Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004493.1 Hibiscus syriacus cultivar Beakdansim tig00009905_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: 86187
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2087 original size:16 final size:17
Alignment explanation
Indices: 2066--2098 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2056 TATCTTCACA
*
2066 CAAGGT-CTTTTTGATT
1 CAAGGTCCTGTTTGATT
2082 CAAGGTCCTGTTTGATT
1 CAAGGTCCTGTTTGATT
2099 ATTCCACTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.18, C:0.15, G:0.21, T:0.45
Consensus pattern (17 bp):
CAAGGTCCTGTTTGATT
Found at i:9338 original size:19 final size:19
Alignment explanation
Indices: 9311--9350 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
9301 ATAAAAGATT
* *
9311 AATTTAAACATTGTATTTA
1 AATTCAAACATTGCATTTA
9330 AATTCAAACATTGCATTTA
1 AATTCAAACATTGCATTTA
9349 AA
1 AA
9351 GGTTGCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (19 bp):
AATTCAAACATTGCATTTA
Found at i:10669 original size:21 final size:21
Alignment explanation
Indices: 10645--10686 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10635 TTGTGGGGTT
10645 TTTTAATAAA-AAATATTTTTA
1 TTTTAATAAATAAAT-TTTTTA
**
10666 TTTTTTTAAATAAATTTTTTA
1 TTTTAATAAATAAATTTTTTA
10687 AAATTATCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTAATAAATAAATTTTTTA
Found at i:13339 original size:58 final size:61
Alignment explanation
Indices: 13223--13343 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 61
13213 TCCAGTCTTA
13223 AGAGGTAGGTTTGATTTTACTTTATATATATATATATGTATTGTTTAAATATGAATATTAAT
1 AGAGGTAGGTTTGATTTTAC-TTATATATATATATATGTATTGTTTAAATATGAATATTAAT
13285 AGAGGTAGGTTTGATTTTAC-T-T-TATATATATATGTATTGTTTAAATATGAATATTAAT
1 AGAGGTAGGTTTGATTTTACTTATATATATATATATGTATTGTTTAAATATGAATATTAAT
13343 A
1 A
13344 ATGAATTAAT
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
58 37 0.63
59 1 0.02
60 1 0.02
62 20 0.34
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.48
Consensus pattern (61 bp):
AGAGGTAGGTTTGATTTTACTTATATATATATATATGTATTGTTTAAATATGAATATTAAT
Found at i:21421 original size:36 final size:36
Alignment explanation
Indices: 21381--21452 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
21371 ATTATTAAAA
21381 AAATGATAAGCAGTTATATAAGCACCTCTCATCTGT
1 AAATGATAAGCAGTTATATAAGCACCTCTCATCTGT
21417 AAATGATAAGCAGTTATATAAGCACCTCTCATCTGT
1 AAATGATAAGCAGTTATATAAGCACCTCTCATCTGT
21453 TGAGTTTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (36 bp):
AAATGATAAGCAGTTATATAAGCACCTCTCATCTGT
Found at i:22547 original size:35 final size:32
Alignment explanation
Indices: 22466--22547 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 32
22456 TAAACTAATG
**
22466 TTTTATTTAAAATTT-AAGGATCAAATTGATA
1 TTTTATTTAAAATTTAAAGGATCAAATAAATA
* * *
22497 TATTATTTAATATTTAAAAGTCGATTAAATAAATA
1 TTTTATTTAAAATTT-AAAG--GATCAAATAAATA
22532 TTTTATTTAAAATTTA
1 TTTTATTTAAAATTTA
22548 TAAATTAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
31 13 0.32
33 3 0.08
34 1 0.03
35 23 0.57
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (32 bp):
TTTTATTTAAAATTTAAAGGATCAAATAAATA
Found at i:22603 original size:27 final size:28
Alignment explanation
Indices: 22544--22601 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
22534 TTATTTAAAA
** *
22544 TTTATAAATTAAATTGAAAACTATTCTT
1 TTTATAAATTAAATCAAAAACTAATCTT
22572 TTTATAAATTAAATCAAAAACTAATCTT
1 TTTATAAATTAAATCAAAAACTAATCTT
22600 TT
1 TT
22602 ATTGACATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.45
Consensus pattern (28 bp):
TTTATAAATTAAATCAAAAACTAATCTT
Found at i:22922 original size:2 final size:2
Alignment explanation
Indices: 22915--22961 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
22905 CATGAACTCC
22915 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22957 AT AT A
1 AT AT A
22962 GGTGATGAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26804 original size:21 final size:20
Alignment explanation
Indices: 26718--26875 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
26708 AAATGACCAA
**
26718 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
26737 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
26757 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
26777 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
26798 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
26819 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
26839 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
26860 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
26876 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:26866 original size:20 final size:20
Alignment explanation
Indices: 26842--27035 Score: 210
Period size: 20 Copynumber: 9.7 Consensus size: 20
26832 CGATTTTCCA
** *
26842 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
26862 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
26882 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26902 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
26922 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
26942 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26962 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26982 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
27002 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
27022 AAATCGCAACGCGA
1 AAATCGCAACGCGA
27036 TATTTAAAGC
Statistics
Matches: 149, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 148 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:27454 original size:33 final size:33
Alignment explanation
Indices: 27416--27486 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
27406 TTCACTTAGA
* * *
27416 TTTCATTTTGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
27449 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
27482 TTTCA
1 TTTCA
27487 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:27592 original size:21 final size:20
Alignment explanation
Indices: 27566--27673 Score: 86
Period size: 21 Copynumber: 5.7 Consensus size: 20
27556 TGCAGAAGAG
27566 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
27587 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
27607 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
*
27628 GCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
27642 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
*
27661 TCGCAACGCGAAA
1 TCGCAACGAGAAA
27674 CCAAAATCGC
Statistics
Matches: 69, Mismatches: 11, Indels: 15
0.73 0.12 0.16
Matches are distributed among these distances:
14 10 0.14
16 2 0.03
17 2 0.03
19 12 0.17
20 18 0.26
21 25 0.36
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.10
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:27610 original size:20 final size:21
Alignment explanation
Indices: 27564--27642 Score: 92
Period size: 21 Copynumber: 3.8 Consensus size: 21
27554 TTTGCAGAAG
*
27564 AGTCGCAACGAGATAAATGAAA
1 AGTCGCAACGAGA-GAATGAAA
*
27586 A-TCGCAACGAGAGAATG-AC
1 AGTCGCAACGAGAGAATGAAA
*
27605 TGTCGCAACGAGAGAAATGAAA
1 AGTCGCAACGAGAG-AATGAAA
27627 AG-CGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
27643 CGCAACGCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.02
20 19 0.39
21 26 0.53
22 3 0.06
ACGTcount: A:0.46, C:0.16, G:0.27, T:0.11
Consensus pattern (21 bp):
AGTCGCAACGAGAGAATGAAA
Found at i:27623 original size:41 final size:41
Alignment explanation
Indices: 27565--27642 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
27555 TTGCAGAAGA
* *
27565 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
27606 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAAT
27643 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.27, T:0.12
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAAGCGCAACGAGAGAATGACT
Found at i:27664 original size:19 final size:19
Alignment explanation
Indices: 27640--27684 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
27630 GCAACGAGAG
**
27640 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAACCAA
27659 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACCAA
27678 AATCGCA
1 AATCGCA
27685 TTGCGATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACCAA
Found at i:27702 original size:19 final size:19
Alignment explanation
Indices: 27680--27777 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
27670 GAAACCAAAA
*
27680 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
27699 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
27713 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
27732 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
27746 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
27765 TCGCGTTGCGATT
1 TCGCGTTGCGATT
27778 CTCTCGTTGC
Statistics
Matches: 61, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
14 20 0.33
16 4 0.07
17 5 0.08
19 32 0.52
ACGTcount: A:0.10, C:0.24, G:0.23, T:0.42
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:27721 original size:14 final size:14
Alignment explanation
Indices: 27702--27791 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
27692 TTTCATTTCG
27702 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
27716 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
27735 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
27749 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
27766 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
27782 CGTTGCGATT
1 CGTTGCGATT
27792 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 2 0.03
16 7 0.11
17 7 0.11
18 2 0.03
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:27731 original size:33 final size:33
Alignment explanation
Indices: 27685--27799 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
27675 CAAAATCGCA
*
27685 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
27718 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
27751 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
*
27784 TTGCGATTTTCATTTC
1 TTGCGATTGTCATTTC
27800 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
Found at i:29007 original size:19 final size:19
Alignment explanation
Indices: 28983--29112 Score: 127
Period size: 19 Copynumber: 7.3 Consensus size: 19
28973 GAGGAAGAGC
28983 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
29002 TTGCGA--TTC-TTT--CG
1 TTGCGATTTTCATTTCGCG
*
29016 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCG
*
29035 TTGCGA--TTC-TGT--CG
1 TTGCGATTTTCATTTCGCG
29049 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
**
29068 TTGCGATTTTGGTTTCGCG
1 TTGCGATTTTCATTTCGCG
* *
29087 TTGCGATTTTAAGTTTCGTG
1 TTGCGATTTTCA-TTTCGCG
29107 TTGCGA
1 TTGCGA
29113 AAGTAAACTA
Statistics
Matches: 91, Mismatches: 9, Indels: 21
0.75 0.07 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 42 0.46
20 12 0.13
ACGTcount: A:0.11, C:0.18, G:0.24, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:29019 original size:14 final size:14
Alignment explanation
Indices: 29000--29056 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
28990 TTTCATTTCG
29000 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
29014 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
29031 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
29047 CGTTGCGATT
1 CGTTGCGATT
29057 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:29025 original size:33 final size:33
Alignment explanation
Indices: 28983--29075 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
28973 GAGGAAGAGC
*
28983 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
29016 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
29049 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
29076 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:31058 original size:14 final size:14
Alignment explanation
Indices: 31039--31074 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
31029 ATTGTTTAAT
31039 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
31053 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
31067 TGATTTGT
1 TGATTTGT
31075 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:31205 original size:19 final size:19
Alignment explanation
Indices: 31181--31278 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
31171 AAAATTGACT
31181 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
31200 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
31219 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
31233 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
31252 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
31272 ATCGCAA
1 ATCGCAA
31279 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:31310 original size:53 final size:53
Alignment explanation
Indices: 31181--31297 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
31171 AAAATTGACT
31181 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
31233 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
31286 ATCGCAATGCGA
1 ATCGCAATGCGA
31298 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:33631 original size:12 final size:12
Alignment explanation
Indices: 33614--33638 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33604 TCTTCGGGGA
33614 CTTTTTCTTCTT
1 CTTTTTCTTCTT
33626 CTTTTTCTTCTT
1 CTTTTTCTTCTT
33638 C
1 C
33639 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:33847 original size:24 final size:24
Alignment explanation
Indices: 33813--33859 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
33803 CTGAAACATC
33813 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
33837 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
33860 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:34569 original size:20 final size:20
Alignment explanation
Indices: 34541--34790 Score: 261
Period size: 20 Copynumber: 12.5 Consensus size: 20
34531 AAATTTCAGT
* * *
34541 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
34561 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
34581 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
34601 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
34621 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
*
34641 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
34661 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
34681 ATTGCGATTTACCCATAT-GC
1 GTTGCGATTTACGGAT-TCGC
*
34701 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
34721 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
34741 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
34761 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
34781 GTTGCGATTT
1 GTTGCGATTT
34791 TGGAAAATCG
Statistics
Matches: 198, Mismatches: 28, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
20 197 0.99
21 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:34807 original size:21 final size:21
Alignment explanation
Indices: 34757--34876 Score: 93
Period size: 21 Copynumber: 5.8 Consensus size: 21
34747 ATTTATGTGT
* * *
34757 TCGCGTTGCGATTTT-CATAT
1 TCGCATTGCGATTTTGCAAAA
* *
34777 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGCAAAA
* * * **
34798 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGCAAAA
34819 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGCAA-AA
*
34840 TCGCGTTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGCAA-AA
*
34861 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
34877 GAAACTGATT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.20
21 66 0.80
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (21 bp):
TCGCATTGCGATTTTGCAAAA
Found at i:34850 original size:42 final size:42
Alignment explanation
Indices: 34757--34876 Score: 106
Period size: 42 Copynumber: 2.9 Consensus size: 42
34747 ATTTATGTGT
* *
34757 TCGCGTTGCG-ATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTTCATATTCGCATTGCGATTTTGCAAAA
**
34798 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTT-TCA-TATTCGCATTGCGATTTTGCAA-AA
* * *
34840 TCGCGTTGCG-ATTTTCAAGAATCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTTC-ATATTCGCATTGCGATTTTG
34877 GAAACTGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
40 1 0.02
41 15 0.24
42 44 0.70
43 3 0.05
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (42 bp):
TCGCGTTGCGAATTTTCATATTCGCATTGCGATTTTGCAAAA
Found at i:35043 original size:14 final size:14
Alignment explanation
Indices: 35024--35051 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
35014 CTCTTATAAA
35024 TATCTACACACTTT
1 TATCTACACACTTT
35038 TATCTACACACTTT
1 TATCTACACACTTT
35052 AGTGAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (14 bp):
TATCTACACACTTT
Found at i:37984 original size:37 final size:37
Alignment explanation
Indices: 37905--37989 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 37
37895 CAATTTTGTC
** *
37905 CTACTAGGATTCAAACTTTTAAAATTAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
37942 TTACTAGGATTCCAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
*
37979 CTACTAAGATT
1 CTACTAGGATT
37990 TAAATTCTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:38391 original size:14 final size:13
Alignment explanation
Indices: 38353--38410 Score: 55
Period size: 13 Copynumber: 4.2 Consensus size: 13
38343 TATTAGTCCC
38353 TTTATTTATTA-TA
1 TTTATTT-TTATTA
*
38366 TGTATATTTTATTCA
1 TTTAT-TTTTATT-A
38381 TTTATTTTTATTA
1 TTTATTTTTATTA
38394 TTTATGTTATTATTA
1 TTTAT-TT-TTATTA
38409 TT
1 TT
38411 ATATGTGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 13 0.34
14 12 0.32
15 13 0.34
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTATTTTTATTA
Found at i:38526 original size:21 final size:21
Alignment explanation
Indices: 38501--38541 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38491 ATAGTTTACT
38501 TATAAATATAATATTACTATA
1 TATAAATATAATATTACTATA
* * *
38522 TATAATTATTATTTTACTAT
1 TATAAATATAATATTACTAT
38542 TTTTTTCTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (21 bp):
TATAAATATAATATTACTATA
Found at i:38552 original size:19 final size:21
Alignment explanation
Indices: 38530--38568 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
38520 TATATAATTA
*
38530 TTATTTTAC-TATTT-TTTTC
1 TTATCTTACTTATTTATTTTC
38549 TTATCTTACTTATTTATTTT
1 TTATCTTACTTATTTATTTT
38569 ATTTTTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (21 bp):
TTATCTTACTTATTTATTTTC
Found at i:42956 original size:183 final size:183
Alignment explanation
Indices: 42648--43184 Score: 986
Period size: 183 Copynumber: 2.9 Consensus size: 183
42638 ATTAAATCCG
42648 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
42713 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGTAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
42778 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
42831 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
42896 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
42961 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
43014 CAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
43079 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
43143 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
43185 TAAACCTGAT
Statistics
Matches: 343, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
182 1 0.00
183 342 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:44404 original size:36 final size:36
Alignment explanation
Indices: 44364--44480 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
44354 ATACTTTGTC
44364 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTCATT
1 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTCATT
** * ** * ** *
44400 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTC
1 TCACTTGAGACTGTTTTTCTCGAAAGAAGATTCATT
* * *
44436 TCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TCACTTGAGACTGTTTT-TCTCGAAAGAA-G-A-TTCATT
44476 TCACT
1 TCACT
44481 CAAGGCTGTT
Statistics
Matches: 55, Mismatches: 22, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
36 39 0.71
37 7 0.13
38 1 0.02
39 1 0.02
40 7 0.13
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (36 bp):
TCACTTGAGACTGTTTTTCTCGAAAGAAGATTCATT
Found at i:44415 original size:72 final size:76
Alignment explanation
Indices: 44328--44497 Score: 219
Period size: 72 Copynumber: 2.3 Consensus size: 76
44318 GATGATTATC
* * *
44328 TCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAG
1 TCACTCAAGA-TTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAG
44390 AA-G-A-TTCATT
64 AAGGCATTTCATT
*
44400 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAA
1 TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAA
44465 GGCATTTCATT
66 GGCATTTCATT
**
44476 TCACTCAAGGCTGTTTTT-TTAA
1 TCACTCAAGATTGTTTTTCTTAA
44498 GAAGATTTTA
Statistics
Matches: 86, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
71 1 0.01
72 46 0.53
73 11 0.13
74 1 0.01
75 5 0.06
76 22 0.26
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (76 bp):
TCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCGAAAGAA
GGCATTTCATT
Found at i:44532 original size:73 final size:72
Alignment explanation
Indices: 44339--44534 Score: 177
Period size: 72 Copynumber: 2.7 Consensus size: 72
44329 CACTCAAATT
* * * * *
44339 TGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTCGAAAGAAGATTCATTTC
1 TGTTTTTCTT-AAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTCATTTC
*
44402 ACTCAAGAT
64 ACTCAAGAC
* *
44411 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAA-G-A-TTCATT
*
44476 TCACTCAAGGC
62 TCACTCAAGAC
* * * *
44487 TGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAG-TTTCCCTCGAAA
1 TGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
44535 CAGAAAATTT
Statistics
Matches: 106, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
71 1 0.01
72 37 0.35
73 27 0.25
74 16 0.15
75 3 0.03
76 22 0.21
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (72 bp):
TGTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTCATTTCAC
TCAAGAC
Found at i:44580 original size:15 final size:15
Alignment explanation
Indices: 44549--44603 Score: 76
Period size: 15 Copynumber: 3.7 Consensus size: 15
44539 AAATTTTGTC
*
44549 TCCCTTG-AGACAGTT
1 TCCCTTGAAAACA-TT
*
44564 TCTCTTGAAAACATT
1 TCCCTTGAAAACATT
44579 TCCCTTGAAAACATT
1 TCCCTTGAAAACATT
44594 TCCCTTGAAA
1 TCCCTTGAAA
44604 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
15 32 0.89
16 4 0.11
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (15 bp):
TCCCTTGAAAACATT
Found at i:44640 original size:106 final size:105
Alignment explanation
Indices: 44513--44902 Score: 590
Period size: 105 Copynumber: 3.7 Consensus size: 105
44503 TTTTATCTTG
44513 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAACAT
1 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AAACAT
*** * *
44578 TTCCCTTGAAAACATTTCCCTTGAAATTAATTTTTTTCTCT
65 AAACATTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCT
* *
44619 CCTGATATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
1 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
**
44684 AACATTGAAAACATTTCCCTTGAAATGGTTTTTTTTCTCT
66 AACATTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCT
44724 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
1 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
* *
44789 AACATTGAAAACATTTCCCTTGAAATGAA-TTTTATCTCG
66 AACATTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCT
* * * **
44828 CTTGAGACAGCTTCCCTTGAAAC-G--AATTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATA
1 CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
*
44890 AACTTTGAAAACA
66 AACATTGAAAACA
44903 ATTTAACGAA
Statistics
Matches: 263, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
101 48 0.18
103 1 0.00
104 28 0.11
105 130 0.49
106 56 0.21
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (105 bp):
CTTGAGATAGTTTCCCTCGAAACAGAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATA
AACATTGAAAACATTTCCCTTGAAATGAATTTTTTTCTCT
Found at i:44855 original size:36 final size:36
Alignment explanation
Indices: 44803--44873 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
44793 TTGAAAACAT
* *
44803 TTCCCTTGAAATGAATTTTATCTCGCTTGAGACAGC
1 TTCCCTTGAAACGAATTTTATCTCCCTTGAGACAGC
*
44839 TTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTCCCTTGAAACGAATTTTATCTCCCTTGAGACAG
44874 TTTCTCTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (36 bp):
TTCCCTTGAAACGAATTTTATCTCCCTTGAGACAGC
Found at i:45268 original size:105 final size:105
Alignment explanation
Indices: 45085--45707 Score: 941
Period size: 105 Copynumber: 6.0 Consensus size: 105
45075 ACACTCGAGT
* * * * *
45085 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAATAAACAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAA-CAACAACTTCCCAATTTCAG
45150 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
45191 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
*
45256 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * *
45296 CAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGCTTGTCAACAACAACTTCCCAATCTCATA
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
45361 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* *
45401 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGA
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
45466 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * *
45506 CAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGA
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
* * *
45566 GTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
* * * * * *
45606 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAGTTCCAG
1 CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCCCAATTTCAG
* **
45671 AGTCAATTTCAACTTCACGGCGAAGGATATTGGACTC
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
45708 GGAACAATGC
Statistics
Matches: 483, Mismatches: 28, Indels: 12
0.92 0.05 0.02
Matches are distributed among these distances:
100 82 0.17
101 3 0.01
102 3 0.01
103 4 0.01
104 3 0.01
105 307 0.64
106 81 0.17
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
Found at i:46329 original size:37 final size:37
Alignment explanation
Indices: 46250--46329 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 37
46240 CATTTTCGTC
* * * *
46250 CTACTATGATTCAAACTTCTAAAAATATGATAAAATT
1 CTACTAGGACTCAAACTCCTAAAAATAAGATAAAATT
* * *
46287 TTACTAGGACTCAAACTCCTAAAAATAAGATAGAGTT
1 CTACTAGGACTCAAACTCCTAAAAATAAGATAAAATT
46324 CTACTA
1 CTACTA
46330 AGATTTAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (37 bp):
CTACTAGGACTCAAACTCCTAAAAATAAGATAAAATT
Found at i:46727 original size:13 final size:12
Alignment explanation
Indices: 46711--46827 Score: 55
Period size: 14 Copynumber: 9.4 Consensus size: 12
46701 ATTATATGAA
46711 TATTTTATTCATT
1 TATTTTATT-ATT
46724 TATTTTTATTATT
1 TA-TTTTATTATT
*
46737 TATGTTATTA-T
1 TATTTTATTATT
* *
46748 TATTATATGTATA
1 TATTTTAT-TATT
* *
46761 TATATATATTAAAT
1 TAT-TTTATT-ATT
46775 TATTTTCATTTATT
1 TATTTT-A-TTATT
*
46789 T-TTTTACTA--
1 TATTTTATTATT
46798 TATTTTATTA-T
1 TATTTTATTATT
*
46809 TATTATTATATATA
1 TATT-TTAT-TATT
46823 TATTT
1 TATTT
46828 CTTTAATATT
Statistics
Matches: 81, Mismatches: 11, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
9 1 0.01
10 7 0.09
11 13 0.16
12 14 0.17
13 20 0.25
14 24 0.30
15 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.65
Consensus pattern (12 bp):
TATTTTATTATT
Found at i:46750 original size:18 final size:17
Alignment explanation
Indices: 46711--46753 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
46701 ATTATATGAA
46711 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
* *
46727 TTTTATTATTTATGTTAT
1 TATTATTATTCAT-TTAT
46745 TATTATTAT
1 TATTATTAT
46754 ATGTATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 12 0.55
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:46763 original size:56 final size:59
Alignment explanation
Indices: 46695--46825 Score: 141
Period size: 61 Copynumber: 2.3 Consensus size: 59
46685 ATTAGTCCAT
*
46695 TTATT-TAT-TATATGA-ATATT-TTA-TTCATTTATTTTTATTA-TTTATGTTATTATTA
1 TTATTATATATATAT-ATATATTATTATTTCATTTATTTTT-TTACTATATGTTATTATTA
* *
46750 TTA-TATGTATATATATATATTAAATTATTTTCATTTATTTTTTTACTATATTTTATTATTA
1 TTATTATATATATATATATATT--ATTA-TTTCATTTATTTTTTTACTATATGTTATTATTA
46811 TTATTATATATATAT
1 TTATTATATATATAT
46826 TTCTTTAATA
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
54 1 0.02
55 6 0.10
56 10 0.16
59 3 0.05
60 3 0.05
61 29 0.47
62 10 0.16
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (59 bp):
TTATTATATATATATATATATTATTATTTCATTTATTTTTTTACTATATGTTATTATTA
Found at i:47328 original size:17 final size:16
Alignment explanation
Indices: 47306--47349 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 16
47296 CGACACCATA
47306 ATTTTGATTTGATCTTG
1 ATTTTG-TTTGATCTTG
47323 ATTTTGCTTTGATCTTG
1 ATTTTG-TTTGATCTTG
47340 ATTTTGTTTG
1 ATTTTGTTTG
47350 TGTTTTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.14, C:0.07, G:0.18, T:0.61
Consensus pattern (16 bp):
ATTTTGTTTGATCTTG
Found at i:48601 original size:13 final size:13
Alignment explanation
Indices: 48583--48608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48573 ATTTTTGAAA
48583 ATATATATATATT
1 ATATATATATATT
48596 ATATATATATATT
1 ATATATATATATT
48609 TTTTAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATATATATATT
Found at i:48651 original size:122 final size:122
Alignment explanation
Indices: 48478--48712 Score: 278
Period size: 122 Copynumber: 1.9 Consensus size: 122
48468 AAAATAAATG
** * * * *
48478 ATATATAATTTTTAAAACATTTTGAAAAACATTTATATATTATATAGTTTTT-TAAAACGTTTTT
1 ATATATAATTTTTAAAACATTTTGAAAAACAAATATAAAATATATAGTTTTTGAAAAAC-ATTTT
* * * *
48542 TAAAATAGATATAATATATAGTTTTCAAGACA-TTTTTGAAAATATATATATATTATAT
65 GAAAACAGATATAATATATAATTTTCAAAACATTTTTTGAAAAT-TATATATATTATAT
* * *
48600 ATATATATTTTTTAAAACATTTT-AAAAATAAATATAAAATATATAATTTTTTGAAAAACATTTT
1 ATATATAATTTTTAAAACATTTTGAAAAACAAATATAAAATATAT-AGTTTTTGAAAAACATTTT
* * *
48664 GAAAACATATATAATATATAATTTTTAAAATATTTTTTGAAAATTATAT
65 GAAAACAGATATAATATATAATTTTCAAAACATTTTTTGAAAATTATAT
48713 GATTTTTAAA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
121 16 0.17
122 62 0.66
123 16 0.17
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (122 bp):
ATATATAATTTTTAAAACATTTTGAAAAACAAATATAAAATATATAGTTTTTGAAAAACATTTTG
AAAACAGATATAATATATAATTTTCAAAACATTTTTTGAAAATTATATATATTATAT
Found at i:48718 original size:30 final size:29
Alignment explanation
Indices: 48678--48750 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 29
48668 ACATATATAA
48678 TATATAATTTTTAAA-ATATTTTTTGAAAAT
1 TATAT-ATTTTTAAAGATA-TTTTTGAAAAT
48708 TATATGATTTTTAAAGATATTTTTGAAAAT
1 TATAT-ATTTTTAAAGATATTTTTGAAAAT
48738 TATATAGTTTTTA
1 TATATA-TTTTTA
48751 TTTTTGACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 1 0.03
30 36 0.90
31 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (29 bp):
TATATATTTTTAAAGATATTTTTGAAAAT
Found at i:48837 original size:3 final size:3
Alignment explanation
Indices: 48831--48878 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
48821 TTTTTTATAT
*
48831 TTA TTA TTA TTA TTTA TTA TTA CTA TTA TTA TTA TTA CTTA TT- TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
48877 TT
1 TT
48879 TTACTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.80
4 6 0.15
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50113 original size:18 final size:19
Alignment explanation
Indices: 50074--50115 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
50064 TAAAATAACC
*
50074 TTTTTTTTCATTTATTTAA
1 TTTTTCTTCATTTATTTAA
*
50093 TTTTTCTTCATTT-TTTTA
1 TTTTTCTTCATTTATTTAA
50111 TTTTT
1 TTTTT
50116 ATTTATTCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTCATTTATTTAA
Found at i:51832 original size:18 final size:18
Alignment explanation
Indices: 51809--51851 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
51799 TTAGACATTT
51809 TGCATTTCTTATTTTCTG
1 TGCATTTCTTATTTTCTG
* *
51827 TGCATTTTGTTATTTTCTT
1 TGCA-TTTCTTATTTTCTG
51846 TGCATT
1 TGCATT
51852 CACATTAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.63
Consensus pattern (18 bp):
TGCATTTCTTATTTTCTG
Found at i:55428 original size:84 final size:83
Alignment explanation
Indices: 55248--56455 Score: 1233
Period size: 84 Copynumber: 14.5 Consensus size: 83
55238 TCTGCCCACC
* * *
55248 AAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGA
1 AAGACCCTT-GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
55312 GAAGAGCTA--T-CTACCA
65 GAAGGGTTATCTGCTACCA
* * * * * * * * * *
55328 AAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* *
55393 GAAGGGTTATCTGTTAGCA
65 GAAGGGTTATCTGCTACCA
* * * * * *
55412 AAGACCTTTGAGTTCGACTACGCTCATCTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55477 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCTACCA
* * * * * * *
55492 AAGACCCTCGGGTTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAA
1 AAGACCCTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
55557 GAAGGGTTATCTGCTAACAA
65 GAAGGGTTATCTGCT-ACCA
* *
55577 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55642 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTG-CTACCA
* * ** * * * * * * *
55661 AAGACCCTTAAGTTCGATTATACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* *
55726 GAAGGGTTATCTGTTAGCA
65 GAAGGGTTATCTGCTACCA
* * *
55745 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55810 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCTACCA
* * ** * * *
55825 AAGACCCTCGAGTTCGACTACGTTCAGCTTAGAAGGCGCATCATTTGCAGTATAACTTAAGTCAA
1 AAGACCCTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
55890 GAAGGGTTATCTGCTAACAA
65 GAAGGGTTATCTGCT-ACCA
* *
55910 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55975 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTG-CTACCA
* * ** * * * * * * *
55994 AAGACCCTTAAGTTCGATTATACTCAGCTTCAAGGGCATAACATTTACAGCATAACTCAAGGCTA
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGA
* *
56059 GAAGGGTTATCTGTTAGCA
65 GAAGGGTTATCTGCTACCA
* * * * *
56078 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
56143 AAGGGCTATCTG---CCA
66 AAGGGTTATCTGCTACCA
* * * * *
56158 AAGACCCTCGAGTTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAA
1 AAGACCCTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
56223 GAAGGGTTATCTGCTAACAA
65 GAAGGGTTATCTGCT-ACCA
* *
56243 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
56308 AAGGGTTATCTGCCAACTA
66 AAGGGTTATCTG-CTACCA
* * * * * * * * *
56327 AAGACCCTTAAGTTCGATTACACTCAGCAT-CAAGGGCATATCATTTACAGCACAACTCAAGGCT
1 AAGACCCTTGAGTTCGACTACGCTCAGC-TCCAA-GGCACATCATTTGCAGCATAACTTAAGTCG
*
56391 AGGAGGGTTATCTG-TGACCA
64 AGAAGGGTTATCTGCT-ACCA
56411 AAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AAGACCCTT-GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
56456 ACAACATAGC
Statistics
Matches: 923, Mismatches: 175, Indels: 57
0.80 0.15 0.05
Matches are distributed among these distances:
80 103 0.11
81 159 0.17
83 122 0.13
84 339 0.37
85 200 0.22
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
AAGACCCTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCTACCA
Found at i:55850 original size:333 final size:333
Alignment explanation
Indices: 55248--56449 Score: 2160
Period size: 333 Copynumber: 3.6 Consensus size: 333
55238 TCTGCCCACC
* * * * *
55248 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAG
1 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
55313 AAGAGCTATCT----ACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
66 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
*
55374 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAT
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
*
55439 CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGGG
196 CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
55504 TTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
261 TTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
55569 GCTAACAA
326 GCTAACAA
55577 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55642 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTATACTCAGCTTCAAGGGCATAACATTT
66 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
55707 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
* * *
55772 CTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
196 CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
*
55837 TTCGACTACGTTCAGCTTAGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
261 TTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
55902 GCTAACAA
326 GCTAACAA
55910 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
55975 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTATACTCAGCTTCAAGGGCATAACATTT
66 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
56040 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
56105 CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
196 CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
*
56170 TTCGACTACGTTCAGCTTCGAAGGCACATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
261 TTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
56235 GCTAACAA
326 GCTAACAA
56243 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * *
56308 AAGGGTTATCTGCCAACTAAAGACCCTTAAGTTCGATTACACTCAGCATCAAGGGCATATCATTT
66 AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
* * * * *
56373 ACAGCACAACTCAAGGCTAGGAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGCTCAG
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
56438 CTCCAAGGCACA
196 CTCCAAGGCACA
56450 TCATTTACAA
Statistics
Matches: 841, Mismatches: 28, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
329 69 0.08
333 772 0.92
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (333 bp):
AAGACCTTTGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAACCAAAGACCCTTAAGTTCGATTACACTCAGCTTCAAGGGCATAACATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGCTCAG
CTCCAAGGCACAACATCTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAG
TTCGACTACGTTCAGCTTCGAAGGCGCATCATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT
GCTAACAA
Found at i:57085 original size:41 final size:36
Alignment explanation
Indices: 57073--57261 Score: 96
Period size: 41 Copynumber: 4.8 Consensus size: 36
57063 GAAAAACATT
*
57073 TATATAT-TATATAGTTTTTTAAAACGTTTTTG-AAAA
1 TATATATATATATAG-TTTTTAAAAC-ATTTTGAAAAA
* * *
57109 TAGATATAATATATAGTTTTCAAGACATTTTTGAAAATATATA
1 TATATAT-ATATATAGTTTTTAAAACA-TTTTG--AA-A-A-A
* *
57152 TATATTATATATATATTTTTTTAAAAACGTTTTGAAAATA
1 TATA-TATATATATA-GTTTTT-AAAACATTTTGAAAA-A
* * *
57192 AATATAAAATATATAATTTTTTGAAAAACATTTTGAAAACA
1 TATAT-ATATATAT-AGTTTTT--AAAACATTTTGAAAA-A
* *
57233 TATATA-ATATATAATTTTTAAAATATTTT
1 TATATATATATATAGTTTTTAAAACATTTT
57262 TTGAAAATTA
Statistics
Matches: 122, Mismatches: 16, Indels: 30
0.73 0.10 0.18
Matches are distributed among these distances:
36 15 0.12
37 13 0.11
38 13 0.11
39 7 0.06
40 21 0.17
41 23 0.19
42 3 0.02
43 11 0.09
44 12 0.10
45 4 0.03
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
TATATATATATATAGTTTTTAAAACATTTTGAAAAA
Found at i:57197 original size:81 final size:77
Alignment explanation
Indices: 56998--57269 Score: 243
Period size: 81 Copynumber: 3.5 Consensus size: 77
56988 ATTTTTTATT
* *** * * *
56998 TATATATTATATAATTTAAAAAAAACATTTTGAAAAT-AA-ATGATATATAGTTTTTAAAACATT
1 TATATATTATATAGTTTTTTAAAAACGTTTTGAAAATAAATATAATATATAGTTTTCAAAACATT
*
57061 TTGAAAAACATT
66 TTGAAAAACATA
* *
57073 TATATATTATATAGTTTTTT-AAAACGTTTTTGAAAATAGATATAATATATAGTTTTCAAGACAT
1 TATATATTATATAGTTTTTTAAAAACG-TTTTGAAAATAAATATAATATATAGTTTTCAAAACA-
*
57137 TTTTGAAAATATATA
64 TTTTGAAAA-ACATA
* * *
57152 TATATTATATATATATTTTTTTAAAAACGTTTTGAAAATAAATATAAAATATATAATTTTTTGAA
1 TATA-TAT-TATATAGTTTTTTAAAAACGTTTTGAAAATAAATAT--AATATAT-A-GTTTT-CA
57217 AAACATTTTG-AAAACATA
59 AAACATTTTGAAAAACATA
* **
57235 TATA-A-TATATA-ATTTTTAAAATATTTTTTGAAAAT
1 TATATATTATATAGTTTTTTAAAA-ACGTTTTGAAAAT
57270 TATATGATTT
Statistics
Matches: 163, Mismatches: 20, Indels: 24
0.79 0.10 0.12
Matches are distributed among these distances:
74 5 0.03
75 26 0.16
76 1 0.01
77 19 0.12
78 18 0.11
79 24 0.15
80 3 0.02
81 28 0.17
82 6 0.04
83 15 0.09
84 4 0.02
85 9 0.06
86 5 0.03
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (77 bp):
TATATATTATATAGTTTTTTAAAAACGTTTTGAAAATAAATATAATATATAGTTTTCAAAACATT
TTGAAAAACATA
Found at i:57280 original size:30 final size:29
Alignment explanation
Indices: 57240--57312 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 29
57230 ACATATATAA
*
57240 TATATAATTTTTAAA-ATATTTTTTGAAAAT
1 TATAT-ATTTTTAAAGACA-TTTTTGAAAAT
57270 TATATGATTTTTAAAGACATTTTTGAAAAT
1 TATAT-ATTTTTAAAGACATTTTTGAAAAT
57300 TATATAGTTTTTA
1 TATATA-TTTTTA
57313 TTTTTGGTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 1 0.03
30 36 0.92
31 2 0.05
ACGTcount: A:0.40, C:0.01, G:0.07, T:0.52
Consensus pattern (29 bp):
TATATATTTTTAAAGACATTTTTGAAAAT
Found at i:57399 original size:3 final size:3
Alignment explanation
Indices: 57393--57442 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
57383 TTTTTTATAT
57393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
57438 TTA TT
1 TTA TT
57443 TTACTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:57454 original size:15 final size:15
Alignment explanation
Indices: 57387--57452 Score: 77
Period size: 15 Copynumber: 4.5 Consensus size: 15
57377 ATAGTTTTTT
57387 TTATATTTATTATTA-
1 TTAT-TTTATTATTAC
57402 TTATTATTATTATTA-
1 TTATT-TTATTATTAC
57417 TTATTATTATTATTAC
1 TTATT-TTATTATTAC
57433 TTATTTTATT-TTAC
1 TTATTTTATTATTAC
57447 TT-TTTT
1 TTATTTT
57453 TTTTCTCAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.08
14 7 0.14
15 33 0.67
16 5 0.10
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTTATTATTAC
Found at i:58666 original size:19 final size:19
Alignment explanation
Indices: 58638--58680 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
58628 TAAAATAACC
*
58638 TTTTTTTTCATTTATTTAA
1 TTTTTCTTCATTTATTTAA
* *
58657 TTTTTCTTCATTTTTTTTA
1 TTTTTCTTCATTTATTTAA
58676 TTTTT
1 TTTTT
58681 ATTTATTCGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTCTTCATTTATTTAA
Found at i:81125 original size:21 final size:21
Alignment explanation
Indices: 81099--81171 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
81089 GTCGAGGGTT
81099 TTATGTGGTCATTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
81120 TTATGTGG-CACTTCGGTG-CAAA
1 TTATGTGGTCA-TTCGG-GAC-AA
* *
81142 CCTATGTGGTCCTTCGGGACAA
1 -TTATGTGGTCATTCGGGACAA
81164 TTATGTGG
1 TTATGTGG
81172 GAATTCGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 2 0.05
21 21 0.49
22 6 0.14
23 13 0.30
24 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Found at i:81163 original size:44 final size:44
Alignment explanation
Indices: 81100--81185 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
81090 TCGAGGGTTT
*
81100 TATGTGGTCATTCGGGACAATTATGTGGCACTTCGGTGCAAACC
1 TATGTGGTCATTCGGGACAATTATGTGGCAATTCGGTGCAAACC
* *
81144 TATGTGGTCCTTCGGGACAATTATGTGGGAATTCGGTGCAAA
1 TATGTGGTCATTCGGGACAATTATGTGGCAATTCGGTGCAAA
81186 TTACGAGTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (44 bp):
TATGTGGTCATTCGGGACAATTATGTGGCAATTCGGTGCAAACC
Done.