Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001011.1 Hibiscus syriacus cultivar Beakdansim tig00002017_pilon, 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: 118747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:10490 original size:68 final size:68
Alignment explanation
Indices: 10416--10550 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
10406 ACCTACAAAG
* * *
10416 ATAAAAATAATATTGTACCTTGGGTGGAGCAACACTTGCAGCTTTCTCACATCCCATAGTGTCTA
1 ATAAAAAAAAGATTGTACCTTGGGTGGAGCAACAATTGCAGCTTTCTCACATCCCATAGTGTCTA
10481 CAA
66 CAA
10484 ATAAAAAAAAGATTGTACCTTGGGTGGAGCAACAATTGCAGCTTTCTCACATCCCATAGTGTCTA
1 ATAAAAAAAAGATTGTACCTTGGGTGGAGCAACAATTGCAGCTTTCTCACATCCCATAGTGTCTA
10549 CA
66 CA
10551 TGCGCATATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (68 bp):
ATAAAAAAAAGATTGTACCTTGGGTGGAGCAACAATTGCAGCTTTCTCACATCCCATAGTGTCTA
CAA
Found at i:11657 original size:18 final size:20
Alignment explanation
Indices: 11607--11657 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
11597 TGGAGAAAGG
*
11607 GATCAATCCTTTGTGCATGA
1 GATCAATCCTTTGTGCAGGA
*
11627 GAT-AAT-CTTTTTGTC-GGA
1 GATCAATCCTTTGTG-CAGGA
11645 GATCAATCCTTTG
1 GATCAATCCTTTG
11658 AACCAAGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
18 11 0.44
19 7 0.28
20 7 0.28
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (20 bp):
GATCAATCCTTTGTGCAGGA
Found at i:12686 original size:59 final size:59
Alignment explanation
Indices: 12561--12674 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
12551 AAAACTAGAT
** **
12561 GACCATTTTATAAATTTTAATAATCAAAGACTCAACAAAGTAACGTCCTATAATTAAAA
1 GACCATTTTATAAATTTTAATAATCAAAGACTCAACAAAACAACACCCTATAATTAAAA
* * * *
12620 GACCATTTTATAACTTTTAATAGTCGGATGACTCAACAAAACAACACCCTATAAT
1 GACCATTTTATAAATTTTAATAATC-AAAGACTCAACAAAACAACACCCTATAAT
12675 CGGAGACCAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
59 23 0.50
60 23 0.50
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (59 bp):
GACCATTTTATAAATTTTAATAATCAAAGACTCAACAAAACAACACCCTATAATTAAAA
Found at i:17322 original size:20 final size:20
Alignment explanation
Indices: 17278--17754 Score: 408
Period size: 20 Copynumber: 24.2 Consensus size: 20
17268 GAAAATGACC
*
17278 AAAATCGCAACGCGAAAT-A-
1 AAAATCGCAACGCG-ATTCAG
*
17297 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* *
17317 AAAATCGCAACGTTGA--AAG
1 AAAATCGCAACG-CGATTCAG
*
17336 AAAATCGCAACG-G--TCAAAA
1 AAAATCGCAACGCGATTC--AG
17355 AAAATCGCAACGCGATATTCCA-
1 AAAATCGCAACGCG--ATT-CAG
* *
17377 AGAATCGCAATGCGATT-AG
1 AAAATCGCAACGCGATTCAG
* **
17396 AGAATCGCAACGCGATCTCCC
1 AAAATCGCAACGCGAT-TCAG
17417 AAGAATCGCAACGCGA-T-AG
1 AA-AATCGCAACGCGATTCAG
17436 AAAATCGC-ACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
17455 AGAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
17475 AAAATCGCAACGCGATTCAG
1 AAAATCGCAACGCGATTCAG
*
17495 AAAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
17515 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* * *
17535 AGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGATTCAG
*
17555 AAAATCGCAACACGATTCCA-
1 AAAATCGCAACGCGATT-CAG
*
17575 AGAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* * *
17595 AGAATCGCAATGCGATTAAG
1 AAAATCGCAACGCGATTCAG
*
17615 AAAATCGCAACACGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
17635 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
17655 -AAATCGCAACGCGATTCCAG
1 AAAATCGCAACGCGATT-CAG
*
17675 --AATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
17693 -AAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
17712 AGAATCGCAACGCGATTAAG
1 AAAATCGCAACGCGATTCAG
17732 -AAATCGCAACGCGA-TCAG
1 AAAATCGCAACGCGATTCAG
17750 AAAAT
1 AAAAT
17755 GAGTAATCTT
Statistics
Matches: 382, Mismatches: 43, Indels: 66
0.78 0.09 0.13
Matches are distributed among these distances:
17 7 0.02
18 15 0.04
19 134 0.35
20 192 0.50
21 6 0.02
22 25 0.07
23 1 0.00
24 1 0.00
25 1 0.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:17571 original size:60 final size:58
Alignment explanation
Indices: 17379--17746 Score: 466
Period size: 60 Copynumber: 6.2 Consensus size: 58
17369 ATATTCCAAG
*
17379 AATCGCAATGCGATTAGAGAATCGCAACGCGATCTCCCAAGAATCGCAACGCGA-T-AGAA
1 AATCGCAACGCGATTA-AGAATCGCAACGCGAT-T-CCAAGAATCGCAACGCGATTAAGAA
* *
17438 AATCGC-ACGCGATTCCAAGAATCGCAACGCGATT-CAGAAAATCGCAACGCGATTCAGAA
1 AATCGCAACGCGATT--AAGAATCGCAACGCGATTCCA-AGAATCGCAACGCGATTAAGAA
*
17497 AATCGCAACGCGATTAAGAAAATCGCAACGCGATTCCAAGAATCGCAATGCGATTAAGAA
1 AATCGCAACGCGATTAAG--AATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAA
* *
17557 AATCGCAACACGATTCCAAGAATCGCAACGCGATTCCAAGAATCGCAATGCGATTAAGAA
1 AATCGCAACGCGATT--AAGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAA
* *
17617 AATCGCAACACGATTCCAAGAATCGCAACGCGATT--AAGAAATCGCAACGCGATTCCAG--
1 AATCGCAACGCGATT--AAGAATCGCAACGCGATTCCAAG-AATCGCAACGCGATT-AAGAA
17675 AATCGCAACGCGATTAAGAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAG-A
1 AATCGCAACGCGATTAAG-AATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAA
17733 AATCGCAACGCGAT
1 AATCGCAACGCGAT
17747 CAGAAAATGA
Statistics
Matches: 282, Mismatches: 10, Indels: 35
0.86 0.03 0.11
Matches are distributed among these distances:
56 5 0.02
57 31 0.11
58 58 0.21
59 49 0.17
60 134 0.48
61 2 0.01
62 3 0.01
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (58 bp):
AATCGCAACGCGATTAAGAATCGCAACGCGATTCCAAGAATCGCAACGCGATTAAGAA
Found at i:18071 original size:19 final size:19
Alignment explanation
Indices: 18026--18071 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
18016 TTCAATTACT
18026 TATGA-TAAATGTTATTAA
1 TATGATTAAATGTTATTAA
**
18044 TATTTTTAAATAGTT-TTAA
1 TATGATTAAAT-GTTATTAA
18063 TATGATTAA
1 TATGATTAA
18072 GGATTAAGCG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
18 3 0.14
19 16 0.73
20 3 0.14
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (19 bp):
TATGATTAAATGTTATTAA
Found at i:18273 original size:6 final size:6
Alignment explanation
Indices: 18262--18288 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
18252 TCTCGTCTCG
18262 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
18289 AATACGTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:18416 original size:20 final size:20
Alignment explanation
Indices: 18391--18550 Score: 218
Period size: 20 Copynumber: 7.8 Consensus size: 20
18381 CTCATTTTCT
18391 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
18411 GAATCGCGTTGCGATTTTCTT-
1 GAATCGCGTTGCGA--TTCTTG
18432 -AATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
18451 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
18471 GAATCGCGTTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
18491 GAAGATCGCGTTGCGATTCTCT-
1 G-A-ATCGCGTTGCGATTCT-TG
* *
18513 TAATCGCATTGCGATTCTTG
1 GAATCGCGTTGCGATTCTTG
18533 GAATATCGCGTTGCGATT
1 G-A-ATCGCGTTGCGATT
18551 TTCTTTTGAC
Statistics
Matches: 126, Mismatches: 4, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
18 5 0.04
19 1 0.01
20 82 0.65
21 3 0.02
22 34 0.27
23 1 0.01
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (20 bp):
GAATCGCGTTGCGATTCTTG
Found at i:18439 original size:40 final size:41
Alignment explanation
Indices: 18384--18631 Score: 255
Period size: 40 Copynumber: 6.1 Consensus size: 41
18374 GAATTTACTC
*
18384 ATTTTCTGAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGATATCGCGTTGCG
18424 ATTTTCTTAATCGCGTTGCGATTCTTGGA-ATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGATATCGCGTTGCG
*
18464 A--TTCTTGGAATCGCGTTGCGATTCTTGGAAGATCGCGTTGCG
1 ATTTTCTT--AATCGCGTTGCGATTCTTGG-ATATCGCGTTGCG
* *
18506 ATTCTCTTAATCGCATTGCGATTCTTGGAATATCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGG-ATATCGCGTTGCG
* ** * *
18548 ATTTTCTT--TTGACCGTTGCGATT-TT-CTTTTCAACGTTGCG
1 ATTTTCTTAATCG--CGTTGCGATTCTTGGATATC-GCGTTGCG
* * *
18588 ATTTTCTAAATCGCGTTGCGATT-TT-TATTTCGCGTTGCG
1 ATTTTCTTAATCGCGTTGCGATTCTTGGATATCGCGTTGCG
18627 ATTTT
1 ATTTT
18632 GTTGGTCATT
Statistics
Matches: 181, Mismatches: 16, Indels: 23
0.82 0.07 0.10
Matches are distributed among these distances:
38 5 0.03
39 15 0.08
40 92 0.51
41 3 0.02
42 62 0.34
44 4 0.02
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (41 bp):
ATTTTCTTAATCGCGTTGCGATTCTTGGATATCGCGTTGCG
Found at i:18604 original size:20 final size:20
Alignment explanation
Indices: 18384--18631 Score: 159
Period size: 20 Copynumber: 12.2 Consensus size: 20
18374 GAATTTACTC
*
18384 ATTTTCTGAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
18404 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
*
18424 ATTTTCTTAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
18444 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
**
18464 ATTCTT-GGAATCGCGTTGCG
1 ATT-TTCTAAATCGCGTTGCG
**
18484 ATTCTTGGAAGATCGCGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
* * *
18506 ATTCTCTTAATCGCATTGCG
1 ATTTTCTAAATCGCGTTGCG
**
18526 ATTCTTGGAATATCGCGTTGCG
1 ATT-TTCTAA-ATCGCGTTGCG
* *
18548 ATTTTCT--TTTGACCGTTGCG
1 ATTTTCTAAATCG--CGTTGCG
** *
18568 ATTTTCT-TTTCAACGTTGCG
1 ATTTTCTAAATC-GCGTTGCG
18588 ATTTTCTAAATCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
**
18608 ATTTT-TATTTCGCGTTGCG
1 ATTTTCTAAATCGCGTTGCG
18627 ATTTT
1 ATTTT
18632 GTTGGTCATT
Statistics
Matches: 189, Mismatches: 27, Indels: 25
0.78 0.11 0.10
Matches are distributed among these distances:
18 2 0.01
19 19 0.10
20 125 0.66
21 16 0.08
22 27 0.14
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
ATTTTCTAAATCGCGTTGCG
Found at i:19568 original size:18 final size:19
Alignment explanation
Indices: 19545--19586 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
19535 CAGTAATCCT
19545 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
19563 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
19583 ATTC
1 ATTC
19587 TGTGAACCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.14
19 3 0.14
20 16 0.73
ACGTcount: A:0.24, C:0.29, G:0.10, T:0.38
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:23625 original size:31 final size:30
Alignment explanation
Indices: 23589--23654 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
23579 TATGTTTTTG
* *
23589 TCACTTATATTATTGATTTATTAAATTTTAA
1 TCACTTACATTATCGA-TTATTAAATTTTAA
* * *
23620 TCACTTACGTTATCGATTGTTATATTTTAA
1 TCACTTACATTATCGATTATTAAATTTTAA
23650 TCACT
1 TCACT
23655 GAACCATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (30 bp):
TCACTTACATTATCGATTATTAAATTTTAA
Found at i:23781 original size:30 final size:30
Alignment explanation
Indices: 23745--23813 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
23735 ATAGAATAAT
* * *
23745 AATTTGACTTTAAACTTTAAATAAAGTATC
1 AATTTGACCTTAAACTATAAATAAAATATC
* *
23775 ATTTTGACCTTAAACTATAGATAAAATATC
1 AATTTGACCTTAAACTATAAATAAAATATC
23805 AATTTGACC
1 AATTTGACC
23814 CCTAAATTCG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.38
Consensus pattern (30 bp):
AATTTGACCTTAAACTATAAATAAAATATC
Found at i:24446 original size:4 final size:4
Alignment explanation
Indices: 24437--24465 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
24427 AAAATGCAAA
24437 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG A
24466 GTAAACAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:25524 original size:14 final size:14
Alignment explanation
Indices: 25507--25533 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25497 TAGCTTTAAG
25507 CTCAAGCTCAAGCT
1 CTCAAGCTCAAGCT
25521 CTCAAGCTCAAGC
1 CTCAAGCTCAAGC
25534 ATTGCATTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (14 bp):
CTCAAGCTCAAGCT
Found at i:34462 original size:23 final size:23
Alignment explanation
Indices: 34418--34462 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34408 TTAAATAAAC
*
34418 GAGATAAAATTATAAATTTTTAA
1 GAGATAAAATTATAAAATTTTAA
34441 GAGATCAAAATTA-AAAATTTTA
1 GAGAT-AAAATTATAAAATTTTA
34463 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (23 bp):
GAGATAAAATTATAAAATTTTAA
Found at i:34892 original size:16 final size:17
Alignment explanation
Indices: 34859--34896 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
34849 TCTCCTAAAA
34859 ATTTTAAATTCTTATAT
1 ATTTTAAATTCTTATAT
* *
34876 ATTTT-AATTTTTTTAT
1 ATTTTAAATTCTTATAT
34892 ATTTT
1 ATTTT
34897 CTATTGAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTAAATTCTTATAT
Found at i:36957 original size:24 final size:26
Alignment explanation
Indices: 36930--36980 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
36920 ATTTTTTAAG
36930 AATGTCAAT-TT-TTTTTAAAAAAAT
1 AATGTCAATATTATTTTTAAAAAAAT
* *
36954 AATGTTAATATTATTTTTAAAATAAT
1 AATGTCAATATTATTTTTAAAAAAAT
36980 A
1 A
36981 TTAATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
25 2 0.09
26 13 0.57
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (26 bp):
AATGTCAATATTATTTTTAAAAAAAT
Found at i:36979 original size:23 final size:23
Alignment explanation
Indices: 36949--36992 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36939 TTTTTTTAAA
*
36949 AAAATAATGTTAATATTATTTTT
1 AAAATAATATTAATATTATTTTT
*
36972 AAAATAATATTAATGTTATTT
1 AAAATAATATTAATATTATTT
36993 CATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
AAAATAATATTAATATTATTTTT
Found at i:48546 original size:132 final size:132
Alignment explanation
Indices: 48309--48560 Score: 418
Period size: 132 Copynumber: 1.9 Consensus size: 132
48299 TATTTTTTGC
*
48309 AAAATGGATTTAATTATTTATATGTCGATAGTAACTTTTCTGGATGGAAATCTTTGGCATTGGTT
1 AAAATGGATTTAATTATTTATATGACGATAGTAACTTTTCTGGATGGAAATCTTTGGCATTGGTT
* * *
48374 TCTATACAAATTACCGAGTTGTTTAAGTTTGATATCCTCTGTTGCTTGACATTCTTTTTTACTTA
66 TCTATACAAATTACCAAGTTGTTTAAGCTTGATATCCTCTGTTGCTCGACATTCTTTTTTACTTA
48439 TA
131 TA
48441 AAAATGGATTTAATTATTTATATGACGATAGTAACTTTTCT-GATGGTAAA-CTTTGGCAATTGG
1 AAAATGGATTTAATTATTTATATGACGATAGTAACTTTTCTGGATGG-AAATCTTTGGC-ATTGG
* *
48504 TTTTTATACAAATTACCAAGTTGTTTAAGCTTGATATCCTCTGTTGCTCGACTTTCT
64 TTTCTATACAAATTACCAAGTTGTTTAAGCTTGATATCCTCTGTTGCTCGACATTCT
48561 AGTTCATTTT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
131 12 0.11
132 100 0.89
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (132 bp):
AAAATGGATTTAATTATTTATATGACGATAGTAACTTTTCTGGATGGAAATCTTTGGCATTGGTT
TCTATACAAATTACCAAGTTGTTTAAGCTTGATATCCTCTGTTGCTCGACATTCTTTTTTACTTA
TA
Found at i:50125 original size:33 final size:33
Alignment explanation
Indices: 50088--50161 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
50078 CAGTCAAGTA
* *
50088 CTAATCCTTACAGCCAACTTGAACAGCCAGATG
1 CTAATCCATACAGCCAACCTGAACAGCCAGATG
** *
50121 CTAATCCATATGGCCAACCTGCACAGCCAGATG
1 CTAATCCATACAGCCAACCTGAACAGCCAGATG
50154 CTAATCCA
1 CTAATCCA
50162 CACGTCCTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.20
Consensus pattern (33 bp):
CTAATCCATACAGCCAACCTGAACAGCCAGATG
Found at i:50368 original size:33 final size:33
Alignment explanation
Indices: 50111--50382 Score: 278
Period size: 33 Copynumber: 8.2 Consensus size: 33
50101 CCAACTTGAA
* * * *
50111 CAGCCAGATGCTAATCCATATGGCCAACCTGCA
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
* * * * *
50144 CAGCCAGATGCTAATCCACACGTCCTGCCTGCA
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
* *
50177 CAGCCAAATGTTAAT-CATTACGGGCAGCCTGCT
1 CAGCCAAATGCTAATCCA-TACGGCCAGCCTGCT
* * * *
50210 CAGCCAAATGTTAATCCCTACGGGCAGCCTTCT
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
*
50243 CAGCCAAATGCTAATCCGTACGGCCAGCCTGC-
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
* * * * *
50275 CGAGGCAAAAGCTAATCCTTACTGCCAGCCTGCA
1 C-AGCCAAATGCTAATCCATACGGCCAGCCTGCT
* * *
50309 CAGCCAAATGTTAATCCCTACGGCCAGCCTGTT
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
* *
50342 CAGCCAAATGCTATTCCATACGGCCAGCCTACT
1 CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
50375 CAGCCAAA
1 CAGCCAAA
50383 CCAGCGTACA
Statistics
Matches: 201, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
32 3 0.01
33 196 0.98
34 2 0.01
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (33 bp):
CAGCCAAATGCTAATCCATACGGCCAGCCTGCT
Found at i:50461 original size:33 final size:32
Alignment explanation
Indices: 50392--50467 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
50382 ACCAGCGTAC
* **
50392 ACAGCCCAGTGCTAATATATACTACCAGCCTGT
1 ACAGCCAAGTGCTAATATATACTA-CAGCCCAT
*
50425 ACAGCTAAGTGCTAATCCATATACT-CAGCCCAT
1 ACAGCCAAGTGCTAAT--ATATACTACAGCCCAT
50458 ACAGCCAAGT
1 ACAGCCAAGT
50468 TCAAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 29 0.81
35 7 0.19
ACGTcount: A:0.33, C:0.30, G:0.14, T:0.22
Consensus pattern (32 bp):
ACAGCCAAGTGCTAATATATACTACAGCCCAT
Found at i:51329 original size:33 final size:33
Alignment explanation
Indices: 51292--51497 Score: 268
Period size: 33 Copynumber: 6.2 Consensus size: 33
51282 CATGGGAATC
* *
51292 GGGATGAACAACACGGGCATGAATCCAGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
* * *
51325 GGGATGAACAATACGGGCATGAACCAAGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
* *
51358 GGGATGAACAATATGGGCATGAACCCTGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
* *
51391 GGGATGAATAACATGGGCATGAACCCTGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
* **
51424 GGGATGAATAACATGGAAATGAACCCAGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
* * * *
51457 AGGATGAACAACATGGGTATGAGCTCAGGCATG
1 GGGATGAACAACATGGGCATGAACCCAGGCATG
51490 GGGATGAA
1 GGGATGAA
51498 TATGGGAATG
Statistics
Matches: 155, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 155 1.00
ACGTcount: A:0.34, C:0.17, G:0.33, T:0.16
Consensus pattern (33 bp):
GGGATGAACAACATGGGCATGAACCCAGGCATG
Found at i:51348 original size:15 final size:15
Alignment explanation
Indices: 51322--51381 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
51312 GAATCCAGGC
*
51322 ATGGGGATGAACAAT
1 ATGGGCATGAACAAT
* *
51337 ACGGGCATGAACCAAGGC
1 ATGGGCATGAA-CAA--T
*
51355 ATGGGGATGAACAAT
1 ATGGGCATGAACAAT
51370 ATGGGCATGAAC
1 ATGGGCATGAAC
51382 CCTGGCATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
15 20 0.57
16 3 0.09
17 3 0.09
18 9 0.26
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (15 bp):
ATGGGCATGAACAAT
Found at i:51407 original size:15 final size:15
Alignment explanation
Indices: 51387--51439 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
51377 TGAACCCTGG
51387 CATGGGGATGAATAA
1 CATGGGGATGAATAA
* **
51402 CATGGGCATGAACCCTGG
1 CATGGGGATGAA---TAA
51420 CATGGGGATGAATAA
1 CATGGGGATGAATAA
51435 CATGG
1 CATGG
51440 AAATGAACCC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 17 0.59
18 12 0.41
ACGTcount: A:0.32, C:0.15, G:0.34, T:0.19
Consensus pattern (15 bp):
CATGGGGATGAATAA
Found at i:54297 original size:20 final size:21
Alignment explanation
Indices: 54255--54307 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
54245 TCCTACAAAA
*
54255 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAATTATT
54275 AATAATAATAAATAAATTA-T
1 AATAATAATAAATAAATTATT
54295 AATAAT-ATAAATA
1 AATAATAATAAATA
54308 TAAAACCCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 7 0.23
20 12 0.39
21 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAATAATAAATAAATTATT
Found at i:54715 original size:36 final size:36
Alignment explanation
Indices: 54666--54770 Score: 158
Period size: 36 Copynumber: 2.9 Consensus size: 36
54656 AGGTTTTTTC
*
54666 GTTTCAAGAGAAACTGTCTCAAGGGAGGAAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGGAAAAATTT
*
54702 GTTTCAAGGGAAACTGTCTCAAGAG-GGACAAAATTT
1 GTTTCAAGAGAAACTGTCTCAAGAGAGGA-AAAATTT
* *
54738 GTTTCAAGAGAAACCGTCTCAAGAGAGGCAAAA
1 GTTTCAAGAGAAACTGTCTCAAGAGAGGAAAAA
54771 CTTAGTTTTG
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 3 0.05
36 57 0.92
37 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (36 bp):
GTTTCAAGAGAAACTGTCTCAAGAGAGGAAAAATTT
Found at i:55133 original size:106 final size:106
Alignment explanation
Indices: 54899--56722 Score: 2969
Period size: 106 Copynumber: 17.2 Consensus size: 106
54889 CCCTTCTTCG
* * *
54899 TGAAGTTGA-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * * *
54963 CTTGA--CCAATATCCTTTGCTATGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * *
55002 TGAAATT-AGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCGCGAAGTTGAACTTGTGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
55066 TCTGGAGTCCAATATCCTTTGCTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
55108 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
55173 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
55214 TGAAATTGAGAAGTTGTTTGTTGAAAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
55279 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAACTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
55320 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
55385 CTGGAGTCCAATGTCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
55426 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
55491 CTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
55532 TGAAATT-AGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTG
1 TGAAATTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
55596 TCGGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
*
55638 TGAAATTGGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
55703 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * * *
55744 TGAAATCGAGAA-ATGTTTGTTGACAACCAGTGGTCCATTCGTCGTGAAGTTGAACTTGCGTTAT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
55808 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
55849 TGAATTTGAGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
55914 CTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
55955 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
56020 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * * * *
56061 TGAATTTGAGAAGTTGTTTATTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCATTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
56126 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
56167 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * *
56232 CTGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
56273 TGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
56338 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
56379 AGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* * * *
56444 CAGGAGTCCAATATCCTTCGCTATGAAGTTGAAATTGGCTT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
56485 TGAAATTGAGAAGTTGGTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
56550 CTGGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* * *
56591 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGATCCCTTCGTCGTGAAGTTGAACATACGTTGT
1 TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
56656 CTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTC
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
* *
56697 TGAAATTG-GAAAGTTATTTATTGACA
1 TGAAATTGAG-AAGTTGTTTGTTGACA
56723 GACAACTTTT
Statistics
Matches: 1612, Mismatches: 100, Indels: 15
0.93 0.06 0.01
Matches are distributed among these distances:
102 1 0.00
103 6 0.00
104 55 0.03
105 100 0.06
106 1449 0.90
107 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
TGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC
Found at i:59505 original size:17 final size:17
Alignment explanation
Indices: 59479--59511 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59469 TGCAAACGAT
*
59479 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
59496 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
59512 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:62147 original size:20 final size:21
Alignment explanation
Indices: 62105--62157 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
62095 TCCTACAAAA
*
62105 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAATTATT
62125 AATAATAATAAATAAATTA-T
1 AATAATAATAAATAAATTATT
62145 AATAAT-ATAAATA
1 AATAATAATAAATA
62158 TAAAACCCGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 7 0.23
20 12 0.39
21 12 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAATAATAAATAAATTATT
Found at i:75437 original size:29 final size:32
Alignment explanation
Indices: 75401--75464 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
75391 TTAAGTTTTT
*
75401 ATATAATAAATACAA-ATAT-TT-TTTTAAAA
1 ATATAATAAATAAAACATATATTGTTTTAAAA
75430 ATATAATAAATAAAACATATAATTGTTTTAAAA
1 ATATAATAAATAAAACATAT-ATTGTTTTAAAA
75463 AT
1 AT
75465 CAAATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 14 0.47
30 4 0.13
32 2 0.07
33 10 0.33
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (32 bp):
ATATAATAAATAAAACATATATTGTTTTAAAA
Found at i:75720 original size:22 final size:22
Alignment explanation
Indices: 75668--75710 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
75658 AATTTATTAG
* *
75668 TATGAATTGATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
75690 TATGGATTAATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
75711 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:75726 original size:54 final size:55
Alignment explanation
Indices: 75636--75759 Score: 214
Period size: 54 Copynumber: 2.3 Consensus size: 55
75626 TGGTGCAGAC
*
75636 ATGGATTGATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
1 ATGGATTAATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
75691 ATGGATTAATTTATTTT-AAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
1 ATGGATTAATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
* *
75745 ATGAATTTATTTATT
1 ATGGATTAATTTATT
75760 ATTGTAGTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
54 50 0.76
55 16 0.24
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (55 bp):
ATGGATTAATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAAT
Found at i:75797 original size:80 final size:78
Alignment explanation
Indices: 75690--76035 Score: 298
Period size: 80 Copynumber: 4.3 Consensus size: 78
75680 TATTTTAAAA
*
75690 TATGGATTAATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT-GAATTTA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATAGAATTTA
75754 TTTATTATTGTAGTTG
65 TTTATTATT-TA-TTG
*
75770 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATAGA---AT
*
75835 TTATTTTAAATAATTTATTAG
62 TTA-TTT--ATTATTTATT-G
* * *
75856 TATGGATTGATTTATTTT--A-AA---A-TA-TA-GATTGATTTATTTAAATAATTATTAGTATG
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAA-AA-TA-TAGAATT
* * ***
75912 GATTGATTTATTTAAAA
63 TATTTA-TTATTTATTG
*
75929 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATAGA---AT
*
75994 TTATTTTAAATAATTTATTAG
62 TTA-TTT--ATTATTTATT-G
76015 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
76036 ATATGAATTG
Statistics
Matches: 214, Mismatches: 23, Indels: 52
0.74 0.08 0.18
Matches are distributed among these distances:
73 19 0.09
74 6 0.03
75 3 0.01
76 19 0.09
77 3 0.01
78 4 0.02
79 5 0.02
80 60 0.28
81 6 0.03
82 2 0.01
83 20 0.09
84 8 0.04
85 11 0.05
86 43 0.20
87 5 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (78 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATAGAATTTAT
TTATTATTTATTG
Found at i:75811 original size:32 final size:32
Alignment explanation
Indices: 75769--75876 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 32
75759 TATTGTAGTT
75769 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
75801 GTATGTATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
75824 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
75855 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
75877 ATATAGATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
22 13 0.20
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 35 0.55
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:75818 original size:22 final size:22
Alignment explanation
Indices: 75802--75844 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
75792 AATTTATTAG
*
75802 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
75824 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
75845 TAATTTATTA
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:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:75839 original size:54 final size:54
Alignment explanation
Indices: 75770--76220 Score: 587
Period size: 54 Copynumber: 8.3 Consensus size: 54
75760 ATTGTAGTTG
*
75770 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
75824 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
*
75878 TATAGATTGATTTA-TTTAAATAA-TTATTAGTATGGATTGATTTA-TTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
75929 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
**
75983 TACAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
* *
76037 TATGAATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---T-A---A--AA
* * ** * * *
76101 TATGGATTGATTTATTTTAAAATGGATTGATTA-T-TTAAATAATTTA--TT--AG
1 TATGGATTGATTTATTTT-AAAT-AATTTATTAGTATGGATTGATTTATTTTAAAA
* * *
76151 TATCGATTGATTTATTTTAAGTAATTTATTAGTATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
76205 TATGGATTGATTTATT
1 TATGGATTGATTTATT
76221 ATTGTAGTTG
Statistics
Matches: 349, Mismatches: 27, Indels: 42
0.83 0.06 0.10
Matches are distributed among these distances:
48 7 0.02
49 4 0.01
50 26 0.07
51 20 0.06
52 32 0.09
53 30 0.09
54 183 0.52
55 3 0.01
58 2 0.01
59 1 0.00
61 1 0.00
62 1 0.00
64 27 0.08
65 5 0.01
66 7 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAA
Found at i:75877 original size:134 final size:136
Alignment explanation
Indices: 75636--75930 Score: 463
Period size: 134 Copynumber: 2.2 Consensus size: 136
75626 TGGTGCAGAC
75636 ATGGATTGATTTATTTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTAAT
1 ATGGATTGATTTATTTT-AAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTAAT
* *
75701 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATAT-GA-ATTTATTT-ATTATT
65 TTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATATTTATTTAAATAAT
75763 GTAGTT-GT
130 -TA-TTAGT
* *
75771 ATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATT
1 ATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTAATT
*
75836 TATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTAAATAA
66 TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGA-T-ATTTATTTAAATAA
75901 TTATTAGT
129 TTATTAGT
*
75909 ATGGATTGATTTATTTAAAATA
1 ATGGATTGATTTATTTTAAATA
75931 TGGATTGATT
Statistics
Matches: 148, Mismatches: 6, Indels: 9
0.91 0.04 0.06
Matches are distributed among these distances:
134 90 0.61
135 19 0.13
137 2 0.01
138 33 0.22
139 4 0.03
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.52
Consensus pattern (136 bp):
ATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTAATT
TATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATAGATATTTATTTAAATAATT
ATTAGT
Found at i:75885 original size:22 final size:22
Alignment explanation
Indices: 75860--76003 Score: 81
Period size: 22 Copynumber: 5.8 Consensus size: 22
75850 TATTAGTATG
75860 GATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAAATATA
*
75882 GATTGATTTATTTAAATAATTATTA
1 GATTGATTTATTTTAA-AA-TA-TA
* * *
75907 GTATGGATTGATTTATTTAAAATATG
1 G-ATTGATT--TAT-TTTAAAATATA
75933 GATTGATTTATTTTAAATAATTTATTA
1 GATTGATTTATTTT-AA-AA--TA-TA
* *
75960 GTATGGATTGATTTATTTTAAAATACA
1 G-ATTGA-T---TTATTTTAAAATATA
75987 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
76004 TAATTTATTA
Statistics
Matches: 94, Mismatches: 11, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
22 28 0.30
23 6 0.06
24 4 0.04
25 10 0.11
26 14 0.15
27 6 0.06
28 10 0.11
29 5 0.05
30 2 0.02
31 2 0.02
32 7 0.07
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.50
Consensus pattern (22 bp):
GATTGATTTATTTTAAAATATA
Found at i:75897 original size:21 final size:21
Alignment explanation
Indices: 75860--75951 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
75850 TATTAGTATG
75860 GATTGATTTATTTTAAAATATA
1 GATTGATTTA-TTTAAAATATA
75882 GATTGATTTATTTAAATAATTATTA
1 GATTGATTTATTT-AA-AA-TA-TA
* *
75907 GTATGGATTGATTTATTTAAAATATG
1 G-ATTGA----TTTATTTAAAATATA
*
75933 GATTGATTTATTTTAAATA
1 GATTGATTTATTTAAAATA
75952 ATTTATTAGT
Statistics
Matches: 57, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
21 15 0.26
22 12 0.21
23 2 0.04
24 2 0.04
25 7 0.12
26 6 0.11
27 2 0.04
28 2 0.04
29 2 0.04
30 7 0.12
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (21 bp):
GATTGATTTATTTAAAATATA
Found at i:75956 original size:159 final size:164
Alignment explanation
Indices: 75770--76220 Score: 591
Period size: 159 Copynumber: 2.8 Consensus size: 164
75760 ATTGTAGTTG
*
75770 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTGAT
75835 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTTAAATA
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GATTGATTTATTTAAATA
*
75900 A-TTATTAGTATGGATTGATTTA-TT-T-A-A-AA
130 ATTTATTAATATGGATTGATTTATTTATAATATAA
* *
75929 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTGAT
75994 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTATTTTAAAT
66 TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG-ATTGATTTA-TTTAAAT
76059 AATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAA
129 AATTTATTAATATGGATTGATTTA-TTT--ATAA--TA-TAA
** * ** * * * *
76101 TATGGATTGATTTATTTT-AA-AATGGATT-G-AT-TATTTAAATAATTTATTAGTATCGATTGA
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTA-AAATATAGATTGA
* *
76161 TTTATTTTAAGTAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATT
65 TTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATAT-GATTGATTTATT
76221 ATTGTAGTTG
Statistics
Matches: 259, Mismatches: 17, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
158 1 0.00
159 117 0.45
160 9 0.03
161 20 0.08
163 2 0.01
166 1 0.00
167 13 0.05
168 65 0.25
169 2 0.01
170 7 0.03
171 2 0.01
172 20 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (164 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATAGATTGAT
TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGATTGATTTATTTAAATAA
TTTATTAATATGGATTGATTTATTTATAATATAA
Found at i:75967 original size:32 final size:32
Alignment explanation
Indices: 75929--76121 Score: 219
Period size: 32 Copynumber: 6.7 Consensus size: 32
75919 TTATTTAAAA
75929 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
75961 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
75985 CA--GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
76015 TATGGATTGATTTATTTT-AA-AA--TA-T-G
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
76041 -A---ATTGATTTATTTTAAATAATTTATTAA
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
76069 TATGGATTGATTTATTTTAAATAATTTATTAA
1 TATGGATTGATTTATTTTAAATAATTTATTAG
76101 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
76122 ATGGATTGAT
Statistics
Matches: 138, Mismatches: 3, Indels: 40
0.76 0.02 0.22
Matches are distributed among these distances:
22 27 0.20
23 2 0.01
24 4 0.03
25 5 0.04
26 4 0.03
27 2 0.01
28 3 0.02
29 5 0.04
30 4 0.03
31 2 0.01
32 80 0.58
ACGTcount: A:0.37, C:0.01, G:0.11, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:76026 original size:213 final size:218
Alignment explanation
Indices: 75774--76220 Score: 617
Period size: 213 Copynumber: 2.1 Consensus size: 218
75764 TAGTTGTATG
* *
75774 GATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
*
75839 TTTAAATAATTTATTAGTATGGATTGATTTATTTT-A-AA-A-T-ATA-GATTGATTTA-TTT-A
66 TTTAAATAATTTATTAATATGGATTGATTTATTTTAATAATATTAATAGGATTGATTTATTTTAA
* * * *
75896 AAT-AATT-ATTAGTATGGATTGATTTATTTAAAATATGGATTGATTTATTTTAAATAATTTATT
131 AATGAATTGATTA-T-TGAAATAATTTA-TT--AATATCGATTGATTTATTTTAAATAATTTATT
*
75959 AGTATGGATTGATTTATTTTAAAATACA
191 AGTATAGATTGATTTATTTTAAAATACA
75987 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
76052 TTTAAATAATTTATTAATATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATT
66 TTTAAATAATTTATTAATATGGATTGATTTATTTT-AATAA--TATTAATA-GGATTGATTTATT
* * * *
76117 TTAAAATGGATTGATTATTTAAATAATTTATTAGTATCGATTGATTTATTTTAAGTAATTTATTA
127 TTAAAATGAATTGATTATTGAAATAATTTATTAATATCGATTGATTTATTTTAAATAATTTATTA
**
76182 GTATAGATTGATTTATTTTAAAATATG
192 GTATAGATTGATTTATTTTAAAATACA
76209 GATTGATTTATT
1 GATTGATTTATT
76221 ATTGTAGTTG
Statistics
Matches: 206, Mismatches: 14, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
213 97 0.47
215 1 0.00
216 2 0.01
219 1 0.00
220 1 0.00
221 3 0.01
222 66 0.32
223 10 0.05
224 5 0.02
225 12 0.06
226 4 0.02
227 4 0.02
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (218 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTGATTTAT
TTTAAATAATTTATTAATATGGATTGATTTATTTTAATAATATTAATAGGATTGATTTATTTTAA
AATGAATTGATTATTGAAATAATTTATTAATATCGATTGATTTATTTTAAATAATTTATTAGTAT
AGATTGATTTATTTTAAAATACA
Found at i:76027 original size:86 final size:84
Alignment explanation
Indices: 75929--76283 Score: 279
Period size: 86 Copynumber: 4.2 Consensus size: 84
75919 TTATTTAAAA
* ** *
75929 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACAGATTGAT
1 TATGGATTGATTTATTTTAAATAATTAATTAGTATTAATTAATTTA-TTTAAAATAC-GATTGAT
75994 TTATTTTAAATAATTTATTAG
64 TTATTTTAAATAATTTATTAG
* * * * *
76015 TATGGATTGATTTATTTTAAAATATGAATTGATTTA-TTTTAAATAATTTA-TTAATAT-GGATT
1 TATGGATTGATTTATTTT--AA-AT-AATT-AATTAGTATTAATTAATTTATTTAAAATACGATT
*
76077 GATTTATTTTAAATAATTTATTAA
61 GATTTATTTTAAATAATTTATTAG
* * * **
76101 TATGGATTGATTTATTTTAAAATGGATTGATTA-T-TTAAATAATTTA-TTAGTAT-CGATTGAT
1 TATGGATTGATTTATTTT-AAAT-AATTAATTAGTATTAATTAATTTATTTAAAATACGATTGAT
*
76162 TTATTTTAAGTAATTTATTAG
64 TTATTTTAAATAATTTATTAG
* ** * * * *
76183 TATAGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATT-ATTGTAGTT---GTATGAATTGA
1 TATGGATTGATTTATTTTAAATA-ATTAATTAGTATTAATTAATT-TATTTAAAATACG-ATTGA
76241 TTTATTTTAAATAATTTATTAG
63 TTTATTTTAAATAATTTATTAG
* *
76263 TATGAATTTATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
76284 ATATGAATTG
Statistics
Matches: 229, Mismatches: 28, Indels: 30
0.80 0.10 0.10
Matches are distributed among these distances:
78 1 0.00
79 4 0.02
80 56 0.24
81 5 0.02
82 61 0.27
83 4 0.02
84 6 0.03
85 3 0.01
86 63 0.28
88 8 0.03
89 2 0.01
90 13 0.06
91 3 0.01
ACGTcount: A:0.36, C:0.01, G:0.12, T:0.52
Consensus pattern (84 bp):
TATGGATTGATTTATTTTAAATAATTAATTAGTATTAATTAATTTATTTAAAATACGATTGATTT
ATTTTAAATAATTTATTAG
Found at i:76136 original size:19 final size:20
Alignment explanation
Indices: 75909--76136 Score: 99
Period size: 22 Copynumber: 12.8 Consensus size: 20
75899 AATTATTAGT
*
75909 ATGGATTGATTTATTTAAAA
1 ATGGATTGATTTATTTTAAA
75929 TATGGATTGATTTATTTT-AA
1 -ATGGATTGATTTATTTTAAA
**
75949 AT--A---ATTTA--TTAGT
1 ATGGATTGATTTATTTTAAA
75962 ATGGATTGATTTATTTTAAA
1 ATGGATTGATTTATTTTAAA
*
75982 ATACAGATTGATTTATTTT-AA
1 AT--GGATTGATTTATTTTAAA
**
76003 AT--A---ATTTA--TTAGT
1 ATGGATTGATTTATTTTAAA
76016 ATGGATTGATTTATTTTAAAA
1 ATGGATTGATTTATTTT-AAA
*
76037 TATGAATTGATTTATTTT-AA
1 -ATGGATTGATTTATTTTAAA
*
76057 AT--A---ATTTA--TTAAT
1 ATGGATTGATTTATTTTAAA
76070 ATGGATTGATTTATTTT-AA
1 ATGGATTGATTTATTTTAAA
*
76089 AT--A---ATTTA--TTAAT
1 ATGGATTGATTTATTTTAAA
76102 ATGGATTGATTTATTTTAAA
1 ATGGATTGATTTATTTTAAA
76122 ATGGATTGA-TTATTT
1 ATGGATTGATTTATTT
76137 AAATAATTTA
Statistics
Matches: 156, Mismatches: 15, Indels: 74
0.64 0.06 0.30
Matches are distributed among these distances:
12 8 0.05
13 10 0.06
14 20 0.13
15 4 0.03
17 4 0.03
18 20 0.13
19 13 0.08
20 26 0.17
21 21 0.13
22 30 0.19
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (20 bp):
ATGGATTGATTTATTTTAAA
Found at i:76138 original size:50 final size:52
Alignment explanation
Indices: 76065--76315 Score: 181
Period size: 54 Copynumber: 4.7 Consensus size: 52
76055 AAATAATTTA
* *
76065 TTAATATGGATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATT
1 TTAAAATGGATTGATTTATTTTAAATAATTTATTAATATCGATTGATTTATT
*
76117 TTAAAATGGATTGA-TTA-TTTAAATAATTTATTAGTATCGATTGATTTATT
1 TTAAAATGGATTGATTTATTTTAAATAATTTATTAATATCGATTGATTTATT
* * * * * * * *
76167 TT-AAGT-AATTTA-TTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTAT
1 TTAAAATGGATTGATTTATTTTA-AATAATTTA--TT--AATATCGATTGATTTA-T-T
** * * *
76223 TGTAGTTGTATGAATTGATTTATTTTAAATAATTTATTAGTAT-GAATTTATTTATT
1 T-TA---AAATGGATTGATTTATTTTAAATAATTTATTAATATCG-ATTGATTTATT
*
76279 TTAAAATATGAATTGATTTATTTTAAATAATTTATTA
1 TT-AAA-ATGGATTGATTTATTTTAAATAATTTATTA
76316 TTGTAGTTGT
Statistics
Matches: 158, Mismatches: 23, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
48 7 0.04
49 6 0.04
50 40 0.25
51 3 0.02
52 15 0.09
54 44 0.28
55 2 0.01
56 5 0.03
57 3 0.02
58 12 0.08
60 2 0.01
61 1 0.01
62 12 0.08
63 6 0.04
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (52 bp):
TTAAAATGGATTGATTTATTTTAAATAATTTATTAATATCGATTGATTTATT
Found at i:76170 original size:32 final size:32
Alignment explanation
Indices: 76125--76203 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
76115 TTTTAAAATG
*
76125 GATTGA-TTA-TTTAAATAATTTATTAGTATC
1 GATTGATTTATTTTAAATAATTTATTAGTATA
*
76155 GATTGATTTATTTTAAGTAATTTATTAGTATA
1 GATTGATTTATTTTAAATAATTTATTAGTATA
76187 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
76204 ATATGGATTG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 6 0.14
31 3 0.07
32 35 0.80
ACGTcount: A:0.35, C:0.01, G:0.11, T:0.52
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATA
Found at i:76197 original size:18 final size:18
Alignment explanation
Indices: 76142--76198 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
76132 TATTTAAATA
*
76142 ATTTATTAGTATCGATTG
1 ATTTATTAGTATAGATTG
* *
76160 ATTTATT--T-TA-AGTA
1 ATTTATTAGTATAGATTG
76174 ATTTATTAGTATAGATTG
1 ATTTATTAGTATAGATTG
76192 ATTTATT
1 ATTTATT
76199 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 2 0.07
18 16 0.53
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATAGATTG
Found at i:76279 original size:22 final size:22
Alignment explanation
Indices: 76263--76305 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
76253 AATTTATTAG
*
76263 TATGAATTTATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
76285 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
76306 TAATTTATTA
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:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:76387 original size:31 final size:31
Alignment explanation
Indices: 76330--76388 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
76320 AGTTGTATAG
* *
76330 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATCTCAGTATTACAAAACTAAA
*
76361 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTACAAAACT
76389 CTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTACAAAACTAAA
Found at i:76429 original size:16 final size:16
Alignment explanation
Indices: 76408--76448 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
76398 TTAAAAAATT
76408 AGTTTATTTATATTTC
1 AGTTTATTTATATTTC
76424 AGTTTATTTATATTTC
1 AGTTTATTTATATTTC
*
76440 AGTTCATTT
1 AGTTTATTT
76449 TAGCAGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.61
Consensus pattern (16 bp):
AGTTTATTTATATTTC
Found at i:83051 original size:12 final size:12
Alignment explanation
Indices: 83034--83066 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
83024 GCAGGGAAAC
83034 AGAGAAGGAGAA
1 AGAGAAGGAGAA
*
83046 AGAGAAGGAGAG
1 AGAGAAGGAGAA
83058 AGAGAAGGA
1 AGAGAAGGA
83067 TTTTAATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (12 bp):
AGAGAAGGAGAA
Found at i:90907 original size:19 final size:19
Alignment explanation
Indices: 90883--90920 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
90873 TAATGATATC
90883 TACTAAGAAAATGAAAATT
1 TACTAAGAAAATGAAAATT
90902 TACTAAGAAAATGAAAATT
1 TACTAAGAAAATGAAAATT
90921 GAGGAAAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.11, T:0.26
Consensus pattern (19 bp):
TACTAAGAAAATGAAAATT
Found at i:94106 original size:35 final size:35
Alignment explanation
Indices: 94059--94172 Score: 138
Period size: 35 Copynumber: 3.3 Consensus size: 35
94049 AAAATAGTCC
* * * *
94059 TCAATTTCATTCTAAACCCCAATTTTTAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
* * *
94094 TCAATTTTATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
* * *
94129 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
94164 TCAATTTAA
1 TCAATTTAA
94173 GGTTTAGAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.42, C:0.19, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCTAAAATAAT
Found at i:96590 original size:22 final size:22
Alignment explanation
Indices: 96562--96603 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
96552 AAAATATCTT
*
96562 AAAAATAACAAAATCGATAGAA
1 AAAAATAACAAAATAGATAGAA
96584 AAAAATAACAAAATAGATAG
1 AAAAATAACAAAATAGATAG
96604 TGCATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (22 bp):
AAAAATAACAAAATAGATAGAA
Found at i:97622 original size:26 final size:25
Alignment explanation
Indices: 97593--97648 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
97583 CTTCTCATAT
*
97593 TTTAAAATTTAAAATTTAATCTTTA
1 TTTAAAATGTAAAATTTAATCTTTA
* * *
97618 GTTTAAAATGTAAACTTTTATTTTTA
1 -TTTAAAATGTAAAATTTAATCTTTA
97644 TTTAA
1 TTTAA
97649 TTTAGTTCTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAAAATGTAAAATTTAATCTTTA
Found at i:97848 original size:23 final size:23
Alignment explanation
Indices: 97822--97877 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
97812 TAACATTTGA
97822 TTAATTAACATTGTTT-TTGGATT
1 TTAATTAACATTGTTTATTGG-TT
* *
97845 TTAATTTACTTTGTTTGATTGGTT
1 TTAATTAACATTGTTT-ATTGGTT
97869 TTAAATTAA
1 TT-AATTAA
97878 AAGAGAGACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 14 0.52
24 4 0.15
25 9 0.33
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (23 bp):
TTAATTAACATTGTTTATTGGTT
Found at i:114965 original size:28 final size:28
Alignment explanation
Indices: 114933--114991 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
114923 AGTGGATTAA
114933 CAGTCATTATTTTTGAAGATGAAGAGAG
1 CAGTCATTATTTTTGAAGATGAAGAGAG
114961 CAGTCATTATTTTTGAAGATGAAGAGAG
1 CAGTCATTATTTTTGAAGATGAAGAGAG
114989 CAG
1 CAG
114992 GGATAGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (28 bp):
CAGTCATTATTTTTGAAGATGAAGAGAG
Found at i:118607 original size:6 final size:6
Alignment explanation
Indices: 118596--118625 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
118586 ATAGAAGAAG
118596 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
118626 TTGGTAGACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATTAAA
Done.