Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 179 of 190
Found at i:30149285 original size:14 final size:15
Alignment explanation
Indices: 30149254--30149283 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30149244 AATCAATAAT
30149254 ATTATAAAAAATTAA
1 ATTATAAAAAATTAA
*
30149269 ATTATAAAAACTTAA
1 ATTATAAAAAATTAA
30149284 TTTCAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTATAAAAAATTAA
Found at i:30151198 original size:19 final size:19
Alignment explanation
Indices: 30151174--30151216 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30151164 AATACATCTA
*
30151174 AAAT-AAAATTTATATTATT
1 AAATAAAAATTAAT-TTATT
30151193 AAATAAAAATTAATTTATT
1 AAATAAAAATTAATTTATT
30151212 AAATA
1 AAATA
30151217 TATAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATAAAAATTAATTTATT
Found at i:30154735 original size:18 final size:17
Alignment explanation
Indices: 30154690--30154739 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
30154680 AATTGTCTGC
*
30154690 AATTTTGGGATTTTGAT
1 AATTTTGGAATTTTGAT
* *
30154707 ATACTTAGGAATTTTGATT
1 A-ATTTTGGAATTTTGA-T
30154726 AATTTTGGAATTTT
1 AATTTTGGAATTTT
30154740 CATTTGAATC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (17 bp):
AATTTTGGAATTTTGAT
Found at i:30156842 original size:36 final size:35
Alignment explanation
Indices: 30156794--30156872 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 35
30156784 TTTTTATTTT
* **
30156794 TTATTTAAAAATTATGAAATATAATAAAA-ATATTA
1 TTATATAAAAATTAACAAATA-AATAAAATATATTA
*
30156829 TTATATAATAAATTAACAAATAAATAAAATGTATTA
1 TTATATAA-AAATTAACAAATAAATAAAATATATTA
*
30156865 CTATATAA
1 TTATATAA
30156873 CAAACTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 14 0.38
36 23 0.62
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (35 bp):
TTATATAAAAATTAACAAATAAATAAAATATATTA
Found at i:30159512 original size:14 final size:14
Alignment explanation
Indices: 30159493--30159561 Score: 59
Period size: 15 Copynumber: 4.7 Consensus size: 14
30159483 ATAAGTAAGT
30159493 TTATTTTTTTAATA
1 TTATTTTTTTAATA
* *
30159507 TTATTTTTTTTGTATT
1 TTA-TTTTTTT-AATA
* *
30159523 TTATATTTTTATTA
1 TTATTTTTTTAATA
30159537 TTATTATTTTT-ATA
1 TTATT-TTTTTAATA
30159551 TATATTTTTTT
1 T-TATTTTTTT
30159562 TTATTTTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
14 16 0.37
15 22 0.51
16 5 0.12
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.75
Consensus pattern (14 bp):
TTATTTTTTTAATA
Found at i:30159516 original size:15 final size:14
Alignment explanation
Indices: 30159493--30159566 Score: 71
Period size: 14 Copynumber: 5.1 Consensus size: 14
30159483 ATAAGTAAGT
*
30159493 TTATTTTTTTAATA
1 TTATTTTTTTTATA
*
30159507 TTATTTTTTTTGTA
1 TTATTTTTTTTATA
30159521 TT-TTATATTTTTATTA
1 TTATT-T-TTTTTA-TA
*
30159537 TTATTATTTTTATA
1 TTATTTTTTTTATA
30159551 TATATTTTTTTT-TA
1 T-TATTTTTTTTATA
30159565 TT
1 TT
30159567 TTTATATTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
13 3 0.06
14 21 0.42
15 20 0.40
16 4 0.08
17 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (14 bp):
TTATTTTTTTTATA
Found at i:30159517 original size:16 final size:16
Alignment explanation
Indices: 30159496--30159547 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
30159486 AGTAAGTTTA
30159496 TTTTTTTAATATTATT
1 TTTTTTTAATATTATT
*
30159512 TTTTTTGT-ATTTTATAT
1 TTTTTT-TAATATTAT-T
* *
30159529 TTTTATTATTATTATT
1 TTTTTTTAATATTATT
30159545 TTT
1 TTT
30159548 ATATATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTTAATATTATT
Found at i:30159526 original size:30 final size:29
Alignment explanation
Indices: 30159492--30159561 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 29
30159482 AATAAGTAAG
* *
30159492 TTTATTTTTTTAATATTATTTTTTTTGTA
1 TTTATTTTTTTAATATTATTATTTTTATA
* *
30159521 TTTTATATTTTTATTATTATTATTTTTATA
1 -TTTATTTTTTTAATATTATTATTTTTATA
*
30159551 TATATTTTTTT
1 TTTATTTTTTT
30159562 TTATTTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 9 0.26
30 25 0.74
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTATTTTTTTAATATTATTATTTTTATA
Found at i:30159562 original size:16 final size:16
Alignment explanation
Indices: 30159496--30159565 Score: 51
Period size: 16 Copynumber: 4.6 Consensus size: 16
30159486 AGTAAGTTTA
30159496 TTTTTTTA-ATATTATT
1 TTTTTTTATATA-TATT
* *
30159512 TTTTTTGTAT-TTTATA
1 TTTTTT-TATATATATT
*
30159528 TTTTTAT-TAT-TA-T
1 TTTTTTTATATATATT
*
30159541 TATTTTTATATATATT
1 TTTTTTTATATATATT
30159557 TTTTTTTAT
1 TTTTTTTAT
30159566 TTTTATATTA
Statistics
Matches: 41, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
13 5 0.12
14 6 0.15
15 4 0.10
16 23 0.56
17 3 0.07
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTTTTATATATATT
Found at i:30159590 original size:45 final size:45
Alignment explanation
Indices: 30159493--30159581 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
30159483 ATAAGTAAGT
**
30159493 TTATT-TTTTTAATATTATTTTTTTTGTATTTTATATTTTTATTA
1 TTATTATTTTTAATATTATTTTTTTTGTATTTTATATTGGTATTA
30159537 TTATTATTTTT-ATATATATTTTTTTT-TATTTTTATATTAGGTATT
1 TTATTATTTTTAATAT-TATTTTTTTTGTA-TTTTATATT-GGTATT
30159582 TACTTATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 11 0.28
45 24 0.62
46 4 0.10
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (45 bp):
TTATTATTTTTAATATTATTTTTTTTGTATTTTATATTGGTATTA
Found at i:30159730 original size:20 final size:19
Alignment explanation
Indices: 30159683--30159731 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
30159673 TGTTATTTGT
*
30159683 TATTTAATTTTAATTTATC
1 TATTTATTTTTAATTTATC
* *
30159702 TATTAATTTTTTATTTATC
1 TATTTATTTTTAATTTATC
30159721 TGATTTATTTT
1 T-ATTTATTTT
30159732 ATTTATTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTATTTTTAATTTATC
Found at i:30159735 original size:9 final size:9
Alignment explanation
Indices: 30159682--30159756 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 9
30159672 ATGTTATTTG
30159682 TTATTTAATT
1 TTATTT-ATT
30159692 TTAATTTATCT
1 TT-ATTTAT-T
*
30159703 ATTAATT-TT
1 -TTATTTATT
*
30159712 TTATTTATC
1 TTATTTATT
*
30159721 TGATTTATT
1 TTATTTATT
30159730 TTATTTATT
1 TTATTTATT
*
30159739 TTATTTCTT
1 TTATTTATT
*
30159748 TGATTTATT
1 TTATTTATT
30159757 CGGCTGAAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
8 5 0.10
9 32 0.62
10 5 0.10
11 8 0.15
12 2 0.04
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (9 bp):
TTATTTATT
Found at i:30160571 original size:4 final size:4
Alignment explanation
Indices: 30160564--30160601 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
30160554 GGTTTTTTTT
30160564 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TT
30160602 TGTTTTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (4 bp):
TTAA
Found at i:30160663 original size:5 final size:5
Alignment explanation
Indices: 30160640--30160732 Score: 61
Period size: 5 Copynumber: 18.6 Consensus size: 5
30160630 TTAATACTCC
* * *
30160640 TTTAT CTTTAT TTTTT TTTGT TTTAT TTT-T CTTTA- TTT-T TTTAT TTTTT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT
* *
30160689 TATTTT TTTAT TTTCACT TTTAT TTTGT TTTA- -TTAT TTTAT TTT
1 T-TTAT TTTAT TTT-A-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
30160733 CTTTAAATAA
Statistics
Matches: 71, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.04
4 7 0.10
5 45 0.63
6 12 0.17
7 4 0.06
ACGTcount: A:0.13, C:0.04, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:30160678 original size:25 final size:25
Alignment explanation
Indices: 30160644--30160702 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
30160634 TACTCCTTTA
30160644 TCTTTATTTTTTT-TTGTTTTATTTT
1 TCTTTATTTTTTTATTGTTTTA-TTT
*
30160669 TCTTTATTTTTTTATTTTTTTATTT
1 TCTTTATTTTTTTATTGTTTTATTT
30160694 T-TTTATTTT
1 TCTTTATTTT
30160703 CACTTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 8 0.25
25 17 0.53
26 7 0.22
ACGTcount: A:0.10, C:0.03, G:0.02, T:0.85
Consensus pattern (25 bp):
TCTTTATTTTTTTATTGTTTTATTT
Found at i:30160682 original size:8 final size:8
Alignment explanation
Indices: 30160646--30160702 Score: 80
Period size: 8 Copynumber: 7.0 Consensus size: 8
30160636 CTCCTTTATC
30160646 TTTATTTT
1 TTTATTTT
*
30160654 TTT-TTGT
1 TTTATTTT
30160661 TTTATTTTT
1 TTTA-TTTT
30160670 CTTTATTTT
1 -TTTATTTT
30160679 TTTATTTT
1 TTTATTTT
30160687 TTTATTTT
1 TTTATTTT
30160695 TTTATTTT
1 TTTATTTT
30160703 CACTTTTATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
7 6 0.14
8 27 0.61
9 7 0.16
10 4 0.09
ACGTcount: A:0.11, C:0.02, G:0.02, T:0.86
Consensus pattern (8 bp):
TTTATTTT
Found at i:30160703 original size:33 final size:38
Alignment explanation
Indices: 30160661--30160737 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
30160651 TTTTTTTTGT
30160661 TTTATTTTT-C-TTTA-TTT-TTTTATTTTTTTATTTT
1 TTTATTTTTACTTTTATTTTGTTTTATTTTTTTATTTT
* *
30160695 TTTATTTTCACTTTTATTTTGTTTTATTATTTTATTTT
1 TTTATTTTTACTTTTATTTTGTTTTATTTTTTTATTTT
30160733 CTTTA
1 -TTTA
30160738 AATAAAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 8 0.22
35 1 0.03
36 4 0.11
37 3 0.08
38 16 0.44
39 4 0.11
ACGTcount: A:0.14, C:0.05, G:0.01, T:0.79
Consensus pattern (38 bp):
TTTATTTTTACTTTTATTTTGTTTTATTTTTTTATTTT
Found at i:30160817 original size:58 final size:58
Alignment explanation
Indices: 30160746--30161309 Score: 550
Period size: 58 Copynumber: 9.7 Consensus size: 58
30160736 TAAATAAAAT
* *
30160746 AAAAAAAAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 AAAAAAGAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTTC
* * * *
30160804 AAAAAAGATTTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTT-TTCGAAATTAAAGTTTTC
1 AAAAAAGA-GTTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTT-AAAATTAAA-TTTTC
*
30160865 TAAAAAAG-GTTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTC
1 -AAAAAAGAGTTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTTC
* *
30160923 AAAAAA-AGGTTTTT-GAGGAAAAGTTAAAAGTATCAA-TTTTCTTTAAAAATAAATTTT-
1 AAAAAAGA-GTTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTC-TTAAAATTAAATTTTC
* * * *
30160980 TAAAACG-GTTTTT-GAGGGAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTC
1 AAAAAAGAGTTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAA-TTTTC
* ** *
30161038 AAAAAATA-TTTTT-GAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTTC
1 AAAAAAGAGTTTTTGGAG-AAAAGTTGAAAGTATCAATTTTTCTTAAAATTAA-ATTTTC
* * * * *
30161096 AAAAAATA-TTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAA
1 AAAAAAGAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTT-C
* *** **
30161154 AAAAAAAAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTCGTAATTAAGGTTTC
1 AAAAAAGA-GTTTTTGGA-GAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTTC
* * * * *
30161213 AAAAGATA-TTTTTGG-GAAAAGTTGAAAGTACCAATTTTTCTCAAGATTAAAATTTTC
1 AAAAAAGAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATT-AAATTTTC
*
30161270 AAAAAATA-TTTTTGGA-AAAAGTTGAAAGTATCAATTTTTC
1 AAAAAAGAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTC
30161310 CTGCACAAAA
Statistics
Matches: 428, Mismatches: 51, Indels: 55
0.80 0.10 0.10
Matches are distributed among these distances:
56 64 0.15
57 78 0.18
58 150 0.35
59 48 0.11
60 76 0.18
61 5 0.01
62 7 0.02
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAAAAGAGTTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAATTAAATTTTC
Found at i:30161237 original size:232 final size:228
Alignment explanation
Indices: 30160755--30161309 Score: 742
Period size: 232 Copynumber: 2.4 Consensus size: 228
30160745 TAAAAAAAAG
* * *
30160755 TTTTTGGAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAGATTTTTTTT
1 TTTTTGG-GAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAATTTTC-AAAAA-A-TATTTTT
* * * * *
30160820 GAGGAAAAGTTGAAAGTATTAATTTTTTTCGAAATTAAAGTTTTCTAAAAAAGGTTTTTGGGAAA
62 GAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAAGATTTTTGAGAAA
* *
30160885 AAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAAAAGGTTTTTGAGGAAAAGTTAA
127 AAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAAGGTTTTTGAGGAAAAGTTAA
* * * *
30160950 AAGTATCAATTTTCTTTAAAAATAAATTTTTAAAACGG
192 AAGTATCAATTTTCTGT-AAAATAAAGTTTCAAAACGA
*
30160988 TTTTTGAGGGAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAAGTTTTCAAAAAATATTTTTGA
1 TTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAA-TTTTCAAAAAATATTTTTGA
* *
30161053 GAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAGGTTTTC-AAAAAATATTTTTGA-AGAAA
64 GAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAAGATTTTTGAGA-AAA
*
30161116 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAAAAGGTTTTTGAGGAAAAGTTG
128 AGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTT--AAAAAAAAGGTTTTTGAGGAAAAGTTA
* *
30161181 AAAGTATCAATTTTTCTCGT-AATTAAGGTTTCAAAA-GATA
191 AAAGTATCAA-TTTTCT-GTAAAATAAAGTTTCAAAACG--A
* *
30161221 TTTTTGGGAAAAGTTGAAAGTACCAATTTTTCTCAAGATTAAAATTTTCAAAAAATATTTTTG-G
1 TTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATT-AAATTTTCAAAAAATATTTTTGAG
30161285 AAAAAGTTGAAAGTATCAATTTTTC
65 AAAAAGTTGAAAGTATCAATTTTTC
30161310 CTGCACAAAA
Statistics
Matches: 289, Mismatches: 23, Indels: 22
0.87 0.07 0.07
Matches are distributed among these distances:
229 1 0.00
230 50 0.17
231 74 0.26
232 98 0.34
233 59 0.20
234 7 0.02
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (228 bp):
TTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAATTAAATTTTCAAAAAATATTTTTGAGA
AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCTAAAAAAGATTTTTGAGAAAAAGT
TGAAAGTATCAATTTTCCTTAAAAATAAATTTTAAAAAAAAGGTTTTTGAGGAAAAGTTAAAAGT
ATCAATTTTCTGTAAAATAAAGTTTCAAAACGA
Found at i:30162187 original size:12 final size:12
Alignment explanation
Indices: 30162170--30162204 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
30162160 ATAAGATCCT
30162170 TGAAATGTTAGG
1 TGAAATGTTAGG
30162182 TGAAATGTTAGG
1 TGAAATGTTAGG
30162194 TGAAATGTTAG
1 TGAAATGTTAG
30162205 ATGTTGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (12 bp):
TGAAATGTTAGG
Found at i:30163352 original size:17 final size:16
Alignment explanation
Indices: 30163325--30163356 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
30163315 AAGGCAGAAA
30163325 AATAAAATAAAAAAAT
1 AATAAAATAAAAAAAT
30163341 AATAATAATAAAAAAA
1 AATAA-AATAAAAAAA
30163357 GTGAAAGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAAATAAAAAAAT
Found at i:30166130 original size:20 final size:20
Alignment explanation
Indices: 30166080--30166131 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
30166070 TCTGAAACAA
* **
30166080 AATAGTTTTAAATTTTAAGT
1 AATAATTTTAAATTTTAAAC
*
30166100 AATAATATTAAATTTTAAAC
1 AATAATTTTAAATTTTAAAC
*
30166120 AATTATTTTAAA
1 AATAATTTTAAA
30166132 AATTTATTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (20 bp):
AATAATTTTAAATTTTAAAC
Found at i:30169765 original size:24 final size:24
Alignment explanation
Indices: 30169714--30169765 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
30169704 CATTTGATTT
* * * *
30169714 ATTAATAATATTTAAAATTTATAT
1 ATTAATAATATATAAAATATAGAC
*
30169738 ATTAATAATATATCAAATATAGAC
1 ATTAATAATATATAAAATATAGAC
30169762 ATTA
1 ATTA
30169766 TATTTATTAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTAATAATATATAAAATATAGAC
Found at i:30170996 original size:23 final size:24
Alignment explanation
Indices: 30170937--30170996 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 24
30170927 ACTAAATATG
30170937 AATAAAAAATATTTTATAATATTTT
1 AATAAAAAATATTTTAT-ATATTTT
30170962 -ATAAAGATAATA-TTTAT-TATTTT
1 AATAAA-A-AATATTTTATATATTTT
30170985 AATAATAAAATA
1 AATAA-AAAATA
30170997 ACAATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
23 10 0.32
24 10 0.32
25 7 0.23
26 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
AATAAAAAATATTTTATATATTTT
Found at i:30171844 original size:22 final size:22
Alignment explanation
Indices: 30171819--30171862 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
30171809 AACATTGATC
30171819 AAAGAA-AAATAAATAAATAATA
1 AAAGAAGAAATAAA-AAATAATA
*
30171841 AAAGAAGAAATTAAAAATAATA
1 AAAGAAGAAATAAAAAATAATA
30171863 TAAATAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (22 bp):
AAAGAAGAAATAAAAAATAATA
Found at i:30172217 original size:33 final size:33
Alignment explanation
Indices: 30172171--30172236 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
30172161 AATGGGCCCC
*
30172171 AAGTCTCCCAGATGACAATATCTCCTACGCAAG
1 AAGTCTCCAAGATGACAATATCTCCTACGCAAG
* *
30172204 AAGTCTCTAAGATGACGATATCTCCTACGCAAG
1 AAGTCTCCAAGATGACAATATCTCCTACGCAAG
30172237 TAAACAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (33 bp):
AAGTCTCCAAGATGACAATATCTCCTACGCAAG
Found at i:30175494 original size:24 final size:24
Alignment explanation
Indices: 30175445--30175494 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
30175435 CACTTATAAA
* *
30175445 ATTAAAAAATTTTGTTAACAATAT
1 ATTAAAAAATTTTGTTAAAAAAAT
* *
30175469 ATTAAACAATTTTTTTAAAAAAAT
1 ATTAAAAAATTTTGTTAAAAAAAT
30175493 AT
1 AT
30175495 AATTTAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTAAAAAATTTTGTTAAAAAAAT
Found at i:30188175 original size:14 final size:13
Alignment explanation
Indices: 30188150--30188188 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30188140 AAAATATATT
*
30188150 TTTTAATTTTTAA
1 TTTTATTTTTTAA
*
30188163 TTGTTTTTTTTTAA
1 TT-TTATTTTTTAA
30188177 TTTTATTTTTTA
1 TTTTATTTTTTA
30188189 TTACACACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTATTTTTTAA
Found at i:30189168 original size:3 final size:3
Alignment explanation
Indices: 30189162--30189199 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
30189152 TTTATTGTTG
30189162 TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30189200 CTTTGTTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30189176 original size:19 final size:19
Alignment explanation
Indices: 30189152--30189199 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
30189142 TTAGTAAAAT
* *
30189152 TTTATTGTTGTTATTATTA
1 TTTATTATTATTATTATTA
30189171 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
30189190 -TTATTATTAT
1 TTTATTATTAT
30189200 CTTTGTTCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:30189966 original size:24 final size:25
Alignment explanation
Indices: 30189939--30189988 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
30189929 AAAAGTTAGA
30189939 AACCA-TTTTTTTATTATTATTGGT
1 AACCATTTTTTTTATTATTATTGGT
30189963 AACCATTTTTTTTATTATTATTGGT
1 AACCATTTTTTTTATTATTATTGGT
30189988 A
1 A
30189989 TCATAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (25 bp):
AACCATTTTTTTTATTATTATTGGT
Found at i:30192196 original size:2 final size:2
Alignment explanation
Indices: 30192189--30192225 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30192179 TCTTGTATAA
30192189 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
30192226 AATTTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:30193894 original size:34 final size:34
Alignment explanation
Indices: 30193850--30193915 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
30193840 CTAATTCTTT
* *
30193850 TTGCTGTCATCTCTCTTTCTTATAAAAGAAAAAG
1 TTGCTCTCATCTCTCTTTCTTACAAAAGAAAAAG
* *
30193884 TTGCTCTCATCTCTTTTTCTTGCAAAAGAAAA
1 TTGCTCTCATCTCTCTTTCTTACAAAAGAAAA
30193916 GGAAAAGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (34 bp):
TTGCTCTCATCTCTCTTTCTTACAAAAGAAAAAG
Found at i:30194911 original size:13 final size:12
Alignment explanation
Indices: 30194888--30194927 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
30194878 CTAATCAAAA
30194888 TTTTTTCTTTTC
1 TTTTTTCTTTTC
*
30194900 TTTTTTCATTTTG
1 TTTTTTC-TTTTC
*
30194913 TTTTTTCTTCTC
1 TTTTTTCTTTTC
30194925 TTT
1 TTT
30194928 CCATTCACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTTTCTTTTC
Found at i:30197233 original size:20 final size:21
Alignment explanation
Indices: 30197188--30197238 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
30197178 AATAAAATAG
30197188 TTTTAAAATTTAAGTACAAGTA
1 TTTTAAAATTTAAG-ACAAGTA
*
30197210 --TTAAAATTTAA-ACAATTA
1 TTTTAAAATTTAAGACAAGTA
30197228 TTTT-AAATTTA
1 TTTTAAAATTTA
30197239 TTGAAAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.23
19 7 0.27
20 13 0.50
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (21 bp):
TTTTAAAATTTAAGACAAGTA
Found at i:30197382 original size:14 final size:15
Alignment explanation
Indices: 30197365--30197393 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30197355 TAATAATAAT
30197365 ATTATAAAAA-TTAA
1 ATTATAAAAACTTAA
30197379 ATTATAAAAACTTAA
1 ATTATAAAAACTTAA
30197394 TTTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAACTTAA
Found at i:30200126 original size:34 final size:34
Alignment explanation
Indices: 30200078--30200145 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
30200068 GTCCCTCTTC
30200078 CAAAAGCCCAAGCCATCACATTCACGTATGCGCT
1 CAAAAGCCCAAGCCATCACATTCACGTATGCGCT
*
30200112 CAAAAGCCCGAGCCATCACATTCACGTATGCGCT
1 CAAAAGCCCAAGCCATCACATTCACGTATGCGCT
30200146 GACGCTATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.18
Consensus pattern (34 bp):
CAAAAGCCCAAGCCATCACATTCACGTATGCGCT
Found at i:30206953 original size:9 final size:8
Alignment explanation
Indices: 30206939--30206996 Score: 55
Period size: 9 Copynumber: 6.8 Consensus size: 8
30206929 TTTATTTTTA
30206939 TTTATTTAT
1 TTTA-TTAT
30206948 TTTATTAT
1 TTTATTAT
30206956 TATTATTAT
1 T-TTATTAT
30206965 TATTATTAT
1 T-TTATTAT
30206974 TATTATTAT
1 T-TTATTAT
*
30206983 TGTT-CTAT
1 T-TTATTAT
30206991 TTTATT
1 TTTATT
30206997 TGAGAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
7 2 0.05
8 10 0.23
9 32 0.73
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTATTAT
Found at i:30206957 original size:3 final size:3
Alignment explanation
Indices: 30206930--30206983 Score: 74
Period size: 3 Copynumber: 17.7 Consensus size: 3
30206920 AAAAATAATT
*
30206930 TTA TTT TTA TTTA TTTA TT- 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
30206976 TTA TTA TT
1 TTA TTA TT
30206984 GTTCTATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
2 2 0.04
3 38 0.81
4 7 0.15
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:30207643 original size:20 final size:23
Alignment explanation
Indices: 30207620--30207668 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
30207610 ATTTTCTTAC
30207620 ATTTTTACTAATTTT-TT-ATT-
1 ATTTTTACTAATTTTATTCATTA
*
30207640 ATTTTTATTAATTTTATTCATTA
1 ATTTTTACTAATTTTATTCATTA
30207663 ATTTTT
1 ATTTTT
30207669 TGGTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 2 0.08
22 3 0.12
23 6 0.24
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTTACTAATTTTATTCATTA
Found at i:30207962 original size:13 final size:12
Alignment explanation
Indices: 30207938--30207989 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
30207928 TAAAATTCAT
30207938 AATAACAAAAATA
1 AATAA-AAAAATA
30207951 ATATAAAAAAATA
1 A-ATAAAAAAATA
*
30207964 AATCAAAAAATA
1 AATAAAAAAATA
*
30207976 AA-AAAAAACTA
1 AATAAAAAAATA
30207987 AAT
1 AAT
30207990 CGAACCGGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 9 0.26
12 12 0.35
13 9 0.26
14 4 0.12
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:30207975 original size:22 final size:24
Alignment explanation
Indices: 30207945--30207990 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
30207935 CATAATAACA
*
30207945 AAAATAATATAAAAAAA-TAAATC
1 AAAATAATAAAAAAAAACTAAATC
30207968 AAAA-AATAAAAAAAAACTAAATC
1 AAAATAATAAAAAAAAACTAAATC
30207991 GAACCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAATAATAAAAAAAAACTAAATC
Found at i:30207981 original size:23 final size:25
Alignment explanation
Indices: 30207944--30207990 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
30207934 TCATAATAAC
30207944 AAAAATAATATAAAAAAATAAATCA
1 AAAAATAATATAAAAAAATAAATCA
*
30207969 AAAAATAA-A-AAAAAACTAAATC
1 AAAAATAATATAAAAAAATAAATC
30207991 GAACCGGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 1 0.05
25 8 0.38
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (25 bp):
AAAAATAATATAAAAAAATAAATCA
Found at i:30224700 original size:4 final size:4
Alignment explanation
Indices: 30224684--30224713 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
30224674 TTAGTAAAAT
*
30224684 TTTA TTTA CTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
30224714 ATTATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:30225415 original size:13 final size:11
Alignment explanation
Indices: 30225381--30225420 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
30225371 TTTTAATACA
*
30225381 TTTTTACTAAT
1 TTTTTATTAAT
30225392 TTTTTATTAAT
1 TTTTTATTAAT
30225403 TTTATTAATTAAT
1 TTT-TT-ATTAAT
30225416 TTTTT
1 TTTTT
30225421 GGTTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 13 0.50
12 4 0.15
13 9 0.35
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTATTAAT
Found at i:30225736 original size:19 final size:20
Alignment explanation
Indices: 30225705--30225753 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
30225695 TGGCAAAATT
30225705 CAAAATAAAAAAT-AATAA-A
1 CAAAA-AAAAAATAAATAATA
*
30225724 CAAAAAAATAAATAAATAATT
1 CAAAAAAA-AAATAAATAATA
30225745 CAAAAAAAA
1 CAAAAAAAA
30225754 TTGAACCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 9 0.35
20 6 0.23
21 8 0.31
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (20 bp):
CAAAAAAAAAATAAATAATA
Found at i:30226264 original size:22 final size:23
Alignment explanation
Indices: 30226222--30226263 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
30226212 TTTTTCTTTT
30226222 TTTATATATTTTATTGATTTTGA
1 TTTATATATTTTATTGATTTTGA
*
30226245 TTTAT-TATTTT-TTTATTTT
1 TTTATATATTTTATTGATTTT
30226264 TTATGATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 6 0.33
23 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (23 bp):
TTTATATATTTTATTGATTTTGA
Found at i:30227727 original size:2 final size:2
Alignment explanation
Indices: 30227722--30227803 Score: 119
Period size: 2 Copynumber: 40.5 Consensus size: 2
30227712 TAAAAAAGAA
*
30227722 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * *
30227764 AA AG AG AG AG AG AG AG AG AG AA AA AG AG AG ATG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG A
30227804 AAGAAAAAGA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
2 71 0.97
3 2 0.03
ACGTcount: A:0.55, C:0.00, G:0.44, T:0.01
Consensus pattern (2 bp):
AG
Found at i:30231450 original size:310 final size:309
Alignment explanation
Indices: 30230690--30231616 Score: 1542
Period size: 310 Copynumber: 3.0 Consensus size: 309
30230680 CTTATGCCCT
**
30230690 CTAATCAAAAGCTCAACGACTT-AGAAAAATAAACAAAGCTCCTTTAATAAGAGGCTCAATGACT
1 CTAATCAGGAGCTCAACGACTTGAGAAAAATAAACAAAGCTCCTTTAATAAGAGGCTCAATGACT
30230754 TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAGATCGTGTTTGAAGAA
66 TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAGATCGTGTTTGAAGAA
* *
30230819 ATTTTAAGAGATTATGCCTGAGGGTCTTACAAATCGATCATAATACTGAGAGATATCCTTTTCTA
131 ATTTTAGGAGATTATGCC-GAAGGTCTTACAAATCGATCATAATACTGAGAGATATCCTTTTCTA
30230884 AAGATTAGAATCTTACCTCACAAA---CTTCTCAAATGAGAATTTAAAACTTTTACATTAAAAGG
195 AAGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTACATTAAAAGG
*
30230946 TATTTATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
260 TCTTTATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
* *
30230996 CTAATCAGGAGCTCAACGACTTG-GAAAAATAAACAAAGCTCCTTTAATCAGAGGTTCAATGACT
1 CTAATCAGGAGCTCAACGACTTGAGAAAAATAAACAAAGCTCCTTTAATAAGAGGCTCAATGACT
* *
30231060 TTGAAAAAATAAACAAGGCTCCTTGACAATCATGTCCAAAGGAGTCAAAGATCGTGTTTGAAGAA
66 TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAGATCGTGTTTGAAGAA
* *
30231125 ATTTTAGGAGATTATGTCCGAAGGTCTTACAAATCGATCATAATACTGGGAGATATCTTTTTCTA
131 ATTTTAGGAGATTATG-CCGAAGGTCTTACAAATCGATCATAATACTGAGAGATATCCTTTTCTA
*
30231190 AAGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTGCATTAAAAGG
195 AAGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTACATTAAAAGG
* * * *
30231255 TCTTTATATCTATCTTCTTCTGTAATACCCTTGCTTTTTGAATTTATGCA
260 TCTTTATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
* * * * * *
30231305 CTAATCAGGAGCTCAACGAGTTGAAAAAAATAAATAAAGCTCTTTTAATTAGAGGCTCAATGAAT
1 CTAATCAGGAGCTCAACGACTTGAGAAAAATAAACAAAGCTCCTTTAATAAGAGGCTCAATGACT
* *
30231370 TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAAATCGTGTTTGAAAAA
66 TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAGATCGTGTTTGAAGAA
* *
30231435 AATTTAGGAGATTATGCCCGAAGGTCTTACAAATCGATCATAATACTGAGAAATATCCTTTTCTA
131 ATTTTAGGAGATTATG-CCGAAGGTCTTACAAATCGATCATAATACTGAGAGATATCCTTTTCTA
30231500 AAGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTACATTAAAA-G
195 AAGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTACATTAAAAGG
*
30231564 TCTTCATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
260 TCTTTATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
30231614 CTA
1 CTA
30231617 GACTTTCTTA
Statistics
Matches: 577, Mismatches: 38, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
306 204 0.35
307 2 0.00
309 153 0.27
310 218 0.38
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (309 bp):
CTAATCAGGAGCTCAACGACTTGAGAAAAATAAACAAAGCTCCTTTAATAAGAGGCTCAATGACT
TTGAAAAAATAAACAAGGCTCCTCGACAATCATGTCCAAAAGAGTCAAAGATCGTGTTTGAAGAA
ATTTTAGGAGATTATGCCGAAGGTCTTACAAATCGATCATAATACTGAGAGATATCCTTTTCTAA
AGATTAGAATCTTACCTCACAAACTTCTTCTCAAATGAGAATTTAAAACTTTTACATTAAAAGGT
CTTTATATCTGTCTTCTTCTGTAATACCCCTACTTCTTGAATTTATGCA
Found at i:30238069 original size:17 final size:17
Alignment explanation
Indices: 30238047--30238081 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
30238037 GGCTTGAGTG
30238047 GCTTTAATTTTCTATGA
1 GCTTTAATTTTCTATGA
30238064 GCTTTAATTTTCTATGA
1 GCTTTAATTTTCTATGA
30238081 G
1 G
30238082 TAATCAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.11, G:0.14, T:0.51
Consensus pattern (17 bp):
GCTTTAATTTTCTATGA
Found at i:30243123 original size:61 final size:59
Alignment explanation
Indices: 30242823--30243135 Score: 272
Period size: 61 Copynumber: 5.1 Consensus size: 59
30242813 ACTTTTATAT
* *
30242823 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGATTTTTTTTTTTATAATTTTTACTTTT-
1 AAGAAAAATTGATACTTTCAACTTTTCC--AAAAAT-A--TTTTTTTTAAAAATTTTTA-TTTTC
* * * ** *
30242887 AAGGAAAATTGGTGCTTTCAACTTTTCTTAAAATATTTTTTTCT-AAAA-TTTTAATTTC
1 AAGAAAAATTGATACTTTCAACTTTTCCAAAAATATTTTTTT-TAAAAATTTTTATTTTC
* ** * *
30242945 AAAAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTAAAAAAATTTTTGTTGTC
1 AAGAAAAATTGATACTTTCAACTTTTCC--AAAAATATTTTTTTTAAAAATTTTTATTTTC
* * * * *** **
30243006 AAGGAAAATTGATATTTTTAACTGTTCTTCAAAAATATTTTTAAAAAAAAACTTTATTTTC
1 AAGAAAAATTGATACTTTCAACT-TT-TCCAAAAATATTTTTTTTAAAAATTTTTATTTTC
*
30243067 AAGAAAAATTGATACTTTCAACTTTCTCCAAAAATATTTTTTTTAAAAATTTTTTATTTTTA
1 AAGAAAAATTGATACTTTCAACTTT-TCCAAAAATATTTTTTTTAAAAA-TTTTTA-TTTTC
30243129 AAGAAAA
1 AAGAAAA
30243136 TCATTGACAA
Statistics
Matches: 201, Mismatches: 38, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
57 3 0.01
58 28 0.14
59 10 0.05
60 39 0.19
61 77 0.38
62 18 0.09
63 2 0.01
64 24 0.12
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (59 bp):
AAGAAAAATTGATACTTTCAACTTTTCCAAAAATATTTTTTTTAAAAATTTTTATTTTC
Found at i:30243135 original size:122 final size:118
Alignment explanation
Indices: 30242823--30243136 Score: 342
Period size: 122 Copynumber: 2.6 Consensus size: 118
30242813 ACTTTTATAT
* * *
30242823 AAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGATTTTTTTTTTTATAATTTTTACTTTTA
1 AAGAAAAATTGATACTTTCAACTTTTCC-TAAAAAT-A--TTTTTTTTAAAAATTTTTATTTTTA
* * * **** *
30242888 AGGAAAATTGGTGCTTTCAACTTTTCTTAAAATATTTTTTTCTAAAATTTTAATTTC
62 AGGAAAATTGATACTTTCAACTGTTCTTAAAATATTTTTAAAAAAAACTTTAATTTC
* ** * * *
30242945 AAAAAAAATTGATACTTTCAACTTTTCCTAAAAAATATTTTTTAAAAAAATTTTTGTTGTCAAGG
1 AAGAAAAATTGATACTTTCAACTTTTCCT-AAAAATATTTTTTTTAAAAATTTTTATTTTTAAGG
* * *
30243010 AAAATTGATATTTTTAACTGTTCTTCAAAAATATTTTTAAAAAAAAACTTTATTTTC
65 AAAATTGATACTTTCAACTGTTCTT--AAAATATTTTT-AAAAAAAACTTTAATTTC
*
30243067 AAGAAAAATTGATACTTTCAACTTTCTCC-AAAAATATTTTTTTTAAAAATTTTTTATTTTTAAA
1 AAGAAAAATTGATACTTTCAACTTT-TCCTAAAAATATTTTTTTTAAAAA-TTTTTATTTTTAAG
30243131 GAAAAT
64 GAAAAT
30243137 CATTGACAAA
Statistics
Matches: 159, Mismatches: 27, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
119 40 0.25
121 31 0.19
122 85 0.53
123 3 0.02
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.46
Consensus pattern (118 bp):
AAGAAAAATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTAAAAATTTTTATTTTTAAGGA
AAATTGATACTTTCAACTGTTCTTAAAATATTTTTAAAAAAAACTTTAATTTC
Found at i:30244548 original size:14 final size:15
Alignment explanation
Indices: 30244531--30244559 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30244521 TAATAATAAT
30244531 ATTATAAAAA-TTAA
1 ATTATAAAAACTTAA
30244545 ATTATAAAAACTTAA
1 ATTATAAAAACTTAA
30244560 TTTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAACTTAA
Found at i:30247845 original size:29 final size:28
Alignment explanation
Indices: 30247785--30247861 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 28
30247775 ATAATTATTT
*
30247785 ATATTTGATATATTATTAAT--A-TATAA
1 ATATTT-ATATATTATTAATAAATTAAAA
30247811 AT-TTTATATATTATTAATAAATTAAATA
1 ATATTTATATATTATTAATAAATTAAA-A
* *
30247839 ATATTTATTTATTAATAA-AAATT
1 ATATTTATATATTATTAATAAATT
30247862 TAACAAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
24 13 0.30
25 3 0.07
26 3 0.07
27 3 0.07
28 8 0.19
29 13 0.30
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
ATATTTATATATTATTAATAAATTAAAA
Found at i:30249867 original size:23 final size:23
Alignment explanation
Indices: 30249827--30249875 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
30249817 ATTATAAATT
* *
30249827 ATTAAATTTATTTATATATATCAA
1 ATTAAAATTATTTATATA-ATAAA
30249851 ATTAAAATT-TTTATATAATAAA
1 ATTAAAATTATTTATATAATAAA
30249873 ATT
1 ATT
30249876 TATTGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 7 0.30
23 8 0.35
24 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATTAAAATTATTTATATAATAAA
Found at i:30250056 original size:22 final size:22
Alignment explanation
Indices: 30250012--30250060 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
30250002 TTCTAAACAT
*
30250012 TAATCAAAGAAAAATAAATAAA
1 TAATAAAAGAAAAATAAATAAA
*
30250034 TAATAAAAGAAAAAATTAA-AAA
1 TAATAAAAG-AAAAATAAATAAA
30250056 TAATA
1 TAATA
30250061 TAAATAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (22 bp):
TAATAAAAGAAAAATAAATAAA
Found at i:30250414 original size:33 final size:33
Alignment explanation
Indices: 30250368--30250431 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
30250358 TAATGGGCCC
*
30250368 AAGTCTCCCAGATGACAATATCTCCTACGCAGG
1 AAGTCTCCAAGATGACAATATCTCCTACGCAGG
* *
30250401 AAGTCTCTAAGATGACGATATCTCCTACGCA
1 AAGTCTCCAAGATGACAATATCTCCTACGCA
30250432 AGTAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (33 bp):
AAGTCTCCAAGATGACAATATCTCCTACGCAGG
Found at i:30254123 original size:3 final size:3
Alignment explanation
Indices: 30254110--30254151 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
30254100 TTTTTAAAAT
30254110 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30254152 CATTGTTCTG
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):
TTA
Found at i:30255145 original size:12 final size:12
Alignment explanation
Indices: 30255106--30255149 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
30255096 TAAAATTCAT
30255106 AATAACAAAAATA
1 AATAA-AAAAATA
30255119 ATATAAAAAAATA
1 A-ATAAAAAAATA
*
30255132 AATCAAAAAATA
1 AATAAAAAAATA
30255144 AA-AAAA
1 AATAAAA
30255150 CTAAACCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 3 0.11
12 12 0.43
13 9 0.32
14 4 0.14
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.16
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:30257171 original size:8 final size:8
Alignment explanation
Indices: 30257158--30257186 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
30257148 TTTTCTTACT
30257158 TTTTTTTC
1 TTTTTTTC
30257166 TTTTTTTC
1 TTTTTTTC
30257174 TTTTTTTC
1 TTTTTTTC
30257182 TTTTT
1 TTTTT
30257187 CAAATGAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTTC
Found at i:30271028 original size:3 final size:3
Alignment explanation
Indices: 30271020--30271057 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
30271010 TAGTAAAATT
30271020 TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T
30271058 CTTTGTTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30271043 original size:19 final size:19
Alignment explanation
Indices: 30271019--30271057 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30271009 TTAGTAAAAT
30271019 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
30271038 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
30271057 T
1 T
30271058 CTTTGTTCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:30271044 original size:16 final size:16
Alignment explanation
Indices: 30271023--30271055 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30271013 TAAAATTTTA
30271023 TTATTATTATTATTAT
1 TTATTATTATTATTAT
30271039 TTATTATTATTATTAT
1 TTATTATTATTATTAT
30271055 T
1 T
30271056 ATCTTTGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:30273601 original size:6 final size:6
Alignment explanation
Indices: 30273590--30273619 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
30273580 ATTATTCATG
*
30273590 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
30273620 ATATTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:30278322 original size:14 final size:15
Alignment explanation
Indices: 30278305--30278333 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30278295 TAATAATATT
30278305 ATTATAAAAA-TTAA
1 ATTATAAAAACTTAA
30278319 ATTATAAAAACTTAA
1 ATTATAAAAACTTAA
30278334 TTTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAACTTAA
Found at i:30288114 original size:16 final size:15
Alignment explanation
Indices: 30288086--30288136 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
30288076 TTGATCAAAG
*
30288086 AAAAATAATAATAAT
1 AAAAATAAAAATAAT
*
30288101 AAAAAT-TAAA-AAT
1 AAAAATAAAAATAAT
30288114 -AAAATAAAAATAAT
1 AAAAATAAAAATAAT
*
30288128 ATAAATAAA
1 AAAAATAAA
30288137 GATTGGACGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 5 0.17
13 6 0.21
14 5 0.17
15 13 0.45
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:30292740 original size:8 final size:9
Alignment explanation
Indices: 30292726--30292750 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
30292716 TTTCATTTTC
30292726 TATTTTTAT
1 TATTTTTAT
30292735 TATTTTTAT
1 TATTTTTAT
30292744 TATTTTT
1 TATTTTT
30292751 TCAGTAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTAT
Found at i:30292792 original size:19 final size:20
Alignment explanation
Indices: 30292759--30292802 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
30292749 TTTCAGTAAT
30292759 TTTTTGGTTATTTTTTCCTA
1 TTTTTGGTTATTTTTTCCTA
30292779 TTTTTGGTTA-TTTTTCCTA
1 TTTTTGGTTATTTTTTCCTA
30292798 TTTTT
1 TTTTT
30292803 TTAATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (20 bp):
TTTTTGGTTATTTTTTCCTA
Found at i:30292803 original size:20 final size:21
Alignment explanation
Indices: 30292743--30292803 Score: 81
Period size: 20 Copynumber: 2.9 Consensus size: 21
30292733 ATTATTTTTA
*
30292743 TTATTTTTTCAGTAATTTTTTGG
1 TTATTTTTTC-CT-ATTTTTTGG
30292766 TTATTTTTTCCTA-TTTTTGG
1 TTATTTTTTCCTATTTTTTGG
30292786 TTA-TTTTTCCTATTTTTT
1 TTATTTTTTCCTATTTTTT
30292804 TAATCTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
19 9 0.25
20 15 0.42
21 1 0.03
22 1 0.03
23 10 0.28
ACGTcount: A:0.13, C:0.08, G:0.08, T:0.70
Consensus pattern (21 bp):
TTATTTTTTCCTATTTTTTGG
Found at i:30295022 original size:17 final size:20
Alignment explanation
Indices: 30294986--30295021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
30294976 TTAAATGCCA
30294986 TTCTTTTTCTTGCTTTTTTC
1 TTCTTTTTCTTGCTTTTTTC
30295006 TTCTTTTT-TT-CTTTTT
1 TTCTTTTTCTTGCTTTTT
30295022 CAAACGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.38
19 2 0.12
20 8 0.50
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.81
Consensus pattern (20 bp):
TTCTTTTTCTTGCTTTTTTC
Found at i:30306994 original size:64 final size:63
Alignment explanation
Indices: 30306827--30307431 Score: 263
Period size: 64 Copynumber: 9.3 Consensus size: 63
30306817 CAAAAACGTT
* ** * *
30306827 TTCAATAATCCCATCATAACTTTTTACAAGGGGATTATTAAAGGTATTTTAT-GTCAAGAATACA
1 TTCAATAATCCCTTCATAACTTTTTATGA-GGGATTATTAAAGGTATTTT-TGGTCAAAAATACC
* * * * *
30306891 TTTAATATTCCCCTCAATAAATTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAACACC
1 TTCAATAATCCCTTC-ATAACTTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAATACC
* * * *
30306955 TTCAATAATCCCTTCATAACTTTTTATGAGGGAAATATTAAATGCATTTTAGG-CAAAAAATACC
1 TTCAATAATCCCTTCATAACTTTTTATGAGGG-ATTATTAAAGGTATTTTTGGTC-AAAAATACC
* * ** * * * * *
30307019 TTCAATAATCCTTTCAATATA-TTTTTATAAAAGATTATTTAAGATGTTTTTAGATAAAAAAAAT
1 TTCAATAATCCCTTC-ATA-ACTTTTTATGAGGGATTATTAAAGGTATTTTT-GGT--CAAAAAT
*
30307083 GCC
61 ACC
* * * * ** * * *
30307086 TTCAATAATCCATTCAAAAAATTTTGAAAAGGGATTATTGAAGGTGTTTTCAGCTAAAAACGCCT
1 TTCAATAATCCCTTC-ATAACTTTTTATGAGGGATTATTAAAGGTATTTT----T------G--G
*
30307151 TCAAAAACACC
53 TCAAAAATACC
** * * ** * * * *
30307162 TTCAATAATCTATACAAAAAATTTTA-AAGGGATTATTGAAGGTATTTTTGGCCAAAAATATC
1 TTCAATAATCCCTTCATAACTTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAATACC
* * * * * *
30307224 TTTAACAAT-CCTCTCATAACTTTTTATGAGGGGATTATTAAAGGT-GTTTTAGCCGAAAATACC
1 TTCAATAATCCCT-TCATAACTTTTTATGA-GGGATTATTAAAGGTATTTTTGGTCAAAAATACC
* ** * * * * * ***
30307287 TTTAATAAT-TTTCTCAATAAATTTTTATAAGAGATTATTAAATGTATTTTTGGTTAAAAACGTC
1 TTCAATAATCCCT-TC-ATAACTTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAATACC
* * * * * * * *
30307351 TTCAATAATCCAC-TCAATAAATTTTTATAAAGGATTATTGAATGTATTTTTTGTCAAAAACATC
1 TTCAATAATCC-CTTC-ATAACTTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAATACC
30307415 TTCAATAATCCCATTCA
1 TTCAATAATCCC-TTCA
30307432 ATTTTTGGAT
Statistics
Matches: 418, Mismatches: 92, Indels: 62
0.73 0.16 0.11
Matches are distributed among these distances:
61 1 0.00
62 24 0.06
63 59 0.14
64 204 0.49
65 26 0.06
66 2 0.00
67 48 0.11
70 1 0.00
71 1 0.00
74 21 0.05
75 9 0.02
76 21 0.05
78 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (63 bp):
TTCAATAATCCCTTCATAACTTTTTATGAGGGATTATTAAAGGTATTTTTGGTCAAAAATACC
Found at i:30307110 original size:67 final size:67
Alignment explanation
Indices: 30307009--30307145 Score: 168
Period size: 67 Copynumber: 2.0 Consensus size: 67
30306999 CATTTTAGGC
* * * * * *
30307009 AAAAAATACCTTCAATAATCCTTTCAATATATTTTTATAAA-AGATTATTTAAGATGTTTTTAGA
1 AAAAAATACCTTCAATAATCCATTCAAAAAATTTTGA-AAAGAGATTATTGAAGATGTTTTCAGA
30307073 TAA
65 TAA
* * * *
30307076 AAAAAATGCCTTCAATAATCCATTCAAAAAATTTTGAAAAGGGATTATTGAAGGTGTTTTCAGCT
1 AAAAAATACCTTCAATAATCCATTCAAAAAATTTTGAAAAGAGATTATTGAAGATGTTTTCAGAT
30307141 AA
66 AA
30307143 AAA
1 AAA
30307146 CGCCTTCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 3 0.05
67 56 0.95
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (67 bp):
AAAAAATACCTTCAATAATCCATTCAAAAAATTTTGAAAAGAGATTATTGAAGATGTTTTCAGAT
AA
Found at i:30308722 original size:14 final size:15
Alignment explanation
Indices: 30308703--30308731 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30308693 AACCAATAAT
30308703 ATTATAAAAA-TTAA
1 ATTATAAAAACTTAA
30308717 ATTATAAAAACTTAA
1 ATTATAAAAACTTAA
30308732 TTTTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAACTTAA
Found at i:30309143 original size:31 final size:31
Alignment explanation
Indices: 30309103--30309179 Score: 82
Period size: 34 Copynumber: 2.4 Consensus size: 31
30309093 TGGTGAAAAA
*
30309103 TAGCGGTGTTTTCTAAAAAATACCGCTACAT
1 TAGCAGTGTTTTCTAAAAAATACCGCTACAT
* *
30309134 TAGCAGTGTTTGTATCTAAAAAATATCGCTATAT
1 TAGCAGTG-TT-T-TCTAAAAAATACCGCTACAT
* *
30309168 TAGTAGTATTTT
1 TAGCAGTGTTTT
30309180 GTATATAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
31 8 0.21
32 3 0.08
33 3 0.08
34 24 0.63
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (31 bp):
TAGCAGTGTTTTCTAAAAAATACCGCTACAT
Found at i:30309153 original size:34 final size:35
Alignment explanation
Indices: 30309114--30309207 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
30309104 AGCGGTGTTT
*
30309114 TCTAAAAAATACCGCTACATTAGCAGT-GTTTGTA
1 TCTAAAAAATACCGCTATATTAGCAGTAGTTTGTA
* * *
30309148 TCTAAAAAATATCGCTATATTAGTAGTATTTTGTA
1 TCTAAAAAATACCGCTATATTAGCAGTAGTTTGTA
* * *
30309183 TATAGAAAATACCGTTATATTAGCA
1 TCTAAAAAATACCGCTATATTAGCA
30309208 ACGTTTATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 24 0.48
35 26 0.52
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (35 bp):
TCTAAAAAATACCGCTATATTAGCAGTAGTTTGTA
Found at i:30314404 original size:21 final size:21
Alignment explanation
Indices: 30314380--30314419 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30314370 GAACATCAAA
30314380 ATCACCAACTT-CAGTAATAGT
1 ATCACCAACTTACA-TAATAGT
30314401 ATCACCAACTTACATAATA
1 ATCACCAACTTACATAATA
30314420 TGAGGTCGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (21 bp):
ATCACCAACTTACATAATAGT
Found at i:30317327 original size:124 final size:122
Alignment explanation
Indices: 30317024--30317327 Score: 267
Period size: 124 Copynumber: 2.5 Consensus size: 122
30317014 TACACTTCTA
* * * * *
30317024 AAATTTTAAG-GGGTTATTAAAGGTGTTTATTCCAGAAAAATACCTTGACTAATTTTTTTTTATT
1 AAATTTTAAGACGGTTAGTAAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTTTTATT
* * * *
30317088 GAAAAAATTTATTGAAGGCGTTTTCTAATGAAAAACGCATTCAATGTTTCACTACTC
66 GAAAAAATTTATTAAAAGCGTTTTCTAATGAAAAACACATTCAATGTTTCACTACAC
* * ** * * ** *
30317145 AAACTTTAAGACGGTTAGTGAAGGCATTT-TTTTAGAACAAACGAGTTCAATAAATTTTTTTTAA
1 AAATTTTAAGACGGTTAGTAAAGGTGTTTATTCTAGAA-AAATGCCTTCACT-AATTTTTTTT--
* **** * * * *
30317209 AATTTTTGAGA-TTATTAAAAGCGTTTT-TCAGTGAAAAATACATTCAATTTTTCA-TAACAC
62 TATTGAAAAAATTTATTAAAAGCGTTTTCT-AATGAAAAACACATTCAATGTTTCACT-ACAC
*
30317269 AAATTTTAAGACGTTTAGTAAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTTTT
1 AAATTTTAAGACGGTTAGTAAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTTTT
30317328 CTAATTTACG
Statistics
Matches: 138, Mismatches: 37, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
121 15 0.11
122 20 0.14
123 20 0.14
124 71 0.51
125 12 0.09
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (122 bp):
AAATTTTAAGACGGTTAGTAAAGGTGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTTTTATT
GAAAAAATTTATTAAAAGCGTTTTCTAATGAAAAACACATTCAATGTTTCACTACAC
Found at i:30317372 original size:186 final size:184
Alignment explanation
Indices: 30317163--30318336 Score: 1253
Period size: 186 Copynumber: 6.2 Consensus size: 184
30317153 AGACGGTTAG
* **
30317163 TGAAGGCATTTTTTTAGAACAAACGAGTTCAATAAATTTTTTTTAAAATTTTTGAGATTATTAAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAAT-AATTTTTTTTAAAATTTTTGAGATTATTAAA
** * * * *
30317228 AGCGTTTTTCAGTGAAAAATACATTCAATTTTTCATAACACAAATTTTAAGACGTTTAGTAAAGG
65 AGCGTTTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGACG-TTAGTGAAGG
* ** * *
30317293 TGTTTATTCTAGAAAAATGCCTTCACTAATTTTTTCTAATTTACGTACATAATAAT
129 CGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
** *
30317349 TGAAGGTATTTTTTTAGAACAAACATCTTCAATAATTTTTTCTTAAAATTTTTTAGATTATT-AA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTTT-TTAAAATTTTTGAGATTATTAAA
** * * *
30317413 AG-GTGCCTTCAAGTGAAAAATGCCTTTAATTTTTCATAACTCAAATTTTAAGACAGTTAGTGAA
65 AGCGT-TTTTC-AGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGAC-GTTAGTGAA
** * * * * *
30317477 GATGTTTCTTTTAGAAAAATGTCTTCACTAATTTCTCCTAATTTACATACATAATTAT
127 GGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
* * * * * *
30317535 TAAATGTATTTTTTTAAGAAAAAATGCCTTTAATAATTTTTTCTTAAAATTTTTGGGATTATTAA
1 TGAAGGTATTTTTTT-AGAACAAACGCCTTCAATAATTTTTT-TTAAAATTTTTGAGATTATTAA
* * * *
30317600 AGGCGTCTTTCAGTGAAAAACGCCTTCAATTTTTCACAATTCAAATTTTAAGACGTTTAATGAAG
64 AAGCGTTTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGACG-TTAGTGAAG
* * * * * *
30317665 ACGTTTATTCTAGAAAAATGCCTTCATTAATTGCTTTTAATTTACGTACATAATAAT
128 GCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
* * * * *
30317722 TGAAAGTATTTTTTAAGAACAAAGGCCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATT-AA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTT-TTTTAAAATTTTTGAGATTATTAAA
* *
30317786 AGACGTCTTTT-AGTGAAAAATGCCTTCAATTTTTTACAACTCAAATTTTAAGACAGTTAGTGAA
65 AG-CGT-TTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGAC-GTTAGTGAA
* * *
30317850 CGCATTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATTAT
127 GGCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
* * * *
30317908 TGAAGGTATTTTTTGAAAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTT-AGAATTATTAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTT-TTTTAAAATTTTTGAG-ATTATTAA
* * * * *
30317972 AGGCATTTTTCAGTGAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACATTTAGTGAAG
64 AAGCGTTTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGAC-GTTAGTGAAG
30318037 GCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
128 GCGTTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
** * ** **
30318094 TGAATATATTTTTTTAGAACAAACGCCTCCAATAATTTTTTTTTTTTTAA-TTTTGAGACCATTA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAA---TTTTTTTTAAAATTTTTGAGATTATTA
* * * * * * * *
30318158 AAGGCATTTTTTAGTGAAAAACGCTTTTAATTTTTCACAATTCAAATTTTAAGATAGTTAGTAAA
63 AAAGCGTTTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGA-CGTTAGTGAA
* * *
30318223 GGTGTTTATTCTAGAAAAATACCTAATAAACACCTTCATTAATTCCTTCTAATTTACGTACATAA
127 GGCGTTTATTCTAGAAAAATGCCT--T---CA----C--TAATTCCTTCTAATTTACATACATAA
30318288 TTAT
181 TTAT
* * * *
30318292 TGAAGGTATTTTTTGAAAACAAACGCCTTCACTAATTTCTTTTAA
1 TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTTTTTAA
30318337 TTTTTGTACA
Statistics
Matches: 844, Mismatches: 113, Indels: 53
0.84 0.11 0.05
Matches are distributed among these distances:
184 2 0.00
185 24 0.03
186 486 0.58
187 243 0.29
188 14 0.02
189 7 0.01
192 2 0.00
195 7 0.01
196 1 0.00
198 58 0.07
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (184 bp):
TGAAGGTATTTTTTTAGAACAAACGCCTTCAATAATTTTTTTTAAAATTTTTGAGATTATTAAAA
GCGTTTTTCAGTGAAAAACGCCTTCAATTTTTCACAACTCAAATTTTAAGACGTTAGTGAAGGCG
TTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTAT
Found at i:30317630 original size:373 final size:372
Alignment explanation
Indices: 30317190--30318329 Score: 1419
Period size: 373 Copynumber: 3.0 Consensus size: 372
30317180 AACAAACGAG
* * ** *
30317190 TTCAATAAATTTTTT-TTAAAATTTTTGAGATTATTAAAAGCGTTTTTCAGTGAAAAATACATTC
1 TTCAAT-AATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTTTTTCAGTGAAAAACGCCTTC
* * * *
30317254 AATTTTTCATAACACAAATTTTAAGACGTTTAGTAAAGGTGTTTATTCTAGAAAAATGCCTTCAC
65 AATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCAC
* * **
30317319 TAATTTTTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTTAGAACAAACATCTTCAATAA
130 TAATTCTTTCTAATTTACGTACATAATAATTGAAAGTATTTTTTTAGAACAAACGCCTTCAATAA
* * * **
30317384 TTTTTTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAGTGAAAAATGCCTTTAATTTTTCA
195 TTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAAAAATGCCTTTAATTTTTCA
* * * ** *
30317449 TAACTCAAATTTTAAGACAGTTAGTGAAGATGTTTCTTTTAGAAAAATGTCTTCACTAATTTCTC
260 CAACTCAAATTTTAAGACAGTTAGTGAAGATGTTTATTCTAGAAAAATACCTTCACTAATTCCTC
* *
30317514 CTAATTTACATACATAATTATTAAATGTATTTTTTTAAGAAAAAATGCC
325 CTAATTTACATACATAATTATTAAAGGTATTTTTTGAA-AAAAAATGCC
* *
30317563 TTTAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAGTGAAAAACGCCTTCA
1 TTCAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTTTTTCAGTGAAAAACGCCTTCA
* * * *
30317628 ATTTTTCACAATTCAAATTTTAAGACGTTTAATGAAGACGTTTATTCTAGAAAAATGCCTTCATT
66 ATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACT
* * *
30317693 AATTGCTTT-TAATTTACGTACATAATAATTGAAAGTATTTTTTAAGAACAAAGGCCTTTAATAA
131 AATT-CTTTCTAATTTACGTACATAATAATTGAAAGTATTTTTTTAGAACAAACGCCTTCAATAA
* * * *
30317757 TTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCTTTTAGTGAAAAATGCCTTCAATTTTTTA
195 TTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAAAAATGCCTTTAATTTTTCA
30317822 CAACTCAAATTTTAAGACAGTTAGTGAACGCA--TTTATTCTAGAAAAATACCTTCACTAATTCC
260 CAACTCAAATTTTAAGACAGTTAGTGAA-G-ATGTTTATTCTAGAAAAATACCTTCACTAATTCC
* * *
30317885 TTCTAATTTACATACATAATTATTGAAGGTATTTTTTGAAAACAAATGCC
323 TCCTAATTTACATACATAATTATTAAAGGTATTTTTTGAAAAAAAATGCC
* * * * *
30317935 TTCAATAATTTTCTCTTAAAATTTTTAGAATTATTAAAGGCATTTTTCAGTGAAAAACGCCTTTA
1 TTCAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTTTTTCAGTGAAAAACGCCTTCA
* *
30318000 ATTTCTCACAACTCAAATTTTAAGACATTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACT
66 ATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACT
* * * *
30318065 AATTCCTTCTAATTTACATACATAATTATTGAATA-TATTTTTTTAGAACAAACGCCTCCAATAA
131 AATTCTTTCTAATTTACGTACATAATAATTGAA-AGTATTTTTTTAGAACAAACGCCTTCAATAA
* ** ** * * * *
30318129 TTTTTTTTTTTTTAA-TTTTGAGACCATTAAAGGCATTTTTTAGTGAAAAACGCTTTTAATTTTT
195 --TTTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAAAAATGCCTTTAATTTTT
* * * *
30318193 CACAATTCAAATTTTAAGATAGTTAGTAAAGGTGTTTATTCTAGAAAAATACCTAATAAACACCT
258 CACAACTCAAATTTTAAGACAGTTAGTGAAGATGTTTATTCTAGAAAAATACCT--T---CA---
* * * * *
30318258 TCATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTATTTTTTGAAAACAAACGCC
315 -C--TAATTCCTCCTAATTTACATACATAATTATTAAAGGTATTTTTTGAAAAAAAATGCC
*
30318319 TTCACTAATTT
1 TTCAATAATTT
30318330 CTTTTAATTT
Statistics
Matches: 664, Mismatches: 82, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
371 3 0.00
372 186 0.28
373 392 0.59
374 13 0.02
375 2 0.00
378 2 0.00
382 1 0.00
384 65 0.10
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (372 bp):
TTCAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTTTTTCAGTGAAAAACGCCTTCA
ATTTTTCACAACTCAAATTTTAAGACGTTTAGTGAAGGCGTTTATTCTAGAAAAATGCCTTCACT
AATTCTTTCTAATTTACGTACATAATAATTGAAAGTATTTTTTTAGAACAAACGCCTTCAATAAT
TTTTTCTTAAAATTTTTGAGATTATTAAAGGCGTCTTTTAGTGAAAAATGCCTTTAATTTTTCAC
AACTCAAATTTTAAGACAGTTAGTGAAGATGTTTATTCTAGAAAAATACCTTCACTAATTCCTCC
TAATTTACATACATAATTATTAAAGGTATTTTTTGAAAAAAAATGCC
Found at i:30318232 original size:559 final size:559
Alignment explanation
Indices: 30317170--30318242 Score: 1437
Period size: 559 Copynumber: 1.9 Consensus size: 559
30317160 TAGTGAAGGC
* * *
30317170 ATTTTTTTAGAACAAACGAGTTCAATAAATTTTTTTTAAAATTTTTGAGATTATTAAAAGCGTTT
1 ATTTTTTAAGAACAAACGACTTCAATAAATTTTTCTTAAAATTTTTGAGATTATTAAAAGCGTTT
* * **
30317235 TTCAGTGAAAAATACATTCAATTTTTCATAACACAAATTTTAAGACGTTTAGTAAAGGTGTTTAT
66 TTCAGTGAAAAATACATTCAATTTTTCACAACACAAATTTTAAGACGTTTAGTAAACGCATTTAT
* ** * *
30317300 TCTAGAAAAATGCCTTCACTAATTTTTTCTAATTTACGTACATAATAATTGAAGGTATTTTTTTA
131 TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTTTTGA
* * *
30317365 GAACAAACATCTTCAATAATTTTTTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAGTGAA
196 AAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAGTGAA
* * * * * *
30317430 AAATGCCTTTAATTTTTCATAACTCAAATTTTAAGACAGTTAGTGAAGATGTTTCTTTTAGAAAA
261 AAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTCTAGAAAA
* * * *
30317495 ATGTCTTCACTAATTTCTCCTAATTTACATACATAATTATTAAATGTATTTTTTTAAGAAAAAAT
326 ATGCCTTCACTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAGAAAAAAC
** * ** *
30317560 GCCTTTAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAGTGAAAAACGCCT
391 GCCTCCAATAATTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGAAAAACGCCT
* *
30317625 TCAATTTTTCACAATTCAAATTTTAAGACGTTTAATGAAGACGTTTATTCTAGAAAAATGCCTTC
456 TCAATTTTTCACAATTCAAATTTTAAGAAGTTTAATAAAGACGTTTATTCTAGAAAAATGCCTTC
30317690 ATTAATTGCTTTTAATTTACGTACATAATAATTGAAAGT
521 ATTAATTGCTTTTAATTTACGTACATAATAATTGAAAGT
* * *
30317729 ATTTTTTAAGAACAAAGGCCTTTAAT-AATTTTCTCTTAAAATTTTTGAGATTATT-AAAGACGT
1 ATTTTTTAAGAACAAACGACTTCAATAAATTTT-TCTTAAAATTTTTGAGATTATTAAAAG-CGT
* * * * *
30317792 CTTTT-AGTGAAAAATGCCTTCAATTTTTTACAACTCAAATTTTAAGACAG-TTAGTGAACGCAT
64 -TTTTCAGTGAAAAATACATTCAATTTTTCACAACACAAATTTTAAGAC-GTTTAGTAAACGCAT
*
30317855 TTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAGGTATTTT
127 TTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTT
** **
30317920 TTGAAAACAAATGCCTTCAATAATTTTCTCTTAAAA-TTTTTAGAATTATTAAAGGCAT-TTTTC
192 TTGAAAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAG-ATTATTAAAGG--TGCCTTC
* *
30317983 -AGTGAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACATTTAGTGAAGGCGTTTATTC
254 AAGTGAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTC
* *
30318047 TAGAAAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAATATATTTTTTT-AG
319 TAGAAAAATGCCTTCACTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAG
* * ** * *
30318111 AACAAACGCCTCCAATAATTTTTTTTTTTTTAA-TTTTGAGACCATTAAAGGCATTTTTTAGTGA
384 AAAAAACGCCTCCAATAA--TTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGA
* * * **
30318175 AAAACGCTTTTAATTTTTCACAATTCAAATTTTAAGATAG-TTAGTAAAGGTGTTTATTCTAGAA
447 AAAACGCCTTCAATTTTTCACAATTCAAATTTTAAGA-AGTTTAATAAAGACGTTTATTCTAGAA
30318239 AAAT
511 AAAT
30318243 ACCTAATAAA
Statistics
Matches: 443, Mismatches: 61, Indels: 20
0.85 0.12 0.04
Matches are distributed among these distances:
558 33 0.07
559 390 0.88
560 19 0.04
561 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.41
Consensus pattern (559 bp):
ATTTTTTAAGAACAAACGACTTCAATAAATTTTTCTTAAAATTTTTGAGATTATTAAAAGCGTTT
TTCAGTGAAAAATACATTCAATTTTTCACAACACAAATTTTAAGACGTTTAGTAAACGCATTTAT
TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTTTTGA
AAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAGTGAA
AAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTCTAGAAAA
ATGCCTTCACTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAGAAAAAAC
GCCTCCAATAATTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGAAAAACGCCT
TCAATTTTTCACAATTCAAATTTTAAGAAGTTTAATAAAGACGTTTATTCTAGAAAAATGCCTTC
ATTAATTGCTTTTAATTTACGTACATAATAATTGAAAGT
Found at i:30318427 original size:559 final size:550
Alignment explanation
Indices: 30317170--30318386 Score: 1280
Period size: 559 Copynumber: 2.2 Consensus size: 550
30317160 TAGTGAAGGC
* ** * *
30317170 ATTTTTTTAGAACAAACGAGTTCAATAAATTTT-TTTTAAAATTTTTGAGATTATTAAA-AGCGT
1 ATTTTTTAAGAACAAACGCCTTCAAT-AATTTTCTCTTAAAATTTTTGAAATTATTAAAGA-CGT
* * * * *
30317233 -TTTTCAGTGAAAAATACATTCAATTTTTCATAACACAAATTTTAAGAC-GTTTAGTAAAGGTGT
64 CTTTT-ACTGAAAAATGCCTTCAATTTTT--TAACTCAAATTATAAGACAG--T-GT-AA----T
* ** *
30317296 TTATTCTAGAAAAATGCCTTCACTAATTTTTTCTAATTTACGTACATAATAATTGAAGGTATTTT
118 TTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTT
* * * *
30317361 TTTAGAACAAACATCTTCAATAATTTTTTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAG
183 TTGAAAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAG
* * * * * *
30317426 TGAAAAATGCCTTTAATTTTTCATAACTCAAATTTTAAGACAGTTAGTGAAGATGTTTCTTTTAG
248 TGAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTCTAG
* * *
30317491 AAAAATGTCTTCACTAATTTCTCCTAATTTACATACATAATTATTAAATGTATTTTTTTAAGAAA
313 AAAAATGCCTTCACTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAGAAA
* ** * ** *
30317556 AAATGCCTTTAATAATTTTTTCTTAAAATTTTTGGGATTATTAAAGGCGTCTTTCAGTGAAAAAC
378 AAACGCCTCCAATAATTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGAAAAAC
* * *
30317621 GCCTTCAATTTTTCACAATTCAAATTTTAAGACGTTTAATGAAGACGTTTATTCTAGAAAAATGC
443 GCCTTCAATTTTTCACAATTCAAATTTTAAGAAGTTTAATAAAGACGTTTATTCTAGAAAAATAC
* *
30317686 CTTCATTAATTGCTTTTAATTTACGTACATAATAATTGAAAGT
508 CTTCATTAATTCCTTCTAATTTACGTACATAATAATTGAAAGT
* * *
30317729 ATTTTTTAAGAACAAAGGCCTTTAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGACGTCT
1 ATTTTTTAAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAGACGTCT
* *
30317794 TTTAGTGAAAAATGCCTTCAATTTTTTACAACTCAAATTTTAAGACAGTTAGTGAACGCATTTAT
66 TTTACTGAAAAATGCCTTCAATTTTTT--AACTCAAATTATAAGACAG-T-GT--A---ATTTAT
*
30317859 TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAAGGTATTTTTTGA
122 TCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTTTTGA
** **
30317924 AAACAAATGCCTTCAATAATTTTCTCTTAAAA-TTTTTAGAATTATTAAAGGCAT-TTTTC-AGT
187 AAACAAACACCTTCAATAATTTTCTCTTAAAATTTTTTAG-ATTATTAAAGG--TGCCTTCAAGT
* *
30317986 GAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACATTTAGTGAAGGCGTTTATTCTAGA
249 GAAAAACGCCTTTAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTCTAGA
* * *
30318051 AAAATGCCTTCACTAATTCCTTCTAATTTACATACATAATTATTGAATATATTTTTTT-AGAACA
314 AAAATGCCTTCACTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAGAAAA
* ** * *
30318115 AACGCCTCCAATAATTTTTTTTTTTTTAA-TTTTGAGACCATTAAAGGCATTTTTTAGTGAAAAA
379 AACGCCTCCAATAA--TTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGAAAAA
* * * **
30318179 CGCTTTTAATTTTTCACAATTCAAATTTTAAGATAG-TTAGTAAAGGTGTTTATTCTAGAAAAAT
442 CGCCTTCAATTTTTCACAATTCAAATTTTAAGA-AGTTTAATAAAGACGTTTATTCTAG---AA-
* *
30318243 ACCTAATAAACACCTTCATTAATTCCTTCTAATTTACGTACATAATTATTGAAGGT
502 A---AAT----ACCTTCATTAATTCCTTCTAATTTACGTACATAATAATTGAAAGT
* *
30318299 ATTTTTTGAA-AACAAACGCCTTCACTAA-TTTCT-TT-TAATTTTTGTACATAATTATTAAA-A
1 ATTTTTT-AAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTG---A-AATTATTAAAGA
30318359 GCAGT-TTTCTACT-AAAAATGCCTTCAAT
61 -C-GTCTTT-TACTGAAAAATGCCTTCAAT
30318387 AATTTTTGTT
Statistics
Matches: 557, Mismatches: 66, Indels: 58
0.82 0.10 0.09
Matches are distributed among these distances:
557 1 0.00
558 29 0.05
559 383 0.69
560 22 0.04
561 1 0.00
562 2 0.00
563 2 0.00
566 3 0.01
567 8 0.01
568 2 0.00
569 5 0.01
570 64 0.11
571 30 0.05
572 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (550 bp):
ATTTTTTAAGAACAAACGCCTTCAATAATTTTCTCTTAAAATTTTTGAAATTATTAAAGACGTCT
TTTACTGAAAAATGCCTTCAATTTTTTAACTCAAATTATAAGACAGTGTAATTTATTCTAGAAAA
ATACCTTCACTAATTCCTTCTAATTTACATACATAATAATTGAAGGTATTTTTTGAAAACAAACA
CCTTCAATAATTTTCTCTTAAAATTTTTTAGATTATTAAAGGTGCCTTCAAGTGAAAAACGCCTT
TAATTTCTCACAACTCAAATTTTAAGACAGTTAGTGAAGACGTTTATTCTAGAAAAATGCCTTCA
CTAATTCCTCCTAATTTACATACATAATTATTAAATATATTTTTTTAAGAAAAAACGCCTCCAAT
AATTTTTTCTTAAAATTTTTGAGACCATTAAAGGCATCTTTCAGTGAAAAACGCCTTCAATTTTT
CACAATTCAAATTTTAAGAAGTTTAATAAAGACGTTTATTCTAGAAAAATACCTTCATTAATTCC
TTCTAATTTACGTACATAATAATTGAAAGT
Found at i:30318901 original size:12 final size:12
Alignment explanation
Indices: 30318886--30318953 Score: 84
Period size: 12 Copynumber: 5.5 Consensus size: 12
30318876 TTGTATACTA
30318886 AATGGTTTGCTG
1 AATGGTTTGCTG
30318898 AATGATGTTT-CTG
1 AATG--GTTTGCTG
30318911 AATGGTTTGCTG
1 AATGGTTTGCTG
*
30318923 AATGGTGTTTCTG
1 AATGGT-TTGCTG
*
30318936 AGTGGTTTGCTG
1 AATGGTTTGCTG
30318948 AATGGT
1 AATGGT
30318954 GTGTCTGAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
11 4 0.08
12 23 0.48
13 17 0.35
14 4 0.08
ACGTcount: A:0.18, C:0.07, G:0.32, T:0.43
Consensus pattern (12 bp):
AATGGTTTGCTG
Found at i:30318962 original size:25 final size:25
Alignment explanation
Indices: 30318888--30318963 Score: 125
Period size: 25 Copynumber: 3.0 Consensus size: 25
30318878 GTATACTAAA
* *
30318888 TGGTTTGCTGAATGATGTTTCTGAA
1 TGGTTTGCTGAATGGTGTTTCTGAG
30318913 TGGTTTGCTGAATGGTGTTTCTGAG
1 TGGTTTGCTGAATGGTGTTTCTGAG
*
30318938 TGGTTTGCTGAATGGTGTGTCTGAG
1 TGGTTTGCTGAATGGTGTTTCTGAG
30318963 T
1 T
30318964 ACATTGCTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.14, C:0.08, G:0.34, T:0.43
Consensus pattern (25 bp):
TGGTTTGCTGAATGGTGTTTCTGAG
Found at i:30318970 original size:25 final size:25
Alignment explanation
Indices: 30318917--30318973 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
30318907 TCTGAATGGT
* ***
30318917 TTGCTGAATGGTGTTTCTGAGTGGT
1 TTGCTGAATGGTGTGTCTGAGTACA
30318942 TTGCTGAATGGTGTGTCTGAGTACA
1 TTGCTGAATGGTGTGTCTGAGTACA
30318967 TTGCTGA
1 TTGCTGA
30318974 TTGATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.40
Consensus pattern (25 bp):
TTGCTGAATGGTGTGTCTGAGTACA
Found at i:30324332 original size:2 final size:2
Alignment explanation
Indices: 30324325--30324354 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
30324315 ATGGAAAAAG
*
30324325 AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30324355 GTATGTATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30324822 original size:28 final size:30
Alignment explanation
Indices: 30324764--30324822 Score: 68
Period size: 28 Copynumber: 2.0 Consensus size: 30
30324754 TTTTTATATC
* *
30324764 TTAATATATTTATAATATTTTGTATGCAAA
1 TTAATATATTTATAATATTTTATATGAAAA
* *
30324794 TTAATAT-TTTATTAT-TTTTATATTAAAA
1 TTAATATATTTATAATATTTTATATGAAAA
30324822 T
1 T
30324823 AATTATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
28 11 0.44
29 7 0.28
30 7 0.28
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (30 bp):
TTAATATATTTATAATATTTTATATGAAAA
Found at i:30325276 original size:19 final size:19
Alignment explanation
Indices: 30325250--30325291 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30325240 AATACATCTA
30325250 AAAT-AAAATT-ATATTATT
1 AAATAAAAATTAAT-TTATT
30325268 AAATAAAAATTAATTTATT
1 AAATAAAAATTAATTTATT
30325287 AAATA
1 AAATA
30325292 TAGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATAAAAATTAATTTATT
Found at i:30326191 original size:10 final size:10
Alignment explanation
Indices: 30326176--30326208 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
30326166 AAATCTCATC
30326176 TTCCCCTCCA
1 TTCCCCTCCA
30326186 TTCCCCTCCA
1 TTCCCCTCCA
30326196 TTCCCCTCCA
1 TTCCCCTCCA
30326206 TTC
1 TTC
30326209 AATTTGATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.09, C:0.58, G:0.00, T:0.33
Consensus pattern (10 bp):
TTCCCCTCCA
Found at i:30326609 original size:29 final size:25
Alignment explanation
Indices: 30326549--30326616 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
30326539 AATAATCATT
*
30326549 ATATTTGATATATTATTAATATATAA
1 ATATTT-ATATATTATTAATATAAAA
30326575 AT-TTTATATATTATTAATGAATAAAATA
1 ATATTTATATATTATTAAT--AT-AAA-A
*
30326603 ATATTTATTTATTA
1 ATATTTATATATTA
30326617 ATAAAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 13 0.37
25 3 0.09
26 4 0.11
27 2 0.06
28 3 0.09
29 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
ATATTTATATATTATTAATATAAAA
Found at i:30333172 original size:66 final size:60
Alignment explanation
Indices: 30333047--30333623 Score: 417
Period size: 60 Copynumber: 9.5 Consensus size: 60
30333037 TTATACAAGG
* * * *
30333047 AAAATTGATACTTT-AACTTTTCCT--TAAA-GCATTTT-AAAGTTTTTTATTTTTAAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTGAAAATTTTTTAATTTT-AAGA
* *
30333103 AAAATTGATACTTTCAACTTTTCCTTAAAAATCCCTTTTTGAAATCTTTATTTTTTAATTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT-GCTTTTTGAAA-----ATTTTTTAATTTTAAG
30333168 A
60 A
* * *
30333169 AAAATTGATACTTTCAACTTTTCCTCAAAAGATGTTTTCTTGAAAA--TTTTAATTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATGCTTT-TTGAAAATTTTTTAATTTTAAGA
* * * *
30333229 AAAATTGGTACTTTCAACTTTTCCTCAAAAATGCTTTTTGAAAA-ATTTT-ATTTTTAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTGAAAATTTTTTAATTTTAAGA
* *
30333287 AAAA-TGTATACTTTCAACTTTTCCTCAAAATATGTTTTCTTGAAAA--TTTT-ATTTTCAAGG
1 AAAATTG-ATACTTTCAACTTTTCCTCAAAA-ATGCTTT-TTGAAAATTTTTTAATTTT-AAGA
* ** * *
30333347 AAAATTGATGCTTTCAACTTTTTCCAAAAAAAAAAATGTTTTCTTGAAAA--TTTTATTTTTAAG
1 AAAATTGATACTTTCAAC-TTTTCC----TCAAAAATGCTTT-TTGAAAATTTTTTAATTTTAAG
30333410 A
60 A
* * * *
30333411 AAAATTGGTACTTTCAACTTTTTCCTCAAAAATGTTTTTTTGAAAA--ATTT-ATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATG-CTTTTTGAAAATTTTTTAATTTT-AAGA
* * * *
30333471 AAAATTGGTACTTCCAACTTTTTCCTCAAAAATGTTTTTTTGAAAA--TTTT-ATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATG-CTTTTTGAAAATTTTTTAATTTT-AAGA
* * ** * *
30333531 AAAATTGATACTTTCAATTTTTTTCTCAAAAATATTTGATTTTAAAA-TTTTT-ATTTTAAAA
1 AAAATTGATACTTTCAA-CTTTTCCTCAAAAATGCTT--TTTGAAAATTTTTTAATTTTAAGA
* *
30333592 AAAATTGATACTTCCAACTTTTTCTCAAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAAT
30333624 ATTTGATTTT
Statistics
Matches: 449, Mismatches: 41, Indels: 58
0.82 0.07 0.11
Matches are distributed among these distances:
56 14 0.03
57 12 0.03
58 40 0.09
59 35 0.08
60 185 0.41
61 42 0.09
62 13 0.03
64 45 0.10
65 8 0.02
66 36 0.08
67 19 0.04
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (60 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATGCTTTTTGAAAATTTTTTAATTTTAAGA
Found at i:30333223 original size:60 final size:58
Alignment explanation
Indices: 30333155--30333623 Score: 521
Period size: 60 Copynumber: 7.8 Consensus size: 58
30333145 AATCTTTATT
*
30333155 TTTTAATTTTAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAGATGTTTTCTTGAAAA
1 TTTT-ATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATGTTTTCTTGAAAA
* * *
30333215 TTTTAATTTCAAGGAAAATTGGTACTTTCAACTTTTCCTCAAAAATGCTTT-TTGAAAAA
1 TTTT-ATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATGTTTTCTTG-AAAA
*
30333274 TTTTATTTTTAGGAAAA-TGTATACTTTCAACTTTTCCTCAAAATATGTTTTCTTGAAAA
1 TTTTATTTTAAGGAAAATTG-ATACTTTCAACTTTTCCTCAAAA-ATGTTTTCTTGAAAA
* **
30333333 TTTTATTTTCAAGGAAAATTGATGCTTTCAACTTTTTCCAAAAAAAAAAATGTTTTCTTGAAAA
1 TTTTATTTT-AAGGAAAATTGATACTTTCAAC-TTTTCC----TCAAAAATGTTTTCTTGAAAA
* * *
30333397 TTTTATTTTTAAGAAAAATTGGTACTTTCAACTTTTTCCTCAAAAATGTTTTTTTGAAAA
1 TTTTA-TTTTAAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATGTTTTCTTGAAAA
* * * *
30333457 ATTTATTTTCAAGGAAAATTGGTACTTCCAACTTTTTCCTCAAAAATGTTTTTTTGAAAA
1 TTTTATTTT-AAGGAAAATTGATACTTTCAAC-TTTTCCTCAAAAATGTTTTCTTGAAAA
* * * *
30333517 TTTTATTTTCAAGGAAAATTGATACTTTCAATTTTTTTCTCAAAAATATTTGAT-TTTAAAA
1 TTTTATTTT-AAGGAAAATTGATACTTTCAA-CTTTTCCTCAAAAATGTTT--TCTTGAAAA
** * *
30333578 TTTTTATTTTAAAAAAAATTGATACTTCCAACTTTTTCTCAAAAAT
1 -TTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAAT
30333624 ATTTGATTTT
Statistics
Matches: 360, Mismatches: 32, Indels: 34
0.85 0.08 0.08
Matches are distributed among these distances:
57 2 0.01
58 36 0.10
59 37 0.10
60 189 0.52
61 32 0.09
62 10 0.03
64 46 0.13
65 8 0.02
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.45
Consensus pattern (58 bp):
TTTTATTTTAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATGTTTTCTTGAAAA
Found at i:30333582 original size:30 final size:30
Alignment explanation
Indices: 30333546--30333635 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
30333536 TGATACTTTC
30333546 AATTTTTTTCTCAAAAATATTTGATTTTAA
1 AATTTTTTTCTCAAAAATATTTGATTTTAA
* * * * **
30333576 AATTTTTATT-TTAAAAAAAATTGATACTTCC
1 AATTTTT-TTCTCAAAAATATTTGAT-TTTAA
*
30333607 AA-CTTTTTCTCAAAAATATTTGATTTTAA
1 AATTTTTTTCTCAAAAATATTTGATTTTAA
30333636 GTAATCATTG
Statistics
Matches: 44, Mismatches: 13, Indels: 7
0.69 0.20 0.11
Matches are distributed among these distances:
29 4 0.09
30 34 0.77
31 6 0.14
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.49
Consensus pattern (30 bp):
AATTTTTTTCTCAAAAATATTTGATTTTAA
Found at i:30333588 original size:14 final size:15
Alignment explanation
Indices: 30333559--30333591 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
30333549 TTTTTTCTCA
30333559 AAAATATTTGATTTT
1 AAAATATTTGATTTT
*
30333574 AAAAT-TTTTATTTT
1 AAAATATTTGATTTT
30333588 AAAA
1 AAAA
30333592 AAAATTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
AAAATATTTGATTTT
Found at i:30335020 original size:86 final size:86
Alignment explanation
Indices: 30334930--30335358 Score: 296
Period size: 86 Copynumber: 4.9 Consensus size: 86
30334920 TAAACCAAAA
* * * *
30334930 AAAGATCTGGTATAGGTCAAAATCCAAAAACAGAATGACTTGGATTGAATCGAATTCTAAAACGA
1 AAAGATCTGGTATAGGTCAAAATCCAAAAATAGAATGACTTGGATTGAACCGAAGTCTGAAACGA
30334995 ATGACTTAGACTGAGTCGAAG
66 ATGACTTAGACTGAGTCGAAG
* * * * *
30335016 AAAGATCTGGCATAGG-CTGAAATCTAAAAATAAAATGA-TCTGGATTGAACC-AAGATTTGAAA
1 AAAGATCTGGTATAGGTC-AAAATCCAAAAATAGAATGACT-TGGATTGAACCGAAG-TCTGAAA
*
30335078 CGAATGACTTGGACTGAGTCGAAG
63 CGAATGACTTAGACTGAGTCGAAG
* * * * * * *
30335102 -AGGATCTAGTATAGGCCAAAATCTAAATAAATAAATAAATAAAATGACCTAGATTGAACCGAAG
1 AAAGATCTGGTATAGGTCAAAATC---------CAA-AAATAGAATGACTTGGATTGAACCGAAG
* * *
30335166 TCTGAAACGAATGACTTAGACTTAGCCGAAT
56 TCTGAAACGAATGACTTAGACTGAGTCGAAG
* * * * * * * *
30335197 AAAAATTTGATATAAGTCAAAATCTAAAAATAGAATGACCTGGATTGAATCGAAGTCTGAAATGA
1 AAAGATCTGGTATAGGTCAAAATCCAAAAATAGAATGACTTGGATTGAACCGAAGTCTGAAACGA
* * *
30335262 ATAACTTAGGCTAAG-CTGAAG
66 ATGACTTAGACTGAGTC-GAAG
* * ** * * * * * * *
30335283 AAGGATCTGGCATATATC-GAATTCAAAAATCGGATGA-TCTGAATTGAACCGAAATCTTAAACG
1 AAAGATCTGGTATAGGTCAAAATCCAAAAATAGAATGACT-TGGATTGAACCGAAGTCTGAAACG
30335346 AATGACTTAGACT
65 AATGACTTAGACT
30335359 AAGAATGATT
Statistics
Matches: 266, Mismatches: 58, Indels: 39
0.73 0.16 0.11
Matches are distributed among these distances:
85 66 0.25
86 130 0.49
87 2 0.01
94 2 0.01
95 47 0.18
96 19 0.07
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.24
Consensus pattern (86 bp):
AAAGATCTGGTATAGGTCAAAATCCAAAAATAGAATGACTTGGATTGAACCGAAGTCTGAAACGA
ATGACTTAGACTGAGTCGAAG
Found at i:30335518 original size:79 final size:79
Alignment explanation
Indices: 30335327--30335508 Score: 247
Period size: 79 Copynumber: 2.3 Consensus size: 79
30335317 TGATCTGAAT
* * * * * ***
30335327 TGAACCGAAATCTTAAACGAATGACTTAGACTAAGAATGATTTGAAAAAAGTCAAAATTTGAAAC
1 TGAACCGAAACCTGAAATGAATAACTTAGACTAAGAAGGATTTGAAAAAAGTCAAAATCCAAAAC
30335392 AGAAAGACTTGGAC
66 AGAAAGACTTGGAC
* * *
30335406 TGAATCGAAACCTGAAATGAATAACTTAGACTAAGAAGGATTTGACAAAAGTCAGAATCCAAAAC
1 TGAACCGAAACCTGAAATGAATAACTTAGACTAAGAAGGATTTGAAAAAAGTCAAAATCCAAAAC
*
30335471 TGAAAGACTTGGAC
66 AGAAAGACTTGGAC
*
30335485 TGAACCGAAGCCTGAAATGAATAA
1 TGAACCGAAACCTGAAATGAATAA
30335509 TCTGGACTAA
Statistics
Matches: 89, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 89 1.00
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (79 bp):
TGAACCGAAACCTGAAATGAATAACTTAGACTAAGAAGGATTTGAAAAAAGTCAAAATCCAAAAC
AGAAAGACTTGGAC
Found at i:30336363 original size:7 final size:7
Alignment explanation
Indices: 30336351--30336426 Score: 57
Period size: 7 Copynumber: 10.9 Consensus size: 7
30336341 CAATTTGAGC
30336351 TCTTTTT
1 TCTTTTT
*
30336358 TCTTTTC
1 TCTTTTT
30336365 TCTTTTT
1 TCTTTTT
30336372 TGC-TTTT
1 T-CTTTTT
*
30336379 TGTTTTT
1 TCTTTTT
*
30336386 TGTTTTT
1 TCTTTTT
*
30336393 TGTTTTT
1 TCTTTTT
*
30336400 TATTTTT
1 TCTTTTT
30336407 AT-TTTTT
1 -TCTTTTT
*
30336414 TATTTTT
1 TCTTTTT
*
30336421 TGTTTT
1 TCTTTT
30336427 AAACTCAAAC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
6 1 0.02
7 57 0.95
8 2 0.03
ACGTcount: A:0.04, C:0.07, G:0.07, T:0.83
Consensus pattern (7 bp):
TCTTTTT
Found at i:30336384 original size:13 final size:14
Alignment explanation
Indices: 30336353--30336413 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
30336343 ATTTGAGCTC
*
30336353 TTTTTT-CTTTTCTC
1 TTTTTTGCTTTT-TG
30336367 TTTTTTGCTTTTTG
1 TTTTTTGCTTTTTG
*
30336381 TTTTTTGTTTTTTG
1 TTTTTTGCTTTTTG
* *
30336395 TTTTTT-ATTTTTA
1 TTTTTTGCTTTTTG
30336408 TTTTTT
1 TTTTTT
30336414 TATTTTTTGT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
13 11 0.26
14 26 0.62
15 5 0.12
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.84
Consensus pattern (14 bp):
TTTTTTGCTTTTTG
Found at i:30336406 original size:14 final size:14
Alignment explanation
Indices: 30336375--30336426 Score: 79
Period size: 14 Copynumber: 3.7 Consensus size: 14
30336365 TCTTTTTTGC
*
30336375 TTTTTGTTTTTTGT
1 TTTTTGTTTTTTAT
30336389 TTTTTGTTTTTTAT
1 TTTTTGTTTTTTAT
30336403 TTTTAT-TTTTTTAT
1 TTTT-TGTTTTTTAT
30336417 TTTTTGTTTT
1 TTTTTGTTTT
30336427 AAACTCAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
13 1 0.03
14 33 0.94
15 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.08, T:0.87
Consensus pattern (14 bp):
TTTTTGTTTTTTAT
Found at i:30336414 original size:21 final size:21
Alignment explanation
Indices: 30336367--30336426 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
30336357 TTCTTTTCTC
* *
30336367 TTTTTTGCTTTTTGTTTTTTG
1 TTTTTTGTTTTTTGTTTTTAG
* *
30336388 TTTTTTGTTTTTTATTTTTAT
1 TTTTTTGTTTTTTGTTTTTAG
*
30336409 TTTTTTATTTTTTGTTTT
1 TTTTTTGTTTTTTGTTTT
30336427 AAACTCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (21 bp):
TTTTTTGTTTTTTGTTTTTAG
Found at i:30336479 original size:58 final size:57
Alignment explanation
Indices: 30336408--30336529 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
30336398 TTTATTTTTA
*
30336408 TTTTTTTATTTTTTGTTTTAAACTCAAACTGCCCTTTACGGGTTTTCAATTTGAGCAT
1 TTTTTTTATTTTTT-TTTTAAACTCAAACTGCCCTTTACGAGTTTTCAATTTGAGCAT
* * *
30336466 TTTTTTTCTTTTTTTTTTTAACTCAAATTGCCCTTTACGAGTTTTCAATTTGAGCAT
1 TTTTTTTATTTTTTTTTTAAACTCAAACTGCCCTTTACGAGTTTTCAATTTGAGCAT
30336523 TTTTTTT
1 TTTTTTT
30336530 GTTAAGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 47 0.78
58 13 0.22
ACGTcount: A:0.19, C:0.15, G:0.10, T:0.57
Consensus pattern (57 bp):
TTTTTTTATTTTTTTTTTAAACTCAAACTGCCCTTTACGAGTTTTCAATTTGAGCAT
Found at i:30336882 original size:20 final size:20
Alignment explanation
Indices: 30336845--30336882 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30336835 TGTAACATTC
*
30336845 CTAAATCAATTCAGCTTATT
1 CTAAATCAATTCACCTTATT
30336865 CTAAATCAACTTC-CCTTA
1 CTAAATCAA-TTCACCTTA
30336883 AAATTCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (20 bp):
CTAAATCAATTCACCTTATT
Found at i:30341505 original size:18 final size:17
Alignment explanation
Indices: 30341480--30341514 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30341470 TATTCCCTTC
30341480 TTCTTTTCTAATTTTTT
1 TTCTTTTCTAATTTTTT
*
30341497 TTCTCTTTCTCATTTTTT
1 TTCT-TTTCTAATTTTTT
30341515 CTACCATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTTTTCTAATTTTTT
Found at i:30343908 original size:15 final size:15
Alignment explanation
Indices: 30343861--30343897 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
30343851 TTATTTTGTT
*
30343861 AAATGAAATGAATGA
1 AAATGCAATGAATGA
*
30343876 GAATGCAATGAATGA
1 AAATGCAATGAATGA
30343891 AAATGCA
1 AAATGCA
30343898 TGCATGCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (15 bp):
AAATGCAATGAATGA
Found at i:30347271 original size:59 final size:60
Alignment explanation
Indices: 30347152--30347308 Score: 223
Period size: 59 Copynumber: 2.6 Consensus size: 60
30347142 TTTTAAGGTT
*
30347152 TTTTATTTTCAAA-AAAATTGATACTTTT-AACTTTTCCTCAAAAGATGTTTTCTTGAAAA
1 TTTTATTTTCAAAGAAAATTGATA-TTTTCAACTTTTCCTCAAAAGATGCTTTCTTGAAAA
*
30347211 TTTTATTTTCAAAGAAAATTGGTATTTTCAACTTTTCCTCAAAA-ATGCTTT-TTGAAAAA
1 TTTTATTTTCAAAGAAAATTGATATTTTCAACTTTTCCTCAAAAGATGCTTTCTTG-AAAA
* * *
30347270 TTTTATTTTCAAGGAAAATTTATACTTTCAACTTTTCCT
1 TTTTATTTTCAAAGAAAATTGATATTTTCAACTTTTCCT
30347309 TAACTTTTTC
Statistics
Matches: 89, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
58 3 0.03
59 62 0.70
60 24 0.27
ACGTcount: A:0.34, C:0.13, G:0.07, T:0.46
Consensus pattern (60 bp):
TTTTATTTTCAAAGAAAATTGATATTTTCAACTTTTCCTCAAAAGATGCTTTCTTGAAAA
Found at i:30347325 original size:70 final size:71
Alignment explanation
Indices: 30347240--30347376 Score: 190
Period size: 71 Copynumber: 1.9 Consensus size: 71
30347230 TGGTATTTTC
* *
30347240 AACTTTTCCTC-AAAAATGCTTT-TTGAAAAATTTTATTTTCAAGGAAAATTTATACTTTC-AAC
1 AACTTTTCCTCAAAAAATACTTTCTTG-AAAATTTTATTTTCAAGGAAAATTGATAC-TTCAAAC
30347302 TTTTCCTT
64 TTTTCCTT
* * *
30347310 AACTTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATACTTCAAACTT
1 AACTTTTCCTCAAAAAATACTTTCTTGAAAATTTTATTTTCAAGGAAAATTGATACTTCAAACTT
30347375 TT
66 TT
30347377 TTCTCAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
70 13 0.22
71 43 0.73
72 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (71 bp):
AACTTTTCCTCAAAAAATACTTTCTTGAAAATTTTATTTTCAAGGAAAATTGATACTTCAAACTT
TTCCTT
Found at i:30347557 original size:181 final size:181
Alignment explanation
Indices: 30347321--30348000 Score: 933
Period size: 181 Copynumber: 3.7 Consensus size: 181
30347311 ACTTTTTCTC
*
30347321 AAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATACTTCAAACTTTTTTCTCAAAA
1 AAAAAATATTTTCTTGAAAATTTTATTTTTAAGAAAAATTGATACTTCAAACTTTTTTCTCAAAA
*
30347386 ATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAAATATT
66 ATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATT
30347451 TTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
131 TTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
*
30347502 AAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATACTTCAAACTTTTTTCTCAAAA
1 AAAAAATATTTTCTTGAAAATTTTATTTTTAAGAAAAATTGATACTTCAAACTTTTTTCTCAAAA
*
30347567 ATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTTAACTTTTTCTCAAAAAATATT
66 ATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATT
30347632 TTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
131 TTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
* *
30347683 AAAAAATATTTTCTTGAAAATTTTATTTTTAAAAAAAATTGATACTTCCAACTTTTTTCTCAAAA
1 AAAAAATATTTTCTTGAAAATTTTATTTTTAAGAAAAATTGATACTTCAAACTTTTTTCTCAAAA
* * *
30347748 ATATTTTTTTG-AAAATTTTATTTTCAAGAAAAATTGATACTTTCAA-TTTTTCTAAAAAAAAAA
66 AT-GTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCT-----CAAAA
* * * ** * *
30347811 AAAACGTTTTCTTGAAAATTTTATTTTTAGGAAAAATTGGTACTTTCAACTTTTTCC-T
125 AATA--TTTTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
* * * * * *
30347869 TAAAAATGTTTTTTTAGAAAATTTTATTTTCAAGAAAAATTGATATTTTC-AA-TTTTTCCTCAA
1 AAAAAATATTTTCTT-GAAAATTTTATTTTTAAGAAAAATTGATA-CTTCAAACTTTTTTCTCAA
* * ** * * *
30347932 AAATATTTGATTTTAAAATTTTTATTTTTAA-AAAGAATTGGTACTTCCAACTTTTTCTC-AAAA
64 AAATGTTT--TTTGAAAAAATTTATTTTCAAGAAA-AATTGATACTTTCAACTTTTTCTCAAAAA
30347995 ATATTT
126 ATATTT
30348001 GATTTTAAGT
Statistics
Matches: 455, Mismatches: 29, Indels: 30
0.89 0.06 0.06
Matches are distributed among these distances:
180 7 0.02
181 281 0.62
182 7 0.02
183 6 0.01
185 10 0.02
186 26 0.06
187 81 0.18
188 30 0.07
189 7 0.02
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (181 bp):
AAAAAATATTTTCTTGAAAATTTTATTTTTAAGAAAAATTGATACTTCAAACTTTTTTCTCAAAA
ATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAATATT
TTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTCCCAA
Found at i:30347587 original size:121 final size:120
Alignment explanation
Indices: 30347313--30348000 Score: 702
Period size: 121 Copynumber: 5.7 Consensus size: 120
30347303 TTTCCTTAAC
* *
30347313 TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATAC-TTCAAACTTTT
1 TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC-AACTTTT
* * * * *
30347377 TTCTCAAAAATGTTTT-TTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTTAAC-
65 CTCTAAAAAATATTTTCTTG-AAAATTTTATTTTCAAGAAAAATTGATAC-TTCAACT
*
30347433 TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACTTTTC
1 TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTC
* * * *
30347498 CCAAAAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATACTTCAAACT
66 TC-TAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTC-AACT
* * *
30347555 TTTTTCTC-AAAAATGTTTT-TTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTTAACTTTT
1 TTTTTCTCAAAAAATATTTTCTTG-AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTT
*
30347618 -TCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTCAACT
65 CTCT-AAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATAC-TTCAACT
** ** * * * *
30347675 TTTCCCAAAAAAAATATTTTCTTGAAAATTTTATTTTTAAAAAAAATTGATACTTCCAACTTTTT
1 TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTC
* *
30347740 TCTCAAAAATATTTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAA--
66 TCTAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATAC-TTCAACT
* * * * *
30347794 TTTTTCTAAAAAAAAAAAAAACGTTTTCTTGAAAATTTTATTTTTAGGAAAAATTGGTACTTTCA
1 TTTTTCT-----CAAAAAATA--TTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCA
* * * *
30347859 ACTTTT-TCCTTAAAAATGTTTTTTTAGAAAATTTTATTTTCAAGAAAAATTGATATTTTCAA-T
59 ACTTTTCT-CTAAAAAATATTTTCTT-GAAAATTTTATTTTCAAGAAAAATTGATA-CTTCAACT
* * * * *
30347922 TTTTCCTC-AAAAATATTTGAT-TTTAAAATTTTTATTTTTAA-AAAGAATTGGTACTTCCAACT
1 TTTTTCTCAAAAAATATTT--TCTTGAAAA-TTTTATTTTCAAGAAA-AATTGATACTTTCAACT
*
30347984 TTT-TCTCAAAAATATTT
62 TTTCTCTAAAAAATATTT
30348001 GATTTTAAGT
Statistics
Matches: 489, Mismatches: 53, Indels: 51
0.82 0.09 0.09
Matches are distributed among these distances:
119 4 0.01
120 117 0.24
121 205 0.42
122 55 0.11
124 8 0.02
125 1 0.00
126 59 0.12
127 34 0.07
128 6 0.01
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (120 bp):
TTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTC
TCTAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTGATACTTCAACT
Found at i:30348008 original size:61 final size:58
Alignment explanation
Indices: 30347310--30348000 Score: 721
Period size: 60 Copynumber: 11.4 Consensus size: 58
30347300 ACTTTTCCTT
* *
30347310 AACTTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATAC-TTC
1 AACTTTTTCTC-AAAAATATTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * *
30347369 AAACTTTTTTCTCAAAAATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTT
1 -AAC-TTTTTCTCAAAAATATTTTTTG-AAAATTTTATTTTCAAGAAAAATTGATACTTTC
*
30347430 AACTTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTC
1 AACTTTTTCTC-AAAAATATTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * *
30347490 AAC-TTTTCCCAAAAAAAATATTTTCTTGAAAATTTTATTTTTAAGGAAAATTGATAC-TTC
1 AACTTTTTCTC---AAAAATATTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * *
30347550 AAACTTTTTTCTCAAAAATGTTTTTTGAAAAAATTTATTTTCAAGAAAAATTGATACTTTT
1 -AAC-TTTTTCTCAAAAATATTTTTTG-AAAATTTTATTTTCAAGAAAAATTGATACTTTC
*
30347611 AACTTTTTCTCAAAAAATATTTTCTTGAAAATTTTATTTTCAAGAAAAATTAATACTTTC
1 AACTTTTTCTC-AAAAATATTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * * *
30347671 AAC-TTTTCCCAAAAAAAATATTTTCTTGAAAATTTTATTTTTAAAAAAAATTGATACTTCC
1 AACTTTTTCTC---AAAAATATTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
30347732 AACTTTTTTCTCAAAAATATTTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
1 AAC-TTTTTCTCAAAAATA-TTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * * * *
30347792 AA-TTTTTCTAAAAAAAAAAAAAACGTTTTCTTGAAAATTTTATTTTTAGGAAAAATTGGTACTT
1 AACTTTTTCT------CAAAAATA--TTTT-TTGAAAATTTTATTTTCAAGAAAAATTGATACTT
30347856 TC
57 TC
* * *
30347858 AACTTTTTCCTTAAAAATGTTTTTTTAGAAAATTTTATTTTCAAGAAAAATTGATATTTTC
1 AACTTTTT-CTCAAAAAT-ATTTTTT-GAAAATTTTATTTTCAAGAAAAATTGATACTTTC
* * * *
30347919 AA-TTTTTCCTCAAAAATATTTGATTTTAAAATTTTTATTTTTAA-AAAGAATTGGTACTTCC
1 AACTTTTT-CTCAAAAATATTT--TTTGAAAA-TTTTATTTTCAAGAAA-AATTGATACTTTC
30347980 AACTTTTTCTCAAAAATATTT
1 AACTTTTTCTCAAAAATATTT
30348001 GATTTTAAGT
Statistics
Matches: 543, Mismatches: 52, Indels: 71
0.82 0.08 0.11
Matches are distributed among these distances:
58 7 0.01
59 37 0.07
60 235 0.43
61 190 0.35
62 10 0.02
63 12 0.02
64 6 0.01
65 4 0.01
66 35 0.06
67 5 0.01
68 2 0.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (58 bp):
AACTTTTTCTCAAAAATATTTTTTGAAAATTTTATTTTCAAGAAAAATTGATACTTTC
Found at i:30348576 original size:10 final size:11
Alignment explanation
Indices: 30348552--30348577 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30348542 ACCAGATTCT
30348552 AAAAATTTTCA
1 AAAAATTTTCA
30348563 AAAAATTTTCA
1 AAAAATTTTCA
30348574 AAAA
1 AAAA
30348578 CTCAAAAAAA
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:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTTTCA
Found at i:30351107 original size:23 final size:22
Alignment explanation
Indices: 30351073--30351117 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
30351063 GGCTTTGATG
30351073 ACCTATTAGTAATGATTTTATT
1 ACCTATTAGTAATGATTTTATT
*
30351095 ACCTATCTAGTAATTATTTTATT
1 ACCTAT-TAGTAATGATTTTATT
30351118 GTAGTAGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (22 bp):
ACCTATTAGTAATGATTTTATT
Found at i:30354939 original size:6 final size:6
Alignment explanation
Indices: 30354890--30354953 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
30354880 CTATTATCTT
* * *
30354890 AAAAT- AAAATAA ATAAATAA ATAAATC AAAATT AAAA-A AAAATA AGAATA
1 AAAATA AAAAT-A A-AAAT-A A-AAATA AAAATA AAAATA AAAATA AAAATA
30354940 AAAATA AAAATA AA
1 AAAATA AAAATA AA
30354954 CAGTTGGGCC
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
5 9 0.18
6 27 0.54
7 2 0.04
8 12 0.24
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:30356171 original size:21 final size:21
Alignment explanation
Indices: 30356138--30356179 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
30356128 ATAAGATTAA
*
30356138 ATTCAGAATTTATATTAAAAT
1 ATTCAGAATTTATATCAAAAT
30356159 ATTCA-AATGTTATATCAAAAT
1 ATTCAGAAT-TTATATCAAAAT
30356180 TATATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (21 bp):
ATTCAGAATTTATATCAAAAT
Found at i:30357072 original size:17 final size:17
Alignment explanation
Indices: 30357052--30357100 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
30357042 ATTTGATTGG
30357052 ATTA-ATTTTAAGTTTAA
1 ATTATATTTTAA-TTTAA
*
30357069 ATTATTTTTTAATTTAA
1 ATTATATTTTAATTTAA
30357086 ATT-T-TTTTAAATTTA
1 ATTATATTTT-AATTTA
30357101 TATAAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.14
16 7 0.24
17 12 0.41
18 6 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
ATTATATTTTAATTTAA
Found at i:30357092 original size:16 final size:17
Alignment explanation
Indices: 30357057--30357100 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
30357047 ATTGGATTAA
30357057 TTTTAAGTTTAAATTATT
1 TTTTAA-TTTAAATTATT
30357075 TTTTAATTTAAATT-TT
1 TTTTAATTTAAATTATT
*
30357091 TTTAAATTTA
1 TTTTAATTTA
30357101 TATAAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 11 0.44
17 8 0.32
18 6 0.24
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTAATTTAAATTATT
Found at i:30360102 original size:12 final size:12
Alignment explanation
Indices: 30360085--30360109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30360075 ATTTTAAGTA
30360085 AGACAGGAAATG
1 AGACAGGAAATG
30360097 AGACAGGAAATG
1 AGACAGGAAATG
30360109 A
1 A
30360110 AAATATATAT
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:0.08, G:0.32, T:0.08
Consensus pattern (12 bp):
AGACAGGAAATG
Found at i:30374241 original size:29 final size:28
Alignment explanation
Indices: 30374200--30374255 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
30374190 ATGTGTCTGT
30374200 AATTAACATATATTAATGTTAATAAATA
1 AATTAACATATATTAATGTTAATAAATA
* *
30374228 AATTAAACATATATTTATTTTAATAAAT
1 AATT-AACATATATTAATGTTAATAAAT
30374256 TCATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (28 bp):
AATTAACATATATTAATGTTAATAAATA
Found at i:30375518 original size:17 final size:17
Alignment explanation
Indices: 30375498--30375534 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
30375488 ATTTGATCAG
30375498 ATTAATTTCAAGTTTAA
1 ATTAATTTCAAGTTTAA
* *
30375515 ATTATTTTTAAGTTTAA
1 ATTAATTTCAAGTTTAA
30375532 ATT
1 ATT
30375535 TTTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTAATTTCAAGTTTAA
Found at i:30375539 original size:17 final size:17
Alignment explanation
Indices: 30375507--30375546 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
30375497 GATTAATTTC
30375507 AAGTTTAAATTATTTTT
1 AAGTTTAAATTATTTTT
30375524 AAGTTTAAATT-TTTTT
1 AAGTTTAAATTATTTTT
*
30375540 AAATTTA
1 AAGTTTA
30375547 TATAAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (17 bp):
AAGTTTAAATTATTTTT
Found at i:30394645 original size:2 final size:2
Alignment explanation
Indices: 30394640--30394681 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
30394630 TTCTGAAGTT
30394640 TA TA TA TA TA TA 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 TA TA TA TA TA TA
30394682 AAAGCGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30400478 original size:66 final size:66
Alignment explanation
Indices: 30400401--30400527 Score: 254
Period size: 66 Copynumber: 1.9 Consensus size: 66
30400391 AAATGTTAAG
30400401 ATTTGGACTTGGAATTCATATTTATTAGATTCAATCTTTTAAAAGTAATTGAATGATAGATATAA
1 ATTTGGACTTGGAATTCATATTTATTAGATTCAATCTTTTAAAAGTAATTGAATGATAGATATAA
30400466 C
66 C
30400467 ATTTGGACTTGGAATTCATATTTATTAGATTCAATCTTTTAAAAGTAATTGAATGATAGAT
1 ATTTGGACTTGGAATTCATATTTATTAGATTCAATCTTTTAAAAGTAATTGAATGATAGAT
30400528 TCATAAAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (66 bp):
ATTTGGACTTGGAATTCATATTTATTAGATTCAATCTTTTAAAAGTAATTGAATGATAGATATAA
C
Done.