: 21
20543555 AATTTAAGGG
*
20543565 TTAGGGTTTTAAGGGTTTGGT-T
1 TTAGGGTTTT-A-GGTTTAGTGT
*
20543587 TTA-GGTTTAAGGTTTAGTGT
1 TTAGGGTTTTAGGTTTAGTGT
* *
20543607 TT-TGATTTTAGGGTTTAGTGT
1 TTAGGGTTTTA-GGTTTAGTGT
*
20543628 TTAGGGTTTTAGTTTTAAG-GT
1 TTAGGGTTTTAGGTTT-AGTGT
*
20543649 TTGGGGTTTT
1 TTAGGGTTTT
20543659 GAAATTAAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.12
20 9 0.15
21 32 0.54
22 11 0.19
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.53
Consensus pattern (21 bp):
TTAGGGTTTTAGGTTTAGTGT
Found at i:20543657 original size:28 final size:28
Alignment explanation
Indices: 20543544--20543657 Score: 92
Period size: 28 Copynumber: 4.1 Consensus size: 28
20543534 GGTTTGAGAT
* * *
20543544 TTTAGGGTTTCA-ATTTAAGGGTTAGGG
1 TTTAGGGTTTTAGTTTTAAGGTTTAGGG
* *
20543571 TTTTAAGGG-TTTGGTTTT-AGGTTTAAGG
1 -TTT-AGGGTTTTAGTTTTAAGGTTTAGGG
* * *
20543599 TTTAGTGTTTT-GATTTTAGGGTTTAGTG
1 TTTAGGGTTTTAG-TTTTAAGGTTTAGGG
*
20543627 TTTAGGGTTTTAGTTTTAAGGTTTGGGG
1 TTTAGGGTTTTAGTTTTAAGGTTTAGGG
20543655 TTT
1 TTT
20543658 TGAAATTAAG
Statistics
Matches: 67, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
26 4 0.06
27 10 0.15
28 45 0.67
29 8 0.12
ACGTcount: A:0.17, C:0.01, G:0.32, T:0.51
Consensus pattern (28 bp):
TTTAGGGTTTTAGTTTTAAGGTTTAGGG
Found at i:20543693 original size:49 final size:49
Alignment explanation
Indices: 20543584--20543686 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 49
20543574 TAAGGGTTTG
* * ** * * *
20543584 GTTTTAGGTTTAAGGTTTAGTGTTTTGATTTTAGGGTTTAGTGTTTAGG
1 GTTTTAGTTTTAAGGTTTAGGGTTTTGAAATTAAGGTTTAGTGTCTAGA
*
20543633 GTTTTAGTTTTAAGGTTTGGGGTTTTGAAATTAAGGTTTGAG-GTCTAGA
1 GTTTTAGTTTTAAGGTTTAGGGTTTTGAAATTAAGGTTT-AGTGTCTAGA
20543682 GTTTT
1 GTTTT
20543687 GATTTTAGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
49 43 0.96
50 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.30, T:0.50
Consensus pattern (49 bp):
GTTTTAGTTTTAAGGTTTAGGGTTTTGAAATTAAGGTTTAGTGTCTAGA
Found at i:20543695 original size:14 final size:14
Alignment explanation
Indices: 20543678--20543727 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
20543668 GTTTGAGGTC
20543678 TAGAGTTTTGATTT
1 TAGAGTTTTGATTT
20543692 TAGAG-TTTGAATTT
1 TAGAGTTTTG-ATTT
*
20543706 T-GAGGTTTCGATTT
1 TAGA-GTTTTGATTT
*
20543720 TAGGGTTT
1 TAGAGTTT
20543728 GAGATTTAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.20
14 20 0.67
15 4 0.13
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.52
Consensus pattern (14 bp):
TAGAGTTTTGATTT
Found at i:20543740 original size:28 final size:28
Alignment explanation
Indices: 20543667--20543740 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
20543657 TTGAAATTAA
* * * *
20543667 GGTTTGAGGTCTAGAGTTTTGATTTTAG
1 GGTTTGAGATTTAGGGTTTCGATTTTAG
* *
20543695 AGTTTGA-ATTTTGAGGTTTCGATTTTAG
1 GGTTTGAGATTTAG-GGTTTCGATTTTAG
20543723 GGTTTGAGATTTAGGGTT
1 GGTTTGAGATTTAGGGTT
20543741 AGTTTTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
27 3 0.08
28 28 0.78
29 5 0.14
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (28 bp):
GGTTTGAGATTTAGGGTTTCGATTTTAG
Found at i:20544049 original size:3 final size:3
Alignment explanation
Indices: 20544037--20544078 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
20544027 ATTTTATACA
20544037 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20544079 CTATAAGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:20545590 original size:3 final size:3
Alignment explanation
Indices: 20545582--20545624 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20545572 GATGTCTACA
20545582 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20545625 TCAAATTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.