Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold26
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: 1656043
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.27
Warning! 334368 characters in sequence are not A, C, G, or T
File 1 of 8
Found at i:3467 original size:24 final size:24
Alignment explanation
Indices: 3409--3467 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
3399 ATTTTTTTCT
* *
3409 TTTTTTTTTTCTTTCTTCTTCATC
1 TTTTTTTTTTCTTTCTTCCTCAAC
* * *
3433 TTCTTTCTTTCTTTTTTACCT-AAC
1 TTTTTTTTTTCTTTCTT-CCTCAAC
3457 TTTTTTTTTTC
1 TTTTTTTTTTC
3468 AACCCATAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTTTTTTTCTTTCTTCCTCAAC
Found at i:4887 original size:13 final size:14
Alignment explanation
Indices: 4863--4891 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4853 TAAATCAAAT
4863 TATTAAATTATTTA
1 TATTAAATTATTTA
4877 TATTAAA-TATTTA
1 TATTAAATTATTTA
4890 TA
1 TA
4892 ATATGTACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTAAATTATTTA
Found at i:5038 original size:18 final size:17
Alignment explanation
Indices: 5023--5055 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
5013 AATATATACA
5023 ACAATAACTAATTATAAC
1 ACAA-AACTAATTATAAC
5041 ACAAAAC-AATTATAA
1 ACAAAACTAATTATAA
5056 AAAACAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (17 bp):
ACAAAACTAATTATAAC
Found at i:5362 original size:9 final size:10
Alignment explanation
Indices: 5331--5383 Score: 72
Period size: 10 Copynumber: 5.4 Consensus size: 10
5321 ATTGCCAAGA
5331 AAAATCAGAG
1 AAAATCAGAG
5341 AAAATCAGAG
1 AAAATCAGAG
*
5351 AAAAT-GGAG
1 AAAATCAGAG
*
5360 AAAACCAGAG
1 AAAATCAGAG
*
5370 AAAACCAGAG
1 AAAATCAGAG
5380 AAAA
1 AAAA
5384 CAGTGGAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
9 7 0.18
10 32 0.82
ACGTcount: A:0.62, C:0.11, G:0.21, T:0.06
Consensus pattern (10 bp):
AAAATCAGAG
Found at i:6361 original size:29 final size:29
Alignment explanation
Indices: 6314--6387 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
6304 TTTTACATTT
* *
6314 AAATAAGTTCTTAACTTTTAATTTTTATCA
1 AAATAAATT-TTAATTTTTAATTTTTATCA
*
6344 AAATAAATTTTAATTTTTAATTTTTATCT
1 AAATAAATTTTAATTTTTAATTTTTATCA
* *
6373 AAGTAAATCTTAATT
1 AAATAAATTTTAATT
6388 AAATATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 31 0.79
30 8 0.21
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (29 bp):
AAATAAATTTTAATTTTTAATTTTTATCA
Found at i:6491 original size:19 final size:20
Alignment explanation
Indices: 6456--6494 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6446 TTAAGTATAA
6456 TAAAAATATAAAGATTTAAG
1 TAAAAATATAAAGATTTAAG
*
6476 TAAAATTATAAA-ATTTAAG
1 TAAAAATATAAAGATTTAAG
6495 CTTTTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (20 bp):
TAAAAATATAAAGATTTAAG
Found at i:7484 original size:22 final size:23
Alignment explanation
Indices: 7458--7509 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
7448 TTTTAATTTG
*
7458 ATTTTATTTTT-ATAAAATAATT
1 ATTTTATTTTTAATAAAATAAAT
*
7480 ATTTTATTTTTAATAAATTAAAT
1 ATTTTATTTTTAATAAAATAAAT
7503 ATTTTAT
1 ATTTTAT
7510 AAAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTATTTTTAATAAAATAAAT
Found at i:14543 original size:9 final size:10
Alignment explanation
Indices: 14528--14570 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
14518 AAACCGAATT
14528 AATATTTAAA
1 AATATTTAAA
14538 AA-ATTTAAA
1 AATATTTAAA
14547 ATATATTTAATA
1 A-ATATTTAA-A
14559 AACTATTTAAA
1 AA-TATTTAAA
14570 A
1 A
14571 GCCCATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 8 0.28
10 3 0.10
11 9 0.31
12 9 0.31
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AATATTTAAA
Found at i:14566 original size:23 final size:20
Alignment explanation
Indices: 14529--14570 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 20
14519 AACCGAATTA
14529 ATATTTAAAAAATTTAAAAT
1 ATATTTAAAAAATTTAAAAT
14549 ATATTTAATAAACTATTTAAAA
1 ATATTTAA-AAA--ATTTAAAA
14571 GCCCATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
23 8 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATTTAAAAAATTTAAAAT
Found at i:15603 original size:16 final size:16
Alignment explanation
Indices: 15575--15624 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15565 CTCGGGTTCA
15575 GGTTCTCTT-GGGTTTG
1 GGTTCT-TTCGGGTTTG
*
15591 GGTTCTTTCGGGTTCG
1 GGTTCTTTCGGGTTTG
* *
15607 GGCTATTTCGGGTTTG
1 GGTTCTTTCGGGTTTG
15623 GG
1 GG
15625 CTATCTCGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.02, C:0.14, G:0.40, T:0.44
Consensus pattern (16 bp):
GGTTCTTTCGGGTTTG
Found at i:15625 original size:16 final size:16
Alignment explanation
Indices: 15584--15636 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
15574 AGGTTCTCTT
* *
15584 GGGTTTGGGTTCTTTC
1 GGGTTTGGGCTATTTC
*
15600 GGGTTCGGGCTATTTC
1 GGGTTTGGGCTATTTC
*
15616 GGGTTTGGGCTATCTC
1 GGGTTTGGGCTATTTC
15632 GGGTT
1 GGGTT
15637 CGGGTTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.04, C:0.15, G:0.40, T:0.42
Consensus pattern (16 bp):
GGGTTTGGGCTATTTC
Found at i:16074 original size:6 final size:6
Alignment explanation
Indices: 16063--16092 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
16053 TCCTGCTTTT
16063 CCCTTC CCCTTC CCCTTC CCCTTC GCCCTT
1 CCCTTC CCCTTC CCCTTC CCCTTC -CCCTT
16093 TGGTTGACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.00, C:0.63, G:0.03, T:0.33
Consensus pattern (6 bp):
CCCTTC
Found at i:19843 original size:23 final size:23
Alignment explanation
Indices: 19815--19866 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
19805 AAAATTTATT
* *
19815 AAAATTATATTTATGTA-AATTA
1 AAAATTATATTAATGAATAATTA
19837 ATAAATT-TATTAATGAATAATTA
1 A-AAATTATATTAATGAATAATTA
19860 AAAATTA
1 AAAATTA
19867 ATAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (23 bp):
AAAATTATATTAATGAATAATTA
Found at i:20002 original size:35 final size:35
Alignment explanation
Indices: 19948--20058 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
19938 TTATTAATTA
*
19948 TATAATAAT-AAATCCTATATATTTATTATAATATT
1 TATAATAATAAAAT-ATATATATTTATTATAATATT
* *
19983 TATAA-AATGAAATATTATATAATTATTCATTTAATTATT
1 TATAATAATAAAATA-TATATATTTATT-A--TAA-TATT
20022 ATATAATAATAAAATATATA-ATTTATTAT-ATATT
1 -TATAATAATAAAATATATATATTTATTATAATATT
20056 TAT
1 TAT
20059 TATTTAACTA
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
33 3 0.05
34 7 0.11
35 21 0.33
36 2 0.03
38 4 0.06
39 10 0.16
40 9 0.14
41 8 0.12
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.49
Consensus pattern (35 bp):
TATAATAATAAAATATATATATTTATTATAATATT
Found at i:20059 original size:38 final size:38
Alignment explanation
Indices: 19939--20076 Score: 110
Period size: 38 Copynumber: 3.6 Consensus size: 38
19929 AATTAATTCT
* *
19939 TATTAATTATATAATAAT-AAATCCTATATATTTATTATA
1 TATTTATTATATAATAATAAAAT-ATATA-ATTTATTATA
*
19978 -A--TATT-TATAA-AATGAAATATTATATAA-TTATTCATT
1 TATTTATTATATAATAAT-AAA-A-TATATAATTTATT-ATA
*
20014 TAATTATTATATAATAATAAAATATATAATTTATTATA
1 TATTTATTATATAATAATAAAATATATAATTTATTATA
* *
20052 TATTTATTATTTAACTAAAAAAATA
1 TATTTATTATATAA-TAATAAAATA
20077 AAAGTTTGAA
Statistics
Matches: 80, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
34 3 0.04
35 10 0.12
36 8 0.10
37 6 0.08
38 23 0.29
39 19 0.24
40 8 0.10
41 3 0.04
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (38 bp):
TATTTATTATATAATAATAAAATATATAATTTATTATA
Found at i:20406 original size:21 final size:20
Alignment explanation
Indices: 20364--20407 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
20354 TTAACTCTGA
* *
20364 AAATTATAAATACCAGATAT
1 AAATTATAAATAACAGAAAT
*
20384 AAATTATAACTAAACAGAAAT
1 AAATTATAAAT-AACAGAAAT
20405 AAA
1 AAA
20408 ATAATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.61, C:0.09, G:0.05, T:0.25
Consensus pattern (20 bp):
AAATTATAAATAACAGAAAT
Found at i:20449 original size:2 final size:2
Alignment explanation
Indices: 20442--20467 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20432 CCTTAAATAG
20442 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20468 TATCTAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20552 original size:17 final size:16
Alignment explanation
Indices: 20532--20575 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
20522 ATATAAGTTT
* *
20532 TTTATTTCTTTATTCTC
1 TTTATTTATTTATT-TA
20549 TTTATTTATTTATTTA
1 TTTATTTATTTATTTA
20565 TTTATTTATTT
1 TTTATTTATTT
20576 TTTCGTTCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTATTTATTTATTTA
Found at i:20558 original size:4 final size:4
Alignment explanation
Indices: 20532--20575 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
20522 ATATAAGTTT
* *
20532 TTTA TTTC TTTA TTCTC TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTT
20576 TTTCGTTCAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 32 0.91
5 3 0.09
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:20827 original size:19 final size:20
Alignment explanation
Indices: 20788--20828 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
20778 TCTATTGGTT
20788 TCTAACCGAAGGGAGGGAGG
1 TCTAACCGAAGGGAGGGAGG
* *
20808 TCTAACC-AATGGATGGAGG
1 TCTAACCGAAGGGAGGGAGG
20827 TC
1 TC
20829 GGAGAGCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.29, C:0.17, G:0.37, T:0.17
Consensus pattern (20 bp):
TCTAACCGAAGGGAGGGAGG
Found at i:23360 original size:20 final size:21
Alignment explanation
Indices: 23332--23374 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
23322 TTAAATTATT
*
23332 ATTTATTAATACAATTATAAA
1 ATTTATTAAAACAATTATAAA
**
23353 ATTT-TTAAAATTATTATAAA
1 ATTTATTAAAACAATTATAAA
23373 AT
1 AT
23375 AAATAAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTTATTAAAACAATTATAAA
Found at i:27575 original size:7 final size:7
Alignment explanation
Indices: 27563--27599 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
27553 TCTGTTGCTC
27563 TATTTGT
1 TATTTGT
27570 TATTTGT
1 TATTTGT
27577 TATTTGT
1 TATTTGT
27584 TATTTGT
1 TATTTGT
27591 TATTTGT
1 TATTTGT
27598 TA
1 TA
27600 CTACTTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (7 bp):
TATTTGT
Found at i:34188 original size:2 final size:2
Alignment explanation
Indices: 34181--34212 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34171 AAGATGATTT
34181 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
34213 AAGTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35626 original size:19 final size:18
Alignment explanation
Indices: 35597--35632 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
35587 CATTAATTTA
35597 TTTATTTTTAAAAATAAT
1 TTTATTTTTAAAAATAAT
35615 TTTATATTTTAAAAATAA
1 TTTAT-TTTTAAAAATAA
35633 AAATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATTTTTAAAAATAAT
Found at i:36132 original size:18 final size:19
Alignment explanation
Indices: 36096--36136 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
36086 GTATATTAAC
*
36096 TAAAATTTGTATTAGTATG
1 TAAAATTTGTATTAATATG
*
36115 TAAAGTTTG-ATTAATATG
1 TAAAATTTGTATTAATATG
36133 TAAA
1 TAAA
36137 TTATATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAAATTTGTATTAATATG
Found at i:36445 original size:2 final size:2
Alignment explanation
Indices: 36438--36468 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36428 GCGTAACATA
36438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36469 AATACACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36676 original size:18 final size:18
Alignment explanation
Indices: 36653--36689 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36643 TAAATTATAT
36653 AAATATTAATAATAATAA
1 AAATATTAATAATAATAA
*
36671 AAATATTAATAATGATAA
1 AAATATTAATAATAATAA
36689 A
1 A
36690 TTGAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATATTAATAATAATAA
Found at i:37449 original size:14 final size:14
Alignment explanation
Indices: 37426--37455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
37416 TTTTAATGTT
37426 AATATAAAAATAAA
1 AATATAAAAATAAA
*
37440 AATATGAAAATAAA
1 AATATAAAAATAAA
37454 AA
1 AA
37456 AATTAATAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (14 bp):
AATATAAAAATAAA
Found at i:38881 original size:26 final size:26
Alignment explanation
Indices: 38848--38900 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
38838 ATTTAATAAA
38848 AGACTTTTAATAAAATTAAAATTCTT
1 AGACTTTTAATAAAATTAAAATTCTT
38874 AGACTTTTAATAAAATTAAAATTCTT
1 AGACTTTTAATAAAATTAAAATTCTT
38900 A
1 A
38901 CTTATATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
AGACTTTTAATAAAATTAAAATTCTT
Found at i:38912 original size:22 final size:25
Alignment explanation
Indices: 38850--38914 Score: 82
Period size: 26 Copynumber: 2.7 Consensus size: 25
38840 TTAATAAAAG
*
38850 ACTTTTAATAAAATTAAAATTCTTA
1 ACTTATAATAAAATTAAAATTCTTA
*
38875 GACTTTTAATAAAATTAAAATTCTT-
1 -ACTTATAATAAAATTAAAATTCTTA
38900 ACTTAT-AT-AAATTAA
1 ACTTATAATAAAATTAA
38915 TATAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
22 7 0.18
23 2 0.05
24 5 0.13
26 24 0.63
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (25 bp):
ACTTATAATAAAATTAAAATTCTTA
Found at i:39864 original size:34 final size:34
Alignment explanation
Indices: 39806--39886 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 34
39796 ATGGTAGCTG
* *
39806 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGGTTACCAT
* *
39839 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGGTTACCAT
39873 TGTTGATTAAATGG
1 TGTTGATTAAATGG
39887 TAGTTTTTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 11 0.26
34 31 0.74
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGGTTACCAT
Found at i:40247 original size:19 final size:19
Alignment explanation
Indices: 40191--40253 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
40181 TGGTTGTCGA
**
40191 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
40210 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
40229 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
40248 GTTACT
1 GGTACT
40254 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:44379 original size:34 final size:34
Alignment explanation
Indices: 44319--44401 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
44309 AAGTGGGAGA
* *
44319 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGGTTACC
* *
44352 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGGTTACC
44386 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
44402 TAGTTTTTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 13 0.30
34 31 0.70
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGGTTACC
Found at i:44749 original size:26 final size:25
Alignment explanation
Indices: 44720--44775 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
44710 TCTTTTTTTT
*
44720 TACTTAAATTTTT-AATTAAATAAAAA
1 TACTTAAATTTTTGTA-T-AATAAAAA
**
44746 TACTTTGATTTTTGTATAATAAAAA
1 TACTTAAATTTTTGTATAATAAAAA
44771 TACTT
1 TACTT
44776 TGATATTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 13 0.50
26 12 0.46
27 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (25 bp):
TACTTAAATTTTTGTATAATAAAAA
Found at i:44794 original size:25 final size:25
Alignment explanation
Indices: 44738--44795 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
44728 TTTTTAATTA
* *
44738 AATAAAAATACTTTGATTTTTGTAT
1 AATAAAAATACTTTGATATTTGCAT
44763 AATAAAAATACTTTGATATTT-CAT
1 AATAAAAATACTTTGATATTTGCAT
*
44787 AATGAAAAT
1 AATAAAAAT
44796 TAGTTGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (25 bp):
AATAAAAATACTTTGATATTTGCAT
Found at i:45866 original size:32 final size:32
Alignment explanation
Indices: 45822--45884 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
45812 GTAATAAATT
*
45822 TTATATA-ATTTTTTACATCTTAATA-ATTTA
1 TTATATATATTTTTTACATATTAATATATTTA
*
45852 TTATATATATTTTTTACATATTTATATATTTA
1 TTATATATATTTTTTACATATTAATATATTTA
45884 T
1 T
45885 ATCATATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.24
31 16 0.55
32 6 0.21
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (32 bp):
TTATATATATTTTTTACATATTAATATATTTA
Found at i:45867 original size:31 final size:30
Alignment explanation
Indices: 45813--45884 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
45803 GCGCTCAAAG
* *
45813 TAATAAATT-TTATATAATTTTTTACATCT
1 TAATAATTTATTATATAATTTTTTACATAT
45842 TAATAATTTATTATATATATTTTTTACATAT
1 TAATAATTTATTATATA-ATTTTTTACATAT
*
45873 TTATATATTTAT
1 TAATA-ATTTAT
45885 ATCATATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 8 0.22
30 7 0.19
31 16 0.43
32 6 0.16
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (30 bp):
TAATAATTTATTATATAATTTTTTACATAT
Found at i:45890 original size:19 final size:20
Alignment explanation
Indices: 45850--45892 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
45840 CTTAATAATT
*
45850 TATTATATATATTTTTTACA
1 TATTATATATATTTTATACA
45870 TATT-TATATA-TTTATATCA
1 TATTATATATATTTTATA-CA
45889 TATT
1 TATT
45893 CATGTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 12 0.57
20 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTATATATATTTTATACA
Found at i:49203 original size:12 final size:12
Alignment explanation
Indices: 49186--49210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49176 TGTCTGCATG
49186 TATCGATACATT
1 TATCGATACATT
49198 TATCGATACATT
1 TATCGATACATT
49210 T
1 T
49211 GGGTAAAATT
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:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TATCGATACATT
Found at i:49264 original size:13 final size:13
Alignment explanation
Indices: 49246--49271 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49236 ACAAAGATCC
49246 ATGTATCGATACA
1 ATGTATCGATACA
49259 ATGTATCGATACA
1 ATGTATCGATACA
49272 TTTCGTAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:49283 original size:20 final size:20
Alignment explanation
Indices: 49258--49295 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49248 GTATCGATAC
49258 AATGTATCGATACATTTCGT
1 AATGTATCGATACATTTCGT
49278 AATGTATCGATACATTTC
1 AATGTATCGATACATTTC
49296 CTTAGTAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTTCGT
Found at i:50246 original size:49 final size:49
Alignment explanation
Indices: 50025--50854 Score: 619
Period size: 49 Copynumber: 16.9 Consensus size: 49
50015 AAGAGTGATA
* * *
50025 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATG
* ** * * * * *
50074 TAAAGAATGTTAATGTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAG
1 --AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--G
* * * * **
50129 AAGAATGCCAATGTGCTGATTCAAGGCTAACGACATTGGGTTTTAAAGATGACG
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---G
* * * * * *
50183 AAGGAGCCAATATGCTAATTCAAGGCCAGTGATACTGGACTTAAAAATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
50232 AAGGTGCCAATATGCTGATTTAAGGCCAACGACATTGGACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* **
50281 ACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATTTTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
50333 AAGGTGGCGCCAATATGCTGATTCCAGGCCAGCGATATTGGACTTCAAGTTG
1 AAGGT---GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * *
50385 AAGGTACCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAAAGGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
50434 CCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
50486 AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * **
50532 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*** * *
50578 AAGGTGCCAATATGCTGATTCAAGGCCAATAATATTGGGC-T-----T-
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * * * **
50620 -A--CGCCAATGTGCCGATTCAAGGCAAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* ** *
50666 AAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGA-C
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATG
* * * *
50715 AAGGCGCCACTATGCTGATTCAAGGCCAGCGATATTGGGCTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* *
50758 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * * *
50807 ACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
50855 AGAAGACGCC
Statistics
Matches: 620, Mismatches: 117, Indels: 83
0.76 0.14 0.10
Matches are distributed among these distances:
39 27 0.04
40 1 0.00
41 1 0.00
43 73 0.12
44 3 0.00
45 2 0.00
46 1 0.00
47 4 0.01
48 7 0.01
49 208 0.34
50 10 0.02
51 3 0.00
52 201 0.32
53 74 0.12
54 4 0.01
55 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:50310 original size:101 final size:100
Alignment explanation
Indices: 50025--50854 Score: 569
Period size: 101 Copynumber: 8.4 Consensus size: 100
50015 AAGAGTGATA
* * * * **
50025 AAGGTGCCAATATGCTGATTC-AGGACCAGTGATATTGGTCTTAAAGATGTA-AAGAATGTTAAT
1 AAGGTGCCAATATGCTGATTCAAGG-CCAGCGACATTGGACTTAAAGATG-ACAAG-GTGCCAAT
* * * * * *
50088 GTGCTGATTCACGGTCAGCGACATTTAGACTTGAAGATGAG
63 ATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAAAT--G
* * * * ** *
50129 AAGAATGCCAATGTGCTGATTCAAGGCTAACGACATTGGGTTTTAAAGATGACGAAGGAGCCAAT
1 AAG-GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGAC-AAGGTGCCAAT
* * * *
50194 ATGCTAATTCAAGGCCAGTGATACTGGACTTAAAAATG
63 ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * *
50232 AAGGTGCCAATATGCTGATTTAAGGCCAACGACATTGGACTTAAAGATGACAAAGGCGCCAATAT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGGTGCCAATAT
** *
50297 GCTGATTCAAGGCCAGCGATTTTGGACTTAAAGATG
65 GCTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * * * *
50333 AAGGTGGCGCCAATATGCTGATTCCAGGCCAGCGATATTGGACTTCAAGTTG--AAGGTACCAAT
1 AAGGT---GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAAT
* * * **
50396 GTGCTGATTCAAGGCTAGCGACATTGGGCTTAAAGGTG
63 ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * *
50434 CCAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATG--AAGGTGCCAAT
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAAT
* *
50497 GTGTTGATTCAAGGCCAGCGACATTGGACTT--AAA-G
63 ATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * *
50532 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CA-AAGGTGCCAATATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAATATG
*** * *
50592 CTGATTCAAGGCCAATAATATTGGGC-T-----T-
66 CTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * * * * *
50620 -A--CGCCAATGTGCCGATTCAAGGCAAGCGACATTGGTCTTAAAGA-CA-AAGGTGCCAATATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAATATG
* ** * *
50680 CTGATTCAAGGCCAACGACATTGGGTTTTAAAGA-C
66 CTGATTCAAGGCCAGCGACATT-GGACTTAAAAATG
* * * * *
50715 AAGGCGCCACTATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T-A-AAGGTGCCAATGTG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAATATG
* *
50772 CTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG
66 CTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
* * * *
50807 ACAAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAA
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA
50855 AGAAGACGCC
Statistics
Matches: 601, Mismatches: 92, Indels: 71
0.79 0.12 0.09
Matches are distributed among these distances:
88 76 0.13
89 2 0.00
90 1 0.00
91 11 0.02
92 106 0.18
94 1 0.00
95 38 0.06
96 2 0.00
97 1 0.00
98 31 0.05
99 1 0.00
101 180 0.30
102 29 0.05
103 4 0.01
104 45 0.07
105 34 0.06
106 36 0.06
107 3 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (100 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGTGCCAATATG
CTGATTCAAGGCCAGCGACATTGGACTTAAAAATG
Found at i:50704 original size:88 final size:89
Alignment explanation
Indices: 50441--50704 Score: 350
Period size: 88 Copynumber: 2.9 Consensus size: 89
50431 GTGCCAAAGG
* * * * ** * *
50441 CGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGTTGATT
1 CGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
* *
50506 CAAGGCCAGCGACATTGGACTTAAAGA
66 CAAGGCCAACGACATTGGGCTT--A-A
*
50533 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
1 CGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
** *
50598 CAAGGCCAATAATATTGGGCTT-A
66 CAAGGCCAACGACATTGGGCTTAA
* *
50621 CGCCAATGTGCCGATTCAAGGCAAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
1 CGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
50686 CAAGGCCAACGACATTGGG
66 CAAGGCCAACGACATTGGG
50705 TTTTAAAGAC
Statistics
Matches: 152, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
88 79 0.52
92 73 0.48
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.23
Consensus pattern (89 bp):
CGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
CAAGGCCAACGACATTGGGCTTAA
Found at i:50763 original size:180 final size:175
Alignment explanation
Indices: 50441--50785 Score: 413
Period size: 180 Copynumber: 1.9 Consensus size: 175
50431 GTGCCAAAGG
* * * ** * *
50441 CGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGTTGATT
1 CGCCAATATGCCGATTCAAGGCAAGCGACATTAGACTTAAAGACAAAGGTGCCAATATGCTGATT
* * * *
50506 CAAGGCCAGCGACATTGGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
66 CAAGGCCAACGACATTGGACTTAAAGACGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
50571 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAATAATATTGGGCTTA
131 ----A-AAAGGTGCCAATATGCTGATTCAAGGCCAATAATATTGGGCTTA
* * *
50621 CGCCAATGTGCCGATTCAAGGCAAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGCTGATT
1 CGCCAATATGCCGATTCAAGGCAAGCGACATTAGACTTAAAGACAAAGGTGCCAATATGCTGATT
** * *
50686 CAAGGCCAACGACATTGGGTTTTAAAGACAAGGCGCCACTATGCTGATTCAAGGCCAGCGATATT
66 CAAGGCCAACGACATT-GGACTTAAAG---A--CGCCAATATGCTGATTCAAGGCCAGCGACATT
*
50751 GGGCTT-AAAGGTGCCAATGTGCTGATTCAAGGCCA
125 GGGCTTAAAAGGTGCCAATATGCTGATTCAAGGCCA
50786 GCGACATTGG
Statistics
Matches: 140, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
180 98 0.70
181 8 0.06
184 1 0.01
186 33 0.24
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (175 bp):
CGCCAATATGCCGATTCAAGGCAAGCGACATTAGACTTAAAGACAAAGGTGCCAATATGCTGATT
CAAGGCCAACGACATTGGACTTAAAGACGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTT
AAAAGGTGCCAATATGCTGATTCAAGGCCAATAATATTGGGCTTA
Found at i:50795 original size:229 final size:233
Alignment explanation
Indices: 50135--50852 Score: 721
Period size: 229 Copynumber: 3.0 Consensus size: 233
50125 TGAGAAGAAT
* * * *
50135 GCCAATGTGCTGATTCAAGGCTAA-CGACATTGGGTTTTAAAGATGACGAAGGAGCCAATATGCT
1 GCCAATGTGCCGATTCAAGGC-AAGCGACATTGGG-CTTAAAG--GACAAAGGCGCCAATATGCT
* ** * * * * * * * *
50199 AATTCAAGGCCAGTGATACTGGACTTAAAAATGAAGGTGCCAATATGCTGATTTAAGGCCAACGA
62 GATTCAAGGCCAACGACATTAGACTTAAAGATCAAGGCGCCAATATGCTGATTCAAGGCCAGCGA
* ** *
50264 CATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATTTTGGACTTAAA
127 CATTGGACTTAAAGAT---------GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
** * * * * *
50329 GATGA-AGGTGGCGCCAATATGCTGATTCCAGGCCAGCGATATTGGACTTCAAGTTGAAG
183 GATGACA-AAGGCGCCAATATGCTGATTCAAGGCCAACAATATTGG---GC---TT--AC
* * *
50388 GTACCAATGTGCTGATTCAAGGCTAGCGACATTGGGCTTAAAGGTGCCAAAGGCGCCAATATGCT
1 G--CCAATGTGCCGATTCAAGGCAAGCGACATTGGGCTTAAA-G-GACAAAGGCGCCAATATGCT
* * * * * *
50453 GATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTGCCAATGTGTTGATTCAAGGCCAGCGA
62 GATTCAAGGCCAACGACATTAGACTTAAAGATCAAGGCGCCAATATGCTGATTCAAGGCCAGCGA
50518 CATTGGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAAA
127 CATTGGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAA
* *
50580 GGTGCCAATATGCTGATTCAAGGCCAATAATATTGGGCTTAC
192 GGCGCCAATATGCTGATTCAAGGCCAACAATATTGGGCTTAC
* *
50622 GCCAATGTGCCGATTCAAGGCAAGCGACATTGGTCTTAAA-GACAAAGGTGCCAATATGCTGATT
1 GCCAATGTGCCGATTCAAGGCAAGCGACATTGGGCTTAAAGGACAAAGGCGCCAATATGCTGATT
* ** * *
50686 CAAGGCCAACGACATTGGGTTTTAAAGA-CAAGGCGCCACTATGCTGATTCAAGGCCAGCGATAT
66 CAAGGCCAACGACATT-AGACTTAAAGATCAAGGCGCCAATATGCTGATTCAAGGCCAGCGACAT
* *
50750 TGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGC
130 TGGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGC
*
50815 GCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
195 GCCAATATGCTGATTCAAGGCCAACAATATTGGGCTTA
50853 AAAGAAGACG
Statistics
Matches: 408, Mismatches: 48, Indels: 39
0.82 0.10 0.08
Matches are distributed among these distances:
229 114 0.28
230 10 0.02
231 1 0.00
232 80 0.20
234 2 0.00
236 2 0.00
239 1 0.00
242 33 0.08
243 2 0.00
244 2 0.00
245 33 0.08
253 1 0.00
254 96 0.24
255 31 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (233 bp):
GCCAATGTGCCGATTCAAGGCAAGCGACATTGGGCTTAAAGGACAAAGGCGCCAATATGCTGATT
CAAGGCCAACGACATTAGACTTAAAGATCAAGGCGCCAATATGCTGATTCAAGGCCAGCGACATT
GGACTTAAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCG
CCAATATGCTGATTCAAGGCCAACAATATTGGGCTTAC
Found at i:50837 original size:95 final size:92
Alignment explanation
Indices: 50665--50854 Score: 292
Period size: 95 Copynumber: 2.0 Consensus size: 92
50655 TCTTAAAGAC
* *
50665 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGACAAGGCGCCACTATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTAAAAGACAAGGCGCCAATATGC
*
50730 TGATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAACGATATTGGGCTT
* *
50757 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGACAAAGGCGCCAAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGGT-TTAAA-A-GAC-AAGGCGCCAAT
50821 ATGCTGATTCAAGGCCAACGATATTGGGCTT
62 ATGCTGATTCAAGGCCAACGATATTGGGCTT
50852 AAA
1 AAA
50855 AGAAGACGCC
Statistics
Matches: 89, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
91 3 0.03
92 39 0.44
93 1 0.01
94 3 0.03
95 43 0.48
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (92 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGGTTTAAAAGACAAGGCGCCAATATGC
TGATTCAAGGCCAACGATATTGGGCTT
Found at i:50959 original size:27 final size:27
Alignment explanation
Indices: 50927--51108 Score: 103
Period size: 35 Copynumber: 5.9 Consensus size: 27
50917 AGGAGAAAGA
50927 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
50954 TGCCACGGAGTTGTGGACTTAAACGGGAAAAAGAG
1 TGCCACGGAGTTGTGGACTT--------AAAAGGG
50989 TGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGAG
1 TGCCACGGAGTTGTGGAC-TT-AAAAG-----G-G
** *
51024 TGCCACGGAGTTGTGGGTTTTAAAGGAAAAAG
1 TGCCACGGAGTTGTGGACTTAAAAGG-----G
* *
51056 ATGCCACGGAATTGTGGACTTAAAAAGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
51084 TGCCACGGAGTTGTGGACTTTAAAA
1 TGCCACGGAGTTGTGGAC-TTAAAA
51109 AGGAACAAGG
Statistics
Matches: 123, Mismatches: 11, Indels: 41
0.70 0.06 0.23
Matches are distributed among these distances:
27 37 0.30
28 8 0.07
29 6 0.05
32 2 0.02
33 25 0.20
34 2 0.02
35 41 0.33
36 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:50993 original size:35 final size:33
Alignment explanation
Indices: 50947--51601 Score: 594
Period size: 35 Copynumber: 19.8 Consensus size: 33
50937 TTGTGGACTT
* *
50947 AAAAGGGTGCCACGGAGTTGTGGACTTAAACGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAA-AGG
*
50981 AAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
** *
51016 AAAAAGAGTGCCACGGAGTTGTGGGTTTTAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* *
51050 AAAAAGATGCCACGGAATTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
51077 AAAAAGGTGCCACGGAGTTGTGGACTTTAAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* * *
51112 AACAAGGATGCCACAGAGTTATGGACTTAAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTT-AAAAGG
*
51147 AACAAGGATGCCACGGAGTTGTGGACTTAAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTT-AAAAGG
* *
51182 AACAAGGATGCCACGAAGTTGTGGACTTAAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTT-AAAAGG
* *
51217 AACAAGGATGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGG
* * *
51251 AACAAGGATGCCACGGAGGTGTGGGCTTAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGG
* * *
51285 AACAAGGTGCCACGGAGGTGTGGGCTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
51318 AAAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGG
1 -AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
*
51353 -AAAAGGTGCCACGAAGTTGTGGACTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
* **
51386 AAAAAGATGCCACAAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
51419 AACAAGTTGCCACGGAGGTGTGGGCTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* *
51453 AAAAAGGGTGCCATGGAGTCGTGGACTTAAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
51486 -----GGTTCCACGGAGTTGTGGGCTT-TAA--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
51511 AAAGA-GTGCCACGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* **
51544 AAAAAGGTGCCACGGAGTCGTGGACTTTGAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
51576 -AAAAGATGCCACTGAGTCGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
51602 TAGAAAGAGA
Statistics
Matches: 536, Mismatches: 58, Indels: 57
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.00
27 41 0.08
28 2 0.00
29 17 0.03
30 2 0.00
31 24 0.04
32 23 0.04
33 95 0.18
34 111 0.21
35 198 0.37
36 21 0.04
ACGTcount: A:0.35, C:0.14, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:51484 original size:27 final size:28
Alignment explanation
Indices: 51453--51536 Score: 107
Period size: 29 Copynumber: 3.0 Consensus size: 28
51443 CTTAAAAGGG
* *
51453 AAAAAGGGTGCCATGGAGTCGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
* *
51481 -AAAAGGGTTCCACGGAGTTGTGGGCTTT
1 AAAAAGGGTGCCACGGAGTTGTGGAC-TT
*
51509 AAAAAGAGTGCCACGGAGTTGTGGACTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTT
51537 TGAAAAGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
27 21 0.45
28 4 0.09
29 22 0.47
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (28 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:51522 original size:29 final size:29
Alignment explanation
Indices: 51453--51670 Score: 147
Period size: 30 Copynumber: 7.3 Consensus size: 29
51443 CTTAAAAGGG
* *
51453 AAAAAGGGTGCCATGGAGTCGTGGAC-TT
1 AAAAAGAGTGCCACGGAGTCGTGGACTTT
* * * *
51481 -AAAAGGGTTCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTCGTGGACTTT
*
51509 AAAAAGAGTGCCACGGAGTTGTGGACTTT
1 AAAAAGAGTGCCACGGAGTCGTGGACTTT
*
51538 GAAAAGAAAAAGGTGCCACGGAGTCGTGGACTTT
1 ---AA-AAAGA-GTGCCACGGAGTCGTGGACTTT
*
51572 GAAGAAA-AGATGCCACTGAGTCGTGGACTTT
1 -AA-AAAGAG-TGCCACGGAGTCGTGGACTTT
* * * **
51603 AGAAAGAGATGCCACTGAATTATGGACTTT
1 AAAAAGAG-TGCCACGGAGTCGTGGACTTT
* ** *
51633 GAGACAAGA-TGCCACTAAGTCGTGGACTTA
1 -A-AAAAGAGTGCCACGGAGTCGTGGACTTT
51663 AAAAAGAG
1 AAAAAGAG
51671 AGATTTGAAG
Statistics
Matches: 155, Mismatches: 23, Indels: 23
0.77 0.11 0.11
Matches are distributed among these distances:
27 21 0.14
28 7 0.05
29 29 0.19
30 39 0.25
31 22 0.14
32 12 0.08
33 4 0.03
34 21 0.14
ACGTcount: A:0.33, C:0.15, G:0.30, T:0.22
Consensus pattern (29 bp):
AAAAAGAGTGCCACGGAGTCGTGGACTTT
Found at i:51555 original size:34 final size:34
Alignment explanation
Indices: 51509--51607 Score: 132
Period size: 31 Copynumber: 2.9 Consensus size: 34
51499 TGTGGGCTTT
*
51509 AAAAAGAGTGCCACGGAGTTGTGGACTTTGAAAAG
1 AAAAAG-GTGCCACGGAGTCGTGGACTTTGAAAAG
51544 AAAAAGGTGCCACGGAGTCGTGGACTTTG--AAG
1 AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAG
* *
51576 -AAAAGATGCCACTGAGTCGTGGACTTTAGAAA
1 AAAAAGGTGCCACGGAGTCGTGGACTTT-GAAA
51608 GAGATGCCAC
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
31 25 0.43
32 4 0.07
34 23 0.40
35 6 0.10
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTCGTGGACTTTGAAAAG
Found at i:52920 original size:16 final size:15
Alignment explanation
Indices: 52899--52933 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
52889 GCATTCTCTC
52899 TTTTTTTTT-GTTTT
1 TTTTTTTTTGGTTTT
52913 TGTTTTTTTTGGTTTT
1 T-TTTTTTTTGGTTTT
52929 TTTTT
1 TTTTT
52934 GTTTACTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.05
15 12 0.63
16 6 0.32
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTGGTTTT
Found at i:52922 original size:10 final size:10
Alignment explanation
Indices: 52899--52937 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
52889 GCATTCTCTC
52899 TTTTTT-TTT
1 TTTTTTGTTT
*
52908 GTTTTTGTTT
1 TTTTTTGTTT
*
52918 TTTTTGGTTT
1 TTTTTTGTTT
52928 TTTTTTGTTT
1 TTTTTTGTTT
52938 ACTTTTGACT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
9 5 0.20
10 20 0.80
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:59502 original size:36 final size:36
Alignment explanation
Indices: 59455--59526 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
59445 CAAAACCTCC
59455 CTTGCTGAGAACAAAATCAGCCTTTTATAGGCAAGA
1 CTTGCTGAGAACAAAATCAGCCTTTTATAGGCAAGA
59491 CTTGCTGAGAACAAAATCAGCCTTTTATAGGCAAGA
1 CTTGCTGAGAACAAAATCAGCCTTTTATAGGCAAGA
59527 TTTGTGGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (36 bp):
CTTGCTGAGAACAAAATCAGCCTTTTATAGGCAAGA
Found at i:59978 original size:20 final size:20
Alignment explanation
Indices: 59953--59990 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
59943 GTATCGATAC
59953 AATGTATCAATACATTTCGT
1 AATGTATCAATACATTTCGT
*
59973 AATGTATCGATACATTTC
1 AATGTATCAATACATTTC
59991 CTTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCAATACATTTCGT
Found at i:60847 original size:20 final size:20
Alignment explanation
Indices: 60822--60875 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
60812 TATTTTAAGC
*
60822 ATGTATCGATATATTCACTT
1 ATGTATCGATATATTAACTT
60842 ATGTATCGATATATTAACTT
1 ATGTATCGATATATTAACTT
*
60862 ATTATATCGATATA
1 A-TGTATCGATATA
60876 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.44
Consensus pattern (20 bp):
ATGTATCGATATATTAACTT
Found at i:62597 original size:27 final size:27
Alignment explanation
Indices: 62559--62610 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
62549 CCAACTGAAA
62559 TTTTTTGCATATAATCCTAAAATAAAG
1 TTTTTTGCATATAATCCTAAAATAAAG
62586 TTTTTTGCATATAATCCTAAAATAA
1 TTTTTTGCATATAATCCTAAAATAA
62611 TTTAATACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (27 bp):
TTTTTTGCATATAATCCTAAAATAAAG
Found at i:64899 original size:9 final size:9
Alignment explanation
Indices: 64881--64943 Score: 51
Period size: 9 Copynumber: 7.0 Consensus size: 9
64871 GTAATTTGAA
*
64881 TATATGTAT
1 TATATTTAT
64890 TATATTTAT
1 TATATTTAT
64899 T-TATTTTAT
1 TATA-TTTAT
64908 TATATTATAAT
1 TATATT-T-AT
*
64919 TATATTTAA
1 TATATTTAT
*
64928 AATA-TT-T
1 TATATTTAT
64935 TATATTTAT
1 TATATTTAT
64944 ATAAATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
7 3 0.07
8 6 0.14
9 22 0.51
10 4 0.09
11 8 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TATATTTAT
Found at i:65002 original size:33 final size:33
Alignment explanation
Indices: 64928--65003 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 33
64918 TTATATTTAA
*
64928 AATAT-TTTATATTTATATAAATTTTTAAATGAT
1 AATATATTTATATTGATATAAATTTTTAAAT-AT
64961 AATA-ATTTATA-TGATATAAA-TTTTATAATATT
1 AATATATTTATATTGATATAAATTTTTA-AATA-T
64993 AATATATTTAT
1 AATATATTTAT
65004 CACTATATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 6 0.16
32 16 0.42
33 16 0.42
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (33 bp):
AATATATTTATATTGATATAAATTTTTAAATAT
Found at i:75777 original size:2 final size:2
Alignment explanation
Indices: 75770--75795 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
75760 ACTATATTGA
75770 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
75796 TTGTATATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84529 original size:23 final size:22
Alignment explanation
Indices: 84498--84540 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
84488 TAATAAAAAA
84498 TTAAAATTATATGTATTAAACT
1 TTAAAATTATATGTATTAAACT
* *
84520 TTAAATATTATTTTTATTAAA
1 TTAAA-ATTATATGTATTAAA
84541 TATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAAATTATATGTATTAAACT
Found at i:84541 original size:16 final size:17
Alignment explanation
Indices: 84520--84565 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
84510 GTATTAAACT
84520 TTAAATATTAT-TTTTA
1 TTAAATATTATATTTTA
84536 TTAAATATTATATTTTA
1 TTAAATATTATATTTTA
*
84553 -AAAATATTTATAT
1 TTAAATA-TTATAT
84566 AAAGTAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 16 0.59
17 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATATTATATTTTA
Found at i:84794 original size:20 final size:20
Alignment explanation
Indices: 84769--84807 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84759 TTTATTTTAT
84769 TATTTATAAATATTATAAAG
1 TATTTATAAATATTATAAAG
* *
84789 TATTTATATATTTTATAAA
1 TATTTATAAATATTATAAA
84808 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TATTTATAAATATTATAAAG
Found at i:84887 original size:18 final size:19
Alignment explanation
Indices: 84844--84887 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
84834 AATAAATAAT
84844 AATTTAAAAAATTAAATTA
1 AATTTAAAAAATTAAATTA
* *
84863 AA-ATAAAAAATT-ATTTA
1 AATTTAAAAAATTAAATTA
84880 AATTTAAA
1 AATTTAAA
84888 TTTTTTTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.29
18 13 0.62
19 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATTTAAAAAATTAAATTA
Found at i:85518 original size:18 final size:17
Alignment explanation
Indices: 85497--85541 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
85487 ATTTAAATAA
*
85497 AAATATTATTTTATTATT
1 AAATATTATTTT-TAATT
*
85515 AAATAATATTTTTAATT
1 AAATATTATTTTTAATT
85532 AAAT-TTATTT
1 AAATATTATTT
85542 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 11 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
AAATATTATTTTTAATT
Found at i:85532 original size:20 final size:20
Alignment explanation
Indices: 85494--85532 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85484 TAAATTTAAA
*
85494 TAAAAATATTATTTTATTAT
1 TAAAAATATTATTTAATTAT
85514 TAAATAATATT-TTTAATTA
1 TAAA-AATATTATTTAATTA
85533 AATTTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TAAAAATATTATTTAATTAT
Found at i:88487 original size:23 final size:19
Alignment explanation
Indices: 88447--88496 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 19
88437 TTCTGTAATA
88447 ATATTAAAATATTATTTTT
1 ATATTAAAATATTATTTTT
88466 ATATTAATAATTATATATTTTT
1 ATATTAA-AA-TAT-TATTTTT
88488 ATAATTAAA
1 AT-ATTAAA
88497 TTTAAATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.26
20 2 0.07
21 3 0.11
22 10 0.37
23 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTAAAATATTATTTTT
Found at i:89137 original size:12 final size:12
Alignment explanation
Indices: 89122--89146 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89112 AGATTTTGTA
89122 TATTATTTTAGT
1 TATTATTTTAGT
89134 TATTATTTTAGT
1 TATTATTTTAGT
89146 T
1 T
89147 GATTTATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TATTATTTTAGT
Found at i:89453 original size:2 final size:2
Alignment explanation
Indices: 89446--89519 Score: 75
Period size: 2 Copynumber: 39.0 Consensus size: 2
89436 GGAGGAATTA
* * * *
89446 AT AT AT AT AT AT AT AT AT AT AT -T AC AT AT CT -T AT GT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
89485 AT AT -T AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89520 GAGCATGCGA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
1 4 0.07
2 56 0.93
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:89836 original size:3 final size:3
Alignment explanation
Indices: 89828--89865 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
89818 TCCAATGTGA
* *
89828 TAT TAT TAT TAT TAT TAT TAT TAT T-T AAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89866 CGATATTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
2 1 0.03
3 29 0.97
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:90238 original size:50 final size:50
Alignment explanation
Indices: 90174--90382 Score: 328
Period size: 50 Copynumber: 4.2 Consensus size: 50
90164 AGTTGTTGTC
* * *
90174 ATTGTTGACGATTCTTTACCAACCTTTGATAATAGAATGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* * *
90224 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGGGAGGTAGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
*
90274 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* * *
90324 ATTATTGACGATTCTTCACCAACCTTTGACAATATAGGGAGGTGGCCATA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
90374 ATTGTTGAC
1 ATTGTTGAC
90383 TCTAAGTATA
Statistics
Matches: 145, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 145 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:94830 original size:50 final size:50
Alignment explanation
Indices: 94775--94983 Score: 355
Period size: 50 Copynumber: 4.2 Consensus size: 50
94765 AGTTGTTGCC
* *
94775 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAATGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* * *
94825 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGGGAGGTAGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
94875 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
* *
94925 ATTGTTGACAATTCTTCACCAACCTTTGACAATATAGGGAGGTGGCCATA
1 ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
94975 ATTGTTGAC
1 ATTGTTGAC
94984 TCTAAGTATA
Statistics
Matches: 150, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 150 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (50 bp):
ATTGTTGACAATTCTTCACCAACCTTTGACAATAGAAGGAGGTGGCCATA
Found at i:96041 original size:2 final size:2
Alignment explanation
Indices: 96028--96065 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
96018 GTTTATAGTC
* *
96028 AT AT AC AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96066 GGCTAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:99886 original size:20 final size:19
Alignment explanation
Indices: 99861--99899 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
99851 TAAAAAATTA
*
99861 TATAAAAATTAAATTAAAAT
1 TATAAAAA-TAAAATAAAAT
*
99881 TATAAATATAAAATAAAAT
1 TATAAAAATAAAATAAAAT
99900 AAAAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATAAAATAAAAT
Found at i:99913 original size:19 final size:19
Alignment explanation
Indices: 99854--99913 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 19
99844 ATTTAATTAA
*
99854 AAAATTATATAAAAATTAAATT
1 AAAATTA-A-AAATATTAAA-T
* *
99876 AAAATTATAAATATAAAAT
1 AAAATTAAAAATATTAAAT
99895 AAAA-TAAAAATATTTAAAT
1 AAAATTAAAAATA-TTAAAT
99914 CTTTCAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 8 0.25
22 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATTAAAAATATTAAAT
Found at i:100802 original size:6 final size:6
Alignment explanation
Indices: 100791--100824 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
100781 CATAGTATAT
*
100791 TATAAA TATAAA TATAAA TATAAT TATATAA TAT
1 TATAAA TATAAA TATAAA TATAAA TATA-AA TAT
100825 GATATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TATAAA
Found at i:100841 original size:38 final size:34
Alignment explanation
Indices: 100798--100923 Score: 111
Period size: 32 Copynumber: 3.7 Consensus size: 34
100788 TATTATAAAT
100798 ATAAATATAAATATAATTATATAATATGATATTAATTA
1 ATAAATATAAATAT--TTATATAA-ATGATA-TAATTA
100836 ATAAATATCAAAT-TTTATATAAAATGA-ATAATTA
1 ATAAATAT-AAATATTTATAT-AAATGATATAATTA
* *
100870 ATATAT-TAAA-ATTTATATAAAT-ATATAATTCT
1 ATAAATATAAATATTTATATAAATGATATAATT-A
* *
100902 TTAAATATAAATA-TAATATAAA
1 ATAAATATAAATATTTATATAAA
100924 AATGTAACAA
Statistics
Matches: 76, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
30 1 0.01
31 10 0.13
32 14 0.18
33 13 0.17
34 12 0.16
35 1 0.01
36 10 0.13
37 2 0.03
38 9 0.12
39 4 0.05
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (34 bp):
ATAAATATAAATATTTATATAAATGATATAATTA
Found at i:100842 original size:19 final size:18
Alignment explanation
Indices: 100791--100848 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
100781 CATAGTATAT
*
100791 TATAAATATAAATATAAA
1 TATAATTATAAATATAAA
*
100809 TATAATTATATAATAT-GA
1 TATAATTATA-AATATAAA
100827 TATTAATTAATAAATATCAAA
1 TA-TAATT-ATAAATAT-AAA
100848 T
1 T
100849 TTTATATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 12 0.38
19 15 0.47
20 3 0.09
21 2 0.06
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
TATAATTATAAATATAAA
Found at i:101900 original size:15 final size:15
Alignment explanation
Indices: 101861--101916 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
101851 AATTTTAATA
101861 TTTATATTGTAATTTT
1 TTTATATT-TAATTTT
*
101877 TTTAGATTTAATTTT
1 TTTATATTTAATTTT
* *
101892 TTTTTATTTTATTGTT
1 TTTATATTTAATT-TT
*
101908 TTTAAATTT
1 TTTATATTT
101917 TTATTCCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 17 0.52
16 16 0.48
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.71
Consensus pattern (15 bp):
TTTATATTTAATTTT
Found at i:102715 original size:22 final size:23
Alignment explanation
Indices: 102687--102729 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
102677 CTTTATTTTA
102687 TTTTAATAAAAAAT-TTTAAAAT
1 TTTTAATAAAAAATATTTAAAAT
*
102709 TTTTAATAAAAAGTATTTAAA
1 TTTTAATAAAAAATATTTAAA
102730 TGAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTAATAAAAAATATTTAAAAT
Found at i:102793 original size:14 final size:15
Alignment explanation
Indices: 102769--102806 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
102759 ATATTTCTTG
102769 AATATTATTAAAAAT
1 AATATTATTAAAAAT
*
102784 AATATT-TTAATAAT
1 AATATTATTAAAAAT
102798 AA-ATTATTA
1 AATATTATTA
102807 GTATTAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 12 0.57
15 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATTATTAAAAAT
Found at i:107466 original size:3 final size:3
Alignment explanation
Indices: 107458--107496 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
107448 AAAATAGCAA
107458 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
107497 GATGATGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:112640 original size:2 final size:2
Alignment explanation
Indices: 112635--112660 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112625 CTGGGCAGCA
112635 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
112661 CCTCCCCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:116256 original size:162 final size:158
Alignment explanation
Indices: 116020--116459 Score: 607
Period size: 162 Copynumber: 2.7 Consensus size: 158
116010 CTATTTCTCG
* *
116020 AAAATATCATTTCATACTTTAATTGAAACCTGAAAAA-ATATGAAAAGTTTTTAAAATCTTTTAT
1 AAAATATCATTTCGTACTTTAA-TGAAACCT-AAAAAGATACGAAAAG-TTTTAAAATCTTTTAT
116084 ACTCCTACGGATTCTCATAGAAATATAAAAGATTAAAAAATGATTAATATTTTTTCGATTATAAA
63 ACT-CTACGGATTCTCATAGAAATATAAAAGATTAAAAAATGATTAATATTTTTT-GATTATAAA
116149 AGTGTCAATTTTAATTTTGTTTATTTATTTTTGA
126 AGTGTCAA-TTTAATTTTGTTTATTTATTTTTGA
* * * *
116183 AAAATATCATTTCGTACCTTAATGAAAATCC-AAAAAGATACGAACAGTTTTGAAATCTTTCATA
1 AAAATATCATTTCGTACTTTAATG-AAA-CCTAAAAAGATACGAAAAGTTTTAAAATCTTTTATA
* * *
116247 TCTCTACGGATTCCCATAGAAATATAAAAGATTAAAAAATGATAAATACTTATTTTGATTATGAA
64 -CTCTACGGATTCTCATAGAAATATAAAAGATTAAAAAATGATTAATA-TT-TTTTGATTATAAA
116312 AGTGTCAATTTAATTTTGTTTATTTATTTTTGA
126 AGTGTCAATTTAATTTTGTTTATTTATTTTTGA
* *
116345 AAAATGA-CATTTTGTACTTTAATGGAAACCTGAAAAGATACGAAAAGTTTTAAAATCTTTTATA
1 AAAAT-ATCATTTCGTACTTTAAT-GAAACCTAAAAAGATACGAAAAGTTTTAAAATCTTTTATA
* * *
116409 CTTCTTCGGATTTTCATAGAAATATAAAAGATTAAAAAATTATTAATATTT
64 C-TCTACGGATTCTCATAGAAATATAAAAGATTAAAAAATGATTAATATTT
116460 ATTTATCTTT
Statistics
Matches: 247, Mismatches: 20, Indels: 23
0.85 0.07 0.08
Matches are distributed among these distances:
160 1 0.00
161 5 0.02
162 182 0.74
163 53 0.21
164 6 0.02
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (158 bp):
AAAATATCATTTCGTACTTTAATGAAACCTAAAAAGATACGAAAAGTTTTAAAATCTTTTATACT
CTACGGATTCTCATAGAAATATAAAAGATTAAAAAATGATTAATATTTTTTGATTATAAAAGTGT
CAATTTAATTTTGTTTATTTATTTTTGA
Found at i:117953 original size:167 final size:166
Alignment explanation
Indices: 117595--118158 Score: 644
Period size: 166 Copynumber: 3.4 Consensus size: 166
117585 CAGAGAGCTT
* * ** ** *
117595 AATAACAATATTAGATGAATTTTAAAAGTTTTAAACCGAGAAAAAT-CTCTCCCAAAAAATTTAC
1 AATAACAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCT-CGAAAAAATTTAC
* * * * * * * *
117659 AGAGAAGAAACT-C-AGT-TTTCCTAGAAAAAG-GAAAATTTTAAAGAAAAAATTCAAAACTCAT
65 GGAGTAGAAAATACTA-TATTT-CGA-AAAAAGAG-GAATTTTAAGGAAAAAATTCAAAATTTAT
* * * *
117720 GAAAATAAATTAATTTTTTAAAACTAATTTAATATGAATCA
126 GAAAATAAATTAATTTTTGAGAACTGATTTAATATGAATTA
* ** * * *
117761 AATGATGATATTTGATTAATTTTAAAAATTGAAAACTGAGAAAAATCCTCTCGAAAAAATTTACG
1 AATAACAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTCGAAAAAATTTACG
117826 GAGTAGAAAATACTATATTTC-AAAAAAGAGGAATTTTAAGGAAAAAAATTCAAATATTTATGAA
66 GAGTAGAAAATACTATATTTCGAAAAAAGAGGAATTTTAAGG-AAAAAATTCAAA-ATTTATGAA
* * *
117890 AATGAATTCATTTTTGAGAACTGATTTAATATAAATTA
129 AATAAATTAATTTTTGAGAACTGATTTAATATGAATTA
*
117928 AATAATAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATTCC-CTCGAAAAAATTTAC
1 AATAACAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAA-TCCTCTCGAAAAAATTTAC
* * *
117992 GGAGTAGAAAACACTGTATTTCGAAAAAAGA-GAATTTTAAGGAAAAAATTTAAAAATTTATGAA
65 GGAGTAGAAAATACTATATTTCGAAAAAAGAGGAATTTTAAGGAAAAAA-TTCAAAATTTATGAA
*
118056 AATAAATGAATTTTTGAGAACTGATTTAATATGAATTA
129 AATAAATTAATTTTTGAGAACTGATTTAATATGAATTA
* *
118094 AATAACAATATTTGATGAATTTTAAAAACTAAAAAC-AAAAAACAATCCTAC-CGAAAAAATTTA
1 AATAACAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAA-AATCCT-CTCGAAAAAATTTA
118157 CG
64 CG
118159 AAAAAAAACC
Statistics
Matches: 346, Mismatches: 39, Indels: 26
0.84 0.09 0.06
Matches are distributed among these distances:
165 23 0.07
166 171 0.49
167 137 0.40
168 15 0.04
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (166 bp):
AATAACAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTCGAAAAAATTTACG
GAGTAGAAAATACTATATTTCGAAAAAAGAGGAATTTTAAGGAAAAAATTCAAAATTTATGAAAA
TAAATTAATTTTTGAGAACTGATTTAATATGAATTA
Found at i:120027 original size:16 final size:15
Alignment explanation
Indices: 119987--120035 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
119977 TTAATTTTAT
119987 TAAATTATATTATTA
1 TAAATTATATTATTA
* *
120002 -AATTTTTATTATTAA
1 TAAATTATATTATT-A
120017 TAAATTATATTATTTA
1 TAAATTATATTA-TTA
120033 TAA
1 TAA
120036 TAATTTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 11 0.41
15 1 0.04
16 13 0.48
17 2 0.07
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATTATATTATTA
Found at i:120030 original size:30 final size:30
Alignment explanation
Indices: 119965--120030 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
119955 TTTTATATAA
* *
119965 ATTATAAAATTTTTAATTTTATTAAATTAT
1 ATTATTAAATTTTTAATTTTAATAAATTAT
119995 ATTATTAAATTTTT-ATTATTAATAAATTAT
1 ATTATTAAATTTTTAATT-TTAATAAATTAT
120025 ATTATT
1 ATTATT
120031 TATAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.09
30 30 0.91
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTATTAAATTTTTAATTTTAATAAATTAT
Found at i:120052 original size:13 final size:13
Alignment explanation
Indices: 119978--120056 Score: 54
Period size: 13 Copynumber: 5.6 Consensus size: 13
119968 ATAAAATTTT
119978 TAATTTTATTAAA
1 TAATTTTATTAAA
* *
119991 TTATATTATTAAA
1 TAATTTTATTAAA
120004 T--TTTTATTATTAA
1 TAATTTTATTA--AA
120017 TAAATTATATTATTTATAA
1 T-AA-T-T-TTA-TTA-AA
120036 TAATTTTATTAAA
1 TAATTTTATTAAA
120049 TAATTTTA
1 TAATTTTA
120057 ATAATTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.13
13 25 0.46
14 3 0.06
15 3 0.06
16 1 0.02
17 2 0.04
18 3 0.06
19 7 0.13
20 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TAATTTTATTAAA
Found at i:120146 original size:16 final size:17
Alignment explanation
Indices: 120118--120206 Score: 66
Period size: 14 Copynumber: 5.5 Consensus size: 17
120108 ATATTTGATA
120118 AATAAAATT--TTATAT
1 AATAAAATTAATTATAT
*
120133 AA-AAAATTAATTATTT
1 AATAAAATTAATTATAT
120149 AATAAAATT-A--ATAT
1 AATAAAATTAATTATAT
** *
120163 AATTTAATTTATTA-AT
1 AATAAAATTAATTATAT
*
120179 AATAAAAATTTAATTATTT
1 AAT-AAAA-TTAATTATAT
120198 AATAAAATT
1 AATAAAATT
120207 TAATATTTAT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
14 16 0.28
15 3 0.05
16 13 0.23
17 11 0.19
18 10 0.18
19 4 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATAAAATTAATTATAT
Found at i:120167 original size:19 final size:17
Alignment explanation
Indices: 120118--120215 Score: 68
Period size: 17 Copynumber: 6.1 Consensus size: 17
120108 ATATTTGATA
*
120118 AATAAAATT--TTATAT
1 AATAAAATTAATTATTT
120133 AA-AAAATTAATTATTT
1 AATAAAATTAATTATTT
120149 AATAAAATTAATATAATTT
1 AATAAAATTAAT-T-ATTT
** *
120168 AAT-TTATTAA-TA-AT
1 AATAAAATTAATTATTT
*
120182 AA-AAATTTAATTATTT
1 AATAAAATTAATTATTT
120198 AATAAAATTTAA-TATTT
1 AATAAAA-TTAATTATTT
120215 A
1 A
120216 TAATTTATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
14 13 0.20
15 5 0.08
16 11 0.17
17 18 0.28
18 10 0.16
19 7 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATAAAATTAATTATTT
Found at i:120190 original size:22 final size:19
Alignment explanation
Indices: 120156--120210 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
120146 TTTAATAAAA
*
120156 TTAATATAATTTAATTTAT
1 TTAATAAAATTTAATTTAT
120175 TAATAATAAAAATTTAA-TTAT
1 T--TAAT-AAAATTTAATTTAT
120196 TTAATAAAATTTAAT
1 TTAATAAAATTTAAT
120211 ATTTATAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
21 9 0.29
22 8 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATAAAATTTAATTTAT
Found at i:120814 original size:14 final size:14
Alignment explanation
Indices: 120797--120832 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
120787 TTAAAAATTA
*
120797 AAATTATTATTTAT
1 AAATTAATATTTAT
120811 AAATTAATATTTAT
1 AAATTAATATTTAT
*
120825 ATATTAAT
1 AAATTAAT
120833 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTAATATTTAT
Found at i:120835 original size:51 final size:49
Alignment explanation
Indices: 120763--120902 Score: 139
Period size: 51 Copynumber: 2.8 Consensus size: 49
120753 TTATATTTTT
120763 AATTAA-ATTTAAATTAAATTAAATTTAAAAATTAAA-ATTATTATT-TATA
1 AATTAATATTTAAATT-AATTAAATTTAAAAA-TAAATATTATTATTAT-TA
*
120812 AATTAATATTTATATATTAATTAAATTTAAATAA-AAATATTTTTATTATTA
1 AATTAATATTTA-A-ATTAATTAAATTTAAA-AATAAATATTATTATTATTA
*
120863 AA-TAATAATTTAAAATTAATTTAAA-TTAAAAATATATATT
1 AATTAAT-ATTT-AAATTAA-TTAAATTTAAAAATAAATATT
120903 TAAGATCCAT
Statistics
Matches: 79, Mismatches: 2, Indels: 19
0.79 0.02 0.19
Matches are distributed among these distances:
49 8 0.10
50 28 0.35
51 36 0.46
52 7 0.09
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (49 bp):
AATTAATATTTAAATTAATTAAATTTAAAAATAAATATTATTATTATTA
Found at i:120894 original size:17 final size:19
Alignment explanation
Indices: 120869--120905 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
120859 ATTAAATAAT
*
120869 AATTTAAAAT-TA-ATTTA
1 AATTAAAAATATATATTTA
120886 AATTAAAAATATATATTTA
1 AATTAAAAATATATATTTA
120905 A
1 A
120906 GATCCATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 9 0.53
18 2 0.12
19 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTAAAAATATATATTTA
Found at i:121089 original size:22 final size:22
Alignment explanation
Indices: 121055--121101 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
121045 ATATTAAATA
* * *
121055 TATAAATATATTTATATATTTT
1 TATAAATAAATTTAAATAATTT
*
121077 TATAATTAAATTTAAATAATTT
1 TATAAATAAATTTAAATAATTT
121099 TAT
1 TAT
121102 TATTTATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TATAAATAAATTTAAATAATTT
Found at i:121754 original size:15 final size:14
Alignment explanation
Indices: 121729--121766 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
121719 ATCAATAAAT
*
121729 AAATTTATTTATTA
1 AAATTTTTTTATTA
121743 ATAATTTTTTTATTA
1 A-AATTTTTTTATTA
121758 AAATTTTTT
1 AAATTTTTT
121767 ATTGTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
AAATTTTTTTATTA
Found at i:122636 original size:11 final size:12
Alignment explanation
Indices: 122620--122648 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
122610 TATTTAATAG
122620 TTAAAATAT-TA
1 TTAAAATATATA
122631 TTAAAATATATA
1 TTAAAATATATA
122643 TTAAAA
1 TTAAAA
122649 AATAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAAATATATA
Found at i:122836 original size:20 final size:19
Alignment explanation
Indices: 122800--122851 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
122790 AACTGCGTAG
* *
122800 ATTTTATATAAAGTAAATA
1 ATTTTTTATAAAATAAATA
122819 AGTTCTTTT-TAAAATAAATA
1 A-TT-TTTTATAAAATAAATA
122839 ATTTTTTATAAAA
1 ATTTTTTATAAAA
122852 ATTTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 4 0.14
19 8 0.29
20 13 0.46
21 3 0.11
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (19 bp):
ATTTTTTATAAAATAAATA
Found at i:123479 original size:18 final size:17
Alignment explanation
Indices: 123446--123479 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
123436 AAAAATAATT
*
123446 AAAATATAATATAATAA
1 AAAATATAATACAATAA
123463 AAAATATTAATACAATA
1 AAAATA-TAATACAATA
123480 TAAATATACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATAATACAATAA
Found at i:124039 original size:24 final size:22
Alignment explanation
Indices: 123996--124042 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
123986 ATTTAAAAAT
123996 AAAATAAAAAATAAAATTTTAA
1 AAAATAAAAAATAAAATTTTAA
*
124018 AAAATTAATAAAATAAATTTTTAA
1 AAAA-TAA-AAAATAAAATTTTAA
124042 A
1 A
124043 TTTTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 3 0.14
24 15 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (22 bp):
AAAATAAAAAATAAAATTTTAA
Found at i:124582 original size:2 final size:2
Alignment explanation
Indices: 124575--124616 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
124565 ACACAACAAT
* * *
124575 TA TA TA TA TA TA TA TA TG TG T- TG 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
124616 T
1 T
124617 TAAATCCCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131915 original size:26 final size:27
Alignment explanation
Indices: 131868--131927 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
131858 TTTTTATATA
131868 ATTTTAATTATATTAAATAATAATTAT
1 ATTTTAATTATATTAAATAATAATTAT
* *
131895 ATTTTAA-TAT-TTTAATAAATATTTAT
1 ATTTTAATTATATTAAAT-AATAATTAT
*
131921 ATATTAA
1 ATTTTAA
131928 AGTAATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 17 0.59
27 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTTTAATTATATTAAATAATAATTAT
Found at i:132963 original size:14 final size:14
Alignment explanation
Indices: 132944--132977 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
132934 TTACGATATT
132944 TGTCACTTTGGCTC
1 TGTCACTTTGGCTC
132958 TGTCAC-TTGGCTC
1 TGTCACTTTGGCTC
132971 TGTCACT
1 TGTCACT
132978 GATCGTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.09, C:0.29, G:0.21, T:0.41
Consensus pattern (14 bp):
TGTCACTTTGGCTC
Found at i:133680 original size:17 final size:17
Alignment explanation
Indices: 133667--133701 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
133657 TACTAATAAC
133667 ATAATAAAAATAATTAA
1 ATAATAAAAATAATTAA
* *
133684 ATATTAAAAATAGTTAA
1 ATAATAAAAATAATTAA
133701 A
1 A
133702 ATAAAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAATAAAAATAATTAA
Found at i:134971 original size:7 final size:8
Alignment explanation
Indices: 134938--135011 Score: 52
Period size: 8 Copynumber: 9.8 Consensus size: 8
134928 TTTTAGTTTA
134938 AAATATTT
1 AAATATTT
*
134946 AAAAATTT
1 AAATATTT
*
134954 AAA-A-TA
1 AAATATTT
134960 AAATATTT
1 AAATATTT
134968 -AATATTT
1 AAATATTT
*
134975 GAAT-TTT
1 AAATATTT
134982 AAATATTATT
1 AAATA-T-TT
134992 AAATA--T
1 AAATATTT
134998 AAATATTT
1 AAATATTT
*
135006 ATATAT
1 AAATAT
135012 AATAAATTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
6 10 0.19
7 15 0.28
8 20 0.38
9 1 0.02
10 7 0.13
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (8 bp):
AAATATTT
Found at i:135301 original size:21 final size:20
Alignment explanation
Indices: 135275--135315 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
135265 TAATAAGCTT
135275 ATCACAACAGCAAAGTCAACG
1 ATCACAACAGCAAA-TCAACG
**
135296 ATCACATTAGCAAATCAACG
1 ATCACAACAGCAAATCAACG
135316 TCCACATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.15
Consensus pattern (20 bp):
ATCACAACAGCAAATCAACG
Found at i:135315 original size:20 final size:21
Alignment explanation
Indices: 135283--135326 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
135273 TTATCACAAC
135283 AGCAAAGTCAACGAT-CACATT
1 AGCAAAGTCAACG-TCCACATT
135304 AGCAAA-TCAACGTCCACATT
1 AGCAAAGTCAACGTCCACATT
135324 AGC
1 AGC
135327 TTTTTTTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 15 0.68
21 6 0.27
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (21 bp):
AGCAAAGTCAACGTCCACATT
Found at i:137868 original size:27 final size:25
Alignment explanation
Indices: 137811--137869 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
137801 TACAACCTAC
*
137811 AAATATTAAAGTCAAATCAACACAA
1 AAATATTAAAGTCAAATCAAAACAA
* *
137836 ATAATATTAAAAGTCAAAGTTAAAAGAA
1 A-AATATT-AAAGTCAAA-TCAAAACAA
137864 AAATAT
1 AAATAT
137870 ACCTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 1 0.04
26 6 0.21
27 14 0.50
28 7 0.25
ACGTcount: A:0.61, C:0.08, G:0.07, T:0.24
Consensus pattern (25 bp):
AAATATTAAAGTCAAATCAAAACAA
Found at i:139404 original size:16 final size:16
Alignment explanation
Indices: 139344--139394 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
139334 ACAATTAATG
139344 AAAATAA-ATA-TTTA
1 AAAATAATATATTTTA
* *
139358 TAAGTAATTATATTTTA
1 AAAATAA-TATATTTTA
139375 AAAATAATATATTTTA
1 AAAATAATATATTTTA
139391 AAAA
1 AAAA
139395 AACTTTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
16 16 0.53
17 9 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (16 bp):
AAAATAATATATTTTA
Found at i:140534 original size:16 final size:16
Alignment explanation
Indices: 140515--140649 Score: 89
Period size: 16 Copynumber: 8.4 Consensus size: 16
140505 CACGAACTCA
* **
140515 AAATGACTTGAACTTG
1 AAATGACTCGAACCCG
*
140531 AAATAACTCGAACCCG
1 AAATGACTCGAACCCG
*
140547 AAATGAC-CAAAACCCG
1 AAATGACTC-GAACCCG
*
140563 AAATGAC-CTGAATCCG
1 AAATGACTC-GAACCCG
140579 AAATGACTCGAACCCG
1 AAATGACTCGAACCCG
* *
140595 AAATTACCCGAACCC-
1 AAATGACTCGAACCCG
* * **
140610 AAAGTGAC-CCAGATCTA
1 AAA-TGACTCGA-ACCCG
*
140627 AAATGATTCGAACCCG
1 AAATGACTCGAACCCG
140643 AAATGAC
1 AAATGAC
140650 CTGAACCTAA
Statistics
Matches: 91, Mismatches: 22, Indels: 12
0.73 0.18 0.10
Matches are distributed among these distances:
15 6 0.07
16 79 0.87
17 6 0.07
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (16 bp):
AAATGACTCGAACCCG
Found at i:140674 original size:48 final size:47
Alignment explanation
Indices: 140538--140687 Score: 158
Period size: 48 Copynumber: 3.1 Consensus size: 47
140528 TTGAAATAAC
* ** *
140538 TCGAACCCGAAATGACCAAAACCCGAAA-TGACCTGAATCCGAAATGAC
1 TCGAACCCGAAATGACCAGAACCC-AAAGTGA-CTGAATCTAAAATGAT
* * **
140586 TCGAACCCGAAATTACCCGAACCCAAAGTGACCCAGATCTAAAATGAT
1 TCGAACCCGAAATGACCAGAACCCAAAGTGACTGA-ATCTAAAATGAT
* * *
140634 TCGAACCCGAAATGACCTGAACCTAAAGTGATCTGAATCTAAAATGTT
1 TCGAACCCGAAATGACCAGAACCCAAAGTGA-CTGAATCTAAAATGAT
140682 TCGAAC
1 TCGAAC
140688 TCAAAAACGA
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
47 5 0.06
48 78 0.92
49 2 0.02
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (47 bp):
TCGAACCCGAAATGACCAGAACCCAAAGTGACTGAATCTAAAATGAT
Found at i:142936 original size:38 final size:40
Alignment explanation
Indices: 142862--142956 Score: 113
Period size: 38 Copynumber: 2.4 Consensus size: 40
142852 CAGTACCTGA
* * **
142862 TCATGAATCTTTGATACTCACTTTTGAGTCCTAGTGTTGG
1 TCATGAATCTTAGATACCCACTTTTGAGTCAAAGTGTTGG
* *
142902 TCAT-AATCTTAG-TACCCACTTTTGAGTCAAAGTGTCGA
1 TCATGAATCTTAGATACCCACTTTTGAGTCAAAGTGTTGG
*
142940 TCATGAAGCTTAGATAC
1 TCATGAATCTTAGATAC
142957 TCGGGATCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
38 25 0.54
39 14 0.30
40 7 0.15
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (40 bp):
TCATGAATCTTAGATACCCACTTTTGAGTCAAAGTGTTGG
Found at i:144083 original size:43 final size:43
Alignment explanation
Indices: 144020--144101 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
144010 AACTCTATGC
*
144020 CAGTGTATGATATAACTTCTCTTTTATTAATCCTATCTACCGG
1 CAGTGTATGAGATAACTTCTCTTTTATTAATCCTATCTACCGG
*
144063 CAGTGTATGAGATAATTTCTCTTTTATTAATCCTATCTA
1 CAGTGTATGAGATAACTTCTCTTTTATTAATCCTATCTA
144102 TATTTCCTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (43 bp):
CAGTGTATGAGATAACTTCTCTTTTATTAATCCTATCTACCGG
Found at i:147341 original size:7 final size:7
Alignment explanation
Indices: 147329--147364 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
147319 TTATGATTAT
147329 TTTTTAA
1 TTTTTAA
147336 TTTTTAA
1 TTTTTAA
147343 TTTTTAA
1 TTTTTAA
*
147350 TATTTAA
1 TTTTTAA
*
147357 ATTTTAA
1 TTTTTAA
147364 T
1 T
147365 AATATTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTTTAA
Found at i:149009 original size:16 final size:16
Alignment explanation
Indices: 148988--149040 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
148978 GTTAGGTCTT
* *
148988 TATATACATACATACA
1 TATATATATATATACA
149004 TATATATATATATACA
1 TATATATATATATACA
*
149020 TATATATATATATATA
1 TATATATATATATACA
149036 TATAT
1 TATAT
149041 GGGGCAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (16 bp):
TATATATATATATACA
Found at i:149026 original size:4 final size:4
Alignment explanation
Indices: 148988--149040 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
148978 GTTAGGTCTT
* * * *
148988 TATA TACA TACA TACA TATA TATA TATA TACA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
149036 TATA T
1 TATA T
149041 GGGGCAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:154632 original size:6 final size:6
Alignment explanation
Indices: 154618--154651 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
154608 TCGAAATCGT
*
154618 TATGAA TATGTA TATGAA TATGAA TATGAA TATG
1 TATGAA TATGAA TATGAA TATGAA TATGAA TATG
154652 TACCGTAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (6 bp):
TATGAA
Found at i:155864 original size:35 final size:34
Alignment explanation
Indices: 155825--155918 Score: 134
Period size: 35 Copynumber: 2.6 Consensus size: 34
155815 TGTTAAATGG
*
155825 GCATATTAGGTGTGTTAGGTGGTGTGTTAGGTGAA
1 GCATATTAGGTGTGTTAGGTGATGTGTTAGGT-AA
*
155860 GCATATTAGGTGTGTTAGGTGATGTGTTAGGTAC
1 GCATATTAGGTGTGTTAGGTGATGTGTTAGGTAA
155894 GCATATTAGGTAATGTGTTAGGTGA
1 GCATATTAGG---TGTGTTAGGTGA
155919 GCAATATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
34 11 0.20
35 31 0.57
37 12 0.22
ACGTcount: A:0.22, C:0.04, G:0.36, T:0.37
Consensus pattern (34 bp):
GCATATTAGGTGTGTTAGGTGATGTGTTAGGTAA
Found at i:155887 original size:12 final size:12
Alignment explanation
Indices: 155835--155918 Score: 50
Period size: 12 Copynumber: 7.0 Consensus size: 12
155825 GCATATTAGG
*
155835 TGTGTTAGGTGG
1 TGTGTTAGGTGA
155847 TGTGTTAGGTGA
1 TGTGTTAGGTGA
* *
155859 AGCATATTA-G-G-
1 TG--TGTTAGGTGA
155870 TGTGTTAGGTGA
1 TGTGTTAGGTGA
155882 TGTGTTAGGT-A
1 TGTGTTAGGTGA
* * *
155893 CGCATATTAGGTAA
1 TG--TGTTAGGTGA
155907 TGTGTTAGGTGA
1 TGTGTTAGGTGA
155919 GCAATATATT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
9 4 0.07
10 1 0.02
11 4 0.07
12 31 0.57
13 8 0.15
14 6 0.11
ACGTcount: A:0.21, C:0.04, G:0.37, T:0.38
Consensus pattern (12 bp):
TGTGTTAGGTGA
Done.