Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005688.1 Kokia drynarioides strain JFW-HI SEQ_119884, 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: 148718
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Warning! 141 characters in sequence are not A, C, G, or T
Found at i:2430 original size:6 final size:6
Alignment explanation
Indices: 2419--2446 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
2409 TAGAATTAAA
2419 TATGTT TATGTT TATGTT TATGTT TATG
1 TATGTT TATGTT TATGTT TATGTT TATG
2447 CTCTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (6 bp):
TATGTT
Found at i:2621 original size:26 final size:26
Alignment explanation
Indices: 2592--2684 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
2582 TGTCATTTGC
*
2592 TAAACCTAATTAAATAAATTCAAACA
1 TAAACATAATTAAATAAATTCAAACA
* * **
2618 TAAAAATTATTAAATAAATTCAAATT
1 TAAACATAATTAAATAAATTCAAACA
* *
2644 TAAACATAATTAATTTCAAATTCAATCA
1 TAAACATAATTAA-AT-AAATTCAAACA
* *
2672 CAAACTTAATTAA
1 TAAACATAATTAA
2685 TTCCAAGTGA
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
26 32 0.62
27 1 0.02
28 19 0.37
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (26 bp):
TAAACATAATTAAATAAATTCAAACA
Found at i:5456 original size:26 final size:26
Alignment explanation
Indices: 5427--5478 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
5417 GGTAACTTTC
5427 TGTTTCCTTTCCTTCTTCAAAAATTT
1 TGTTTCCTTTCCTTCTTCAAAAATTT
5453 TGTTTCCTTTCCTTCTTCAAAAATTT
1 TGTTTCCTTTCCTTCTTCAAAAATTT
5479 GCTGTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.04, T:0.54
Consensus pattern (26 bp):
TGTTTCCTTTCCTTCTTCAAAAATTT
Found at i:8829 original size:20 final size:20
Alignment explanation
Indices: 8806--8843 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
8796 TATATTTGTA
8806 TTTAATTAATTATGTTTACG
1 TTTAATTAATTATGTTTACG
8826 TTTAATTAATTATGTTTA
1 TTTAATTAATTATGTTTA
8844 TGCTTATGTT
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:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAATTAATTATGTTTACG
Found at i:8994 original size:6 final size:6
Alignment explanation
Indices: 8983--9076 Score: 59
Period size: 6 Copynumber: 15.0 Consensus size: 6
8973 CTTATACCCC
* * * *
8983 AAACAT AAACAT AAGCAT AAATAT AATTA-ATT AAATAA AAACAT AAACAT
1 AAACAT AAACAT AAACAT AAACAT AA--ACA-T AAACAT AAACAT AAACAT
*
9033 AAACAT AATTA-AT TAA-AT ACACACAT AAACAT AAACAT AAACAT
1 AAACAT AA--ACAT AAACAT A-A-ACAT AAACAT AAACAT AAACAT
9077 GATTAATTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
5 3 0.04
6 53 0.75
7 7 0.10
8 8 0.11
ACGTcount: A:0.63, C:0.13, G:0.01, T:0.23
Consensus pattern (6 bp):
AAACAT
Found at i:9025 original size:32 final size:32
Alignment explanation
Indices: 8989--9103 Score: 140
Period size: 32 Copynumber: 3.4 Consensus size: 32
8979 CCCCAAACAT
* *
8989 AAACATAAGCATAAATATAATTAATTAAATAA
1 AAACATAAACATAAACATAATTAATTAAATAA
9021 AAACATAAACATAAACATAATTAATTAAATACACACA
1 AAACATAAACATAAACATAATTAATTAAAT----A-A
* *
9058 TAAACATAAACATAAACATGATTAATTAAATAC
1 -AAACATAAACATAAACATAATTAATTAAATAA
9091 AAACATAAACATA
1 AAACATAAACATA
9104 TTTTTTTGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
32 41 0.56
34 1 0.01
36 1 0.01
37 1 0.01
38 29 0.40
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (32 bp):
AAACATAAACATAAACATAATTAATTAAATAA
Found at i:9025 original size:38 final size:37
Alignment explanation
Indices: 8982--9103 Score: 155
Period size: 38 Copynumber: 3.4 Consensus size: 37
8972 TCTTATACCC
*
8982 CAAACATAAACATAAGCATAAATATAATTAATTAAATA
1 CAAACATAAACATAA-CATAAACATAATTAATTAAATA
*
9020 AAAACAT----A-AACATAAACATAATTAATTAAATA
1 CAAACATAAACATAACATAAACATAATTAATTAAATA
* *
9052 CACACATAAACATAAACATAAACATGATTAATTAAATA
1 CAAACATAAACAT-AACATAAACATAATTAATTAAATA
9090 CAAACATAAACATA
1 CAAACATAAACATA
9104 TTTTTTTGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
32 26 0.36
33 2 0.03
34 1 0.01
36 1 0.01
37 1 0.01
38 41 0.57
ACGTcount: A:0.61, C:0.13, G:0.02, T:0.24
Consensus pattern (37 bp):
CAAACATAAACATAACATAAACATAATTAATTAAATA
Found at i:9094 original size:20 final size:19
Alignment explanation
Indices: 9033--9097 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
9023 ACATAAACAT
9033 AAACATAATTAATTAAATAC
1 AAACAT-ATTAATTAAATAC
* * * *
9053 ACACATA--AACATAAACAT
1 AAACATATTAA-TTAAATAC
9071 AAACATGATTAATTAAATAC
1 AAACAT-ATTAATTAAATAC
9091 AAACATA
1 AAACATA
9098 AACATATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 9
0.66 0.16 0.18
Matches are distributed among these distances:
17 2 0.06
18 10 0.30
19 3 0.09
20 16 0.48
21 2 0.06
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.25
Consensus pattern (19 bp):
AAACATATTAATTAAATAC
Found at i:10933 original size:43 final size:43
Alignment explanation
Indices: 10872--10958 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
10862 TTGCTATGAA
10872 TAATGCTCTTGAAAATGTCCTTGGTCTGTGATGGGGTATTGTC
1 TAATGCTCTTGAAAATGTCCTTGGTCTGTGATGGGGTATTGTC
10915 TAATGCTCTTGAAAATGTCCTTGGTCTGTGATGGGGTATTGTC
1 TAATGCTCTTGAAAATGTCCTTGGTCTGTGATGGGGTATTGTC
10958 T
1 T
10959 TAGTCTAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.18, C:0.14, G:0.28, T:0.40
Consensus pattern (43 bp):
TAATGCTCTTGAAAATGTCCTTGGTCTGTGATGGGGTATTGTC
Found at i:12362 original size:11 final size:11
Alignment explanation
Indices: 12346--12436 Score: 53
Period size: 11 Copynumber: 8.5 Consensus size: 11
12336 ATTATATTGT
12346 TGTTTTGGTGC
1 TGTTTTGGTGC
**
12357 TGTTTTNTTGC
1 TGTTTTGGTGC
* *
12368 TATTTT-TTGC
1 TGTTTTGGTGC
*
12378 TGTTTTGGTGT
1 TGTTTTGGTGC
** *
12389 TGTTTTTTTAC
1 TGTTTTGGTGC
*
12400 TATTTTGGTGC
1 TGTTTTGGTGC
* *
12411 T-TTTT-TTAC
1 TGTTTTGGTGC
12420 TGTTTTGGTGC
1 TGTTTTGGTGC
*
12431 TATTTT
1 TGTTTT
12437 TTTTTACTAT
Statistics
Matches: 58, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
9 3 0.05
10 17 0.29
11 38 0.66
ACGTcount: A:0.05, C:0.08, G:0.21, T:0.65
Consensus pattern (11 bp):
TGTTTTGGTGC
Found at i:12397 original size:24 final size:23
Alignment explanation
Indices: 12370--12461 Score: 102
Period size: 24 Copynumber: 4.1 Consensus size: 23
12360 TTTNTTGCTA
* * *
12370 TTTTTTGCTGTTTTGGTGTTG-T
1 TTTTTTACTATTTTGGTGCTGTT
12392 TTTTTTACTATTTTGGTGC---T
1 TTTTTTACTATTTTGGTGCTGTT
* *
12412 TTTTTTACTGTTTTGGTGCTATTT
1 TTTTTTACTATTTTGGTGCT-GTT
12436 TTTTTTACTATTTTGGTGCTGTT
1 TTTTTTACTATTTTGGTGCTGTT
12459 TTT
1 TTT
12462 ATTGTTAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
20 19 0.32
22 16 0.27
23 5 0.08
24 20 0.33
ACGTcount: A:0.07, C:0.08, G:0.18, T:0.67
Consensus pattern (23 bp):
TTTTTTACTATTTTGGTGCTGTT
Found at i:12414 original size:20 final size:20
Alignment explanation
Indices: 12391--12462 Score: 90
Period size: 20 Copynumber: 3.4 Consensus size: 20
12381 TTTGGTGTTG
12391 TTTTTTTACTATTTTGGTGC
1 TTTTTTTACTATTTTGGTGC
*
12411 TTTTTTTACTGTTTTGGTGC
1 TTTTTTTACTATTTTGGTGC
12431 TATTTTTTTTTACTATTTTGGTGC
1 ----TTTTTTTACTATTTTGGTGC
*
12455 TGTTTTTA
1 TTTTTTTA
12463 TTGTTAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
20 26 0.58
24 19 0.42
ACGTcount: A:0.10, C:0.08, G:0.15, T:0.67
Consensus pattern (20 bp):
TTTTTTTACTATTTTGGTGC
Found at i:12454 original size:44 final size:42
Alignment explanation
Indices: 12365--12467 Score: 143
Period size: 44 Copynumber: 2.4 Consensus size: 42
12355 GCTGTTTTNT
*
12365 TGCTATTTTTTGCTGTTTTGGTGTTGTTTTTTTACTATTTTGG
1 TGCT-TTTTTTACTGTTTTGGTGTTGTTTTTTTACTATTTTGG
*
12408 TGCTTTTTTTACTGTTTTGGTGCTATTTTTTTTTACTATTTTGG
1 TGCTTTTTTTACTGTTTTGGTG-T-TGTTTTTTTACTATTTTGG
* *
12452 TGCTGTTTTTATTGTT
1 TGCTTTTTTTACTGTT
12468 AATTTTGCTG
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
42 17 0.31
43 5 0.09
44 32 0.59
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.66
Consensus pattern (42 bp):
TGCTTTTTTTACTGTTTTGGTGTTGTTTTTTTACTATTTTGG
Found at i:12472 original size:24 final size:23
Alignment explanation
Indices: 12380--12499 Score: 72
Period size: 24 Copynumber: 5.3 Consensus size: 23
12370 TTTTTTGCTG
* **
12380 TTTTGGTGTTGTTTTTTTACT-A
1 TTTTGGTGCTGTTTTTTTGTTAA
** *
12402 TTTTGGTGC--TTTTTTTACT-G
1 TTTTGGTGCTGTTTTTTTGTTAA
*
12422 TTTTGGTGCTATTTTTTT-TTACTA
1 TTTTGGTGCTGTTTTTTTGTTA--A
12446 TTTTGGTGCTGTTTTTATTGTTAA
1 TTTTGGTGCTGTTTTT-TTGTTAA
* * *
12470 TTTTGCTGTTGTTTTGGTTGTT-A
1 TTTTGGTGCTGTTTT-TTTGTTAA
12493 TTTTGGT
1 TTTTGGT
12500 TGTTTGGATG
Statistics
Matches: 81, Mismatches: 9, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
20 19 0.23
21 1 0.01
22 15 0.19
23 7 0.09
24 34 0.42
25 2 0.02
26 3 0.04
ACGTcount: A:0.08, C:0.06, G:0.20, T:0.66
Consensus pattern (23 bp):
TTTTGGTGCTGTTTTTTTGTTAA
Found at i:12503 original size:24 final size:23
Alignment explanation
Indices: 12444--12516 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 23
12434 TTTTTTTTAC
* *
12444 TATTTTGGTGCTGTTTTTATTGT
1 TATTTTGGTGTTGTTTTGATTGT
* *
12467 TAATTTTGCTGTTGTTTTGGTTGT
1 T-ATTTTGGTGTTGTTTTGATTGT
*
12491 TATTTT-G-GTTGTTTGGA-TGT
1 TATTTTGGTGTTGTTTTGATTGT
12511 TATTTT
1 TATTTT
12517 TATGCGTTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
20 9 0.21
21 8 0.19
23 6 0.14
24 19 0.45
ACGTcount: A:0.10, C:0.03, G:0.23, T:0.64
Consensus pattern (23 bp):
TATTTTGGTGTTGTTTTGATTGT
Found at i:12517 original size:21 final size:21
Alignment explanation
Indices: 12477--12516 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12467 TAATTTTGCT
*
12477 GTTGTTTTGGTTGTTATTTTG
1 GTTGTTTTGGATGTTATTTTG
12498 GTTG-TTTGGATGTTATTTT
1 GTTGTTTTGGATGTTATTTT
12517 TATGCGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.07, C:0.00, G:0.28, T:0.65
Consensus pattern (21 bp):
GTTGTTTTGGATGTTATTTTG
Found at i:13950 original size:17 final size:18
Alignment explanation
Indices: 13912--13952 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
13902 AAAAACCATA
13912 ATCATTTCTAAATATTTC
1 ATCATTTCTAAATATTTC
**
13930 -TCATTTCTCCAT-TTTC
1 ATCATTTCTAAATATTTC
13946 ATCATTT
1 ATCATTT
13953 ATATTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (18 bp):
ATCATTTCTAAATATTTC
Found at i:21198 original size:6 final size:7
Alignment explanation
Indices: 21179--21204 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21169 TCTCTACCTA
21179 CATTTTT
1 CATTTTT
21186 CATTTTT
1 CATTTTT
21193 CATTTTT
1 CATTTTT
21200 CATTT
1 CATTT
21205 CGATATGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:23965 original size:2 final size:2
Alignment explanation
Indices: 23958--23989 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23948 ACATCACCTC
23958 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
23990 CCGACTTAAA
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:39105 original size:49 final size:49
Alignment explanation
Indices: 39030--39430 Score: 246
Period size: 49 Copynumber: 8.2 Consensus size: 49
39020 TCTATAGGTT
* *
39030 TGAAGGGAAAGATTTAAG-CTGCAACGGTAAATCTAGTACCAC-GAAGATA
1 TGAAGGGAAAGATTTAAGTC-GCAACGGCAAATCTAGTACCACAGAAG-CA
* * * * * *
39079 TGTAGGGAAAGGTTTAAGTCGTAACGGCGAATCTTGTACCTCAGAAGCA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAGTACCACAGAAGCA
* * * **
39128 TGAAGGGAAAGATTTAAGTCGCAACGACGAACCTTA-TACCTTAGAAGCA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATC-TAGTACCACAGAAGCA
* * ** * * *
39177 TGAAGGGAAAGATTTAAGCCGTAACTACGAATCCAGTACCACA-AAGATA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAGTACCACAGAAG-CA
* * ** * * * *
39226 TTAAAGGAAAGATTTAAGTCATAACGGCGAA-CGTTGTGCCTCAGTAA-CA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATC-TAGTACCACAG-AAGCA
* * * * *
39275 TGGAGAGAAAAATTTAAGT-GCAATGGCGAATCTAGTACCACAGAA-CA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAGTACCACAGAAGCA
* * * * *
39322 TGAAGGGAAATATTTAAG-CTGCAACAGCGAATCTAGTACCA-TGAAGATA
1 TGAAGGGAAAGATTTAAGTC-GCAACGGCAAATCTAGTACCACAGAAG-CA
* * * * * * *
39371 TGAAAGGAAAGGTTTAAGTCGCAACGGCAAACCTTGTGCCTCAGAAACA
1 TGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAGTACCACAGAAGCA
*
39420 TGAAAGGAAAG
1 TGAAGGGAAAG
39431 GTTACAACCG
Statistics
Matches: 273, Mismatches: 64, Indels: 30
0.74 0.17 0.08
Matches are distributed among these distances:
47 22 0.08
48 40 0.15
49 199 0.73
50 10 0.04
51 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (49 bp):
TGAAGGGAAAGATTTAAGTCGCAACGGCAAATCTAGTACCACAGAAGCA
Found at i:40103 original size:12 final size:12
Alignment explanation
Indices: 40086--40126 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
40076 ATGCCTAATG
40086 CCACGTCAGCAT
1 CCACGTCAGCAT
*
40098 CCACGTCGGCAT
1 CCACGTCAGCAT
40110 CCACGTCAGC-T
1 CCACGTCAGCAT
40121 CCACGT
1 CCACGT
40127 TAGCCATGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.20, C:0.44, G:0.20, T:0.17
Consensus pattern (12 bp):
CCACGTCAGCAT
Found at i:53591 original size:24 final size:24
Alignment explanation
Indices: 53537--53597 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
53527 CTTAGCCCAC
* *
53537 ACGAGCCCAGAATGGTTGGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
53561 ACAAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
* *
53585 ATGAGCCAAGAAT
1 ACGAGCCCAGAAT
53598 AAGAATAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTAGCTCTT
Found at i:53631 original size:27 final size:27
Alignment explanation
Indices: 53579--53682 Score: 156
Period size: 27 Copynumber: 3.8 Consensus size: 27
53569 AGAATGATTA
*
53579 GCTCTTAT-GAGCCAAGAATAAGAATAAT
1 GCTCTT-TCGAGCC-AGAATCAGAATAAT
*
53607 GCTCTTTCAAGCCAGAATCAGAATAAT
1 GCTCTTTCGAGCCAGAATCAGAATAAT
*
53634 GCTCTTTCGAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAT
53661 GCTCTTTCGAGCCAGAATCAGA
1 GCTCTTTCGAGCCAGAATCAGA
53683 TTACTCCTCA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
27 61 0.86
28 10 0.14
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAT
Found at i:56277 original size:14 final size:15
Alignment explanation
Indices: 56250--56288 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
56240 GTTCATACAT
*
56250 AATCAGTTCGCATAC
1 AATCAGTTCACATAC
*
56265 AAT-AGTTCACATAT
1 AATCAGTTCACATAC
56279 AATCAGTTCA
1 AATCAGTTCA
56289 ATTTAGTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (15 bp):
AATCAGTTCACATAC
Found at i:81876 original size:29 final size:29
Alignment explanation
Indices: 81844--81940 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
81834 GAAAATAGAG
*
81844 TTTTTGGACATTCGGGGGAAAAATGGTAA
1 TTTTTGGAAATTCGGGGGAAAAATGGTAA
**
81873 TTTTT-GAAAGTTTCGAGGTCAAAAAT-GTAA
1 TTTTTGGAAA--TTCG-GGGGAAAAATGGTAA
* **
81903 ATTTTGGAGGTTCGGGGGTAAAAATGG-AA
1 TTTTTGGAAATTCGGGGG-AAAAATGGTAA
81932 TTTTTGGAA
1 TTTTTGGAA
81941 GTTTTGGGGT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
28 5 0.10
29 24 0.46
30 13 0.25
31 10 0.19
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (29 bp):
TTTTTGGAAATTCGGGGGAAAAATGGTAA
Found at i:81949 original size:29 final size:30
Alignment explanation
Indices: 81775--82046 Score: 186
Period size: 30 Copynumber: 9.5 Consensus size: 30
81765 TTTAGGGTTA
*
81775 AAAAATTGGAATTTTTAGACA--TTCGAGGGT-
1 AAAAA-TGGAATTTTTGGA-AGTTTCG-GGGTC
* **
81805 AAAAGTGGAATTTTT-GAAGTTTCAAGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGGGGTC
* * * *
81834 GAAAATAGAGTTTTTGGACA--TTCGGGG-G
1 AAAAATGGAATTTTTGGA-AGTTTCGGGGTC
* *
81862 AAAAATGGTAATTTTTGAAAGTTTCGAGGTC
1 AAAAATGG-AATTTTTGGAAGTTTCGGGGTC
* * *
81893 AAAAATGTAAATTTTGG-AGGTTCGGGGGT-
1 AAAAATGGAATTTTTGGAAGTTTC-GGGGTC
*
81922 AAAAATGGAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGGGGTC
*
81952 AAAAACGGAA---TT-----TTT-GGGGT-
1 AAAAATGGAATTTTTGGAAGTTTCGGGGTC
* * *
81972 AAAAATAGAAGTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGGGGTC
*
82002 AAAAATGGAATTTTTGGAAGTTTCAGGGTC
1 AAAAATGGAATTTTTGGAAGTTTCGGGGTC
82032 AAAAATGGAATTTTT
1 AAAAATGGAATTTTT
82047 TTATAGTTTA
Statistics
Matches: 188, Mismatches: 32, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
20 8 0.04
21 5 0.03
22 3 0.02
23 2 0.01
27 3 0.02
28 15 0.08
29 67 0.36
30 77 0.41
31 8 0.04
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAGTTTCGGGGTC
Found at i:81967 original size:59 final size:59
Alignment explanation
Indices: 81718--82046 Score: 238
Period size: 59 Copynumber: 5.7 Consensus size: 59
81708 CTGGGGGTAG
** * * * * *
81718 AATGGTAA-TTTTGGATTTTCGGGGGT-AAAATGGTAATTTTGGGAAAATTTAGGGTTAAAA
1 AATGG-AATTTTTGGACATTCGGGGGTAAAAATGG-AATTTTTGG-AAGTTTCGGGGTCAAA
* * * ** *
81778 AATTGGAATTTTTAGACATTCGAGGGTAAAAGTGGAATTTTT-GAAGTTTCAAGGTCGAA
1 AA-TGGAATTTTTGGACATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAA
* * * *
81837 AATAGAGTTTTTGGACATTCGGGGG-AAAAATGGTAATTTTTGAAAGTTTCGAGGTCAAA
1 AATGGAATTTTTGGACATTCGGGGGTAAAAATGG-AATTTTTGGAAGTTTCGGGGTCAAA
* * ** *
81896 AATGTAAATTTTGGAGGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAA
1 AATGGAATTTTTGGACATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAA
* * * *
81955 AACGGAA--TTT-----TT--GGGGTAAAAATAGAAGTTTTGGAAGTTTTGGGGTCAAA
1 AATGGAATTTTTGGACATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAA
*
82005 AATGGAATTTTTGGA-AGTTTC-AGGGTCAAAAATGGAATTTTT
1 AATGGAATTTTTGGACA--TTCGGGGGT-AAAAATGGAATTTTT
82047 TTATAGTTTA
Statistics
Matches: 215, Mismatches: 38, Indels: 32
0.75 0.13 0.11
Matches are distributed among these distances:
50 42 0.20
52 5 0.02
57 10 0.05
58 28 0.13
59 75 0.35
60 26 0.12
61 23 0.11
62 6 0.03
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (59 bp):
AATGGAATTTTTGGACATTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGGGGTCAAA
Found at i:81975 original size:20 final size:21
Alignment explanation
Indices: 81937--81988 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
81927 TGGAATTTTT
81937 GGAAGTTTTGGGGTCAAAAAC
1 GGAAGTTTTGGGGTCAAAAAC
* *
81958 GGAATTTTTGGGGT-AAAAAT
1 GGAAGTTTTGGGGTCAAAAAC
*
81978 AGAAGTTTTGG
1 GGAAGTTTTGG
81989 AAGTTTTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.33, C:0.04, G:0.33, T:0.31
Consensus pattern (21 bp):
GGAAGTTTTGGGGTCAAAAAC
Found at i:81992 original size:50 final size:50
Alignment explanation
Indices: 81917--82018 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
81907 TGGAGGTTCG
* *
81917 GGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTCAAAAACGGAATTTTT
1 GGGGTAAAAATAGAAGTTTTGGAAGTTTTGGGGTCAAAAACGGAATTTTT
*
81967 GGGGTAAAAATAGAAGTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTT
1 GGGGTAAAAATAGAAGTTTTGGAAGTTTTGGGGTCAAAAACGGAATTTTT
82017 GG
1 GG
82019 AAGTTTCAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.03, G:0.31, T:0.33
Consensus pattern (50 bp):
GGGGTAAAAATAGAAGTTTTGGAAGTTTTGGGGTCAAAAACGGAATTTTT
Found at i:83154 original size:6 final size:6
Alignment explanation
Indices: 83143--83217 Score: 66
Period size: 6 Copynumber: 12.8 Consensus size: 6
83133 TATAATAAGT
* *
83143 TTTAAA TTTAAA TATAAA TCTAAA TTTAAA -TTAAA TTTAAA TTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
** * *
83191 -ACAAA TTTAAA TTCAAA -ATAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
83218 TCTTAAAATC
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
5 11 0.20
6 37 0.69
7 6 0.11
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:83177 original size:29 final size:29
Alignment explanation
Indices: 83144--83203 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
83134 ATAATAAGTT
*
83144 TTAAATTTAAA-TATAAATCTAAATTTAAA
1 TTAAATTTAAATTATAAAAC-AAATTTAAA
*
83173 TTAAATTTAAATTTTAAAACAAATTTAAA
1 TTAAATTTAAATTATAAAACAAATTTAAA
83202 TT
1 TT
83204 CAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAATTTAAATTATAAAACAAATTTAAA
Found at i:83183 original size:17 final size:17
Alignment explanation
Indices: 83143--83253 Score: 118
Period size: 17 Copynumber: 6.4 Consensus size: 17
83133 TATAATAAGT
83143 TTTAAATTTAAATATAAA
1 TTTAAATTTAAA-ATAAA
* *
83161 TCTAAATTTAAATTAAA
1 TTTAAATTTAAAATAAA
*
83178 TTTAAATTTTAAAACAAA
1 TTTAAA-TTTAAAATAAA
*
83196 TTTAAATTCAAAATAAA
1 TTTAAATTTAAAATAAA
*
83213 TTT-AATCTTAAAATCAA
1 TTTAAAT-TTAAAATAAA
83230 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
83247 TCTTAAA
1 T-TTAAA
83254 ATGGGTTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
16 3 0.04
17 46 0.58
18 28 0.35
19 2 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:94868 original size:59 final size:60
Alignment explanation
Indices: 94789--94901 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 60
94779 TAAGTGAACA
*
94789 AATGAGGTTATGGTTGAAAAAAAATGATAATTCCAATTCAAGTAAACAAATGAGGTGAGT
1 AATGAGGTTATGGTTGAAAAAAAATGATAATTCCAATTCAACTAAACAAATGAGGTGAGT
* * * * *
94849 AATGCGGTTTTGGTT-AAAAAAAATGATAATTCCTATTTAACTAAATAAATGAG
1 AATGAGGTTATGGTTGAAAAAAAATGATAATTCCAATTCAACTAAACAAATGAG
94902 ACTTTAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
59 34 0.72
60 13 0.28
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (60 bp):
AATGAGGTTATGGTTGAAAAAAAATGATAATTCCAATTCAACTAAACAAATGAGGTGAGT
Found at i:99354 original size:336 final size:330
Alignment explanation
Indices: 98747--99388 Score: 830
Period size: 336 Copynumber: 1.9 Consensus size: 330
98737 ATTGAACCTA
*
98747 TTTTAGCAGTCAATGAATCAAGTAGGAAAAAGAAGTCAACAAATTAGAGAGTACAAAAACACCGG
1 TTTTAGCAGTCAATGAATCAAGTAGCAAAAAGAAGTCAACAAATTAGAGAGTACAAAAACACCGG
* * * * *
98812 TTCATATTTTAAACCATTGAATACAGATCCAACGCCGATTCTTTCATTAATCAAAATCCAGAAAA
66 TTCATATTTTAAACCATTAAATACAGATCCAACGCCAATTATTTCACTAATAAAAATCCAGAAAA
* * * * * *
98877 TATAGATAGAAGTGACGAAGCAACAAGAAATACAAAAATATACTAAAACAAGAAAGCGAAAAGAA
131 TACAGAAAGAAGCGAAGAAACAACAAGAAATACAAAAATATACTAAAACAAGAAAGCGAAAAAAA
* * * *
98942 TAATGCTTACGAATTTCGCTCGTCGAACTCTCGCCTTTCAGTTAGGTGGAAAAGAATCCAATTAA
196 AAATGCTTACGAATTTCGCTCGTCGAACTCTAGCCTTTCAGTTAGGTGGAAAAGAAACCAATGAA
* *
99007 GAAAACGAGAACTCTACAATTCAGGAAAATAGAGAAGCAAAGAATCGGCATACTTATAATTGTAT
261 GAAAACGAGAACTCTAAAATTCAGGAAAATAAAGAAGCAAAGAATCGGCATACTTATAATTGTAT
99072 ATCTG
326 ATCTG
* * * *
99077 TTTTAGCGGTCAACT-AATCAAGTAGCAAAAAGAAGTCAAC-GATGTAGAGAGTAC-AAATCGCC
1 TTTTAGCAGTCAA-TGAATCAAGTAGCAAAAAGAAGTCAACAAAT-TAGAGAGTACAAAAACACC
*
99139 GGTTCATATTTTAAACCATTAAATACAGATCTAACGCCAATTATTTCACTAATAAAAAATGCAAA
64 GGTTCATATTTTAAACCATTAAATACAGATCCAACGCCAATTATTTCACTAAT-AAAAAT-C---
* *
99204 TCTAGAAAATACAGAAAGAAGCGAAGAAACAATAAGGAATA-AAAAAT-TCAACTAAAACAAGAA
124 -C-AGAAAATACAGAAAGAAGCGAAGAAACAACAAGAAATACAAAAATAT--ACTAAAACAAGAA
* *
99267 AG-TAAAGAAAAAAATGCTTACGAATTTCGCTCGTCGAACTCTAG-CTCTTCAGTTTGGTGGAAA
185 AGCGAAA-AAAAAAATGCTTACGAATTTCGCTCGTCGAACTCTAGCCT-TTCAGTTAGGTGGAAA
* * * * *
99330 AGAAACTAGTGATGAAAGCGAGAACTCTAAAATTCAGGAAAATAAAGAAGCAAGGAATC
248 AGAAACCAATGAAGAAAACGAGAACTCTAAAATTCAGGAAAATAAAGAAGCAAAGAATC
99389 TTCTACAAGA
Statistics
Matches: 267, Mismatches: 32, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
329 56 0.21
330 51 0.19
331 2 0.01
334 1 0.00
335 12 0.04
336 145 0.54
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (330 bp):
TTTTAGCAGTCAATGAATCAAGTAGCAAAAAGAAGTCAACAAATTAGAGAGTACAAAAACACCGG
TTCATATTTTAAACCATTAAATACAGATCCAACGCCAATTATTTCACTAATAAAAATCCAGAAAA
TACAGAAAGAAGCGAAGAAACAACAAGAAATACAAAAATATACTAAAACAAGAAAGCGAAAAAAA
AAATGCTTACGAATTTCGCTCGTCGAACTCTAGCCTTTCAGTTAGGTGGAAAAGAAACCAATGAA
GAAAACGAGAACTCTAAAATTCAGGAAAATAAAGAAGCAAAGAATCGGCATACTTATAATTGTAT
ATCTG
Found at i:106182 original size:22 final size:22
Alignment explanation
Indices: 106156--106198 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
106146 CTAAGTAACA
106156 GCTACTAACTGAACTATCAACT
1 GCTACTAACTGAACTATCAACT
*
106178 GCTACTAATTGAACTATCAAC
1 GCTACTAACTGAACTATCAAC
106199 CTTAACTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
GCTACTAACTGAACTATCAACT
Found at i:111630 original size:28 final size:28
Alignment explanation
Indices: 111590--111651 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
111580 AAGGCTTAAT
111590 ACTCGTCCAGCA-CATAAGTGCGGTATTA
1 ACTCGTCCAGCACCAT-AGTGCGGTATTA
*
111618 ACTCGTCCAGCACCGTAGTGCGGTATTA
1 ACTCGTCCAGCACCATAGTGCGGTATTA
111646 ACTCGT
1 ACTCGT
111652 ATTTCAATCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (28 bp):
ACTCGTCCAGCACCATAGTGCGGTATTA
Found at i:111643 original size:70 final size:70
Alignment explanation
Indices: 111444--111643 Score: 226
Period size: 70 Copynumber: 2.9 Consensus size: 70
111434 AGCCCATATA
* * * * * * *
111444 CTCAATACTAGTCCAGCACATAAGTGTGGTAGTAACTTGTCCAGC-TCATGAGTGTGGTAAAGCT
1 CTCAATACTCGTCCAGCACATAAGTGCGGTATTAACTCGTCCAGCATCGT-AGTGCGGTATAGCT
* *
111508 TATAGG
65 CAAAGG
* * *
111514 CTCAATACTCGTCCAACACCAT-AGTGCGGTATTGATTCGTCCAGCATCGTAGTGCGGTATAG-T
1 CTCAATACTCGTCCAGCA-CATAAGTGCGGTATTAACTCGTCCAGCATCGTAGTGCGGTATAGCT
111577 CCAAAGG
65 -CAAAGG
* *
111584 CTTAATACTCGTCCAGCACATAAGTGCGGTATTAACTCGTCCAGCACCGTAGTGCGGTAT
1 CTCAATACTCGTCCAGCACATAAGTGCGGTATTAACTCGTCCAGCATCGTAGTGCGGTAT
111644 TAACTCGTAT
Statistics
Matches: 109, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
69 4 0.04
70 99 0.91
71 6 0.06
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (70 bp):
CTCAATACTCGTCCAGCACATAAGTGCGGTATTAACTCGTCCAGCATCGTAGTGCGGTATAGCTC
AAAGG
Found at i:115535 original size:22 final size:22
Alignment explanation
Indices: 115509--115555 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
115499 GTAACTAAGT
115509 AACTGCTACTAACTGAACTACC
1 AACTGCTACTAACTGAACTACC
* *
115531 AACTGTTACTAACTGAACTATC
1 AACTGCTACTAACTGAACTACC
115553 AAC
1 AAC
115556 CTTAACTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.26
Consensus pattern (22 bp):
AACTGCTACTAACTGAACTACC
Found at i:118989 original size:19 final size:21
Alignment explanation
Indices: 118939--118990 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
118929 GTTTTATATA
* *
118939 TTTTTTTTACTTTATTTCATT
1 TTTTTTTTTCTTTACTTCATT
118960 TTTTTAATTTTCTTT-CTTC-TT
1 TTTTT--TTTTCTTTACTTCATT
118981 TTTTTTTTTC
1 TTTTTTTTTC
118991 AGTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 5 0.19
21 12 0.44
22 3 0.11
23 7 0.26
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTCTTTACTTCATT
Found at i:121707 original size:4 final size:4
Alignment explanation
Indices: 121698--121808 Score: 98
Period size: 4 Copynumber: 27.5 Consensus size: 4
121688 ATTATTTTTT
* * * *
121698 AATA AATA AATA AGTA AATA AGTA GATA AATA ACTA AATA AATA AATAA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AAT-A
* * * * *
121747 AATA AATA ACTA AATA TATA TAA-A AATA AATA AATA TATA CATA TATA
1 AATA AATA AATA AATA AATA -AATA AATA AATA AATA AATA AATA AATA
* *
121795 CATA TATA AATA AA
1 AATA AATA AATA AA
121809 ATATTTTTTA
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
3 2 0.02
4 79 0.92
5 5 0.06
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.28
Consensus pattern (4 bp):
AATA
Found at i:126841 original size:19 final size:18
Alignment explanation
Indices: 126815--126857 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
126805 AATAAAAGGG
*
126815 GAATTGAGAAAGATTTGA
1 GAATTGAGAAAGAGTTGA
*
126833 GAATGTGAGAGAGAGTTGA
1 GAAT-TGAGAAAGAGTTGA
126852 G-ATTGA
1 GAATTGA
126858 ATTGAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.26
Consensus pattern (18 bp):
GAATTGAGAAAGAGTTGA
Found at i:127731 original size:23 final size:23
Alignment explanation
Indices: 127702--127747 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
127692 TTTGTTCTGT
* * *
127702 ATCATACTTAAATTGACGTTTAA
1 ATCATACCTAAATTAACATTTAA
127725 ATCATACCTAAATTAACATTTAA
1 ATCATACCTAAATTAACATTTAA
127748 TGTTTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
ATCATACCTAAATTAACATTTAA
Found at i:129844 original size:56 final size:57
Alignment explanation
Indices: 129779--129909 Score: 210
Period size: 56 Copynumber: 2.3 Consensus size: 57
129769 GCCCGAGGGC
*
129779 AAAACGGTAATTTTTGGATGATCGAGGGTAAAACGGTAATTTTTGAACA-TCCGGGT
1 AAAATGGTAATTTTTGGATGATCGAGGGTAAAACGGTAATTTTTGAACATTCCGGGT
* * * *
129835 AAAATGGTAATTTTTGGATGTTCGAGGGTAAAATGGTAATTTTTGGACATTCGGGGT
1 AAAATGGTAATTTTTGGATGATCGAGGGTAAAACGGTAATTTTTGAACATTCCGGGT
129892 AAAATGGTAATTTTTGGA
1 AAAATGGTAATTTTTGGA
129910 AAGTTTGGGG
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
56 45 0.65
57 24 0.35
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.34
Consensus pattern (57 bp):
AAAATGGTAATTTTTGGATGATCGAGGGTAAAACGGTAATTTTTGAACATTCCGGGT
Found at i:129962 original size:59 final size:57
Alignment explanation
Indices: 129694--130101 Score: 255
Period size: 59 Copynumber: 7.1 Consensus size: 57
129684 ACGGAGTCAA
* * * * ***
129694 AAAAATTTAATTTTTGG-ATGCCAGAGGTAAAATGGTAATTTTTTGAAGTTCAAGG-C
1 AAAAATGTAATTTTTGGAATTCGAG-GGTAAAATGGTAATTTTTGGAAGTTTGGGGTC
* * * * * * * *
129750 AAAAATGTATTTTTTAG-ATGCCCGAGGGCAAAACGGTAATTTTTGGATGATCGAGGGT-
1 AAAAATGTAATTTTTGGAAT--TCGAGGGTAAAATGGTAATTTTTGGAAGTTTG-GGGTC
** * * * *
129808 AAAACGGTAATTTTT-GAACATC-CGGGTAAAATGGTAATTTTTGGATGTTCGAGGGT-
1 AAAAATGTAATTTTTGGAA-TTCGAGGGTAAAATGGTAATTTTTGGAAGTTTG-GGGTC
129864 -AAAATGGTAATTTTTGGACATTCG-GGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTC
1 AAAAAT-GTAATTTTTGGA-ATTCGAGGGTAAAATGGTAATTTTTGG-AAGTTTGGGGTC
** * *
129922 AAAAATGTAATTTTTGGATATTCGAGGGTAAAATTTTAATTTTTTGAAGTTTTGGGGGC
1 AAAAATGTAATTTTTGGA-ATTCGAGGGTAAAATGGTAATTTTTGGAAG-TTTGGGGTC
* * * ** *
129981 AAAAATGTGATTTTTGGAAGTTC-AGGAGTAAAATGGTAATATTGGGAAGTTCAAGGAT-
1 AAAAATGTAATTTTTGGAA-TTCGAGG-GTAAAATGGTAATTTTTGGAAGTT-TGGGGTC
* ** * *
130039 AAAAATGTGATTTTTAAAAGTTCGAGGGTAAAAAT-GTAATTTTTGAGAAGTTTAGGGTT
1 AAAAATGTAATTTTTGGAA-TTCGAGGGT-AAAATGGTAATTTTTG-GAAGTTTGGGGTC
130098 AAAA
1 AAAA
130102 TGCAATTATG
Statistics
Matches: 283, Mismatches: 47, Indels: 41
0.76 0.13 0.11
Matches are distributed among these distances:
55 3 0.01
56 55 0.19
57 52 0.18
58 85 0.30
59 88 0.31
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (57 bp):
AAAAATGTAATTTTTGGAATTCGAGGGTAAAATGGTAATTTTTGGAAGTTTGGGGTC
Found at i:130001 original size:30 final size:30
Alignment explanation
Indices: 129892--130002 Score: 102
Period size: 30 Copynumber: 3.7 Consensus size: 30
129882 CATTCGGGGT
*
129892 AAAATGGTAATTTTTGGAAAG-TTTGGGGTCA
1 AAAAT-GTAATTTTTGG-AAGTTTTGGGGGCA
* * *
129923 AAAATGTAATTTTTGG-A-TATTCGAGGGTA
1 AAAATGTAATTTTTGGAAGT-TTTGGGGGCA
* * *
129952 AAATTTTAATTTTTTGAAGTTTTGGGGGCA
1 AAAATGTAATTTTTGGAAGTTTTGGGGGCA
*
129982 AAAATGTGATTTTTGGAAGTT
1 AAAATGTAATTTTTGGAAGTT
130003 CAGGAGTAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
28 1 0.02
29 19 0.31
30 36 0.58
31 6 0.10
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.41
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAGTTTTGGGGGCA
Found at i:130013 original size:29 final size:28
Alignment explanation
Indices: 129694--130108 Score: 218
Period size: 29 Copynumber: 14.4 Consensus size: 28
129684 ACGGAGTCAA
* * *
129694 AAAAATTTAATTTTTGGATG-CCAGAGGT
1 AAAAATGTAATTTTTGGAAGTTCAG-GGT
* * *
129722 -AAAATGGTAATTTTTTGAAGTTCAAGGC
1 AAAAAT-GTAATTTTTGGAAGTTCAGGGT
* * * ** *
129750 AAAAATGTATTTTTTAGATGCCCGAGGGC
1 AAAAATGTAATTTTTGGAAGTTC-AGGGT
** * *
129779 AAAACGGTAATTTTTGGATGATCGAGGGT
1 AAAAATGTAATTTTTGGAAGTTC-AGGGT
** ** *
129808 AAAACGGTAATTTTT-GAACATCCGGGT
1 AAAAATGTAATTTTTGGAAGTTCAGGGT
*
129835 -AAAATGGTAATTTTTGGATGTTCGAGGGT
1 AAAAAT-GTAATTTTTGGAAGTTC-AGGGT
*
129864 -AAAATGGTAATTTTTGGACA-TTCGGGGT
1 AAAAAT-GTAATTTTTGGA-AGTTCAGGGT
**
129892 -AAAATGGTAATTTTTGGAAAGTTTGGGGT
1 AAAAAT-GTAATTTTTGG-AAGTTCAGGGT
129921 CAAAAATGTAATTTTTGGATA-TTCGAGGGT
1 -AAAAATGTAATTTTTGGA-AGTTC-AGGGT
* * * ** *
129951 AAAATTTTAATTTTTTGAAGTTTTGGGGGC
1 AAAAATGTAATTTTTGGAAG--TTCAGGGT
*
129981 AAAAATGTGATTTTTGGAAGTTCAGGAGT
1 AAAAATGTAATTTTTGGAAGTTCAGG-GT
* * *
130010 -AAAATGGTAATATTGGGAAGTTCAAGGAT
1 AAAAAT-GTAATTTTTGGAAGTTC-AGGGT
* **
130039 AAAAATGTGATTTTTAAAAGTTCGAGGGT
1 AAAAATGTAATTTTTGGAAGTTC-AGGGT
*
130068 AAAAATGTAATTTTTGAGAAGTTTAGGGT
1 AAAAATGTAATTTTTG-GAAGTTCAGGGT
* *
130097 TAAAATGCAATT
1 AAAAATGTAATT
130109 ATGGAACTTT
Statistics
Matches: 302, Mismatches: 63, Indels: 43
0.74 0.15 0.11
Matches are distributed among these distances:
26 3 0.01
27 18 0.06
28 66 0.22
29 160 0.53
30 48 0.16
31 7 0.02
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (28 bp):
AAAAATGTAATTTTTGGAAGTTCAGGGT
Found at i:130748 original size:18 final size:17
Alignment explanation
Indices: 130711--130787 Score: 77
Period size: 17 Copynumber: 4.5 Consensus size: 17
130701 GGAAATTATT
*
130711 AATTTAAATTTAGGATA
1 AATTTAAATTTAGAATA
*
130728 AATTTAAGTTTAAGAATA
1 AATTTAAATTT-AGAATA
*
130746 AATTTAAACTTA-AATTA
1 AATTTAAATTTAGAA-TA
*
130763 AATTTAAATTGA-AATTA
1 AATTTAAATTTAGAA-TA
130780 AATTTAAA
1 AATTTAAA
130788 CTTAAACTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
16 2 0.04
17 36 0.69
18 14 0.27
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.40
Consensus pattern (17 bp):
AATTTAAATTTAGAATA
Found at i:130753 original size:6 final size:6
Alignment explanation
Indices: 130726--130840 Score: 85
Period size: 6 Copynumber: 19.7 Consensus size: 6
130716 AAATTTAGGA
* * *
130726 TAAATT TAAGTT TAAGA-A TAAATT TAAACT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAA-ATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * * **
130773 GAAA-T TAAATT TAAACT TAAACT TAAA-A TAAATT TAAATT TAAAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * *
130819 CAAATT TAAACT TAAATC TAAA
1 TAAATT TAAATT TAAATT TAAA
130841 ACAAAATGGG
Statistics
Matches: 85, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
5 14 0.16
6 71 0.84
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (6 bp):
TAAATT
Found at i:130804 original size:17 final size:17
Alignment explanation
Indices: 130744--130840 Score: 72
Period size: 17 Copynumber: 5.6 Consensus size: 17
130734 AGTTTAAGAA
*
130744 TAAATTTAAACTTAAAT
1 TAAATATAAACTTAAAT
*
130761 TAAATTTAAA-TTGAAAT
1 TAAATATAAACTT-AAAT
*
130778 TAAATTTAAACTTAAACT
1 TAAATATAAACTTAAA-T
*
130796 TAAA-ATAAATTTAAATT
1 TAAATATAAACTTAAA-T
* * *
130813 TAAAAACAAATTTAAACT
1 TAAATATAAACTTAAA-T
*
130831 TAAATCTAAA
1 TAAATATAAA
130841 ACAAAATGGG
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
16 2 0.03
17 41 0.60
18 25 0.37
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (17 bp):
TAAATATAAACTTAAAT
Found at i:130847 original size:24 final size:24
Alignment explanation
Indices: 130801--130845 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
130791 AAACTTAAAA
* *
130801 TAAATTTAAATTTAAAAACAAATT
1 TAAACTTAAATCTAAAAACAAATT
130825 TAAACTTAAATCT-AAAACAAA
1 TAAACTTAAATCTAAAAACAAA
130846 ATGGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAACTTAAATCTAAAAACAAATT
Found at i:136479 original size:29 final size:28
Alignment explanation
Indices: 136445--136679 Score: 109
Period size: 29 Copynumber: 8.4 Consensus size: 28
136435 AAAAAAATGC
136445 AATTTTTGGATGCTTGAGGATAAAATGGT
1 AATTTTTGGATGCTTGAGG-TAAAATGGT
* **
136474 AATTTTTGGAAG-TTCG-GGGCAAA----
1 AATTTTTGGATGCTT-GAGGTAAAATGGT
*
136497 AA-TTTT--ATGCTCGAGGGTAAAATGGT
1 AATTTTTGGATGCTTGA-GGTAAAATGGT
136523 AATTTTTGGATG-TTCGACGGGTAAAATGGT
1 AATTTTTGGATGCTT-GA--GGTAAAATGGT
* ** * *
136553 AATTTTTGAACACTCGGAGGCAAAATGGT
1 AATTTTTGGATGCT-TGAGGTAAAATGGT
* *
136582 AATTTTTGGAAAGTTTGAGGTCAAAAAT-GT
1 AATTTTTGG-ATGCTTGAGGT--AAAATGGT
* *
136612 AATTTTTGGA--CATCTAAGGTTAAAATGGA
1 AATTTTTGGATGC-T-TGAGG-TAAAATGGT
* *
136641 AATTTTTGGATGTTTGAGGGTAAAATGAT
1 AATTTTTGGATGCTTGA-GGTAAAATGGT
*
136670 ATTTTTTGGA
1 AATTTTTGGA
136680 AAGTTTGCGT
Statistics
Matches: 154, Mismatches: 27, Indels: 50
0.67 0.12 0.22
Matches are distributed among these distances:
20 3 0.02
21 1 0.01
22 9 0.06
23 2 0.01
26 2 0.01
27 7 0.05
28 11 0.07
29 73 0.47
30 38 0.25
31 8 0.05
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (28 bp):
AATTTTTGGATGCTTGAGGTAAAATGGT
Found at i:136545 original size:30 final size:29
Alignment explanation
Indices: 136507--136679 Score: 129
Period size: 29 Copynumber: 5.9 Consensus size: 29
136497 AATTTTATGC
136507 TCGAGGGTAAAATGGTAATTTTTGGATGT
1 TCGAGGGTAAAATGGTAATTTTTGGATGT
* ***
136536 TCGACGGGTAAAATGGTAATTTTTGAACAC
1 TCGA-GGGTAAAATGGTAATTTTTGGATGT
* *
136566 TCG-GAGGCAAAATGGTAATTTTTGGAAAGT
1 TCGAG-GGTAAAATGGTAATTTTTGG-ATGT
* **
136596 TTGA-GGTCAAAAAT-GTAATTTTTGGA-CA
1 TCGAGGGT--AAAATGGTAATTTTTGGATGT
* * *
136624 TCTAAGGTTAAAATGGAAATTTTTGGATGT
1 TC-GAGGGTAAAATGGTAATTTTTGGATGT
* * *
136654 TTGAGGGTAAAATGATATTTTTTGGA
1 TCGAGGGTAAAATGGTAATTTTTGGA
136680 AAGTTTGCGT
Statistics
Matches: 109, Mismatches: 25, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
28 7 0.06
29 56 0.51
30 41 0.38
31 5 0.05
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (29 bp):
TCGAGGGTAAAATGGTAATTTTTGGATGT
Found at i:136586 original size:59 final size:58
Alignment explanation
Indices: 136507--136677 Score: 179
Period size: 59 Copynumber: 2.9 Consensus size: 58
136497 AATTTTATGC
* *
136507 TCGAGGGT-AAAATGGTAATTTTTGGATGTTCGACGGGTAAAATGGTAATTTTTGAACA
1 TCGAAGGTCAAAATGGTAATTTTTGGATGTTTGA-GGGTAAAATGGTAATTTTTGAACA
* * *
136565 CTCGGAGG-CAAAATGGTAATTTTTGGAAAGTTTGA-GGTCAAAAAT-GTAATTTTTGGACA
1 -TCGAAGGTCAAAATGGTAATTTTTGG-ATGTTTGAGGGT--AAAATGGTAATTTTTGAACA
* * * * *
136624 TCTAAGGTTAAAATGGAAATTTTTGGATGTTTGAGGGTAAAATGATATTTTTTG
1 TCGAAGGTCAAAATGGTAATTTTTGGATGTTTGAGGGTAAAATGGTAATTTTTG
136678 GAAAGTTTGC
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
57 5 0.05
58 23 0.25
59 54 0.58
60 11 0.12
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (58 bp):
TCGAAGGTCAAAATGGTAATTTTTGGATGTTTGAGGGTAAAATGGTAATTTTTGAACA
Found at i:136645 original size:88 final size:88
Alignment explanation
Indices: 136544--136797 Score: 221
Period size: 88 Copynumber: 2.9 Consensus size: 88
136534 GTTCGACGGG
* *
136544 TAAAATGGTAATTTTTGAACACTCGGA-GGCAAAATGGTAATTTTTGGAAAGTTTGAGGTCAAAA
1 TAAAATGGAAATTTTTGAA-ACTCGGAGGGCAAAATGATAATTTTTGGAAAGTTTGAGGTCAAAA
136608 ATGTAATTTTTGGACATCTAAGGT
65 ATGTAATTTTTGGACATCTAAGGT
* ** ** * * * *
136632 TAAAATGGAAATTTTTGGATGTTTGAGGGTAAAATGATATTTTTTGGAAAGTTTGCGTTCAAAAA
1 TAAAATGGAAATTTTTGAAACTCGGAGGGCAAAATGATAATTTTTGGAAAGTTTGAGGTCAAAAA
* *
136697 TGTAATTTTTTGACATCTGAGCG-
66 TGTAATTTTTGGACATCTAAG-GT
* ** ** * * * *
136720 TAAAATTGTGATTTTTGGAAGTTC-AAGGGGCAAAAATG-TGATTTTTGG-AAGTTCGAGGGCAA
1 TAAAATGGAAATTTTT-GAAACTCGGA-GGGC-AAAATGATAATTTTTGGAAAGTTTGAGGTCAA
*
136782 AAATGTGATTTTTGGA
63 AAATGTAATTTTTGGA
136798 AGTTTAAGGG
Statistics
Matches: 131, Mismatches: 30, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
87 3 0.02
88 107 0.82
89 15 0.11
90 6 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (88 bp):
TAAAATGGAAATTTTTGAAACTCGGAGGGCAAAATGATAATTTTTGGAAAGTTTGAGGTCAAAAA
TGTAATTTTTGGACATCTAAGGT
Found at i:136706 original size:30 final size:27
Alignment explanation
Indices: 136574--136855 Score: 83
Period size: 29 Copynumber: 9.7 Consensus size: 27
136564 ACTCGGAGGC
136574 AAAATGGTAATTTTTGGAAAGTTTGAGGT
1 AAAAT-GTAATTTTTGGAAAGTTTG-GGT
* * *
136603 CAAAAATGTAATTTTTGGACA-TCTAAGGTT
1 --AAAATGTAATTTTTGGAAAGT-T-TGGGT
* *
136633 AAAATGGAAATTTTTGG-ATGTTTGAGGGT
1 AAAAT-GTAATTTTTGGAAAGTTT--GGGT
* *
136662 AAAATGATATTTTTTGGAAAGTTTGCGTT
1 AAAATG-TAATTTTTGGAAAGTTTG-GGT
* * *
136691 CAAAAATGTAATTTTTTGACA-TCTGAGCGT
1 --AAAATGTAATTTTTGGAAAGTTTG-G-GT
* * *
136721 AAAATTGTGATTTTTGG-AAGTTCAAGGGGCA
1 AAAA-TGTAATTTTTGGAAAGTT---TGGG-T
* * *
136752 AAAATGTGATTTTTGG-AAGTTCGAGGGCA
1 AAAATGTAATTTTTGGAAAGTT--TGGG-T
*
136781 AAAATGTGATTTTTGG-AAGTTTAAGGGT
1 AAAATGTAATTTTTGGAAAGTTT--GGGT
** *
136809 AAAAATGTAATTTTTTAAAAGTTTAGTGTT
1 -AAAATGTAATTTTTGGAAAGTTT-G-GGT
136839 AAAATGTAA-TTTTGGAA
1 AAAATGTAATTTTTGGAA
136856 CATTTTAAGG
Statistics
Matches: 193, Mismatches: 35, Indels: 49
0.70 0.13 0.18
Matches are distributed among these distances:
28 19 0.10
29 98 0.51
30 58 0.30
31 17 0.09
32 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.38
Consensus pattern (27 bp):
AAAATGTAATTTTTGGAAAGTTTGGGT
Found at i:136754 original size:59 final size:58
Alignment explanation
Indices: 136691--136824 Score: 164
Period size: 59 Copynumber: 2.3 Consensus size: 58
136681 AGTTTGCGTT
* *
136691 CAAAAATGTAATTTTTTGACA--TCTGAGCGTAAAATTGTGATTTTTGGAAGTTCAAGGGG
1 CAAAAATGTAATTTTTTGA-AGTTC-GAGCGCAAAAATGTGATTTTTGGAAGTTCAA-GGG
* * * *
136750 CAAAAATGTGATTTTTGGAAGTTCGAGGGCAAAAATGTGATTTTTGGAAGTTTAAGGG
1 CAAAAATGTAATTTTTTGAAGTTCGAGCGCAAAAATGTGATTTTTGGAAGTTCAAGGG
*
136808 TAAAAATGTAATTTTTT
1 CAAAAATGTAATTTTTT
136825 AAAAGTTTAG
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 18 0.28
59 44 0.69
60 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (58 bp):
CAAAAATGTAATTTTTTGAAGTTCGAGCGCAAAAATGTGATTTTTGGAAGTTCAAGGG
Found at i:136779 original size:29 final size:29
Alignment explanation
Indices: 136721--136823 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
136711 ATCTGAGCGT
*
136721 AAAATTGTGATTTTTGGAAGTTCAAGGGGC
1 AAAAATGTGATTTTTGGAAGTTCAA-GGGC
*
136751 AAAAATGTGATTTTTGGAAGTTCGAGGGC
1 AAAAATGTGATTTTTGGAAGTTCAAGGGC
* *
136780 AAAAATGTGATTTTTGGAAGTTTAAGGGT
1 AAAAATGTGATTTTTGGAAGTTCAAGGGC
*
136809 AAAAATGTAATTTTT
1 AAAAATGTGATTTTT
136824 TAAAAGTTTA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
29 44 0.66
30 23 0.34
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
AAAAATGTGATTTTTGGAAGTTCAAGGGC
Found at i:136870 original size:30 final size:30
Alignment explanation
Indices: 136781--136873 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 30
136771 TTCGAGGGCA
* *
136781 AAAATGTGATTTTTGG--AAGTTTAAGGGTA
1 AAAATGT-AATTTTGGAAAAGTTTAAGGGTT
** *
136810 AAAATGTAATTTTTTAAAAGTTT-AGTGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
* *
136839 AAAATGTAATTTTGGAACATTTTAAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAAGGGTT
136869 AAAAT
1 AAAAT
136874 ATGATTTCTA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.10
29 30 0.59
30 16 0.31
ACGTcount: A:0.39, C:0.01, G:0.19, T:0.41
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTAAGGGTT
Found at i:137878 original size:35 final size:35
Alignment explanation
Indices: 137761--137895 Score: 144
Period size: 35 Copynumber: 3.7 Consensus size: 35
137751 GGACATTATT
* ** *
137761 AATTTAAATTTAGGATAAATTTAAATTTAAGAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAAATA
*
137796 AATTTAAACTTAAATTAAATTTAAATTTAAAATAAGTTTA
1 AATTTAAACTTAAAATAAATTTAAATTT-AAA-AA---TA
* * *
137836 AACTTAAACTTAAAATAAATTTAAACTTAAAAACA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAAATA
*
137871 AATTTAAACTTAAAATAAATCTAAA
1 AATTTAAACTTAAAATAAATTTAAA
137896 ACAAAATGGG
Statistics
Matches: 84, Mismatches: 11, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
35 48 0.57
36 2 0.02
37 2 0.02
38 2 0.02
39 3 0.04
40 27 0.32
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (35 bp):
AATTTAAACTTAAAATAAATTTAAATTTAAAAATA
Found at i:137884 original size:6 final size:6
Alignment explanation
Indices: 137776--137866 Score: 73
Period size: 6 Copynumber: 15.7 Consensus size: 6
137766 AAATTTAGGA
* *
137776 TAAATT TAAATT TAAGA-A TAAATT TAAACT TAAA-T TAAATT TAAATT
1 TAAATT TAAATT TAA-ATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * * * *
137823 TAAA-A TAAGTT TAAACT TAAACT TAAA-A TAAATT TAAACT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
137867 AACAAATTTA
Statistics
Matches: 69, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
5 13 0.19
6 55 0.80
7 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (6 bp):
TAAATT
Found at i:137897 original size:18 final size:17
Alignment explanation
Indices: 137761--137895 Score: 117
Period size: 17 Copynumber: 7.5 Consensus size: 17
137751 GGACATTATT
* **
137761 AATTTAAATTTAGGATA
1 AATTTAAACTTAAAATA
*
137778 AATTTAAATTTAAGAATA
1 AATTTAAACTTAA-AATA
*
137796 AATTTAAACTTAAATTA
1 AATTTAAACTTAAAATA
*
137813 AATTTAAATTTAAAATAAGTTTA
1 AATTTAAACTT--AA-AA---TA
*
137836 AACTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
137853 AATTTAAACTTAAAAACA
1 AATTTAAACTT-AAAATA
137871 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
137888 AATCTAAA
1 AATTTAAA
137896 ACAAAATGGG
Statistics
Matches: 98, Mismatches: 12, Indels: 16
0.78 0.10 0.13
Matches are distributed among these distances:
17 49 0.50
18 31 0.32
19 2 0.02
20 3 0.03
21 2 0.02
23 11 0.11
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:139150 original size:208 final size:208
Alignment explanation
Indices: 138505--139779 Score: 1596
Period size: 208 Copynumber: 6.1 Consensus size: 208
138495 ATTTGGTCTG
* * * * ** *
138505 CTTCTTTGTATCCCATCAGGAAGCTGACCATTTTATTGCTTCGATCTGCTTCTCAGTA-CTTCAT
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATC-TCAT
* * * * *
138569 CAGGAAGATGGGGTTCGAAG-TTTCGCTCACATTAAGCTCT-GTTTCATTGATTTGGTATACTTC
65 CAAGAAGCTGGGGTTCGAAGATTT-GCTCACTTTGAGC-CTGGTTTCATTGATTTGGTCTACTTC
* * ** * *
138632 TCTA-TATCTCATCAGAAAGATGATCACCTTATTTGTTTTAATCCGCTTCTCTGTATCTCATCAG
128 TC-AGTATCTCATCAGGAAGATGACCACC-TCGTTGTTTTAATCCACTTCTCTGTATCTCATCAA
* *
138696 GAAGACGTATTTGG-TCTA
191 GAAGACGGATCTGGTTC-A
* * *** ** * *
138714 CTTCTCTATATCTCATCAAGAAGACGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTTATT
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * * * **
138779 AGGAAGCTGGGGTTAGAAG-TTTCACTCA-TATGAGCCTTGTTTCATTGATTCAGTAC-ACTTCT
66 AAGAAGCTGGGGTTCGAAGATTT-GCTCACTTTGAGCCTGGTTTCATTGATTTGGT-CTACTTCT
* * * *
138841 CTGTATCTCATCAGGAAGATGATCGTATCACTCTTTGTTTTAATCCGCTTCTCTGTATCTCATCA
129 CAGTATCTCATCAGGAAGATGA-C-CA-C-CTCGTTGTTTTAATCCACTTCTCTGTATCTCATCA
* *
138906 AGAAGACGGATTTGGTCCA
190 AGAAGACGGATCTGGTTCA
*
138925 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCCACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
138990 AAGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGTCTGGTTTCATTAATTTGGTCTGCTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
* * * * * *
139055 ATATCTCATCAGGAAGATGACCGCCTCATTATTTTGATCTACTTCTCTGTATCTCAT-AAGGAAG
131 GTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAA-GAAG
139119 ACGGATCTGGTTCA
195 ACGGATCTGGTTCA
* *
139133 CTTCTCTGTATCTCATCAGGAAGATAACCGCTTTATTGCTTCAACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * *
139198 AGGAAGCTAGGGTTCGAAGATTTGCTCACTTTGAGCTTGGTTTCATTGATTTGGTCTACTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
* * *
139263 GTATCTCATCAAGAAGACGACCACCTCGTTGTTTTGATCCACTTCTCTGTATCTCATCAAGAAGA
131 GTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
139328 CGGATCTGGTTCA
196 CGGATCTGGTTCA
* **
139341 CTTCTCTGTATCTCATCAGGTAGGTATTCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
139406 AAGAAGCTGGGCTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
* * * * * *
139471 GTATCTCATTAGGAAGATAACCACCTCGTTATTTTGATCCACTTCTCTGTATCTCATTAGGAAGA
131 GTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
* *
139536 CAGATCTGATTCA
196 CGGATCTGGTTCA
* * * * * *
139549 CTTCTTTATATCTCATCAGGAAGGTAACTGCCTTATTGCTTCGACCTGCTTCTCAATATCTTATC
1 CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * * *
139614 AAGAAGCTCGGGTTCGAAGATTTGTTCACTTTGAACCTAGTTTCATTGATTTGGTCTACTTCTCA
66 AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
*
139679 GTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
131 GTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
*
139744 TGGATCTGGTTCA
196 CGGATCTGGTTCA
*
139757 CTTCTCTGTATCTTATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
139780 ATGATCATTT
Statistics
Matches: 933, Mismatches: 119, Indels: 29
0.86 0.11 0.03
Matches are distributed among these distances:
207 4 0.00
208 670 0.72
209 82 0.09
210 2 0.00
211 125 0.13
212 50 0.05
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (208 bp):
CTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AAGAAGCTGGGGTTCGAAGATTTGCTCACTTTGAGCCTGGTTTCATTGATTTGGTCTACTTCTCA
GTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCAAGAAGA
CGGATCTGGTTCA
Found at i:139400 original size:416 final size:414
Alignment explanation
Indices: 138303--139779 Score: 1722
Period size: 416 Copynumber: 3.6 Consensus size: 414
138293 AAGATGGCTT
* * * * * * *
138303 TGGTTCAATTCTCTGTGTCTCGTTAGGAAGGTGACCACTTTATTGCTTCGACCTGCTTCTCAGTA
1 TGGTTCACTTCTCTATATCTCATCAGGAAGATAACCACTTTATTGCTTCGACCTGCTTCTCAGTA
* * * *
138368 TCTCATCAAGAAG-AAGGTGTTTGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTAT
66 TCTCATCAAGAAGCTAGG-GTTCGAAGTTTCGCTCACTTTGAGC-TTGTTTCATTGATTTGGTCT
* * * ** * *
138432 ACTTCTCTGCATCTCATCAGGAAAATGACCGTCTCACTTGTTTTAAT-CTCTTCTCTGTATCTCA
129 ACTTCTCAGTATCTCATCAGGAAGATGACCACCTC-GTTGTTTTAATCCACTTCTCTGTATCTCA
** * * * **
138496 T-------TTGG-TCT-G----CTTCTTTGTATCCCATCAGGAAGCTGACCATTTTATTGCTTCG
193 TCAAGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGT-ACCGCTTTATTGCTTCG
* * * *
138548 ATCTGCTTCTCAGTA-CTTCATCAGGAAGATGGGGTTCGAAG-TTTCGCTCACATTAAGCTCT-G
257 ACCTGCTTCTCAGTATC-TCATCAAGAAGATGGGGTTCGAAGATTT-GCTCACTTTGAG-TCTGG
* * * * * * *
138610 TTTCATTGATTTGGTATACTTCTCTATATCTCATCAGAAAGATGATCACCTTATTTGTTTTAATC
319 TTTCATTGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCA-TTATTTTGATC
* * * *
138675 CGCTTCTCTGTATCTCATCAGGAAGACGTATT
383 CACTTCTCTGTATCTCATAAGGAAGACGGATC
* ** *
138707 TGG-TCTACTTCTCTATATCTCATCAAGAAGACGACCATTTTATTGCTTCGACCTGCTTCTCAGT
1 TGGTTC-ACTTCTCTATATCTCATCAGGAAGATAACCACTTTATTGCTTCGACCTGCTTCTCAGT
* * * * * * * **
138771 ATCTTATTAGGAAGCTGGGGTTAGAAGTTTCACTCA-TATGAGCCTTGTTTCATTGATTCAGTAC
65 ATCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCACTTTGAG-CTTGTTTCATTGATTTGGT-C
* * * *
138835 -ACTTCTCTGTATCTCATCAGGAAGATGATCGTATCACTCTTTGTTTTAATCCGCTTCTCTGTAT
128 TACTTCTCAGTATCTCATCAGGAAGATGA-C-CA-C-CTCGTTGTTTTAATCCACTTCTCTGTAT
* *
138899 CTCATCAAGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGTAACCGCTTTATTGC
189 CTCATCAAGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGT-ACCGCTTTATTGC
* *
138964 TTCCACCTGCTTCTCAGTATCTCATCAAGAAGTTGGGGTTCGAAGATTTGCTCACTTTGAGTCTG
253 TTCGACCTGCTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCACTTTGAGTCTG
* * *
139029 GTTTCATTAATTTGGTCTGCTTCTCAATATCTCATCAGGAAGATGACCGCCTCATTATTTTGATC
318 GTTTCATTGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCATTATTTTGATC
*
139094 TACTTCTCTGTATCTCATAAGGAAGACGGATC
383 CACTTCTCTGTATCTCATAAGGAAGACGGATC
* * *
139126 TGGTTCACTTCTCTGTATCTCATCAGGAAGATAACCGCTTTATTGCTTCAACCTGCTTCTCAGTA
1 TGGTTCACTTCTCTATATCTCATCAGGAAGATAACCACTTTATTGCTTCGACCTGCTTCTCAGTA
*
139191 TCTCATCAGGAAGCTAGGGTTCGAAGATTT-GCTCACTTTGAGCTTGGTTTCATTGATTTGGTCT
66 TCTCATCAAGAAGCTAGGGTTCGAAG-TTTCGCTCACTTTGAGCTT-GTTTCATTGATTTGGTCT
* * *
139255 ACTTCTCAGTATCTCATCAAGAAGACGACCACCTCGTTGTTTTGATCCACTTCTCTGTATCTCAT
129 ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCAT
* *
139320 CAAGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGTAGGTATTCGCTTTATTGCTTCGA
194 CAAGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTA-CCGCTTTATTGCTTCGA
* * *
139385 CCTGCTTCTCAGTATCTCATCAAGAAGCTGGGCTTCGAAGATTTGCTCACTTTGAGCCTGGTTTC
258 CCTGCTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCACTTTGAGTCTGGTTTC
* * * *
139450 ATTGATTTGGTCTACTTCTCAGTATCTCATTAGGAAGATAACCACCTCGTTATTTTGATCCACTT
323 ATTGATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCATTATTTTGATCCACTT
* *
139515 CTCTGTATCTCATTAGGAAGACAGATC
388 CTCTGTATCTCATAAGGAAGACGGATC
* * * ** * *
139542 TGATTCACTTCTTTATATCTCATCAGGAAGGTAACTGCCTTATTGCTTCGACCTGCTTCTCAATA
1 TGGTTCACTTCTCTATATCTCATCAGGAAGATAACCACTTTATTGCTTCGACCTGCTTCTCAGTA
* * * * *
139607 TCTTATCAAGAAGCTCGGGTTCGAAGATTT-GTTCACTTTGAACCTAGTTTCATTGATTTGGTCT
66 TCTCATCAAGAAGCTAGGGTTCGAAG-TTTCGCTCACTTTG-AGCTTGTTTCATTGATTTGGTCT
*
139671 ACTTCTCAGTATCTCATCAGGAAGATGACCGCCTCGTTGTTTTAATCCACTTCTCTGTATCTCAT
129 ACTTCTCAGTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCAT
* *
139736 CAAGAAGATGGATCTGGTTCACTTCTCTGTATCTTATCAGGAAG
194 CAAGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAG
139780 ATGATCATTT
Statistics
Matches: 922, Mismatches: 119, Indels: 52
0.84 0.11 0.05
Matches are distributed among these distances:
403 48 0.05
404 80 0.09
405 2 0.00
406 10 0.01
407 20 0.02
414 2 0.00
415 3 0.00
416 446 0.48
417 4 0.00
418 1 0.00
419 125 0.14
420 177 0.19
421 4 0.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (414 bp):
TGGTTCACTTCTCTATATCTCATCAGGAAGATAACCACTTTATTGCTTCGACCTGCTTCTCAGTA
TCTCATCAAGAAGCTAGGGTTCGAAGTTTCGCTCACTTTGAGCTTGTTTCATTGATTTGGTCTAC
TTCTCAGTATCTCATCAGGAAGATGACCACCTCGTTGTTTTAATCCACTTCTCTGTATCTCATCA
AGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTACCGCTTTATTGCTTCGACCT
GCTTCTCAGTATCTCATCAAGAAGATGGGGTTCGAAGATTTGCTCACTTTGAGTCTGGTTTCATT
GATTTGGTCTACTTCTCAATATCTCATCAGGAAGATGACCACCTCATTATTTTGATCCACTTCTC
TGTATCTCATAAGGAAGACGGATC
Found at i:139979 original size:78 final size:78
Alignment explanation
Indices: 139880--140100 Score: 300
Period size: 78 Copynumber: 2.8 Consensus size: 78
139870 AGATCGGGTG
* * * *
139880 GCTGATGGTGATCTGTCCCAAGCTCGGGGTAAGAGATCGAATGG-TAGCAATCTGCACCAAACTT
1 GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCT-GCAATCTGCCCCAAACTC
* *
139944 GGGGTATGAGATTA
65 GAGGTAAGAGATTA
* * * *
139958 GCTGATGGTAATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTGCAATTTGCCCCAAGCTCG
1 GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAACTCG
*
140023 AGGTAAGAGATTG
66 AGGTAAGAGATTA
* * *
140036 GCTGATAGTGATCTGCCCCAAGCTCGGGGTGAGAGATCGGATGGCTGCAATCTGCCCCAAGCTCG
1 GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAACTCG
140101 NNNNNNNNNN
Statistics
Matches: 126, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
78 125 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (78 bp):
GCTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCAATCTGCCCCAAACTCG
AGGTAAGAGATTA
Found at i:140014 original size:39 final size:39
Alignment explanation
Indices: 139890--140100 Score: 198
Period size: 39 Copynumber: 5.4 Consensus size: 39
139880 GCTGATGGTG
* *
139890 ATCTGTCCCAAGCTCGGGGTAAGAGATCGAATGG-TAGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCT-GCA
* * * * *
139929 ATCTGCACCAAACTTGGGGTATGAGATTAGCTGATGG-T--A
1 ATCTGCCCCAAGCTCGGGGTAAGAGA-T--CGGATGGCTGCA
*
139968 ATCTGCCCCAAGCTCGGGGTAAAAGATCGGATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
* * * * * **
140007 ATTTGCCCCAAGCTCGAGGTAAGAGATTGGCT-GATAGTG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCT-GCA
*
140046 ATCTGCCCCAAGCTCGGGGTGAGAGATCGGATGGCTGCA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
140085 ATCTGCCCCAAGCTCG
1 ATCTGCCCCAAGCTCG
140101 NNNNNNNNNN
Statistics
Matches: 135, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
36 6 0.04
37 1 0.01
38 3 0.02
39 116 0.86
40 3 0.02
42 6 0.04
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (39 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATCGGATGGCTGCA
Found at i:140297 original size:41 final size:41
Alignment explanation
Indices: 140240--140334 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
140230 CGAGCTCGGG
* * * * *
140240 GTAAAAGATCGGAATCTTCATTCTGCTCTTCTTGATTAAGC
1 GTAAAAGATTGAAATCTCCAATCTGCCCTTCTTGATTAAGC
*
140281 GTAAAAGATTGAAATCTCCAATCTGCCCTTCTTGATTAAGG
1 GTAAAAGATTGAAATCTCCAATCTGCCCTTCTTGATTAAGC
*
140322 GTAAAAGACTGAA
1 GTAAAAGATTGAA
140335 TGATGATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (41 bp):
GTAAAAGATTGAAATCTCCAATCTGCCCTTCTTGATTAAGC
Found at i:140620 original size:50 final size:50
Alignment explanation
Indices: 140491--140748 Score: 200
Period size: 50 Copynumber: 5.1 Consensus size: 50
140481 ATTCTTTTTC
* * * *
140491 TAAGGTATCGGGCTCACCATTGCGGCCTCAACCTTTCCCTT-CATCTT-T
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTCT
* ** *
140539 TCATGGTACTAGGTTCGCCGTTGCGGCCTCAACCTTTCTCATTACATCTTCT
1 T-AAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTC-CATTACATCTTCT
* * * *
140591 T-AGGTACCGGGTTCACCGTTGCAGTCTCAACCTTTCCCTTTACATCTTTT
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCT
* *** *** *
140641 TAAGGTATCAAATTTGTCGTTGCGGCCTCAACCTTTCCCATCACATCTTC-
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCT
* * * * * * *
140691 TATGGTACCGAGTTCGCCGTTACGGCCTCAGCCTTTCCCTTTACATCTTTT
1 TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTT-CCATTACATCTTCT
140742 TAAGGTA
1 TAAGGTA
140749 TCGGATTCGC
Statistics
Matches: 163, Mismatches: 40, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
48 1 0.01
49 29 0.18
50 82 0.50
51 49 0.30
52 2 0.01
ACGTcount: A:0.17, C:0.30, G:0.17, T:0.36
Consensus pattern (50 bp):
TAAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCATTACATCTTCT
Found at i:140674 original size:101 final size:102
Alignment explanation
Indices: 140488--140750 Score: 320
Period size: 101 Copynumber: 2.6 Consensus size: 102
140478 TCAATTCTTT
* * * * * *
140488 TTCTAAGGTATCGGGCTCACCATTGCGGCCTCAACCTTTCCC-TT-CATCTTTTCATGGTA-CTA
1 TTCTTAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTTAAGGTATCTA
** * *
140550 GGTTCGCCGTTGCGGCCTCAACCTTTCTCATTACATC
66 AATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* *
140587 TTCTTAGGTACCGGGTTCACCGTTGCAGTCTCAACCTTTCCCTTTACATCTTTTTAAGGTATC-A
1 TTCTTAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTTAAGGTATCTA
* *
140651 AATTTGTCGTTGCGGCCTCAACCTTTCCCATCACATC
66 AATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
* * * *
140688 TTC-TATGGTACCGAGTTCGCCGTTACGGCCTCAGCCTTTCCCTTTACATCTTTTTAAGGTATC
1 TTCTTA-GGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTTAAGGTATC
140751 GGATTCGCTG
Statistics
Matches: 140, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
99 36 0.26
100 4 0.03
101 99 0.71
102 1 0.01
ACGTcount: A:0.17, C:0.30, G:0.16, T:0.36
Consensus pattern (102 bp):
TTCTTAGGTACCGGGTTCACCGTTGCGGCCTCAACCTTTCCCTTTACATCTTTTTAAGGTATCTA
AATTCGCCGTTGCGGCCTCAACCTTTCCCATCACATC
Found at i:142296 original size:51 final size:54
Alignment explanation
Indices: 142241--142343 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 54
142231 CTTTCAAATG
*
142241 ACTATTTGAAT-ATAT-T-TGCTAAGCATTTATTTCACCACTCTTTTGAAAGAA
1 ACTATTTGAATAATATCTCTGCTAAGCATTTATATCACCACTCTTTTGAAAGAA
* * * *
142292 ACTATTTGATTAATGTCTCTGCTAAGCATTTGTATCACCATTCTTTTGAAAG
1 ACTATTTGAATAATATCTCTGCTAAGCATTTATATCACCACTCTTTTGAAAG
142344 TCATGAGTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
51 10 0.23
52 3 0.07
53 1 0.02
54 30 0.68
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (54 bp):
ACTATTTGAATAATATCTCTGCTAAGCATTTATATCACCACTCTTTTGAAAGAA
Found at i:146772 original size:21 final size:20
Alignment explanation
Indices: 146748--146802 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
146738 AGTTAATTTA
*
146748 AATTTTTTTATTTTAAAATAT
1 AATTTTTTTATTTAAAAAT-T
*
146769 AATTATTTTTACTTAAAAATT
1 AATT-TTTTTATTTAAAAATT
*
146790 ATATTCTTTTATT
1 A-ATTTTTTTATT
146803 ATCGTTATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTTTTTATTTAAAAATT
Found at i:146799 original size:22 final size:22
Alignment explanation
Indices: 146748--146788 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
146738 AGTTAATTTA
* *
146748 AATT-TTTTTATTTTAAAATAT
1 AATTATTTTTACTTAAAAATAT
146769 AATTATTTTTACTTAAAAAT
1 AATTATTTTTACTTAAAAAT
146789 TATATTCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
AATTATTTTTACTTAAAAATAT
Done.