Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 29 of 100
Found at i:8256284 original size:58 final size:57
Alignment explanation
Indices: 8256219--8256555 Score: 410
Period size: 58 Copynumber: 5.7 Consensus size: 57
8256209 TAAATAAAAA
*
8256219 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAATTTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAA-TTT
* * * * * *
8256277 TTAAAAAAA-AGGGTTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATCAAAGTT
1 TCAAAAAAATA---TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAA-AAAATTT
* *
8256338 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAATTT
* *
8256396 CCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
1 -TC-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAATTT
* *
8256456 TCAAAAAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATAAAAGTT
1 TCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAAATTT
*
8256514 TC-AAAAAATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTT
1 TCAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTT
8256556 TCCTACACAA
Statistics
Matches: 247, Mismatches: 19, Indels: 26
0.85 0.07 0.09
Matches are distributed among these distances:
57 16 0.06
58 88 0.36
59 38 0.15
60 88 0.36
61 13 0.05
62 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (57 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAATTT
Found at i:8256345 original size:119 final size:114
Alignment explanation
Indices: 8256219--8256557 Score: 437
Period size: 119 Copynumber: 2.9 Consensus size: 114
8256209 TAAATAAAAA
* *
8256219 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAAAATTTTTTAAAAA
1 TCAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAATTTTTCAAAAA
* *
8256284 AAAGGGTTTTTGAGAAAAAGTTGAAAATATCAATTTTTCTTGAAAATCAAAGTT
65 AAA---TTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAGTT
* **
8256338 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCCAAAA
1 TCAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA-AAATTTTTC-AAA
* * * *
8256403 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT
63 AAAA-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTT
* *
8256456 TCAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAATAAAA-GTTTCAAAA
1 TCAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAAATTTTTCAAAA
*
8256520 AATATTTTTGGAGAAAAAGTTGAAAGTATCAATTTTTC
64 AAAATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTTC
8256558 CTACACAAGA
Statistics
Matches: 193, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
115 6 0.03
116 31 0.16
117 5 0.03
118 49 0.25
119 87 0.45
120 7 0.04
121 7 0.04
122 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (114 bp):
TCAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAATTTTTCAAAAAA
AATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAGTT
Found at i:8256555 original size:27 final size:27
Alignment explanation
Indices: 8256468--8256555 Score: 63
Period size: 27 Copynumber: 3.1 Consensus size: 27
8256458 AAAAAAATAT
8256468 TTTTGG-GAAAAAGTTGAAAGTATCAA
1 TTTTGGAGAAAAAGTTGAAAGTATCAA
* * * ** *
8256494 TTTTCCTTGAAATAAAAGTTTCAAAAAAT-AT
1 -TTT--TGGAGA-AAAAG-TTGAAAGTATCAA
8256525 TTTTGGAGAAAAAGTTGAAAGTATCAA
1 TTTTGGAGAAAAAGTTGAAAGTATCAA
8256552 TTTT
1 TTTT
8256556 TCCTACACAA
Statistics
Matches: 43, Mismatches: 12, Indels: 12
0.64 0.18 0.18
Matches are distributed among these distances:
26 7 0.16
27 13 0.30
28 4 0.09
29 2 0.05
30 4 0.09
31 6 0.14
32 7 0.16
ACGTcount: A:0.42, C:0.06, G:0.16, T:0.36
Consensus pattern (27 bp):
TTTTGGAGAAAAAGTTGAAAGTATCAA
Found at i:8260475 original size:20 final size:20
Alignment explanation
Indices: 8260452--8260490 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
8260442 ATCAACAATG
8260452 GATGAAAATAAAAA-AAAAAT
1 GATGAAAA-AAAAAGAAAAAT
8260472 GATGAAAAAAAAAGAAAAA
1 GATGAAAAAAAAAGAAAAA
8260491 AAAAGAATGA
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:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (20 bp):
GATGAAAAAAAAAGAAAAAT
Found at i:8261806 original size:42 final size:41
Alignment explanation
Indices: 8261760--8261932 Score: 206
Period size: 42 Copynumber: 4.1 Consensus size: 41
8261750 ATGATTGTCA
8261760 AGGAGCAATTTACTTTTTCAAAGTTTCGT-TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAG--TCGTGTGCCTCTGTTTAG
* *
8261802 AGGAGCAATTTAC-TTTTCAAAGTCGTGGTGTCTCTATTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* *
8261843 AGAAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTTCAAAGTCGT-GTGCCTCTGTTTAG
* * * * *
8261885 AGGAGCAGTTTATTTTTTCAAAGTTGTTGAGCCTCTGTTCAG
1 AGGAGCAATTTACTTTTTCAAAGTCG-TGTGCCTCTGTTTAG
8261927 AGGAGC
1 AGGAGC
8261933 TTTGATCAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 4 0.03
41 31 0.27
42 80 0.69
43 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTTCAAAGTCGTGTGCCTCTGTTTAG
Found at i:8262160 original size:7 final size:6
Alignment explanation
Indices: 8262129--8262241 Score: 74
Period size: 6 Copynumber: 18.7 Consensus size: 6
8262119 TTTCTCTTCA
8262129 TTTTAT TTTTA- -TTTAT TTTTAT TTTGTAT TTTTACAT TTTTA- TTTTA-
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TTTT--AT TTTTAT TTTTAT
* * * * * *
8262176 TTTTAT TTTTAT TATTAT TTTATAT ATGTAT ATATAT TTTT-T TTCTTTT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTTTAT TTTTAT TT-TTAT
*
8262225 CTTTTAT TATTAT TTTT
1 -TTTTAT TTTTAT TTTT
8262242 TTAGGCATTT
Statistics
Matches: 87, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
4 4 0.05
5 13 0.15
6 48 0.55
7 14 0.16
8 8 0.09
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:8262215 original size:47 final size:41
Alignment explanation
Indices: 8262128--8262240 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 41
8262118 TTTTCTCTTC
* * *
8262128 ATTTTATTTTTATTTATTTTTATTTTGTATTTTTACATTTTT
1 ATTTTATTTTTTTTTATTATTATTTTATATTTTTACA-TTTT
*
8262170 ATTTTATTTTATTTTTATTATTATTTTATATATGTATATATATTTT
1 ATTTTATTTT-TTTTTATTATTATTTTATAT-T-T-T-TACATTTT
* *
8262216 -TTTTCTTTTCTTTTATTATTATTTT
1 ATTTTATTTTTTTTTATTATTATTTT
8262241 TTTAGGCATT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 10 0.17
43 17 0.28
44 16 0.27
45 9 0.15
46 5 0.08
47 3 0.05
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (41 bp):
ATTTTATTTTTTTTTATTATTATTTTATATTTTTACATTTT
Found at i:8262244 original size:47 final size:48
Alignment explanation
Indices: 8262105--8262244 Score: 121
Period size: 47 Copynumber: 2.9 Consensus size: 48
8262095 TGGGTAAGTC
* * *
8262105 TGTATATATA-TTTTTTTCTCTTCATTTTATTTTTATTTATTTT-TATTT
1 TGTATATATATTTTTTTTCTTTTC-TTTTATTATTATTT-TTTTATATTA
* * *
8262153 TGTATTTTTACATTTTTATTT-TATTT-TATTT-TTATTATTATTTTATA-TA
1 TGTA--TATATATTTTT-TTTCT-TTTCT-TTTATTATTATTTTTTTATATTA
8262202 TGTATATATATTTTTTTTCTTTTCTTTTATTATTATTTTTTTA
1 TGTATATATATTTTTTTTCTTTTCTTTTATTATTATTTTTTTA
8262245 GGCATTTATG
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
46 9 0.12
47 24 0.33
48 4 0.05
49 9 0.12
50 14 0.19
51 8 0.11
52 5 0.07
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (48 bp):
TGTATATATATTTTTTTTCTTTTCTTTTATTATTATTTTTTTATATTA
Found at i:8262286 original size:3 final size:3
Alignment explanation
Indices: 8262278--8262308 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8262268 GTATATATCT
8262278 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8262309 TTTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:8262512 original size:12 final size:12
Alignment explanation
Indices: 8262495--8262519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8262485 GGAATTGAGA
8262495 TTGATCAGAAAC
1 TTGATCAGAAAC
8262507 TTGATCAGAAAC
1 TTGATCAGAAAC
8262519 T
1 T
8262520 CCTAATCAAT
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:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TTGATCAGAAAC
Found at i:8263242 original size:6 final size:6
Alignment explanation
Indices: 8263225--8263284 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
8263215 ATTTAATATT
* * *
8263225 TTTTTA TCTTTA TTTTTA TTTTTA TTTTTG TTTTACTT TTTTTA TTTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT--TA TTTTTA -TTTTTA
8263276 TTTTTA TTT
1 TTTTTA TTT
8263285 ATTTCCACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
6 35 0.76
7 6 0.13
8 5 0.11
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:8263246 original size:17 final size:15
Alignment explanation
Indices: 8263233--8263288 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
8263223 TTTTTTTATC
8263233 TTTATTTTTATTTTT
1 TTTATTTTTATTTTT
* *
8263248 ATTTTTGTTTTACTTTT
1 -TTTAT-TTTTATTTTT
8263265 TTTATTTTTTATTTTT
1 TTTA-TTTTTATTTTT
8263281 ATTTATTT
1 -TTTATTT
8263289 CCACTTTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 19 0.58
17 14 0.42
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:8263249 original size:33 final size:33
Alignment explanation
Indices: 8263212--8263285 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 33
8263202 TTAGAGTAGG
8263212 TTTATTTAATATTTT-TTTATCTTTA-TTTTTATT
1 TTTATTTAATATTTTATTT-T-TTTATTTTTTATT
* *
8263245 TTTATTT-TTGTTTTACTTTTTTTATTTTTTATT
1 TTTATTTAATATTTTA-TTTTTTTATTTTTTATT
8263278 TTTATTTA
1 TTTATTTA
8263286 TTTCCACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
32 9 0.26
33 23 0.66
34 3 0.09
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTATTTAATATTTTATTTTTTTATTTTTTATT
Found at i:8263295 original size:32 final size:32
Alignment explanation
Indices: 8263233--8263296 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
8263223 TTTTTTTATC
* **
8263233 TTTATTTTTATTTTTATTTTTGTTTTACTTTT
1 TTTATTTTTATTTTTATTTATGTTCCACTTTT
8263265 TTTATTTTTTATTTTTATTTAT-TTCCACTTTT
1 TTTA-TTTTTATTTTTATTTATGTTCCACTTTT
8263297 ATTTTGTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (32 bp):
TTTATTTTTATTTTTATTTATGTTCCACTTTT
Found at i:8263486 original size:58 final size:59
Alignment explanation
Indices: 8263333--8263609 Score: 368
Period size: 58 Copynumber: 4.7 Consensus size: 59
8263323 TAAATAAAAA
* * * *
8263333 TCAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAA-TT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
* * * *
8263391 TAAAAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATCAAAGTT
1 TCAAAAAAATA---TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
* * *
8263452 TCCAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAAATAATTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA-AAGTT
8263511 TCAAAAAAATA-TTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
1 TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
8263568 TC-AAAAAATATTTTTGGGGGAAAAGTTGAAAGTATCAATTTT
1 TCAAAAAAATATTTTT-GGGGAAAAGTTGAAAGTATCAATTTT
8263610 TCCTACACAA
Statistics
Matches: 194, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
56 8 0.04
57 39 0.20
58 54 0.28
59 42 0.22
60 11 0.06
61 40 0.21
ACGTcount: A:0.45, C:0.06, G:0.14, T:0.34
Consensus pattern (59 bp):
TCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAGTT
Found at i:8268401 original size:3 final size:3
Alignment explanation
Indices: 8268395--8268437 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
8268385 CTACTACTAC
8268395 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
8268438 ATAACAGCGG
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8274866 original size:2 final size:2
Alignment explanation
Indices: 8274859--8274883 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8274849 GTCATTGATC
8274859 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 T
8274884 TAGTGTAAGA
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8275527 original size:3 final size:3
Alignment explanation
Indices: 8275519--8275613 Score: 131
Period size: 3 Copynumber: 31.3 Consensus size: 3
8275509 ATGGGGCTAT
8275519 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8275567 TTA TTA TTA TTA -TA TT- GTA CATA GTTCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA
8275613 T
1 T
8275614 ATTTCTTTTT
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.04
3 75 0.89
4 5 0.06
5 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:8276419 original size:20 final size:20
Alignment explanation
Indices: 8276391--8276437 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
8276381 CTTTTATACG
8276391 TGACCCGTTAACCCACACGC
1 TGACCCGTTAACCCACACGC
* *
8276411 TGACTCGTTAACCCGCACGC
1 TGACCCGTTAACCCACACGC
8276431 TGACCCG
1 TGACCCG
8276438 CGTTTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.43, G:0.19, T:0.17
Consensus pattern (20 bp):
TGACCCGTTAACCCACACGC
Found at i:8276670 original size:15 final size:15
Alignment explanation
Indices: 8276646--8276707 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
8276636 ATATTTTTAA
*
8276646 TTTTTCAAAAAATAT
1 TTTTTAAAAAAATAT
*
8276661 TTTTTAAAAAAATCCT
1 TTTTTAAAAAAAT-AT
*
8276677 TTTATAAAAAAA-AT
1 TTTTTAAAAAAATAT
8276691 CTTTTTCAAATAAAATA
1 -TTTTT-AAA-AAAATA
8276708 AATTCATGAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.43
16 15 0.41
17 4 0.11
18 1 0.03
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (15 bp):
TTTTTAAAAAAATAT
Found at i:8276671 original size:16 final size:16
Alignment explanation
Indices: 8276652--8276707 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
8276642 TTAATTTTTC
8276652 AAAAAATATTTTTT-A
1 AAAAAATATTTTTTAA
* *
8276667 AAAAAATCCTTTTATAA
1 AAAAAAT-ATTTTTTAA
* *
8276684 AAAAAATCTTTTTCAA
1 AAAAAATATTTTTTAA
*
8276700 ATAAAATA
1 AAAAAATA
8276708 AATTCATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 7 0.21
16 18 0.55
17 8 0.24
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAAAATATTTTTTAA
Found at i:8280580 original size:37 final size:37
Alignment explanation
Indices: 8280534--8280606 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
8280524 AAAGGTGTGC
* **
8280534 AAAAAAAAAAGATGTAAAAA-AGAAGAAG-AAAAGAA
1 AAAAAAAAAAAATAAAAAAATAGAAGAAGTAAAAGAA
8280569 AAAAAACAAAAAATAAAAAAATAGAAGAAGTAAAAGAA
1 AAAAAA-AAAAAATAAAAAAATAGAAGAAGTAAAAGAA
8280607 TGAAAAGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 6 0.19
36 11 0.34
37 8 0.25
38 7 0.22
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.07
Consensus pattern (37 bp):
AAAAAAAAAAAATAAAAAAATAGAAGAAGTAAAAGAA
Found at i:8280605 original size:9 final size:8
Alignment explanation
Indices: 8280556--8280627 Score: 53
Period size: 8 Copynumber: 9.2 Consensus size: 8
8280546 TGTAAAAAAG
*
8280556 AAGAAGAA
1 AAGAATAA
8280564 AAGAA-AA
1 AAGAATAA
*
8280571 AA-AACAA
1 AAGAATAA
8280578 AA-AATAA
1 AAGAATAA
* *
8280585 AAAAATAG
1 AAGAATAA
8280593 AAGAAGTAA
1 AAGAA-TAA
8280602 AAGAATGAA
1 AAGAAT-AA
8280611 AAG-ATAA
1 AAGAATAA
*
8280618 AAGAAGAA
1 AAGAATAA
8280626 AA
1 AA
8280628 AGGAAGACTT
Statistics
Matches: 54, Mismatches: 5, Indels: 10
0.78 0.07 0.14
Matches are distributed among these distances:
6 2 0.04
7 19 0.35
8 21 0.39
9 12 0.22
ACGTcount: A:0.76, C:0.01, G:0.15, T:0.07
Consensus pattern (8 bp):
AAGAATAA
Found at i:8280634 original size:38 final size:37
Alignment explanation
Indices: 8280534--8280634 Score: 98
Period size: 38 Copynumber: 2.7 Consensus size: 37
8280524 AAAGGTGTGC
*
8280534 AAAA-AAAAAAGATGTAAAAAAGAAGAAGAAAAGAAAA
1 AAAACAAAAAAGAAG-AAAAAAGAAGAAGAAAAGAAAA
* **
8280571 AAAACAAAAAATAA-AAAAATAGAAGAAGTAAAAGAATG
1 AAAACAAAAAAGAAGAAAAA-AGAAGAAG-AAAAGAAAA
* * *
8280609 AAAAGATAAAAGAAGAAAAAGGAAGA
1 AAAACAAAAAAGAAGAAAAAAGAAGA
8280635 CTTAAACTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
36 5 0.10
37 12 0.23
38 30 0.58
39 5 0.10
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (37 bp):
AAAACAAAAAAGAAGAAAAAAGAAGAAGAAAAGAAAA
Found at i:8281829 original size:69 final size:69
Alignment explanation
Indices: 8281691--8282009 Score: 324
Period size: 69 Copynumber: 4.7 Consensus size: 69
8281681 ATTATGAAAT
* * * ** *
8281691 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTACAAATCT-AAAGTTTTTGTGAACGTT
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAAGTCTTTGCAAACCTT
8281755 GGCAC
66 -GCAC
** * *
8281760 CTTTGTGAAACTTGAAATCTTGTGATTCTTTCTTTCTTGCGAATTTGAAAGTCTTTGCAAACCTT
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAAGTCTTTGCAAACCTT
8281825 GCAC
66 GCAC
* * * * * * **
8281829 CTTTGTG-AACTTAAAATCTTACAAATCTTTTTTTCTTGTGAATC-GAATGTCCTTGTGAACCTT
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAAGTCTTTGCAAACCTT
8281892 GCAC
66 GCAC
* * * *
8281896 C-TTGTGAAACTTTG-AATCTCGCAAATCTTTCTTTCTTGTGAATCTAAAAGTCTTTACAAACCT
1 CTTTGTGAAAC-TTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAAGTCTTTGCAAACCT
* *
8281959 TGTAT
65 TGCAC
** * * *
8281964 CTTTACGAAACTTGGAATCTAGCGAATCTTTCTTTCTTGCGAATCT
1 CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCT
8282010 TTCTTTCTTG
Statistics
Matches: 205, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
66 5 0.02
67 50 0.24
68 50 0.24
69 86 0.42
70 14 0.07
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (69 bp):
CTTTGTGAAACTTGAAATCTTGCAAATCTTTCTTTCTTGCGAATCTGAAAGTCTTTGCAAACCTT
GCAC
Found at i:8282005 original size:17 final size:17
Alignment explanation
Indices: 8281985--8282026 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
8281975 TTGGAATCTA
8281985 GCGAATCTTTCTTTCTT
1 GCGAATCTTTCTTTCTT
8282002 GCGAATCTTTCTTTCTT
1 GCGAATCTTTCTTTCTT
8282019 GCGAATCT
1 GCGAATCT
8282027 GAAAGTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (17 bp):
GCGAATCTTTCTTTCTT
Found at i:8282078 original size:17 final size:17
Alignment explanation
Indices: 8282035--8282097 Score: 74
Period size: 17 Copynumber: 3.6 Consensus size: 17
8282025 CTGAAAGTCC
*
8282035 TTGCAAA-CTTGAATATT
1 TTGCAAATCTTGCAT-TT
*
8282052 CTTGCGAATCTTGCATTT
1 -TTGCAAATCTTGCATTT
*
8282070 TTGCAAATCTTGCATCT
1 TTGCAAATCTTGCATTT
8282087 TTGCAAATCTT
1 TTGCAAATCTT
8282098 TCTTTCTTGT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
17 26 0.65
18 8 0.20
19 6 0.15
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (17 bp):
TTGCAAATCTTGCATTT
Found at i:8282105 original size:87 final size:87
Alignment explanation
Indices: 8281916--8282166 Score: 301
Period size: 87 Copynumber: 2.9 Consensus size: 87
8281906 TTTGAATCTC
* * * * * * *
8281916 GCAAATCTTTCTTTCTTGTGAATCTAAAAGTCTTTACAAACCTTG--TATCTTTACGAAACTTGG
1 GCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAA-CTTGAATATCCTTGCGAATCTTGC
* * * * * *
8281979 AATCTAGCGAATCTTTC-TTTCTT
65 ATTTTTGCAAATCTTGCATCT-TT
* * *
8282002 GCGAATCTTTCTTTCTTGCGAATCTGAAAGTCCTTGCAAACTTGAATATTCTTGCGAATCTTGCA
1 GCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGCGAATCTTGCA
8282067 TTTTTGCAAATCTTGCATCTTT
66 TTTTTGCAAATCTTGCATCTTT
*
8282089 GCAAATCTTTCTTTCTTGTGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGCGAATCTTGCA
1 GCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGCGAATCTTGCA
*
8282154 TTTTTTCAAATCT
66 TTTTTGCAAATCT
8282167 AGAACTTTTA
Statistics
Matches: 141, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
85 4 0.03
86 35 0.25
87 100 0.71
88 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (87 bp):
GCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGCGAATCTTGCA
TTTTTGCAAATCTTGCATCTTT
Found at i:8282545 original size:3 final size:3
Alignment explanation
Indices: 8282537--8282607 Score: 112
Period size: 3 Copynumber: 24.3 Consensus size: 3
8282527 TCCAATAGGG
8282537 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TTA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
8282581 TTA TTA TTA TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8282608 ACATAGTCAT
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
2 6 0.09
3 56 0.88
4 2 0.03
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8283580 original size:25 final size:25
Alignment explanation
Indices: 8283512--8283583 Score: 67
Period size: 30 Copynumber: 2.7 Consensus size: 25
8283502 GATTACAAGT
8283512 TTTTTTATTT-TTTATTTTCTTTTC
1 TTTTTTATTTATTTATTTTCTTTTC
*
8283536 TTTTTTTTCTTAAGTTTTTATTTT-TTTTC
1 TTTTTTAT-TT-A---TTTATTTTCTTTTC
8283565 ATTTTTTATTTATTTATTT
1 -TTTTTTATTTATTTATTT
8283584 GCTAGTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
24 7 0.18
25 9 0.23
28 1 0.03
29 7 0.18
30 15 0.38
ACGTcount: A:0.12, C:0.06, G:0.01, T:0.81
Consensus pattern (25 bp):
TTTTTTATTTATTTATTTTCTTTTC
Found at i:8283765 original size:16 final size:16
Alignment explanation
Indices: 8283731--8283773 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
8283721 TCAAAAAATA
*
8283731 TTTATAAAAAATTCCT
1 TTTATAAAAAAATCCT
8283747 TTTATAAAAAAAT-CT
1 TTTATAAAAAAATCCT
*
8283762 TTT-TCAAAAAAT
1 TTTATAAAAAAAT
8283774 AAATTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 12 0.48
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTATAAAAAAATCCT
Found at i:8284817 original size:2 final size:2
Alignment explanation
Indices: 8284810--8284888 Score: 133
Period size: 2 Copynumber: 39.0 Consensus size: 2
8284800 ATCCCCCATA
8284810 TC TC TC TC TC TC TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8284851 ATC TC TC GTC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 -TC TC TC -TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8284889 CCTCCCATAT
Statistics
Matches: 74, Mismatches: 0, Indels: 6
0.93 0.00 0.08
Matches are distributed among these distances:
1 1 0.01
2 69 0.93
3 4 0.05
ACGTcount: A:0.01, C:0.49, G:0.01, T:0.48
Consensus pattern (2 bp):
TC
Found at i:8287221 original size:26 final size:25
Alignment explanation
Indices: 8287180--8287253 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 25
8287170 ATAATTATTC
8287180 AATGATGAAA-TTTATATAAATTTCA
1 AATGAT-AAATTTTATATAAATTTCA
*
8287205 AATGATAAATTTCTATA-AAATTCTTA
1 AATGATAAATTT-TATATAAATT-TCA
* * *
8287231 GATGAGAAATTTTATCTAAATTT
1 AATGATAAATTTTATATAAATTT
8287254 GTCTCAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
24 3 0.07
25 17 0.41
26 21 0.51
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (25 bp):
AATGATAAATTTTATATAAATTTCA
Found at i:8290928 original size:12 final size:12
Alignment explanation
Indices: 8290911--8290935 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8290901 CCTCCCTCTC
8290911 TTTTCTTTTTTA
1 TTTTCTTTTTTA
8290923 TTTTCTTTTTTA
1 TTTTCTTTTTTA
8290935 T
1 T
8290936 CTTTTTCCCT
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:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTA
Found at i:8291799 original size:128 final size:128
Alignment explanation
Indices: 8291571--8291931 Score: 659
Period size: 128 Copynumber: 2.8 Consensus size: 128
8291561 TACTTCTTTC
* *
8291571 AAAATAAGAAAAAGTTAATTAAATTCAATAAATAGCTAGCTAAGAAATTACCAGCAAATTATAAG
1 AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTAGCTAAGAAATTACCAGCAAATTATAAG
*
8291636 GAAAAGTAAACTTGGATTTCTCGGCGCCGGAAAATTTCGGCCCTCAATCAAACAACCATTGGA
66 GAAAAGTAAACTTGGATTTCTCGGCGCTGGAAAATTTCGGCCCTCAATCAAACAACCATTGGA
*
8291699 AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTGGCTAAGAAATTACCAGCAAATTATAAG
1 AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTAGCTAAGAAATTACCAGCAAATTATAAG
8291764 GAAAAGTAAACTTGGATTTCTCGGCGCTGGAAAATTTCGGCCCTCAATCAAACAACCATTGGA
66 GAAAAGTAAACTTGGATTTCTCGGCGCTGGAAAATTTCGGCCCTCAATCAAACAACCATTGGA
8291827 AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTAGCTAAGAAATTACCAGCAAATTATAAG
1 AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTAGCTAAGAAATTACCAGCAAATTATAAG
*
8291892 GAAAAGCAAACTTGGATTTCTCGGGGCGCTGGAAAATTTC
66 GAAAAGTAAACTTGGATTTCTC--GGCGCTGGAAAATTTC
8291932 ATCCGATCAA
Statistics
Matches: 225, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
128 209 0.93
130 16 0.07
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (128 bp):
AAAATAAGAAAAAGTTAATGAAATTCAATAACTAGCTAGCTAAGAAATTACCAGCAAATTATAAG
GAAAAGTAAACTTGGATTTCTCGGCGCTGGAAAATTTCGGCCCTCAATCAAACAACCATTGGA
Found at i:8292639 original size:12 final size:12
Alignment explanation
Indices: 8292619--8292653 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
8292609 TGTGAAGATT
*
8292619 AATAATATTTAA
1 AATATTATTTAA
8292631 AATATTATTTAA
1 AATATTATTTAA
8292643 AATATTATTTA
1 AATATTATTTA
8292654 TAATTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATTATTTAA
Found at i:8293197 original size:19 final size:19
Alignment explanation
Indices: 8293162--8293199 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8293152 AGATTAAACA
*
8293162 AAAACTAAAATTGAAAAAT
1 AAAACTAAAAATGAAAAAT
8293181 AAAACTAAATAAT-AAAAAT
1 AAAACTAAA-AATGAAAAAT
8293200 TGATTAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAACTAAAAATGAAAAAT
Found at i:8293671 original size:23 final size:24
Alignment explanation
Indices: 8293633--8293681 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
8293623 ATATTTTTTA
8293633 TTAAATAATATAAATT-AT-TATT
1 TTAAATAATATAAATTAATGTATT
8293655 TTAAATTAAT-TAGAATTAATGTATT
1 TTAAA-TAATATA-AATTAATGTATT
8293680 TT
1 TT
8293682 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 2 0.09
25 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (24 bp):
TTAAATAATATAAATTAATGTATT
Found at i:8293727 original size:27 final size:27
Alignment explanation
Indices: 8293669--8293732 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
8293659 ATTAATTAGA
* * *
8293669 ATTAATGTATTTTTATTAAAAATATAT
1 ATTAATATATATTTATTAAAAAAATAT
*
8293696 ATTAATATATATTTA-TAAAAAAATTT
1 ATTAATATATATTTATTAAAAAAATAT
8293722 ACTTAA-ATATA
1 A-TTAATATATA
8293733 CAAATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (27 bp):
ATTAATATATATTTATTAAAAAAATAT
Found at i:8296681 original size:21 final size:21
Alignment explanation
Indices: 8296655--8296697 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
8296645 CCATAGTACA
8296655 TAGGAATTGAAAGCTCCTAAG
1 TAGGAATTGAAAGCTCCTAAG
8296676 TAGGAATTGAAAGCTCCTAAG
1 TAGGAATTGAAAGCTCCTAAG
8296697 T
1 T
8296698 CATGCTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (21 bp):
TAGGAATTGAAAGCTCCTAAG
Found at i:8299738 original size:3 final size:3
Alignment explanation
Indices: 8299697--8299723 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
8299687 CTGTTACTAC
8299697 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
8299724 CAGCGGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:8306641 original size:2 final size:2
Alignment explanation
Indices: 8306634--8306661 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8306624 TCATTGATCA
8306634 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
8306662 TAGTGTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8307505 original size:20 final size:20
Alignment explanation
Indices: 8307480--8307517 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8307470 TACGTGGCCT
8307480 GTTAACCCACACGCTGACTC
1 GTTAACCCACACGCTGACTC
* *
8307500 GTTAACCCGCACGTTGAC
1 GTTAACCCACACGCTGAC
8307518 CCGCATTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (20 bp):
GTTAACCCACACGCTGACTC
Found at i:8307797 original size:17 final size:17
Alignment explanation
Indices: 8307753--8307787 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
8307743 TCAAAAAATA
8307753 TTTAT-AAAAAAATCCT
1 TTTATAAAAAAAATCCT
8307769 TTTATAAAAAAAAT-CT
1 TTTATAAAAAAAATCCT
8307785 TTT
1 TTT
8307788 TCAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTATAAAAAAAATCCT
Found at i:8311416 original size:54 final size:53
Alignment explanation
Indices: 8311302--8311417 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 53
8311292 TTTCTGACAA
* *
8311302 ATGAAAAAATGAAAAAAAAAAAATTGATAAGGCAAAACGCCAATGTGCTTCGCC
1 ATGAAAAAA-GAAAAAAAAAAAATTGATAAGGCAAAACACCAATGTGCTTCGAC
* *
8311356 A--AAAAAAAAACAAAAAAAAAATTTTGAT-AGGACAAAACACCAATGTGC-TCTAC
1 ATGAAAAAAGAA-AAAAAAAAAA--TTGATAAGG-CAAAACACCAATGTGCTTCGAC
8311409 ATGAAAAAA
1 ATGAAAAAA
8311418 TGATTCTTGG
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
51 2 0.04
52 16 0.31
53 7 0.13
54 21 0.40
55 6 0.12
ACGTcount: A:0.57, C:0.14, G:0.13, T:0.16
Consensus pattern (53 bp):
ATGAAAAAAGAAAAAAAAAAAATTGATAAGGCAAAACACCAATGTGCTTCGAC
Found at i:8311673 original size:8 final size:8
Alignment explanation
Indices: 8311662--8311719 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
8311652 AAAAAAAAGC
8311662 AAAAAATA
1 AAAAAATA
8311670 AAAAAATTA
1 AAAAAA-TA
8311679 AAAAAAT-
1 AAAAAATA
**
8311686 --AAAACC
1 AAAAAATA
8311692 AAAAAATA
1 AAAAAATA
8311700 AAAAAATA
1 AAAAAATA
* *
8311708 AAGAAGTA
1 AAAAAATA
8311716 AAAA
1 AAAA
8311720 GAATGAAAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 4 0.10
8 28 0.70
9 8 0.20
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAAATA
Found at i:8312908 original size:69 final size:68
Alignment explanation
Indices: 8312822--8313292 Score: 376
Period size: 69 Copynumber: 6.8 Consensus size: 68
8312812 TTATGAAATT
* **
8312822 TTTGTGAAACTTGAAATCTTGCGAATCTTTCTTTCTTACGAATCTAAAAGTTTTTGTGAACCTTG
1 TTTGTGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG-GAACCTTG
8312887 CACC
65 CACC
* * * *
8312891 TTTGTGAAACTTGAAATCTTGTGAATCTTTCTTTCTTGCGAATTTGAAAGTCTTTGCGAACCTTG
1 TTTGTGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG-GAACCTTG
8312956 CACC
65 CACC
* * * * * * * *
8312960 TTTGCGAAACTTAAAATCTTGCGAATCTTTTTTTTTTGTGAATCTGAATGTCCTTGTGAACCTTA
1 TTTGTGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG-GAACCTTG
8313025 CACC
65 CACC
* * ** * *
8313029 -TTGTGCAACTCTG-AATCTCGTAAATCTTTCTTTCTTGTGAATCTAAAAGTCCTTGCAAACCTT
1 TTTGTGAAACT-TGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG-GAACCTT
**
8313092 TTACC
64 GCACC
* * * ** * * * *
8313097 TTTATGAAACTT-AGAATCTAGCGAATCTTTTTTTCTTATGAATCTGAAAGTTCTTGCAAACTTG
1 TTTGTGAAACTTGA-AATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGGAACCTTG
* **
8313161 AATAT
65 CA-CC
* * * * * *
8313166 TCTTGTGAATCTTG-CATCTTTGTGAATCTTTCTTTCTTGCGAATCTAAAAGTCTTTGCAAACTT
1 T-TTGTGAAACTTGAAATC-TTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGGAACCTT
* **
8313230 GAATAT
64 GCA-CC
* * *
8313236 TCTTGTGAATCTTG-TATCTTTGCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG
1 T-TTGTGAAACTTGAAATC-TTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTG
8313293 CAAACTTGAA
Statistics
Matches: 333, Mismatches: 61, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
68 59 0.18
69 169 0.51
70 105 0.32
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.42
Consensus pattern (68 bp):
TTTGTGAAACTTGAAATCTTGCGAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGGAACCTTGC
ACC
Found at i:8313210 original size:34 final size:33
Alignment explanation
Indices: 8313165--8313281 Score: 92
Period size: 34 Copynumber: 3.4 Consensus size: 33
8313155 AACTTGAATA
* * *
8313165 TTCTTGTGAATCTTGCATCTTTGTGAATCTTTCT
1 TTCTTGCGAATCTTGAATCTTTG-AAATCTTTCT
** **
8313199 TTCTTGCGAATCTAAAAGTCTTTGCAAA-CTTGAAT
1 TTCTTGCGAATCTTGAA-TCTTTG-AAATCTT-TCT
* *
8313234 ATTCTTGTGAATCTTGTATCTTTGCAAATCTTTCT
1 -TTCTTGCGAATCTTGAATCTTTG-AAATCTTTCT
8313269 TTCTTGCGAATCT
1 TTCTTGCGAATCT
8313282 AAAAGTCCTT
Statistics
Matches: 64, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
34 28 0.44
35 20 0.31
36 16 0.25
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (33 bp):
TTCTTGCGAATCTTGAATCTTTGAAATCTTTCT
Found at i:8313332 original size:70 final size:70
Alignment explanation
Indices: 8313050--8313334 Score: 344
Period size: 70 Copynumber: 4.1 Consensus size: 70
8313040 TGAATCTCGT
* * * * *
8313050 AAATCTTTCTTTCTTGTGAATCTAAAAGTCCTTGCAAACCTT--TTA-CCTTTATGAAACTTAGA
1 AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAA-CTTGAATATCC-TTGTGAATCTT-GC
*
8313112 ATC-TAGC
63 ATCTTTGC
* * ** * * *
8313119 GAATCTTTTTTTCTTATGAATCTGAAAGTTCTTGCAAACTTGAATATTCTTGTGAATCTTGCATC
1 AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGTGAATCTTGCATC
*
8313184 TTTGT
66 TTTGC
* * * *
8313189 GAATCTTTCTTTCTTGCGAATCTAAAAGTCTTTGCAAACTTGAATATTCTTGTGAATCTTGTATC
1 AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGTGAATCTTGCATC
8313254 TTTGC
66 TTTGC
8313259 AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGTGAATCTTGCATC
1 AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGTGAATCTTGCATC
*
8313324 TTTTC
66 TTTGC
8313329 AAATCT
1 AAATCT
8313335 AGAACTTTTG
Statistics
Matches: 187, Mismatches: 25, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
68 3 0.02
69 37 0.20
70 146 0.78
71 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (70 bp):
AAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATATCCTTGTGAATCTTGCATC
TTTGC
Found at i:8313334 original size:140 final size:139
Alignment explanation
Indices: 8312826--8313334 Score: 380
Period size: 137 Copynumber: 3.7 Consensus size: 139
8312816 GAAATTTTTG
* * ** * * *
8312826 TGAAACTT-GAAATCTTGCGAATCTTTCTTTCTTACGAATCTAAAAGTTTTTGTGAACCTTG--C
1 TGAAACTTAG-AATCTAGCAAATCTTTCTTTCTTACGAATCTAAAAGTCCTTG-CAAACTTGAAT
* * * * * * *
8312888 A-CCTTTGTGAAACTTGAAATC-TTGTGAATCTTTCTTTCTTGCGAATTTGAAAGTCTTTGCGAA
64 ATCC-TTGTGAATCTTG-CATCTTTGTAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAA
** *
8312951 CCTTGCACCTTTG
127 CCTTATACCTTTA
* * * * * * ** * * * * *
8312964 CGAAACTTAAAATCTTGCGAATCTTTTTTTTTTGTGAATCTGAATGTCCTTGTGAACCTT--ACA
1 TGAAACTTAGAATCTAGCAAATCTTTCTTTCTTACGAATCTAAAAGTCCTTG-CAAACTTGAATA
* * *
8313027 -CCTTGTGCAA-CTCTGAATC-TCGTAAATCTTTCTTTCTTGTGAATCTAAAAGTCCTTGCAAAC
65 TCCTTGTG-AATCT-TGCATCTTTGTAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAAC
*
8313089 CTTTTACCTTTA
128 CTTATACCTTTA
* * * * *
8313101 TGAAACTTAGAATCTAGCGAATCTTTTTTTCTTATGAATCTGAAAGTTCTTGCAAACTTGAATAT
1 TGAAACTTAGAATCTAGCAAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACTTGAATAT
* * *
8313166 TCTTGTGAATCTTGCATCTTTGTGAATCTTTCTTTCTTGCGAATCTAAAAGTCTTTGCAAA-CTT
66 CCTTGTGAATCTTGCATCTTTGTAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACCTT
* *
8313230 GAATA-TTCTTG
131 --ATACCT-TTA
* * * *
8313241 TGAATCTT-GTATCTTTGCAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACTTGAATA
1 TGAAACTTAGAATC-TAGCAAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACTTGAATA
8313305 TCCTTGTGAATCTTGCATCTTT-TCAAATCT
65 TCCTTGTGAATCTTGCATCTTTGT-AAATCT
8313335 AGAACTTTTG
Statistics
Matches: 307, Mismatches: 50, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
136 5 0.02
137 101 0.33
138 69 0.22
139 52 0.17
140 80 0.26
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.42
Consensus pattern (139 bp):
TGAAACTTAGAATCTAGCAAATCTTTCTTTCTTACGAATCTAAAAGTCCTTGCAAACTTGAATAT
CCTTGTGAATCTTGCATCTTTGTAAATCTTTCTTTCTTGCGAATCTAAAAGTCCTTGCAAACCTT
ATACCTTTA
Found at i:8313709 original size:3 final size:3
Alignment explanation
Indices: 8313701--8313798 Score: 119
Period size: 3 Copynumber: 32.3 Consensus size: 3
8313691 GGTAATAGGG
8313701 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
8313749 TTA -TA TT- GTA CATA GTTCA TTA GTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA -TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
8313795 TTA T
1 TTA T
8313799 CAGAATTATT
Statistics
Matches: 83, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
2 3 0.04
3 74 0.89
4 5 0.06
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:8314719 original size:8 final size:8
Alignment explanation
Indices: 8314665--8314735 Score: 63
Period size: 8 Copynumber: 8.5 Consensus size: 8
8314655 GATTACAAGT
8314665 TTTTTTTA
1 TTTTTTTA
*
8314673 TTTTATTA
1 TTTTTTTA
8314681 TTTTCTTT-
1 TTTT-TTTA
8314689 TCTTTTCTTA
1 T-TTTT-TTA
**
8314699 AGTTTTTA
1 TTTTTTTA
8314707 TTTTTTTTA
1 -TTTTTTTA
8314716 TTTTTTTA
1 TTTTTTTA
*
8314724 TTTATTTA
1 TTTTTTTA
8314732 TTTT
1 TTTT
8314736 GCTAGTTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
8 34 0.68
9 16 0.32
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (8 bp):
TTTTTTTA
Found at i:8314920 original size:17 final size:17
Alignment explanation
Indices: 8314884--8314919 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
8314874 TTAAAAAATA
8314884 TTTATAAAAAAAATCCT
1 TTTATAAAAAAAATCCT
8314901 TTTATAAAAAAAAT-CT
1 TTTATAAAAAAAATCCT
8314917 TTT
1 TTT
8314920 TCGAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTATAAAAAAAATCCT
Found at i:8326008 original size:21 final size:20
Alignment explanation
Indices: 8325982--8326021 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
8325972 TCTTTTATTA
8325982 TTAAAAAAAATAGATTTCAAT
1 TTAAAAAAAA-AGATTTCAAT
*
8326003 TTAAAAAAAAAGTTTTCAA
1 TTAAAAAAAAAGATTTCAA
8326022 GTTTTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
TTAAAAAAAAAGATTTCAAT
Found at i:8327651 original size:15 final size:15
Alignment explanation
Indices: 8327631--8327662 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8327621 GTATTCTAAG
8327631 ATCACCGATGATCAA
1 ATCACCGATGATCAA
8327646 ATCACCGATGATCAA
1 ATCACCGATGATCAA
8327661 AT
1 AT
8327663 TACCTTTATA
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:0.41, C:0.25, G:0.12, T:0.22
Consensus pattern (15 bp):
ATCACCGATGATCAA
Found at i:8329204 original size:16 final size:16
Alignment explanation
Indices: 8329183--8329213 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8329173 TTAGGGTTTT
8329183 GATTTTAGAGTTTGGA
1 GATTTTAGAGTTTGGA
*
8329199 GATTTTAGGGTTTGG
1 GATTTTAGAGTTTGG
8329214 GTTTTGAGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.45
Consensus pattern (16 bp):
GATTTTAGAGTTTGGA
Found at i:8329226 original size:30 final size:29
Alignment explanation
Indices: 8329172--8329235 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
8329162 ATATGGAAGG
*
8329172 TTTAGGGTTTTGATTTTAGAGTTTGGAGAT
1 TTTAGGGTTTGGATTTTAGAGTTTGG-GAT
* *
8329202 TTTAGGGTTTGGGTTTT-GAGGTTTGGGGT
1 TTTAGGGTTTGGATTTTAGA-GTTTGGGAT
8329231 TTTAG
1 TTTAG
8329236 ATTTTAAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.14, C:0.00, G:0.36, T:0.50
Consensus pattern (29 bp):
TTTAGGGTTTGGATTTTAGAGTTTGGGAT
Found at i:8329248 original size:16 final size:16
Alignment explanation
Indices: 8329227--8329358 Score: 81
Period size: 16 Copynumber: 8.2 Consensus size: 16
8329217 TTGAGGTTTG
*
8329227 GGGTTTTAGATTTTAA
1 GGGTTTTGGATTTTAA
*
8329243 GGGTTTTGGATTTTAT
1 GGGTTTTGGATTTTAA
* *
8329259 GGGGTTTGGATTTAAA
1 GGGTTTTGGATTTTAA
* * *
8329275 GGATTTTGAATTTTTAGG
1 GGGTTTTGGA-TTTTA-A
* *
8329293 GGGCTTCGGATTTT-A
1 GGGTTTTGGATTTTAA
**
8329308 GAATTTTGGATTTT-A
1 GGGTTTTGGATTTTAA
* *
8329323 GGGAGTTT-GAATTTAA
1 GGG-TTTTGGATTTTAA
*
8329339 GGGATTTTGGATTTTTA
1 GGG-TTTTGGATTTTAA
8329356 GGG
1 GGG
8329359 GGTTTCGAAT
Statistics
Matches: 85, Mismatches: 26, Indels: 9
0.71 0.22 0.08
Matches are distributed among these distances:
15 17 0.20
16 45 0.53
17 17 0.20
18 6 0.07
ACGTcount: A:0.21, C:0.02, G:0.31, T:0.46
Consensus pattern (16 bp):
GGGTTTTGGATTTTAA
Found at i:8329322 original size:65 final size:65
Alignment explanation
Indices: 8329246--8329391 Score: 213
Period size: 65 Copynumber: 2.2 Consensus size: 65
8329236 ATTTTAAGGG
* *
8329246 TTTTGGATTTTATGGG-GTTTGGATTTAAAGGATTTTGAATTTTTAGGGGGCTTCGGATTTTAGA
1 TTTTGGATTTTA-GGGAGTTTGAATTTAAAGGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGA
8329310 A
65 A
* * * *
8329311 TTTTGGATTTTAGGGAGTTTGAATTTAAGGGATTTTGGATTTTTAGGGGGTTTCGAATTTTAGGA
1 TTTTGGATTTTAGGGAGTTTGAATTTAAAGGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGAA
*
8329376 TTTTAGATTTTAGGGA
1 TTTTGGATTTTAGGGA
8329392 TTTTAGAAAC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 3 0.04
65 70 0.96
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (65 bp):
TTTTGGATTTTAGGGAGTTTGAATTTAAAGGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGAA
Found at i:8329394 original size:16 final size:16
Alignment explanation
Indices: 8329301--8329398 Score: 76
Period size: 16 Copynumber: 6.1 Consensus size: 16
8329291 GGGGGCTTCG
* *
8329301 GATTTTA-GAATTTTG
1 GATTTTAGGGATTTTA
*
8329316 GATTTTAGGGAGTTT-
1 GATTTTAGGGATTTTA
* *
8329331 GAATTTAAGGGATTTTG
1 G-ATTTTAGGGATTTTA
** *
8329348 GATTTTTAGGGGGTTTC
1 GA-TTTTAGGGATTTTA
8329365 GAATTTTA-GGATTTTA
1 G-ATTTTAGGGATTTTA
8329381 GATTTTAGGGATTTTA
1 GATTTTAGGGATTTTA
8329397 GA
1 GA
8329399 AACCTAGGAT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
15 14 0.21
16 34 0.52
17 17 0.26
18 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (16 bp):
GATTTTAGGGATTTTA
Found at i:8329395 original size:9 final size:8
Alignment explanation
Indices: 8329300--8329397 Score: 51
Period size: 8 Copynumber: 12.1 Consensus size: 8
8329290 AGGGGGCTTC
8329300 GGATTTTA
1 GGATTTTA
*
8329308 GAATTTT-
1 GGATTTTA
8329315 GGATTTTA
1 GGATTTTA
*
8329323 GGGAGTTT-
1 -GGATTTTA
* *
8329331 GAATTTAA
1 GGATTTTA
8329339 GGGATTTT-
1 -GGATTTTA
8329347 GGATTTTTA
1 GGA-TTTTA
** *
8329356 GGGGGTTTC
1 -GGATTTTA
*
8329365 GAATTTTA
1 GGATTTTA
8329373 GGATTTTA
1 GGATTTTA
8329381 -GATTTTA
1 GGATTTTA
8329388 GGGATTTTA
1 -GGATTTTA
8329397 G
1 G
8329398 AAACCTAGGA
Statistics
Matches: 65, Mismatches: 16, Indels: 18
0.66 0.16 0.18
Matches are distributed among these distances:
7 20 0.31
8 22 0.34
9 21 0.32
10 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (8 bp):
GGATTTTA
Found at i:8329409 original size:65 final size:64
Alignment explanation
Indices: 8329273--8329411 Score: 172
Period size: 65 Copynumber: 2.1 Consensus size: 64
8329263 TTTGGATTTA
* * **
8329273 AAGGATTTTGAATTTTTAGGGGGCTTCGGATTTTAGAATTTTGGATTTTAGGGAGTTTGAATTT
1 AAGGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGAATTTTAGATTTTAGGGAGTTTGAACCT
* * * *
8329337 AAGGGATTTTGGATTTTTAGGGGGTTTCGAATTTTAGGATTTTAGATTTTAGGGATTTTAGAAAC
1 AA-GGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGAATTTTAGATTTTAGGGAGTTT-G-AAC
8329402 CT
63 CT
8329404 -AGGATTTT
1 AAGGATTTT
8329412 AAAAATTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
64 2 0.03
65 57 0.89
66 2 0.03
67 3 0.05
ACGTcount: A:0.24, C:0.04, G:0.27, T:0.45
Consensus pattern (64 bp):
AAGGATTTTGAATTTTTAGGGGGCTTCGAATTTTAGAATTTTAGATTTTAGGGAGTTTGAACCT
Found at i:8330867 original size:7 final size:7
Alignment explanation
Indices: 8330850--8330888 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
8330840 GCCACTCTAC
8330850 TTTTTAT
1 TTTTTAT
8330857 TTTTCTAT
1 TTTT-TAT
8330865 TTTTTAT
1 TTTTTAT
*
8330872 TTTTTGT
1 TTTTTAT
8330879 TTTTTAT
1 TTTTTAT
8330886 TTT
1 TTT
8330889 ATTAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.10, C:0.03, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:8330868 original size:15 final size:15
Alignment explanation
Indices: 8330845--8330888 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
8330835 CGCCAGCCAC
*
8330845 TCTACTTTTTATTTT
1 TCTATTTTTTATTTT
8330860 TCTATTTTTTATTTT
1 TCTATTTTTTATTTT
*
8330875 T-TGTTTTTTATTTT
1 TCTATTTTTTATTTT
8330889 ATTAATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (15 bp):
TCTATTTTTTATTTT
Found at i:8330874 original size:14 final size:14
Alignment explanation
Indices: 8330845--8330888 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8330835 CGCCAGCCAC
*
8330845 TCTACTTTTTATTTT
1 TCTATTTTTTA-TTT
8330860 TCTATTTTTTATTT
1 TCTATTTTTTATTT
* *
8330874 TTTGTTTTTTATTT
1 TCTATTTTTTATTT
8330888 T
1 T
8330889 ATTAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.11, C:0.07, G:0.02, T:0.80
Consensus pattern (14 bp):
TCTATTTTTTATTT
Found at i:8330915 original size:3 final size:3
Alignment explanation
Indices: 8330909--8330949 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
8330899 ATTTTTTAAA
** *
8330909 ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
8330950 ACTGAAATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8330923 original size:9 final size:9
Alignment explanation
Indices: 8330904--8330949 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
8330894 TAATAATTTT
*
8330904 TTAAAATTA
1 TTAATATTA
*
8330913 TTATTATTA
1 TTAATATTA
*
8330922 TTATTATTA
1 TTAATATTA
*
8330931 TTAAAATTA
1 TTAATATTA
8330940 TTAATATTA
1 TTAATATTA
8330949 T
1 T
8330950 ACTGAAATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATATTA
Found at i:8331244 original size:88 final size:88
Alignment explanation
Indices: 8331095--8331260 Score: 233
Period size: 88 Copynumber: 1.9 Consensus size: 88
8331085 ATAAAACGAT
* * * *
8331095 TGAGATAACACCGCAAGTCAAAAAATAATGAATCGATCGAGATAACATCGCGAATTAAATTTATG
1 TGAGATAACACCGCAAGTCAAAAAATAAGGAATCAATCGAGATAACATCGCAAATCAAATTTATG
*
8331160 CCCGGAGGTCTTACAGAATCAAC
66 CCCGGAAGTCTTACAGAATCAAC
* * ** *
8331183 TGAGATAACACTGTAAGTTGAAAAATAAGGAATCAATCGGGATAACATCGCAAATCAAATTTATG
1 TGAGATAACACCGCAAGTCAAAAAATAAGGAATCAATCGAGATAACATCGCAAATCAAATTTATG
*
8331248 CCTGGAAGTCTTA
66 CCCGGAAGTCTTA
8331261 GACATCATGC
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.23
Consensus pattern (88 bp):
TGAGATAACACCGCAAGTCAAAAAATAAGGAATCAATCGAGATAACATCGCAAATCAAATTTATG
CCCGGAAGTCTTACAGAATCAAC
Found at i:8331522 original size:220 final size:219
Alignment explanation
Indices: 8331157--8331815 Score: 775
Period size: 220 Copynumber: 3.0 Consensus size: 219
8331147 AATTAAATTT
* * * *
8331157 ATGCCCGGAGGTCTTACAGAATCAACTGAGATAACACTGTAAGTTGAAAA-ATAAGGAATCAATC
1 ATGCCCGGAGGTCTTACAGAATCAACTGAGATAACACCGTAAG-TCAAAAGATAAAGAATCGATC
* * * * * *
8331221 GGGATAACATCGCAAATCAAATTTATGCCTGGAAGTCTTAGACATCATGCTCGGAGGTCTTACAA
65 GGGATAACACCGCGAATCAAAATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAGGTCTTACAA
** *
8331286 AATCGACTGGGATAACATTGTAAGTCAAAAAATAAAGAATCGATCGGGATAACATCGCGAATCGA
130 AATCGACTGGGATAACACCGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATC-A
*
8331351 AATTATGCTCAAAGATCTTAGAAATC
194 AATTATGCCCAAAGATCTTAGAAATC
* * * * * *
8331377 ATGCTCGGAGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAGATAAAAAATTGATCG
1 ATGCCCGGAGGTCTTACAGAATCAACTGAGATAACACCGTAAGTCAAAAGATAAAGAATCGATCG
* * * *
8331442 GGATAACACCACGAATCAAAATTATGCTTGGAGGTCTTAGAAATCATGCTCGAAGCTCTTATAAA
66 GGATAACACCGCGAATCAAAATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAGGTCTTACAAA
* * * *
8331507 ATTGACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCGATCAGGAAAACATCGCGAATCAAA
131 ATCGACTGGGATAACACCGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATCAAA
* * *
8331572 TTTATGCCCAGAGGTCTTAGCAATC
196 -TTATGCCCAAAGATCTTAGAAATC
** * * * *
8331597 ATGCCCATAGGTCTTACAGAATCAAGT-AGATAATACCGTAAGTCGAAAGATAAAGAATCGATTG
1 ATGCCCGGAGGTCTTACAGAATCAACTGAGATAACACCGTAAGTCAAAAGATAAAGAATCGATCG
* * * * * * * *
8331661 GGATAACACCGTGAATCAAAATTATACCCGAAGGACTTAAAAATCATG-TCCGAAGGTCTTCCAG
66 GGATAACACCGCGAATCAAAATTATGCCTGGAGGTCTTAGAAATCATGCT-CGAAGGTCTTACAA
* * * *
8331725 AATCGACTGGGATAACACCATAAGTCAAAAAATAAGGAATCGATCAGGATAACACCTCGAATCAA
130 AATCGACTGGGATAACACCGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATC-A
* * * *
8331790 AATTATGTCCAGAGGTCTTACAAATC
194 AATTATGCCCAAAGATCTTAGAAATC
8331816 TTAAAATCTT
Statistics
Matches: 369, Mismatches: 66, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
218 1 0.00
219 164 0.44
220 204 0.55
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (219 bp):
ATGCCCGGAGGTCTTACAGAATCAACTGAGATAACACCGTAAGTCAAAAGATAAAGAATCGATCG
GGATAACACCGCGAATCAAAATTATGCCTGGAGGTCTTAGAAATCATGCTCGAAGGTCTTACAAA
ATCGACTGGGATAACACCGTAAGTCAAAAAATAAAGAATCGATCAGGATAACATCGCGAATCAAA
TTATGCCCAAAGATCTTAGAAATC
Found at i:8331780 original size:329 final size:330
Alignment explanation
Indices: 8331181--8331796 Score: 835
Period size: 329 Copynumber: 1.9 Consensus size: 330
8331171 TACAGAATCA
* * * * *
8331181 ACTGAGATAACACTGTAAGTTGAAAAATAAGGAATCAATCGGGATAACATCGCAAATCAAATTTA
1 ACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCAATCAGGAAAACATCGCAAATCAAATTTA
** * * * * **
8331246 TGCCTGGAAGTCTTAGACATCATGCTCGGAGGTCTTACAAAATCGACTGGGATAACATTGTAAGT
66 TGCCCAGAAGTCTTAGACATCATGCCCAGAGGTCTTACAAAATCAACTGAGATAACACCGTAAGT
* * * * *
8331311 CAAAAAATAAAGAATCGATCGGGATAACATCGCGAATCGAAATTATGCTCAAAGATCTTAGAAAT
131 CAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATACCCAAAGATCTTAAAAAT
* * *
8331376 CATGCTCGGAGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAGATAAAAAATTGATC
196 CATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAAATAAAAAATCGATC
*
8331441 GGGATAACACCACGAATCAAAATTATGCTTGGAGGTCTTAGAAATCATGCTCGAAGCTCTTATAA
261 AGGATAACACCACGAATCAAAATTATGCTTGGAGGTCTTAGAAATCATGCTCGAAGCTCTTATAA
8331506 AATTG
326 AATTG
* *
8331511 ACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCGATCAGGAAAACATCGCGAATCAAATTTA
1 ACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCAATCAGGAAAACATCGCAAATCAAATTTA
* * * * *
8331576 TGCCCAGAGGTCTTAG-CAATCATGCCCATAGGTCTTACAGAATCAAGT-AGATAATACCGTAAG
66 TGCCCAGAAGTCTTAGAC-ATCATGCCCAGAGGTCTTACAAAATCAACTGAGATAACACCGTAAG
* * * * *
8331639 TCGAAAGATAAAGAATCGATTGGGATAACACCGTGAATCAAAATTATACCCGAAGGA-CTTAAAA
130 TCAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATACCC-AAAGATCTTAAAA
* **
8331703 ATCATG-TCCGAAGGTCTTCCAGAATCGACTGGGATAACACCATAAGTCAAAAAATAAGGAATCG
194 ATCATGCT-CGAAGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAAATAAAAAATCG
*
8331767 ATCAGGATAACACCTCGAATCAAAATTATG
258 ATCAGGATAACACCACGAATCAAAATTATG
8331797 TCCAGAGGTC
Statistics
Matches: 245, Mismatches: 38, Indels: 7
0.84 0.13 0.02
Matches are distributed among these distances:
328 1 0.00
329 145 0.59
330 99 0.40
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (330 bp):
ACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCAATCAGGAAAACATCGCAAATCAAATTTA
TGCCCAGAAGTCTTAGACATCATGCCCAGAGGTCTTACAAAATCAACTGAGATAACACCGTAAGT
CAAAAAATAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATACCCAAAGATCTTAAAAAT
CATGCTCGAAGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAAATAAAAAATCGATC
AGGATAACACCACGAATCAAAATTATGCTTGGAGGTCTTAGAAATCATGCTCGAAGCTCTTATAA
AATTG
Found at i:8331815 original size:110 final size:109
Alignment explanation
Indices: 8331165--8331815 Score: 678
Period size: 110 Copynumber: 5.9 Consensus size: 109
8331155 TTATGCCCGG
* * ** * *
8331165 AGGTCTTACAGAATCAACTGAGATAACACTGTAAGTTGAAAAATAAGGAATCAATCGGGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* * * * * * *
8331230 TCGCAAATCAAATTTATGCCTGGAAGTCTTAGACATCATGCTCGG
66 CCGCGAATCAAAATTATGCC-AGAGGTCTTAGAAATCATGCTCGA
* * **
8331275 AGGTCTTACAAAATCGACTGGGATAACATTGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* * * * *
8331340 TCGCGAATCGAAATTATGCTCAAAGATCTTAGAAATCATGCTCGG
66 CCGCGAATCAAAATTATGC-CAGAGGTCTTAGAAATCATGCTCGA
* * * * *
8331385 AGGTCTTACAGAATCGACTGGGATAACACCATAAGTCAAAAGATAAAAAATTGATCGGGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* **
8331450 CCACGAATCAAAATTATGCTTGGAGGTCTTAGAAATCATGCTCGA
66 CCGCGAATCAAAATTATGC-CAGAGGTCTTAGAAATCATGCTCGA
* * * * * * *
8331495 AGCTCTTATAAAATTGACTGAGATAACACCGTAAGTTAAAAAATAAAGAATCGATCAGGAAAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* * * *
8331560 TCGCGAATCAAATTTATGCCCAGAGGTCTTAGCAATCATGC-CCA
66 CCGCGAATCAAAATTATG-CCAGAGGTCTTAGAAATCATGCTCGA
* * * * * *
8331604 TAGGTCTTACAGAATCAAGT-AGATAATACCGTAAGTCGAAAGATAAAGAATCGATTGGGATAAC
1 -AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAAC
* * * * *
8331668 ACCGTGAATCAAAATTATACCCGAAGGACTTAAAAATCATG-TCCGA
65 ACCGCGAATCAAAATTATGCCAG-AGGTCTTAGAAATCATGCT-CGA
* * * * *
8331714 AGGTCTTCCAGAATCGACTGGGATAACACCATAAGTCAAAAAATAAGGAATCGATCAGGATAACA
1 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
* *
8331779 CCTCGAATCAAAATTATGTCCAGAGGTCTTACAAATC
66 CCGCGAATCAAAATTATG-CCAGAGGTCTTAGAAATC
8331816 TTAAAATCTT
Statistics
Matches: 444, Mismatches: 89, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
108 3 0.01
109 84 0.19
110 352 0.79
111 5 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (109 bp):
AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAACA
CCGCGAATCAAAATTATGCCAGAGGTCTTAGAAATCATGCTCGA
Found at i:8332118 original size:41 final size:41
Alignment explanation
Indices: 8332054--8332165 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 41
8332044 AGGTCTTTTC
* *
8332054 TGAGGAAGGTTCC-CTCCAAACAGAGGCTTTGAAATCTTGAT
1 TGAGAAAGGTTCCTCT-TAAACAGAGGCTTTGAAATCTTGAT
*
8332095 TGA-AATTGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
1 TGAGAA-AGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
* * *
8332136 TGAGAAAGGTTCTTCTTAAATAGAGACTTT
1 TGAGAAAGGTTCCTCTTAAACAGAGGCTTT
8332166 AAAACTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
40 1 0.02
41 56 0.92
42 4 0.07
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (41 bp):
TGAGAAAGGTTCCTCTTAAACAGAGGCTTTGAAATCTTGAT
Found at i:8334510 original size:17 final size:17
Alignment explanation
Indices: 8334488--8334529 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
8334478 AAAATAAAAC
*
8334488 TTTTTTTTCTTTTTCTT-
1 TTTTTTTTATTTTT-TTG
8334505 TTTTTTTTATTTTTTTG
1 TTTTTTTTATTTTTTTG
8334522 TTTTTTTT
1 TTTTTTTT
8334530 GAAATCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.02, C:0.05, G:0.02, T:0.90
Consensus pattern (17 bp):
TTTTTTTTATTTTTTTG
Found at i:8334511 original size:18 final size:19
Alignment explanation
Indices: 8334488--8334529 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
8334478 AAAATAAAAC
8334488 TTTTTTT-TCTTTTTCTTT
1 TTTTTTTATCTTTTTCTTT
* *
8334506 TTTTTTTATTTTTTTGTTT
1 TTTTTTTATCTTTTTCTTT
8334525 TTTTT
1 TTTTT
8334530 GAAATCTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.02, C:0.05, G:0.02, T:0.90
Consensus pattern (19 bp):
TTTTTTTATCTTTTTCTTT
Found at i:8340489 original size:13 final size:13
Alignment explanation
Indices: 8340473--8340498 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8340463 CTTGAGTAAA
8340473 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
8340486 GGTTTTAAGGTTT
1 GGTTTTAAGGTTT
8340499 TGAGGGTTTT
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:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
GGTTTTAAGGTTT
Found at i:8340654 original size:33 final size:32
Alignment explanation
Indices: 8340617--8340743 Score: 132
Period size: 33 Copynumber: 3.9 Consensus size: 32
8340607 GGGTTTCAAA
* *
8340617 TTTTATAGGGTTTGGATTTAAGGGATTTTGAAT
1 TTTTA-AGGGTTTAGATTTAAGGGATTTTGGAT
*
8340650 TTTTATAGGGTTTTAGATTTTA-GGATTTTGGA-
1 TTTTA-AGGG-TTTAGATTTAAGGGATTTTGGAT
*
8340682 TTTTAGGGAGTTTAGATTTAAGGGATTTTGGAT
1 TTTTAAGG-GTTTAGATTTAAGGGATTTTGGAT
* * *
8340715 TTTTAGGGGTTTCGGATTTTAGGGATTTT
1 TTTTAAGGGTTT-AGATTTAAGGGATTTT
8340744 AGAAACCTAG
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
31 12 0.15
32 20 0.24
33 41 0.50
34 9 0.11
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (32 bp):
TTTTAAGGGTTTAGATTTAAGGGATTTTGGAT
Found at i:8340678 original size:15 final size:16
Alignment explanation
Indices: 8340547--8340746 Score: 105
Period size: 16 Copynumber: 12.6 Consensus size: 16
8340537 TTAGAGTTTT
*
8340547 GATTTTAGATTTTAGA
1 GATTTTAGATTTTAGG
**
8340563 GATTTTAGGGTTT-GG
1 GATTTTAGATTTTAGG
*
8340578 G-TTTT-GAGGTTT-GG
1 GATTTTAGA-TTTTAGG
*
8340592 GGTTTTAGATTTTAAGG
1 GATTTTAGATTTT-AGG
* *
8340609 G-TTTCAAATTTTATAGG
1 GATTTTAGA-TTT-TAGG
* *
8340626 G--TTTGGATTTAAGG
1 GATTTTAGATTTTAGG
8340640 GATTTT-GAATTTTTATAGG
1 GATTTTAG-A--TTT-TAGG
8340659 G-TTTTAGATTTTA-G
1 GATTTTAGATTTTAGG
*
8340673 GATTTTGGATTTTAGG
1 GATTTTAGATTTTAGG
* *
8340689 GAGTTTAGATTTAAGG
1 GATTTTAGATTTTAGG
*
8340705 GATTTTGGATTTTTAGG
1 GATTTTAGA-TTTTAGG
* **
8340722 GGTTTCGGATTTTAGG
1 GATTTTAGATTTTAGG
8340738 GATTTTAGA
1 GATTTTAGA
8340747 AACCTAGGAT
Statistics
Matches: 143, Mismatches: 24, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
13 1 0.01
14 17 0.12
15 26 0.18
16 62 0.43
17 23 0.16
18 9 0.06
19 5 0.03
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (16 bp):
GATTTTAGATTTTAGG
Found at i:8340704 original size:65 final size:64
Alignment explanation
Indices: 8340591--8340744 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 64
8340581 TTGAGGTTTG
* * *
8340591 GGGTTTTAGATTTTAAGGGTTTCAAATTTTATAGGGTTTGGATTTAAGGGATTTTGAATTTTTAT
1 GGGTTTTAGATTTT-AGGATTTTAAATTTTATAGGGTTTAGATTTAAGGGATTTTGAATTTTTA-
8340656 A
64 A
** * * *
8340657 GGGTTTTAGATTTTAGGATTTTGGATTTTA-GGGAGTTTAGATTTAAGGGATTTTGGATTTTTAG
1 GGGTTTTAGATTTTAGGATTTTAAATTTTATAGG-GTTTAGATTTAAGGGATTTTGAATTTTTAA
**
8340721 GGGTTTCGGATTTTAGGGATTTTA
1 GGGTTTTAGATTTTA-GGATTTTA
8340745 GAAACCTAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
64 15 0.20
65 46 0.61
66 14 0.19
ACGTcount: A:0.23, C:0.01, G:0.28, T:0.48
Consensus pattern (64 bp):
GGGTTTTAGATTTTAGGATTTTAAATTTTATAGGGTTTAGATTTAAGGGATTTTGAATTTTTAA
Found at i:8340742 original size:9 final size:9
Alignment explanation
Indices: 8340665--8340745 Score: 54
Period size: 9 Copynumber: 9.9 Consensus size: 9
8340655 TAGGGTTTTA
8340665 GATTTTA-G
1 GATTTTAGG
8340673 GATTTT--G
1 GATTTTAGG
8340680 GATTTTAGG
1 GATTTTAGG
*
8340689 GAGTTTA--
1 GATTTTAGG
*
8340696 GATTTAAGG
1 GATTTTAGG
8340705 GATTTT--G
1 GATTTTAGG
8340712 GATTTTTAGG
1 GA-TTTTAGG
* *
8340722 G-GTTT-CG
1 GATTTTAGG
8340729 GATTTTAGG
1 GATTTTAGG
8340738 GATTTTAG
1 GATTTTAG
8340746 AAACCTAGGA
Statistics
Matches: 56, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
7 17 0.30
8 16 0.29
9 21 0.38
10 2 0.04
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (9 bp):
GATTTTAGG
Found at i:8344979 original size:22 final size:21
Alignment explanation
Indices: 8344934--8344979 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
8344924 AATCAAGCCA
* * *
8344934 AATTCGAATATTTTTATATCT
1 AATTCGAATACTTATAAATCT
8344955 AATTCGAATAACTTATAAATCT
1 AATTCGAAT-ACTTATAAATCT
8344977 AAT
1 AAT
8344980 CTAGCTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.43
Consensus pattern (21 bp):
AATTCGAATACTTATAAATCT
Found at i:8345224 original size:25 final size:25
Alignment explanation
Indices: 8345178--8345226 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
8345168 TAAAACTCGA
* *
8345178 TTAAATTTGAATTAAGTTTCGAATC
1 TTAAATTTCAATTAAGTCTCGAATC
8345203 TTAAATTTCAATTCAAG-CTCGAAT
1 TTAAATTTCAATT-AAGTCTCGAAT
8345227 TGTATTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (25 bp):
TTAAATTTCAATTAAGTCTCGAATC
Found at i:8347997 original size:70 final size:69
Alignment explanation
Indices: 8347914--8348052 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 69
8347904 ACAATTATAG
* *
8347914 ACAAAAGCTTTTATTTATGCTGAACATGACCTTTACAGCCATCATTTCGCAGGTTCTCTCTATTT
1 ACAAAAGCTTTTATTTATGCCGAACATGACCTGTACAG-CATCATTTCGCAGGTTCTCTCTATTT
8347979 AATAC
65 AATAC
8347984 ACAAAAGCTTTTATTTATGCCGAACATGACCTGTACAGCATCATTTCGCAGGTTCTCTCTATTTA
1 ACAAAAGCTTTTATTTATGCCGAACATGACCTGTACAGCATCATTTCGCAGGTTCTCTCTATTTA
8348049 ATAC
66 ATAC
8348053 TATATTATAC
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
69 31 0.46
70 36 0.54
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (69 bp):
ACAAAAGCTTTTATTTATGCCGAACATGACCTGTACAGCATCATTTCGCAGGTTCTCTCTATTTA
ATAC
Found at i:8354169 original size:19 final size:21
Alignment explanation
Indices: 8354145--8354183 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
8354135 AAAAAATTAT
8354145 TTTTTAATTA-AT-TATTTAA
1 TTTTTAATTATATATATTTAA
*
8354164 TTTTTATTTATATATATTTA
1 TTTTTAATTATATATATTTA
8354184 TATAATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTATATATATTTAA
Found at i:8354238 original size:22 final size:22
Alignment explanation
Indices: 8354200--8354260 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
8354190 GATAATTTTA
8354200 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
8354220 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
*
8354242 TATATTTTATTAATTTTAA
1 AATATTTTA-T-ATTTTAA
8354261 GTCGAATTAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 4 0.11
21 6 0.17
22 18 0.50
23 1 0.03
24 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:8359811 original size:28 final size:29
Alignment explanation
Indices: 8359780--8359845 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
8359770 TTTATTGAAA
*
8359780 TTATTTTAAATATAT-AATTTATAAT-TA-T
1 TTATTTTAAAT-TATCAA-ATATAATATATT
8359808 TTATTTTAAATTATCAAATATAATATATT
1 TTATTTTAAATTATCAAATATAATATATT
8359837 TTATTTTAA
1 TTATTTTAA
8359846 TTTAAAGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 9 0.26
28 15 0.44
29 10 0.29
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (29 bp):
TTATTTTAAATTATCAAATATAATATATT
Found at i:8359819 original size:14 final size:14
Alignment explanation
Indices: 8359780--8359821 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
8359770 TTTATTGAAA
8359780 TTATTTTAAA-TAT
1 TTATTTTAAATTAT
* *
8359793 ATAATTTATAATTAT
1 TTATTTTA-AATTAT
8359808 TTATTTTAAATTAT
1 TTATTTTAAATTAT
8359822 CAAATATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 6 0.26
14 8 0.35
15 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTATTTTAAATTAT
Found at i:8360726 original size:21 final size:21
Alignment explanation
Indices: 8360702--8360752 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
8360692 ACCAATCATT
8360702 TATTGATAATTATATAATATA
1 TATTGATAATTATATAATATA
* *
8360723 TATTTCATAA-TATTTAATATA
1 TA-TTGATAATTATATAATATA
8360744 -ATTG-TAATT
1 TATTGATAATT
8360753 TTACGTGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 1 0.04
21 12 0.48
22 6 0.24
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTGATAATTATATAATATA
Found at i:8361030 original size:23 final size:21
Alignment explanation
Indices: 8361004--8361054 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 21
8360994 GGATGTATGA
8361004 AAATTTTTAAATTTTAA-AATAAT
1 AAATTTTT-AATTTTAATAAT--T
8361027 AAATTTTTAATTTTAATAATT
1 AAATTTTTAATTTTAATAATT
8361048 AAATTTT
1 AAATTTT
8361055 GGTTCATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 11 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AAATTTTTAATTTTAATAATT
Found at i:8362899 original size:12 final size:12
Alignment explanation
Indices: 8362879--8362940 Score: 56
Period size: 12 Copynumber: 5.1 Consensus size: 12
8362869 TGAATAGATG
*
8362879 TAATATTAAATT
1 TAATTTTAAATT
8362891 TAATTTTAAATT
1 TAATTTTAAATT
*
8362903 TGA-TTTAAATTT
1 TAATTTTAAA-TT
*
8362915 TGAGATTTAAAATT
1 T-A-ATTTTAAATT
8362929 TAA-TTTAAATT
1 TAATTTTAAATT
8362940 T
1 T
8362941 GATCAAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
11 14 0.34
12 17 0.41
13 1 0.02
14 4 0.10
15 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (12 bp):
TAATTTTAAATT
Found at i:8366742 original size:13 final size:13
Alignment explanation
Indices: 8366724--8366753 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8366714 TATTAGAAAT
*
8366724 AATTAAAAGTTAA
1 AATTAAAAATTAA
8366737 AATTAAAAATTAA
1 AATTAAAAATTAA
8366750 AATT
1 AATT
8366754 GATAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AATTAAAAATTAA
Found at i:8369399 original size:24 final size:24
Alignment explanation
Indices: 8369375--8369430 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
8369365 AAAATTATAT
8369375 TTATTAATAA-AAAAATAAAATTA
1 TTATTAATAATAAAAATAAAATTA
* * *
8369398 TTATTAGTAATGATAATAAAATTA
1 TTATTAATAATAAAAATAAAATTA
8369422 TTATTAATA
1 TTATTAATA
8369431 TATTGTATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TTATTAATAATAAAAATAAAATTA
Found at i:8371579 original size:34 final size:34
Alignment explanation
Indices: 8371530--8371596 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
8371520 AGCAGAAACG
8371530 TAACAAATCAAACAAAAAGTTTAGGAATTTGACT
1 TAACAAATCAAACAAAAAGTTTAGGAATTTGACT
* * *
8371564 TAACAAATTAGACAAAAAGTTTAGGGATTTGAC
1 TAACAAATCAAACAAAAAGTTTAGGAATTTGAC
8371597 CCAAAATACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (34 bp):
TAACAAATCAAACAAAAAGTTTAGGAATTTGACT
Found at i:8371680 original size:22 final size:21
Alignment explanation
Indices: 8371651--8371691 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8371641 AAAGAAAATG
*
8371651 AAAATTAACCACAAAATGATT
1 AAAATTAACCAAAAAATGATT
*
8371672 AAAACTTAAGCAAAAAATGA
1 AAAA-TTAACCAAAAAATGA
8371692 GAAGAGAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.61, C:0.12, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAATTAACCAAAAAATGATT
Found at i:8372554 original size:60 final size:59
Alignment explanation
Indices: 8372490--8372626 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 59
8372480 TCCATTTTCT
* * *
8372490 ATTTTTTTGAGGGATTATTC-AGACATTTCTGACCAAAAATAACTTT-AATAATCACCTCTA-
1 ATTTTTTTGA-AGATTATTCAAGACATTTCTAAACAAAAAT-ACTTTGAATAATC-CCT-TAC
* * *
8372550 ATTTTTTTTAAGATTATTCAAGGCATTTCTAAATAAAAATACTTTGAATAATCCCTTAC
1 ATTTTTTTGAAGATTATTCAAGACATTTCTAAACAAAAATACTTTGAATAATCCCTTAC
8372609 ATTTTTTTTG-AGATTATT
1 A-TTTTTTTGAAGATTATT
8372627 TAAGGTGTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
58 2 0.03
59 25 0.38
60 39 0.59
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (59 bp):
ATTTTTTTGAAGATTATTCAAGACATTTCTAAACAAAAATACTTTGAATAATCCCTTAC
Found at i:8372616 original size:59 final size:60
Alignment explanation
Indices: 8372502--8372631 Score: 160
Period size: 59 Copynumber: 2.2 Consensus size: 60
8372492 TTTTTTGAGG
* * *
8372502 GATTATTC-AGACATTTCTGACCAAAAATAACTTTAATAATCACCTCTAATTTTTTTTAA
1 GATTATTCAAGGCATTTCTAAACAAAAATAACTTTAATAATCACCTCTAATTTTTTTTAA
* *
8372561 GATTATTCAAGGCATTTCTAAATAAAAAT-ACTTTGAATAATC-CCT-TACATTTTTTTTGA
1 GATTATTCAAGGCATTTCTAAACAAAAATAACTTT-AATAATCACCTCTA-ATTTTTTTTAA
*
8372620 GATTATTTAAGG
1 GATTATTCAAGG
8372632 TGTTTTTTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
58 2 0.03
59 37 0.60
60 23 0.37
ACGTcount: A:0.36, C:0.14, G:0.08, T:0.42
Consensus pattern (60 bp):
GATTATTCAAGGCATTTCTAAACAAAAATAACTTTAATAATCACCTCTAATTTTTTTTAA
Found at i:8373099 original size:123 final size:124
Alignment explanation
Indices: 8372872--8373100 Score: 270
Period size: 123 Copynumber: 1.8 Consensus size: 124
8372862 AAATTAAATG
* *
8372872 GATTATTCAAGGCATATTTAGCAAAAAATACATTGAATAATCTCATTTAATTAAAAATTGAAGGG
1 GATTATTCAAGACATATTTAGCAAAAAATACATTGAATAATCTCACTTAA-TAAAAATTGAAGGG
*** ** *
8372937 GATTATTCTTTGCAATTTTGGTTAAAAATGCCTTCAATAATCTCATGTAATTTTTTTGAA
65 GATTATTCAAGGCAATTTTGGCAAAAAATACCTTCAATAATCTCATGTAATTTTTTTGAA
* *
8372997 GATTATTCAAGACATTTTTAGCCAAAAAATGCATTGAATAATC-C-CTTACA-AAAAATTGAATG
1 GATTATTCAAGACATATTTAG-CAAAAAATACATTGAATAATCTCACTTA-ATAAAAATTGAA-G
* *
8373059 GGG-TTATTCAAGGC-GTTTCTGGCAAAAAATACCTTGAATAAT
63 GGGATTATTCAAGGCAATTT-TGGCAAAAAATACCTTCAATAAT
8373101 TTCTTTGAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
122 3 0.03
123 37 0.42
124 7 0.08
125 21 0.24
126 20 0.23
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.35
Consensus pattern (124 bp):
GATTATTCAAGACATATTTAGCAAAAAATACATTGAATAATCTCACTTAATAAAAATTGAAGGGG
ATTATTCAAGGCAATTTTGGCAAAAAATACCTTCAATAATCTCATGTAATTTTTTTGAA
Found at i:8381265 original size:19 final size:20
Alignment explanation
Indices: 8381241--8381297 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 20
8381231 TTTGTGTAGT
8381241 TAAGATCACTTAATTTTTG-
1 TAAGATCACTTAATTTTTGA
8381260 TAAGAT-A--T-ATTCTTTGA
1 TAAGATCACTTAATT-TTTGA
8381277 TTAAGATCACTTAATTTTTGA
1 -TAAGATCACTTAATTTTTGA
8381298 AAGTTGTTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
15 3 0.10
16 5 0.16
18 7 0.23
19 7 0.23
21 6 0.19
22 3 0.10
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (20 bp):
TAAGATCACTTAATTTTTGA
Found at i:8381528 original size:36 final size:34
Alignment explanation
Indices: 8381481--8381549 Score: 93
Period size: 36 Copynumber: 2.0 Consensus size: 34
8381471 GAACATAATT
* *
8381481 TATAATATATTCATGAATATATTCGTTTATATATA
1 TATAATATATTCATGAACATATTCATTTA-ATATA
*
8381516 TATATATATATTCGTGAACATATTCATTTAATAT
1 TATA-ATATATTCATGAACATATTCATTTAATAT
8381550 TCACGAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (34 bp):
TATAATATATTCATGAACATATTCATTTAATATA
Found at i:8388721 original size:2 final size:2
Alignment explanation
Indices: 8388714--8388743 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
8388704 GTTTAAGGAC
8388714 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
8388744 TTCACTGGTT
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):
AT
Found at i:8389559 original size:25 final size:25
Alignment explanation
Indices: 8389531--8389631 Score: 82
Period size: 25 Copynumber: 4.2 Consensus size: 25
8389521 AAGTGATATT
* *
8389531 AGAGCCGAAGGTTCAAGACGTGAGA
1 AGAGCTGAAGGTTCAAGATGTGAGA
* ** * *
8389556 AGAGTTGAAGGTTTGAGATATGAAA
1 AGAGCTGAAGGTTCAAGATGTGAGA
*
8389581 AAAGCTGAAGGTTCAA-ATGTGAGA
1 AGAGCTGAAGGTTCAAGATGTGAGA
* * *
8389605 AGAGC--ATGGTTTAAGATATGAGA
1 AGAGCTGAAGGTTCAAGATGTGAGA
8389628 AGAG
1 AGAG
8389632 GCAAACTTAG
Statistics
Matches: 58, Mismatches: 17, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
22 7 0.12
23 11 0.19
24 10 0.17
25 30 0.52
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.21
Consensus pattern (25 bp):
AGAGCTGAAGGTTCAAGATGTGAGA
Found at i:8395547 original size:3 final size:3
Alignment explanation
Indices: 8395533--8395567 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
8395523 AGGGTAACTT
*
8395533 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8395568 TTTACCAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8396025 original size:14 final size:13
Alignment explanation
Indices: 8395988--8396016 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
8395978 AAAAACGATT
8395988 AAAT-AAAAATTA
1 AAATAAAAAATTA
8396000 AAATAAAAAATTA
1 AAATAAAAAATTA
8396013 AAAT
1 AAAT
8396017 CAATAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAAAAATTA
Found at i:8400435 original size:19 final size:18
Alignment explanation
Indices: 8400411--8400448 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8400401 TGATGTAAAA
8400411 TTAATTAATTATTTTATAT
1 TTAATTAA-TATTTTATAT
*
8400430 TTAATTAATATTTTTTAT
1 TTAATTAATATTTTATAT
8400448 T
1 T
8400449 AATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAATATTTTATAT
Found at i:8400451 original size:13 final size:13
Alignment explanation
Indices: 8400433--8400460 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8400423 TTTATATTTA
8400433 ATTAATATTTTTT
1 ATTAATATTTTTT
8400446 ATTAATATTTTTT
1 ATTAATATTTTTT
8400459 AT
1 AT
8400461 AAATCATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTAATATTTTTT
Found at i:8400469 original size:14 final size:13
Alignment explanation
Indices: 8400436--8400469 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
8400426 ATATTTAATT
*
8400436 AATATTTTTTATT
1 AATATTTTTTATA
8400449 AATATTTTTTATA
1 AATATTTTTTATA
8400462 AATCATTT
1 AAT-ATTT
8400470 AATAATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
AATATTTTTTATA
Found at i:8401133 original size:37 final size:36
Alignment explanation
Indices: 8401071--8401151 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 36
8401061 AACCAAATTT
* * *
8401071 AATTATAATTTAAATAATAAAAAAATTATACTATTGA
1 AATTTTAATTTAAATAATAAAAAAA-TAAAATATTGA
*
8401108 GATTTTAATTT-AATGAA-AAATAAAATAAAATATTGA
1 AATTTTAATTTAAAT-AATAAA-AAAATAAAATATTGA
8401144 AATTTTAA
1 AATTTTAA
8401152 GTTTCAGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
36 22 0.59
37 15 0.41
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (36 bp):
AATTTTAATTTAAATAATAAAAAAATAAAATATTGA
Found at i:8408858 original size:21 final size:21
Alignment explanation
Indices: 8408816--8408855 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8408806 AAAATTAAGA
8408816 TAAAATAATTTATTTATTAAT
1 TAAAATAATTTATTTATTAAT
* *
8408837 TAAAATTATTT-TTTTTTAA
1 TAAAATAATTTATTTATTAA
8408856 ATTTTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAAAATAATTTATTTATTAAT
Found at i:8411357 original size:52 final size:52
Alignment explanation
Indices: 8411272--8411427 Score: 174
Period size: 52 Copynumber: 3.0 Consensus size: 52
8411262 ATAACCATAT
* * *
8411272 AAACTTGCCCATTAAGAATACCTCTCCTCTTAGAATTCTTTTTC-TGTAAGTC
1 AAACTTGCCTATTAAGAAT-CCTTTCCTCTTAGAATTCTTTTTCTTGCAAGTC
* * * *
8411324 AAACTTGCCTATTAAGAATCTCTTTCCTTTTAGAATT-ATTCTCTTGCAAGTT
1 AAACTTGCCTATTAAGAATC-CTTTCCTCTTAGAATTCTTTTTCTTGCAAGTC
* * *
8411376 AAACTTACCTATTAAGAATCCTTTTTCTCTTAGAATTCTTTTT-TTACAAGTC
1 AAACTTGCCTATTAAGAATCC-TTTCCTCTTAGAATTCTTTTTCTTGCAAGTC
8411428 TTTTTGTCCA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
51 6 0.07
52 77 0.90
53 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.08, T:0.43
Consensus pattern (52 bp):
AAACTTGCCTATTAAGAATCCTTTCCTCTTAGAATTCTTTTTCTTGCAAGTC
Found at i:8411464 original size:11 final size:11
Alignment explanation
Indices: 8411448--8411483 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8411438 TCTAGCAATA
8411448 TCTAACAAATC
1 TCTAACAAATC
8411459 TCTAACAAATC
1 TCTAACAAATC
* *
8411470 ACAAACAAATC
1 TCTAACAAATC
8411481 TCT
1 TCT
8411484 TATGGGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (11 bp):
TCTAACAAATC
Found at i:8415473 original size:26 final size:25
Alignment explanation
Indices: 8415443--8415507 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
8415433 AAAGGCAATT
* *
8415443 CCAATTTCACAAAACTCAAATTACAG
1 CCAATTTCACAAAAATC-AATTACAC
* ** *
8415469 TCAATGGCACAAAAATCAATTCCAC
1 CCAATTTCACAAAAATCAATTACAC
8415494 CCAATTTCACAAAA
1 CCAATTTCACAAAA
8415508 TAACAAAACA
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.46, C:0.28, G:0.05, T:0.22
Consensus pattern (25 bp):
CCAATTTCACAAAAATCAATTACAC
Found at i:8427398 original size:20 final size:18
Alignment explanation
Indices: 8427371--8427420 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
8427361 ATAACAATTC
8427371 TCATATATATGATATAAAT
1 TCATATATATGATA-AAAT
*
8427390 ATTATATATGA-GATAAAAT
1 -TCATATAT-ATGATAAAAT
8427409 TCATATATATGA
1 TCATATATATGA
8427421 GAAATTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.04
18 9 0.35
19 4 0.15
20 11 0.42
21 1 0.04
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (18 bp):
TCATATATATGATAAAAT
Found at i:8427421 original size:20 final size:18
Alignment explanation
Indices: 8427371--8427422 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
8427361 ATAACAATTC
*
8427371 TCATATATATGATATAAA
1 TCATATATATGAGATAAA
8427389 T-ATTATATATGAGATAAAA
1 TCA-TATATATGAGAT-AAA
8427408 TTCATATATATGAGA
1 -TCATATATATGAGA
8427423 AATTATAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 1 0.03
18 12 0.41
19 3 0.10
20 12 0.41
21 1 0.03
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (18 bp):
TCATATATATGAGATAAA
Found at i:8432668 original size:2 final size:2
Alignment explanation
Indices: 8432661--8432690 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
8432651 CGATAATTTT
8432661 TA TA TA TA TA TA TA TA TA TA TGA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T-A TA TA TA T
8432691 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8432829 original size:17 final size:17
Alignment explanation
Indices: 8432762--8432839 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
8432752 TGATACAAGC
*
8432762 AAAATATGATATTATTT
1 AAAATATAATATTATTT
* * *
8432779 ATATTAT-AT-TTATAT
1 AAAATATAATATTATTT
*
8432794 CAAATAATAATTATATATTT
1 AAAAT-ATAA-TAT-TATTT
8432814 AAAATATAATATTATTT
1 AAAATATAATATTATTT
*
8432831 ATAATATAA
1 AAAATATAA
8432840 AAAATTTATA
Statistics
Matches: 47, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
15 7 0.15
16 4 0.09
17 19 0.40
18 4 0.09
19 5 0.11
20 8 0.17
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (17 bp):
AAAATATAATATTATTT
Found at i:8432832 original size:25 final size:25
Alignment explanation
Indices: 8432762--8432841 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
8432752 TGATACAAGC
*
8432762 AAAATATGATATTATTTATATTATATT
1 AAAATATAATATTATTTATA-TAT-TT
* * * *
8432789 TATATCA-AATAATAATTATATATTT
1 AAAAT-ATAATATTATTTATATATTT
*
8432814 AAAATATAATATTATTTATA-ATAT
1 AAAATATAATATTATTTATATATTT
8432838 AAAA
1 AAAA
8432842 AATTTATAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
24 8 0.20
25 16 0.39
26 3 0.07
27 13 0.32
28 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (25 bp):
AAAATATAATATTATTTATATATTT
Found at i:8432903 original size:26 final size:26
Alignment explanation
Indices: 8432874--8432924 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8432864 CATATTTATC
*
8432874 ATATTTTGA-TGTTAAATATATTTTAA
1 ATATTTTAATTGTTAAATAT-TTTTAA
*
8432900 ATATTTTAATTTTTAAATATTTTTA
1 ATATTTTAATTGTTAAATATTTTTA
8432925 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTTTAATTGTTAAATATTTTTAA
Found at i:8432905 original size:9 final size:9
Alignment explanation
Indices: 8432891--8432922 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
8432881 GATGTTAAAT
8432891 ATATTTTAA
1 ATATTTTAA
8432900 ATATTTT-A
1 ATATTTTAA
8432908 AT-TTTTAA
1 ATATTTTAA
8432916 ATATTTT
1 ATATTTT
8432923 TATTTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.19
8 6 0.29
9 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (9 bp):
ATATTTTAA
Found at i:8432915 original size:16 final size:16
Alignment explanation
Indices: 8432894--8432927 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8432884 GTTAAATATA
8432894 TTTTAAATATTTTAAT
1 TTTTAAATATTTTAAT
*
8432910 TTTTAAATATTTTTAT
1 TTTTAAATATTTTAAT
8432926 TT
1 TT
8432928 AAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTAAATATTTTAAT
Found at i:8432930 original size:14 final size:15
Alignment explanation
Indices: 8432890--8432932 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
8432880 TGATGTTAAA
8432890 TATATTTTAAATATTT
1 TATA-TTTAAATATTT
*
8432906 TAATTTTTAAATATTT
1 T-ATATTTAAATATTT
8432922 T-TATTTAAATA
1 TATATTTAAATA
8432933 AATAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.38
16 13 0.54
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTTAAATATTT
Found at i:8438933 original size:4 final size:4
Alignment explanation
Indices: 8438924--8438991 Score: 64
Period size: 4 Copynumber: 17.0 Consensus size: 4
8438914 TGCAATCCTC
* * * * *
8438924 ATAT ATAT ATAT ATGT ATGT ATAT ATAT ATAC ATAC ATAC ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * *
8438972 ATAT ATGT ATGT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT
8438992 TATTCCAAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (4 bp):
ATAT
Done.