Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000777.1 Hibiscus syriacus cultivar Beakdansim tig00001511_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: 133676
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7189 original size:9 final size:9
Alignment explanation
Indices: 7175--7200 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
7165 AATATATCTG
7175 AATAATCCA
1 AATAATCCA
7184 AATAATCCA
1 AATAATCCA
7193 AATAATCC
1 AATAATCC
7201 TTAATGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAATCCA
Found at i:7259 original size:29 final size:30
Alignment explanation
Indices: 7227--7314 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 30
7217 AGTTTTTTAG
**
7227 TAGTGACCAAAATATATGTTTTG-AAAGTT
1 TAGTGACCAAAATATAAATTTTGAAAAGTT
* *
7256 TAGTGGCCAAAGTATAAATTTTGAAAAGTT
1 TAGTGACCAAAATATAAATTTTGAAAAGTT
* * * *
7286 TAGGGACTAAAATGT-AATTTTTAAAAGTT
1 TAGTGACCAAAATATAAATTTTGAAAAGTT
7315 ATATATTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 32 0.67
30 16 0.33
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (30 bp):
TAGTGACCAAAATATAAATTTTGAAAAGTT
Found at i:9561 original size:2 final size:2
Alignment explanation
Indices: 9554--9579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9544 AAGAATGTTG
9554 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
9580 CAAAGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12633 original size:14 final size:14
Alignment explanation
Indices: 12614--12641 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
12604 ACCTCATCTT
12614 ATTTTAAAATATGG
1 ATTTTAAAATATGG
12628 ATTTTAAAATATGG
1 ATTTTAAAATATGG
12642 TTTAATTTTA
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:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTTTAAAATATGG
Found at i:14165 original size:19 final size:21
Alignment explanation
Indices: 14121--14170 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
14111 TAAGATGAGG
*
14121 GTATCGATACTGAGCCCTTCA
1 GTATCGATACTGAGCCCGTCA
*
14142 GTATCGATACT-A-CCCGTGA
1 GTATCGATACTGAGCCCGTCA
14161 GTATCGATAC
1 GTATCGATAC
14171 CCACCCTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 15 0.56
20 1 0.04
21 11 0.41
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (21 bp):
GTATCGATACTGAGCCCGTCA
Found at i:14183 original size:19 final size:20
Alignment explanation
Indices: 14141--14190 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
14131 TGAGCCCTTC
*
14141 AGTATCGATA-CTACCCGTG
1 AGTATCGATACCCACCCGTG
*
14160 AGTATCGATACCCACCCTTG
1 AGTATCGATACCCACCCGTG
*
14180 -GTATTGATACC
1 AGTATCGATACC
14191 AAAAAATGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 20 0.74
20 7 0.26
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (20 bp):
AGTATCGATACCCACCCGTG
Found at i:17029 original size:19 final size:20
Alignment explanation
Indices: 16989--17029 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
16979 TGATAGAATT
*
16989 TTTAAATTTGAAAGATTTAA
1 TTTAAATTTGAAAGATTCAA
17009 TTTAAA-TT-AAATGATTCAA
1 TTTAAATTTGAAA-GATTCAA
17028 TT
1 TT
17030 ATAATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 3 0.16
19 10 0.53
20 6 0.32
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (20 bp):
TTTAAATTTGAAAGATTCAA
Found at i:33135 original size:8 final size:8
Alignment explanation
Indices: 33122--33147 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33112 TATGAATTGC
33122 ATTATATG
1 ATTATATG
33130 ATTATATG
1 ATTATATG
33138 ATTATATG
1 ATTATATG
33146 AT
1 AT
33148 GATGTGTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
ATTATATG
Found at i:35562 original size:29 final size:29
Alignment explanation
Indices: 35523--35588 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
35513 TCATACTTCT
35523 TCTTCTTCTCCATTTCCATATTCTTATTC
1 TCTTCTTCTCCATTTCCATATTCTTATTC
*
35552 TCTTCTTCTCCATTTCCATCTTCTTATTC
1 TCTTCTTCTCCATTTCCATATTCTTATTC
35581 TCTTCTTC
1 TCTTCTTC
35589 AAGTTTACTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (29 bp):
TCTTCTTCTCCATTTCCATATTCTTATTC
Found at i:39350 original size:14 final size:14
Alignment explanation
Indices: 39333--39366 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
39323 AATAAAAATT
39333 TAAAAATTAATTAA
1 TAAAAATTAATTAA
39347 TAAAAATTAATTAA
1 TAAAAATTAATTAA
39361 TAAAAA
1 TAAAAA
39367 ATTTACCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAAAATTAATTAA
Found at i:46316 original size:4 final size:4
Alignment explanation
Indices: 46307--46422 Score: 98
Period size: 4 Copynumber: 29.8 Consensus size: 4
46297 GGAGTTAATT
* * *
46307 TTTA TTTA TTTA CTTTGA ATTA TTTA TTTA -TT- TTTA ATAA TTTA TTTA
1 TTTA TTTA TTTA -TTT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * **
46355 TTTA TGTA ATAA TTTA -TT- TTTA TTTA TTTA TTTA TTT- TGAA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
46400 TTTA TTTA TTCA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
46423 GAAGGGATAT
Statistics
Matches: 87, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
3 9 0.10
4 72 0.83
5 5 0.06
6 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:46332 original size:22 final size:20
Alignment explanation
Indices: 46301--46422 Score: 110
Period size: 18 Copynumber: 6.1 Consensus size: 20
46291 AAATCTGGAG
46301 TTAATT-TTTATTTATTTACT
1 TTAATTATTTATTTATTTA-T
46321 TTGAATTATTTATTTA-TT-T
1 TT-AATTATTTATTTATTTAT
*
46340 TTAATAATTTATTTATTTAT
1 TTAATTATTTATTTATTTAT
* *
46360 GTAATAATTTA-TT-TTTAT
1 TTAATTATTTATTTATTTAT
*
46378 TTATTTATTTATTTTGAATTTAT
1 TTAATTATTTA-TTT--ATTTAT
* *
46401 TTATTTATTCATTTATTTAT
1 TTAATTATTTATTTATTTAT
46421 TT
1 TT
46423 GAAGGGATAT
Statistics
Matches: 87, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
18 25 0.29
19 7 0.08
20 23 0.26
21 6 0.07
22 11 0.13
23 15 0.17
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTAATTATTTATTTATTTAT
Found at i:46882 original size:14 final size:15
Alignment explanation
Indices: 46863--46892 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
46853 TAAATCTATG
46863 TTTATTTATTT-TAA
1 TTTATTTATTTATAA
46877 TTTATTTATTTATAA
1 TTTATTTATTTATAA
46892 T
1 T
46893 ATTTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTTATTTATAA
Found at i:48639 original size:18 final size:18
Alignment explanation
Indices: 48616--48666 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
48606 TTTCAATTTG
48616 TTTAAATTATTAATTAAC
1 TTTAAATTATTAATTAAC
*
48634 TTTAAATTATTAATTAAG
1 TTTAAATTATTAATTAAC
48652 TTTAAATTATTAATT
1 TTTAAATTATTAATT
48667 TGTTTATCCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTAAATTATTAATTAAC
Found at i:51076 original size:15 final size:15
Alignment explanation
Indices: 51046--51087 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
51036 TTTGAACTAC
*
51046 ATAATTC-TATAAAA
1 ATAATTCATATATAA
51060 ATAATTCATATATAA
1 ATAATTCATATATAA
*
51075 ATAATTTATATAT
1 ATAATTCATATAT
51088 TTTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAATTCATATATAA
Found at i:52511 original size:29 final size:32
Alignment explanation
Indices: 52461--52521 Score: 74
Period size: 29 Copynumber: 2.0 Consensus size: 32
52451 AAGTTTTGTC
**
52461 ATTAAACATTAATGAGAATATATTTTTATTAT
1 ATTAAACATTAATGAGAATATATAATTATTAT
*
52493 ATTAAAC-TTAAT-AG-TTATATAATTATTAT
1 ATTAAACATTAATGAGAATATATAATTATTAT
52522 TAAAAAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 12 0.46
30 2 0.08
31 5 0.19
32 7 0.27
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
ATTAAACATTAATGAGAATATATAATTATTAT
Found at i:52522 original size:32 final size:32
Alignment explanation
Indices: 52461--52523 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
52451 AAGTTTTGTC
*
52461 ATTAAACATTAATGAGAATATATTTTTATTAT
1 ATTAAACATTAATGAGAATATATTATTATTAT
*
52493 ATTAAAC-TTAAT-AGTTATATAATTATTATTA
1 ATTAAACATTAATGAG-AATAT-ATTATTATTA
52524 AAAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 2 0.07
31 9 0.33
32 16 0.59
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
ATTAAACATTAATGAGAATATATTATTATTAT
Found at i:52721 original size:23 final size:25
Alignment explanation
Indices: 52673--52723 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
52663 TATTTTAAAA
*
52673 TATTTATTTAATTTTTAGAATCATAT
1 TATTTATTTAATTTTAAGAA-CATAT
52699 TATTTATTT-ATTTTAAGAA-ATAT
1 TATTTATTTAATTTTAAGAACATAT
52722 TA
1 TA
52724 ACTTTTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
25 9 0.38
26 9 0.38
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TATTTATTTAATTTTAAGAACATAT
Found at i:52928 original size:44 final size:47
Alignment explanation
Indices: 52880--52973 Score: 106
Period size: 48 Copynumber: 2.0 Consensus size: 47
52870 TATTATTTCA
*
52880 AATA-TATAAATAATATTATTTT-AAA-ATTTTA-ATAAATTTTTTAT
1 AATATTATAAAT-ATACTATTTTAAAAGATTTTATATAAATTTTTTAT
* * *
52924 AATATTGTAAATATACTGTTTTAAAATGATTTTATATAATTTTTTTAT
1 AATATTATAAATATACTATTTTAAAA-GATTTTATATAAATTTTTTAT
52972 AA
1 AA
52974 AAATATATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
44 12 0.29
45 9 0.22
47 6 0.15
48 14 0.34
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (47 bp):
AATATTATAAATATACTATTTTAAAAGATTTTATATAAATTTTTTAT
Found at i:53464 original size:37 final size:35
Alignment explanation
Indices: 53412--53501 Score: 99
Period size: 37 Copynumber: 2.5 Consensus size: 35
53402 GATTAATACT
* * * *
53412 AAAAATAAGGTAATAAAATTAATTAAAATTAATTTTA
1 AAAAATAATGAAATAAAATTAAATAAAA--AATATTA
* *
53449 AAAAATAATTAAATAAAATTAAATAAAAAATATTG
1 AAAAATAATGAAATAAAATTAAATAAAAAATATTA
*
53484 AAAAATAATGAAAAAAAA
1 AAAAATAATGAAATAAAA
53502 GTGATGTGAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
35 21 0.47
37 24 0.53
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (35 bp):
AAAAATAATGAAATAAAATTAAATAAAAAATATTA
Found at i:53501 original size:25 final size:25
Alignment explanation
Indices: 53448--53501 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
53438 AATTAATTTT
* *
53448 AAAAAATAATTAAATAAAATTAAAT
1 AAAAAATAATTAAATAAAATGAAAA
53473 AAAAAAT-ATTGAAA-AATAATGAAAA
1 AAAAAATAATT-AAATAA-AATGAAAA
53498 AAAA
1 AAAA
53502 GTGATGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (25 bp):
AAAAAATAATTAAATAAAATGAAAA
Found at i:54541 original size:38 final size:36
Alignment explanation
Indices: 54487--54587 Score: 130
Period size: 38 Copynumber: 2.8 Consensus size: 36
54477 ATATATACAT
* *
54487 ATATATATATAATATAGTTTTGAAAACATATTTGAAA
1 ATATATATATTATATAGTTTTTAAAACA-ATTTGAAA
* *
54524 CATTTATATATTATATAGTTTTTAAAACACTTTGAAA
1 -ATATATATATTATATAGTTTTTAAAACAATTTGAAA
* *
54561 ATAAATATAATATATAGTTTTTAAAAC
1 ATATATATATTATATAGTTTTTAAAAC
54588 GTTTTTAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
36 24 0.43
37 7 0.12
38 25 0.45
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.43
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTTAAAACAATTTGAAA
Found at i:54576 original size:36 final size:36
Alignment explanation
Indices: 54489--54723 Score: 142
Period size: 36 Copynumber: 6.4 Consensus size: 36
54479 ATATACATAT
* **
54489 ATATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATA-AT-ATATAGTTTTTAAAACAT-TTTGAAA-ATAA
* *
54529 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* * *
54565 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
* ** * *
54600 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATAATATATAGTTTT-TAAAACATTTTGAAAATAA
*** *
54637 ATATAAT-T-T--TTAAAAAGAAACATTTTGAAAACATAT
1 ATATAATATATAGTT-TTTA-AAACATTTTG-AAA-ATAA
* * *
54673 ATATATTATATAGTTTTGAAATCATTTT-AAAA-AA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
*
54707 CTTATAATATATAGTTT
1 -ATATAATATATAGTTT
54724 AAAAAAAACA
Statistics
Matches: 154, Mismatches: 30, Indels: 27
0.73 0.14 0.13
Matches are distributed among these distances:
33 4 0.03
34 10 0.06
35 34 0.22
36 56 0.36
37 16 0.10
38 25 0.16
39 2 0.01
40 7 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATAA
Found at i:54616 original size:35 final size:36
Alignment explanation
Indices: 54491--54641 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
54481 ATACATATAT
* * * **
54491 ATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATATTATATAGTTTTTAAAACAT-TTTTAAA-ATAA
* *
54529 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
* * *
54565 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
** *
54600 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATATTATATAGTTTT-TAAAACATTTTTAAAATAA
54637 ATATA
1 ATATA
54642 ATTTTTAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
35 16 0.17
36 43 0.45
37 14 0.15
38 22 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
Found at i:54729 original size:108 final size:107
Alignment explanation
Indices: 54548--54760 Score: 238
Period size: 108 Copynumber: 2.0 Consensus size: 107
54538 ATAGTTTTTA
* * * *
54548 AAACACTTTGAAAATAAATATAATATATAGTTTTTAAAACGTTTTTAAGAAAATATATTATACGG
1 AAACACTTTGAAAATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAATATAATATACAG
* *
54613 TTT-TAAAAAACATTTTT-AAAA-TAAATATAATTTTTAAAAAG
66 TTTAAAAAAAACATTTTTGAAAACT--ATATAATTTTGAAAAAG
* * * *
54654 AAACATTTTGAAAACATATATATATTATATAGTTTTGAAATC-ATTTTAA-AAAACTTATAATAT
1 AAACACTTTG-AAA-ATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAA--TATAATAT
*
54717 ATAGTTTAAAAAAAACATTTTTGAAAACTATATAATTTTGAAAA
62 ACAGTTTAAAAAAAACATTTTTGAAAACTATATAATTTTGAAAA
54761 CGTTTTTAAA
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
106 13 0.15
107 9 0.10
108 35 0.39
109 27 0.30
110 4 0.04
111 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.39
Consensus pattern (107 bp):
AAACACTTTGAAAATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAATATAATATACAG
TTTAAAAAAAACATTTTTGAAAACTATATAATTTTGAAAAAG
Found at i:54789 original size:39 final size:39
Alignment explanation
Indices: 54745--54821 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
54735 TTTTGAAAAC
* *
54745 TATATAATTTTGAAA-ACGTTTT-TAAATATATATATATAA
1 TATATAATTTTAAAATAC-TTTTGAAAATATAT-TATATAA
54784 TATATAATTTTAAAATACTTTTGAAAATATATTATATA
1 TATATAATTTTAAAATACTTTTGAAAATATATTATATA
54822 GTTTGTAGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 24 0.71
40 10 0.29
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (39 bp):
TATATAATTTTAAAATACTTTTGAAAATATATTATATAA
Found at i:61567 original size:164 final size:164
Alignment explanation
Indices: 61357--61864 Score: 707
Period size: 164 Copynumber: 3.1 Consensus size: 164
61347 TGCAGCTTAG
* * *
61357 CTCAAGGCCAGAAGGGCTACCTGCC-ACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * **
61420 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTA
66 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTA
* *
61485 CACTCAGCTTCAAGGGCATAACATTTACAGCATAA
130 CACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* ** * *
61520 CTCAAGGCTAGAAGGGTTATCTG-TTAGCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
61584 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
66 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTA
* ** *
61649 CGCTCAGCTTCGAGGGCGCATCATTTGCAGCATAA
130 CACTCAGCTTCGAGGGCATATCATTTACAGCATAA
* * *
61684 CTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGG
1 CTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
* * *
61749 CACATCATATGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACTCCCGAGTTCGATTA
66 CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTA
* * * *
61814 CACTCAACTTCGAGGTCATATCATTTACAACATAG
130 CACTCAGCTTCGAGGGCATATCATTTACAGCATAA
*
61849 CTCATGGCAAGAAGGG
1 CTCAAGGCAAGAAGGG
61865 CTATTTGTCA
Statistics
Matches: 302, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
163 22 0.07
164 141 0.47
165 139 0.46
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (164 bp):
CTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
CACATCATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTAC
ACTCAGCTTCGAGGGCATATCATTTACAGCATAA
Found at i:61862 original size:81 final size:79
Alignment explanation
Indices: 61344--61868 Score: 429
Period size: 81 Copynumber: 6.4 Consensus size: 79
61334 TAAACAAACT
* * * * * * *
61344 ATTTGCAGCTTAGCTCAAGGCCAGAAGGGCTACCTGCCACCAAGACCTTCGAGTTCGACTACGCT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCA--AAGACC-CCGAGTTCGATTACGCT
* *
61409 CAGCTCCAAGGCACATC
63 CAGCTTCGAGGCACATC
* * * ** *
61426 ATTTGCAGTATAGCTTAAGTCGAGAAGAGCTATCTGCCAAAGACCCTTAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCC-CGAGTTCGATTACGCTCA
* * *
61491 GCTTCAAGGGCATAAC
65 GCTTCGA-GGCACATC
* * * * * * * ** *
61507 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTTAGCAAAGACCTTTGAGTTCGACTACGC
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG---CCAAAGACC-CCGAGTTCGATTACGC
* *
61572 TCAGCTCCAAGGCACATC
62 TCAGCTTCGAGGCACATC
* *
61590 ATTTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACGCTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACGCTCA
*
61655 GCTTCGAGGGCGCATC
65 GCTTCGA-GGCACATC
* * * * *
61671 ATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTATG
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTG----CCAAAGACC-CCGAGTTCGATTACG
* *
61736 CTCAGCTCCAAGGCACATC
61 CTCAGCTTCGAGGCACATC
* * * *
61755 ATATGCAGCATAGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACTCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGAC-CCCGAGTTCGATTACGCTCA
* *
61820 ACTTCGAGGTCATATC
65 GCTTCGAGG-CACATC
* * * * *
61836 ATTTACAACATAGCTCATGGCAAGAAGGGCTAT
1 ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTAT
61869 TTGTCAATAA
Statistics
Matches: 353, Mismatches: 75, Indels: 31
0.77 0.16 0.07
Matches are distributed among these distances:
80 82 0.23
81 107 0.30
82 32 0.09
83 35 0.10
84 69 0.20
85 28 0.08
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (79 bp):
ATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCGAGTTCGATTACGCTCAG
CTTCGAGGCACATC
Found at i:62563 original size:35 final size:36
Alignment explanation
Indices: 62438--62588 Score: 151
Period size: 36 Copynumber: 4.1 Consensus size: 36
62428 TTATATACAT
* * * **
62438 ATATATAATATAGTTTTGAAAACATATTTGAAACATTT
1 ATATATTATATAGTTTTTAAAACAT-TTTTAAA-ATAA
* *
62476 ATATATTATATAGTTTTTAAAACACTTTGAAAATAA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
* * *
62512 ATATAATATATAGTTTTTAAAACGTTTTTAAGA-AA
1 ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
** *
62547 ATATATTATACGGTTTTAAAAAACATTTTTAAAATAA
1 ATATATTATATAGTTTT-TAAAACATTTTTAAAATAA
62584 ATATA
1 ATATA
62589 ATTTTAAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
35 16 0.17
36 43 0.45
37 14 0.15
38 22 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (36 bp):
ATATATTATATAGTTTTTAAAACATTTTTAAAATAA
Found at i:62674 original size:106 final size:106
Alignment explanation
Indices: 62495--62705 Score: 236
Period size: 106 Copynumber: 2.0 Consensus size: 106
62485 ATAGTTTTTA
* * * *
62495 AAACACTTTGAAAATAAATATAATATATAGTTTTTAAAACGTTTTTAAGAAAATATATTATACGG
1 AAACACTTTGAAAATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAATATAATATACAG
*
62560 TTT-TAAAAAACATTTTT-AAAA-TAAATATAATTTTAAAAAG
66 TTTAAAAAAAACATTTTTGAAAACT--ATATAATTTTAAAAAG
* * *
62600 AAACA-TTTGAAAACATATATATATTATATAGTTTTGAAATC-ATTTTAA-AAAACTTATAATAT
1 AAACACTTTG-AAA-ATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAA--TATAATAT
* *
62662 ATAGTTTAAAAAAAACATTTTTGAAAACTATATAATTTTGAAAA
62 ACAGTTTAAAAAAAACATTTTTGAAAACTATATAATTTTAAAAA
62706 CGTTTTTAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
104 8 0.09
105 14 0.16
106 35 0.39
107 27 0.30
108 4 0.04
109 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.38
Consensus pattern (106 bp):
AAACACTTTGAAAATAAATATAATATATAGTTTTGAAAACGATTTTAAGAAAATATAATATACAG
TTTAAAAAAAACATTTTTGAAAACTATATAATTTTAAAAAG
Found at i:62734 original size:39 final size:41
Alignment explanation
Indices: 62690--62768 Score: 110
Period size: 39 Copynumber: 2.0 Consensus size: 41
62680 TTTTGAAAAC
* *
62690 TATATAATTTTGAAA-ACGTTTTTAAAA-ATATA-TATATAA
1 TATATAATTTTAAAATAC-TTTTGAAAATATATATTATATAA
62729 TATATAATTTTAAAATACTTTTGAAAATATATATTATATA
1 TATATAATTTTAAAATACTTTTGAAAATATATATTATATA
62769 GTTTGTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 22 0.63
40 7 0.20
41 6 0.17
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (41 bp):
TATATAATTTTAAAATACTTTTGAAAATATATATTATATAA
Found at i:62830 original size:14 final size:15
Alignment explanation
Indices: 62811--62852 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
62801 ATCGTTGTTG
62811 TTTATTTTTATTTA-
1 TTTATTTTTATTTAT
*
62825 TTTATTTTTATTAAT
1 TTTATTTTTATTTAT
*
62840 TTTATTTTCATTT
1 TTTATTTTTATTT
62853 TAATTGTCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATTTTTATTTAT
Found at i:67177 original size:18 final size:18
Alignment explanation
Indices: 67154--67191 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
67144 TTGGCATGAC
* *
67154 ATTTTTTAATTATTTTTT
1 ATTTTTAAATTATTATTT
67172 ATTTTTAAATTATTATTT
1 ATTTTTAAATTATTATTT
67190 AT
1 AT
67192 ATTATTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTAAATTATTATTT
Found at i:67190 original size:12 final size:12
Alignment explanation
Indices: 67170--67203 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
67160 TAATTATTTT
67170 TTATT-TTTAAA
1 TTATTATTTAAA
*
67181 TTATTATTTATA
1 TTATTATTTAAA
67193 TTATTATTTAA
1 TTATTATTTAA
67204 CTAATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 5 0.25
12 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTATTTAAA
Found at i:72143 original size:23 final size:23
Alignment explanation
Indices: 72098--72143 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
72088 TATTATAGCA
* * *
72098 AAAAATATTAAAATTTTAGTTTT
1 AAAAATATAAAAATTATAATTTT
*
72121 AAAAGTATAAAAATTATAATTTT
1 AAAAATATAAAAATTATAATTTT
72144 TACATATAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
AAAAATATAAAAATTATAATTTT
Found at i:80303 original size:132 final size:131
Alignment explanation
Indices: 80066--80448 Score: 653
Period size: 132 Copynumber: 2.9 Consensus size: 131
80056 TTATATCAAA
* * * *
80066 TTTACCCCCGAAACTTTTTTATTTGAAAACAGAAGAGACTATATCCACCCTTATCGGATTAAAAC
1 TTTACCCCTGAAACTTTTTTAATTGAAAACAGAAGAGACTATATCCATCCTTATCGGATAAAAAC
80131 AACAATATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTGTTTCTTCA
66 AACAA-ATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTGTTTCTTCA
80196 GC
130 GC
* *
80198 TTTACCCCTGAAACTTTTTTAATTGAAAACAGAAGATATTATATCCATCCTTATCGGATAAAAAC
1 TTTACCCCTGAAACTTTTTTAATTGAAAACAGAAGAGACTATATCCATCCTTATCGGATAAAAAC
*
80263 AACATAATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTTTTTCTTCA
66 AACA-AATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTGTTTCTTCA
80328 GC
130 GC
*
80330 TTTACCCCTGAAACTTTTTTAATTGAAAACAAAAGAGACTATATCCATCCTTATCGGATAAAAAC
1 TTTACCCCTGAAACTTTTTTAATTGAAAACAGAAGAGACTATATCCATCCTTATCGGATAAAAAC
*
80395 AAC--ATACAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTG
66 AACAAATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTG
80449 AGTTCACCGT
Statistics
Matches: 238, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
129 49 0.21
132 188 0.79
133 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (131 bp):
TTTACCCCTGAAACTTTTTTAATTGAAAACAGAAGAGACTATATCCATCCTTATCGGATAAAAAC
AACAAATATAGCTAACACCAAGAATTATGAGCAAAAGTGAAGCAAGTTTATGATTGTTTCTTCAG
C
Found at i:81387 original size:14 final size:14
Alignment explanation
Indices: 81361--81391 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
81351 TTTTATGTGC
81361 GTTCGTTTATGTTT
1 GTTCGTTTATGTTT
*
81375 GTTCGTTTGTGTTT
1 GTTCGTTTATGTTT
81389 GTT
1 GTT
81392 TACGTTCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.03, C:0.06, G:0.26, T:0.65
Consensus pattern (14 bp):
GTTCGTTTATGTTT
Found at i:81392 original size:24 final size:24
Alignment explanation
Indices: 81365--81418 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
81355 ATGTGCGTTC
* *
81365 GTTTATGTTTGTTCGTTTGTGTTT
1 GTTTATGTTCGTTCATTTGTGTTT
*
81389 GTTTACGTTCGTTCATTTGTGTTT
1 GTTTATGTTCGTTCATTTGTGTTT
81413 GTTTAT
1 GTTTAT
81419 CATTTAAACG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.07, C:0.07, G:0.22, T:0.63
Consensus pattern (24 bp):
GTTTATGTTCGTTCATTTGTGTTT
Found at i:89368 original size:21 final size:21
Alignment explanation
Indices: 89342--89401 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
89332 CCATGAACAG
*
89342 TGCTACATTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
89363 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
*
89384 TGCTACAGTGCACCGATG
1 TGCTACAGTGCATCGATG
89402 TACTAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:92362 original size:20 final size:21
Alignment explanation
Indices: 92324--92363 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
92314 AAACCATTAA
92324 GGGGGGAATCGGTACTCCCTTG
1 GGGGGGAATCGGTA-TCCCTTG
92346 GGGGGGAATCGGT-TCCCT
1 GGGGGGAATCGGTATCCCT
92364 CTGAGCATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
22 13 0.72
ACGTcount: A:0.12, C:0.23, G:0.42, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGGTATCCCTTG
Found at i:94485 original size:21 final size:21
Alignment explanation
Indices: 94460--94509 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
94450 GGGGTATCGA
94460 TTCCCTC-AAGGAGGGAATCAG
1 TTCCCTCAAAGG-GGGAATCAG
*
94481 TTCCCATTCAAAGGGGGAATCGG
1 TTCCC--TCAAAGGGGGAATCAG
94504 TTCCCT
1 TTCCCT
94510 TATGGGGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.24
23 15 0.60
24 4 0.16
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (21 bp):
TTCCCTCAAAGGGGGAATCAG
Found at i:101003 original size:20 final size:20
Alignment explanation
Indices: 100966--101004 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
100956 GCCAAACCAT
100966 GGGGGAATCGGTACTCCCTTG
1 GGGGGAATCGGTA-TCCCTTG
100987 GGGGGAAATCGGT-TCCCT
1 GGGGG-AATCGGTATCCCT
101005 CTGAGCATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (20 bp):
GGGGGAATCGGTATCCCTTG
Found at i:116284 original size:21 final size:21
Alignment explanation
Indices: 116258--116297 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
116248 CAGAACCCCA
*
116258 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
116279 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
116298 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:116332 original size:20 final size:21
Alignment explanation
Indices: 116278--116340 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
116268 GATTCCCCTG
116278 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
116302 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
116322 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
116341 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:122889 original size:13 final size:13
Alignment explanation
Indices: 122871--122896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
122861 TTGTTCTCAT
122871 TGGTGGATTTGAA
1 TGGTGGATTTGAA
122884 TGGTGGATTTGAA
1 TGGTGGATTTGAA
122897 GGTAATATTT
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:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (13 bp):
TGGTGGATTTGAA
Found at i:127727 original size:3 final size:3
Alignment explanation
Indices: 127719--127821 Score: 199
Period size: 3 Copynumber: 34.7 Consensus size: 3
127709 TTTACCCAAA
127719 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
127767 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
127815 T-T TCT TC
1 TCT TCT TC
127822 AGTTCTAATG
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 97 0.98
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:130747 original size:3 final size:3
Alignment explanation
Indices: 130739--130779 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
130729 TTTACTCAAA
130739 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
130780 AGTTCTAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Done.