Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001950.1 Hibiscus syriacus cultivar Beakdansim tig00003946_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: 83951
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:371 original size:19 final size:19
Alignment explanation
Indices: 344--381 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
334 TTCTGGTTCG
*
344 ATATCGATATTGGATGAAC
1 ATATCGATACTGGATGAAC
*
363 ATATGGATACTGGATGAAC
1 ATATCGATACTGGATGAAC
382 TGAGATGGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.29
Consensus pattern (19 bp):
ATATCGATACTGGATGAAC
Found at i:451 original size:15 final size:15
Alignment explanation
Indices: 431--466 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
421 ATTGTGGTAA
431 GAGTACCAATACTAT
1 GAGTACCAATACTAT
446 GAGTACCAATACTAT
1 GAGTACCAATACTAT
*
461 AAGTAC
1 GAGTAC
467 TGATATTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (15 bp):
GAGTACCAATACTAT
Found at i:1639 original size:32 final size:32
Alignment explanation
Indices: 1592--1693 Score: 132
Period size: 32 Copynumber: 3.2 Consensus size: 32
1582 TACTAGCAGT
* * *
1592 GTGTTACATTTAGATAATGCACAATAGAGTTA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
* * *
1624 GTGTTGCATTCAGATAATACACAGTAGTGTCA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
* *
1656 GTATTGTATTCAGATAATGCACAATAGTGTTA
1 GTGTTGCATTCAGATAATGCACAATAGTGTTA
1688 GTGTTG
1 GTGTTG
1694 TATTTAGACT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (32 bp):
GTGTTGCATTCAGATAATGCACAATAGTGTTA
Found at i:1695 original size:32 final size:32
Alignment explanation
Indices: 1603--1697 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
1593 TGTTACATTT
* *
1603 AGATAATGCACAATAGAGTTAGTGTTGCATTC
1 AGATAATGCACAATAGTGTTAGTGTTGTATTC
* * * *
1635 AGATAATACACAGTAGTGTCAGTATTGTATTC
1 AGATAATGCACAATAGTGTTAGTGTTGTATTC
1667 AGATAATGCACAATAGTGTTAGTGTTGTATT
1 AGATAATGCACAATAGTGTTAGTGTTGTATT
1698 TAGACTACGT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.35
Consensus pattern (32 bp):
AGATAATGCACAATAGTGTTAGTGTTGTATTC
Found at i:2535 original size:30 final size:30
Alignment explanation
Indices: 2495--2553 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
2485 AATTTAAAGT
2495 AAAATGGTTTTTGGACTTGAATTGAATTTAC
1 AAAATGGTTTTTGGACTT-AATTGAATTTAC
2526 AAAAT-GTTTTTGGACTTAATTGAATTTA
1 AAAATGGTTTTTGGACTTAATTGAATTTA
2554 TTCGTTCCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (30 bp):
AAAATGGTTTTTGGACTTAATTGAATTTAC
Found at i:3409 original size:19 final size:20
Alignment explanation
Indices: 3385--3428 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
3375 TAATAATGAA
3385 ATTTATAAT-TTACTGATAT
1 ATTTATAATATTACTGATAT
* *
3404 ATTTATCATCATTATTGATAT
1 ATTTATAAT-ATTACTGATAT
3425 ATTT
1 ATTT
3429 TGTCGATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTATAATATTACTGATAT
Found at i:7334 original size:3 final size:3
Alignment explanation
Indices: 7326--7357 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7316 AACCCTTCTC
7326 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
7358 CACTAGGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:7636 original size:2 final size:2
Alignment explanation
Indices: 7629--7657 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7619 ACATACATAC
7629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7658 GGGTAAACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9305 original size:19 final size:20
Alignment explanation
Indices: 9269--9308 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
9259 AGAGACTAAT
9269 TTATAAATCTTAAAATTTTA
1 TTATAAATCTTAAAATTTTA
9289 TTATAAATCTT-AAATTTTA
1 TTATAAATCTTAAAATTTTA
9308 T
1 T
9309 AGGATATAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATAAATCTTAAAATTTTA
Found at i:12573 original size:9 final size:9
Alignment explanation
Indices: 12556--12588 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
12546 AATAAAAATA
*
12556 AATAGTATT
1 AATAATATT
12565 AATAATATT
1 AATAATATT
12574 AATAATA-T
1 AATAATATT
12582 AATAATA
1 AATAATA
12589 AAAATGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (9 bp):
AATAATATT
Found at i:14863 original size:22 final size:22
Alignment explanation
Indices: 14833--14882 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
14823 CGAATTTCCA
* * *
14833 ATTACATTTATTTTATGTGTAT
1 ATTATATTTATTTTATATATAT
*
14855 ATTATATTTATTTTTTATATAT
1 ATTATATTTATTTTATATATAT
14877 ATTATA
1 ATTATA
14883 ATATTACATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTATATTTATTTTATATATAT
Found at i:14888 original size:8 final size:9
Alignment explanation
Indices: 14869--14919 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 9
14859 TATTTATTTT
14869 TTATATATA
1 TTATATATA
14878 TTATA-ATA
1 TTATATATA
*
14886 TTACATAT-
1 TTATATATA
14894 TTA-AT-TA
1 TTATATATA
14901 TTA-ATA-A
1 TTATATATA
14908 TTATATATA
1 TTATATATA
14917 TTA
1 TTA
14920 AATTAAACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
6 1 0.03
7 11 0.31
8 13 0.36
9 11 0.31
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
TTATATATA
Found at i:14893 original size:15 final size:14
Alignment explanation
Indices: 14875--14924 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 14
14865 TTTTTTATAT
14875 ATATTATAATATTA
1 ATATTATAATATTA
14889 CATATT-TAATTATTA
1 -ATATTATAA-TATTA
14904 ATAATTATATATATTA
1 AT-ATTATA-ATATTA
14920 A-ATTA
1 ATATTA
14925 AACTAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 9 0.29
15 13 0.42
16 8 0.26
17 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATTATAATATTA
Found at i:14895 original size:32 final size:31
Alignment explanation
Indices: 14858--14919 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
14848 TGTGTATATT
* *
14858 ATATTTATTTTTTATATATATTATA-ATATTAC
1 ATATTTAATTATTA-ATA-ATTATATATATTAC
14890 ATATTTAATTATTAATAATTATATATATTA
1 ATATTTAATTATTAATAATTATATATATTA
14920 AATTAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 6 0.22
31 9 0.33
32 12 0.44
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (31 bp):
ATATTTAATTATTAATAATTATATATATTAC
Found at i:15429 original size:15 final size:14
Alignment explanation
Indices: 15402--15432 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
15392 GATTTAGATT
15402 TTTTTAAATATATA
1 TTTTTAAATATATA
15416 TTTTTAAATA-ATA
1 TTTTTAAATATATA
15429 TTTT
1 TTTT
15433 ATTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTTTAAATATATA
Found at i:23137 original size:93 final size:93
Alignment explanation
Indices: 22999--23172 Score: 219
Period size: 93 Copynumber: 1.9 Consensus size: 93
22989 ATATTGGCAA
* *
22999 GTGCACTTGTAAATACAAACTTACTTAAATGCAGTTCACATGATTCCCTTT-AGGAGGAATCAAG
1 GTGCACTTGTAAATACAAACTCACTTAAATGCAGTTCACATGATTCCCTTTCA-GAAGAATCAAG
*
23063 ACCGTTACGCCGTATATTGACAAAAACAC
65 ACCGTTACGCCGCATATTGACAAAAACAC
* * * *
23092 GTGCACTTG-AAGATACACACTCAGTTAAATGCAGCTTGAGA-GATTCCCTTTCAGAAGAATCAA
1 GTGCACTTGTAA-ATACAAACTCACTTAAATGCAG-TTCACATGATTCCCTTTCAGAAGAATCAA
* *
23155 GACTGTTAGGCCGCATAT
64 GACCGTTACGCCGCATAT
23173 AGGGAAAAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
92 2 0.03
93 62 0.90
94 5 0.07
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (93 bp):
GTGCACTTGTAAATACAAACTCACTTAAATGCAGTTCACATGATTCCCTTTCAGAAGAATCAAGA
CCGTTACGCCGCATATTGACAAAAACAC
Found at i:27163 original size:60 final size:61
Alignment explanation
Indices: 27061--27177 Score: 141
Period size: 60 Copynumber: 1.9 Consensus size: 61
27051 ATTTTGAAAT
* *
27061 GAAATTAGAATGTTCAAAAAGTTTAGGGACCAATTTATAATGA-AGGTCATAGTTTAGAGAC
1 GAAATTAGAATGTTCAAAAAGTTTAAGGACCAATTTAGAATGATA-GTCATAGTTTAGAGAC
*** *
27122 GAAATT-GATATGTTC-AAAAGTTTAAGGATTGATTTAGAATGATAGTCGTAGTTTAG
1 GAAATTAGA-ATGTTCAAAAAGTTTAAGGACCAATTTAGAATGATAGTCATAGTTTAG
27178 GGATAAAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
60 35 0.73
61 13 0.27
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (61 bp):
GAAATTAGAATGTTCAAAAAGTTTAAGGACCAATTTAGAATGATAGTCATAGTTTAGAGAC
Found at i:32629 original size:34 final size:32
Alignment explanation
Indices: 32559--32641 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
32549 ATATATTCGG
32559 GTCGGGTCGGGT-CGGGTGAAACCTTAATTTC
1 GTCGGGTCGGGTCCGGGTGAAACCTTAATTTC
*
32590 GTCGGGTCGGGTCACGGGTGAAAACCTCT-TTCTTC
1 GTCGGGTCGGGTC-CGGGTG-AAACCT-TAAT-TTC
32625 -TCGGGTCGGGT-CGGGTG
1 GTCGGGTCGGGTCCGGGTG
32642 GCCCAAAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
31 12 0.26
32 6 0.13
33 6 0.13
34 18 0.39
35 4 0.09
ACGTcount: A:0.12, C:0.22, G:0.39, T:0.28
Consensus pattern (32 bp):
GTCGGGTCGGGTCCGGGTGAAACCTTAATTTC
Found at i:33595 original size:18 final size:20
Alignment explanation
Indices: 33569--33615 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
33559 TTCCCAGTAA
*
33569 TTATATTCCCTC-G-TAATC
1 TTATATTCCCACTGATAATC
*
33587 TTTTATTCCCACTGATAATC
1 TTATATTCCCACTGATAATC
33607 TTATATTCC
1 TTATATTCC
33616 GTGAACCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.42
19 1 0.04
20 13 0.54
ACGTcount: A:0.23, C:0.26, G:0.04, T:0.47
Consensus pattern (20 bp):
TTATATTCCCACTGATAATC
Found at i:39017 original size:29 final size:29
Alignment explanation
Indices: 38974--39056 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
38964 CTCACCTAAC
38974 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
39004 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
39033 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
39057 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:43783 original size:29 final size:29
Alignment explanation
Indices: 43740--43822 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
43730 CTCACCTAAC
43740 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
43770 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
43799 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
43823 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:44453 original size:29 final size:29
Alignment explanation
Indices: 44398--44454 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
44388 AGTGTTGACC
* *
44398 GTAGGTCGCCATGCCTTCTGGGTGACCTT
1 GTAGGTCGCCATGCCTTCCGGGCGACCTT
44427 GTAGGTCGCCATGCAC-TCCGGGCGACCT
1 GTAGGTCGCCATGC-CTTCCGGGCGACCT
44455 ACCCTTGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.25
Consensus pattern (29 bp):
GTAGGTCGCCATGCCTTCCGGGCGACCTT
Found at i:44598 original size:33 final size:33
Alignment explanation
Indices: 44552--44676 Score: 137
Period size: 33 Copynumber: 3.8 Consensus size: 33
44542 GCGACCTACC
* *
44552 CTCGCTCGGCTGCCCTCGGATTCCCTCGCATAG
1 CTCGCTCGACTGCCCTCGGATGCCCTCGCATAG
44585 CTCGCTCGACTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGACTGCCCTCGGATGCCCTCGCATAG
* * * *
44618 CTCGTTCGGA-TGGCCTCGGATGCTCTCGGATAG
1 CTCGCTC-GACTGCCCTCGGATGCCCTCGCATAG
* *
44651 CCTCGGTCGGA-TGGCCTCGGATGCCC
1 -CTCGCTC-GACTGCCCTCGGATGCCC
44677 AGCGTGTTGG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
33 57 0.70
34 25 0.30
ACGTcount: A:0.10, C:0.38, G:0.29, T:0.23
Consensus pattern (33 bp):
CTCGCTCGACTGCCCTCGGATGCCCTCGCATAG
Found at i:44608 original size:10 final size:10
Alignment explanation
Indices: 44556--44676 Score: 64
Period size: 10 Copynumber: 11.1 Consensus size: 10
44546 CCTACCCTCG
*
44556 CTCGGCTGCC
1 CTCGGATGCC
*
44566 CTCGGATTCC
1 CTCGGATGCC
*
44576 CTCGCATAGCTC
1 CTCGGAT-GC-C
44588 GCTC-GACTGCC
1 -CTCGGA-TGCC
44599 CTCGGATGCC
1 CTCGGATGCC
*
44609 CTCGCATAGCTC
1 CTCGGAT-GC-C
* *
44621 GTTCGGATGGC
1 -CTCGGATGCC
*
44632 CTCGGATGCT
1 CTCGGATGCC
44642 CTCGGATAGCC
1 CTCGGAT-GCC
*
44653 TCGGTCGGATGGC
1 -C--TCGGATGCC
44666 CTCGGATGCC
1 CTCGGATGCC
44676 C
1 C
44677 AGCGTGTTGG
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
10 50 0.60
11 9 0.11
12 8 0.10
13 11 0.13
14 6 0.07
ACGTcount: A:0.11, C:0.37, G:0.29, T:0.23
Consensus pattern (10 bp):
CTCGGATGCC
Found at i:44666 original size:34 final size:33
Alignment explanation
Indices: 44565--44676 Score: 145
Period size: 33 Copynumber: 3.4 Consensus size: 33
44555 GCTCGGCTGC
* * *
44565 CCTCGGATTCCCTCGCATAGCTCGCTC-GACTGC
1 CCTCGGATGCCCTCGCATAGCTCGGTCGGA-TGG
*
44598 CCTCGGATGCCCTCGCATAGCTCGTTCGGATGG
1 CCTCGGATGCCCTCGCATAGCTCGGTCGGATGG
* *
44631 CCTCGGATGCTCTCGGATAGCCTCGGTCGGATGG
1 CCTCGGATGCCCTCGCATAG-CTCGGTCGGATGG
44665 CCTCGGATGCCC
1 CCTCGGATGCCC
44677 AGCGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
33 45 0.64
34 25 0.36
ACGTcount: A:0.12, C:0.37, G:0.29, T:0.23
Consensus pattern (33 bp):
CCTCGGATGCCCTCGCATAGCTCGGTCGGATGG
Found at i:46466 original size:41 final size:41
Alignment explanation
Indices: 46412--46634 Score: 180
Period size: 41 Copynumber: 5.4 Consensus size: 41
46402 AATTATGTAG
*
46412 TTTAGTGGCGTTTTTGTACAAACGCCACTAAAGACTCATAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCTAAAGACTCATAC
* * * * *
46453 TTTAGTGGCGTTTTAAGCAAAAACGCTGCTAAATACTCATAC
1 TTTAGTGGCGTTTT-TGTACAAACGCCGCTAAAGACTCATAC
* * * ** * *
46495 TTTGGTGGTGTTTTTATACATGCGCCGCTAAAGACTCGTAA
1 TTTAGTGGCGTTTTTGTACAAACGCCGCTAAAGACTCATAC
* * * * * *
46536 ATTA-TGGTGTATTATTAAGCACAAACGTCGCTAAATACTCGTAC
1 TTTAGTGGCGT-TT-TT--GTACAAACGCCGCTAAAGACTCATAC
** * *
46580 TTTAGTGGCGACTTTATACAAACACCGCTAAAGACTCATAC
1 TTTAGTGGCGTTTTTGTACAAACGCCGCTAAAGACTCATAC
46621 TTTAGTGGC-TTTTT
1 TTTAGTGGCGTTTTT
46635 AAGCACAAAC
Statistics
Matches: 137, Mismatches: 39, Indels: 13
0.72 0.21 0.07
Matches are distributed among these distances:
40 9 0.07
41 64 0.47
42 35 0.26
43 2 0.01
44 23 0.17
45 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTGTACAAACGCCGCTAAAGACTCATAC
Found at i:49593 original size:18 final size:17
Alignment explanation
Indices: 49561--49698 Score: 66
Period size: 18 Copynumber: 7.6 Consensus size: 17
49551 GAAAATGCAT
49561 AAATACAAAATAAATAAAC
1 AAATA-AAAA-AAATAAAC
49580 AACATAAAAAAAATAAA-
1 AA-ATAAAAAAAATAAAC
*
49597 AAAGTAAAATAAAATGAAC
1 AAA-TAAAA-AAAATAAAC
* * *
49616 AAAATAAATAGAATGATA-
1 -AAATAAAAAAAAT-AAAC
49634 AAATAAACAAAAATAAAAC
1 AAATAAA-AAAAAT-AAAC
* * *
49653 ATACAAAATAAAAAAAAC
1 AAATAAAA-AAAATAAAC
* *
49671 -AATAAACAAAAACAAAAT
1 AAATAAA-AAAAA-TAAAC
49689 AAATAAAAAA
1 AAATAAAAAA
49699 CAAAGGAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
16 1 0.01
17 22 0.24
18 37 0.40
19 26 0.28
20 6 0.07
ACGTcount: A:0.76, C:0.07, G:0.03, T:0.14
Consensus pattern (17 bp):
AAATAAAAAAAATAAAC
Found at i:49670 original size:29 final size:26
Alignment explanation
Indices: 49631--49702 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 26
49621 AAATAGAATG
*
49631 ATAAAATAAACAAAAATAAAACATACAAA
1 ATAAAAAAAACAAAAA-AAAA-A-ACAAA
*
49660 ATAAAAAAAACAATAAACAAAAACAAA
1 ATAAAAAAAACAA-AAAAAAAAACAAA
49687 ATAAATAAAAAACAAA
1 AT-AA-AAAAAACAAA
49703 GGAAAAAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 7 0.18
28 4 0.11
29 24 0.63
30 3 0.08
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.11
Consensus pattern (26 bp):
ATAAAAAAAACAAAAAAAAAAACAAA
Found at i:49682 original size:22 final size:22
Alignment explanation
Indices: 49657--49702 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
49647 TAAAACATAC
* *
49657 AAAATAAAAAAAACAATAAACA
1 AAAACAAAAAAAACAAAAAACA
* *
49679 AAAACAAAATAAATAAAAAACA
1 AAAACAAAAAAAACAAAAAACA
49701 AA
1 AA
49703 GGAAAAAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.83, C:0.09, G:0.00, T:0.09
Consensus pattern (22 bp):
AAAACAAAAAAAACAAAAAACA
Found at i:49764 original size:21 final size:21
Alignment explanation
Indices: 49721--49774 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
49711 TAATGGAGTT
* * *
49721 AAAAT-AGATAAACATGAACA
1 AAAATAAGATAAAAAGGAAAA
49741 AAAATAAGATAAAAAGGAAAA
1 AAAATAAGATAAAAAGGAAAA
*
49762 AAAGTAAAGATAA
1 AAAAT-AAGATAA
49775 TATATATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 5 0.18
21 16 0.57
22 7 0.25
ACGTcount: A:0.70, C:0.04, G:0.13, T:0.13
Consensus pattern (21 bp):
AAAATAAGATAAAAAGGAAAA
Found at i:49779 original size:2 final size:2
Alignment explanation
Indices: 49774--49825 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
49764 AGTAAAGATA
49774 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
49816 AT AT AT AT AT
1 AT AT AT AT AT
49826 TTAAAAAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49902 original size:21 final size:22
Alignment explanation
Indices: 49868--49909 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
49858 AATATGTAAG
49868 AAAAACAAATAATAAAAAAACC
1 AAAAACAAATAATAAAAAAACC
* *
49890 AAAAAGAAA-AATAGAAAAAC
1 AAAAACAAATAATAAAAAAAC
49910 AAATAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.79, C:0.10, G:0.05, T:0.07
Consensus pattern (22 bp):
AAAAACAAATAATAAAAAAACC
Found at i:49906 original size:36 final size:34
Alignment explanation
Indices: 49866--49942 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 34
49856 TAAATATGTA
49866 AGAAAAACAAATAATAAAAAAACCAAAAAGAAAAAT
1 AGAAAAACAAATAAT-AAAAAACC-AAAAGAAAAAT
* *
49902 AGAAAAACAAATAATAAAAAGCCAAAATAAAAAT
1 AGAAAAACAAATAATAAAAAACCAAAAGAAAAAT
*
49936 AGTAAAA
1 AGAAAAA
49943 TAAAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 16 0.42
35 7 0.18
36 15 0.39
ACGTcount: A:0.75, C:0.08, G:0.06, T:0.10
Consensus pattern (34 bp):
AGAAAAACAAATAATAAAAAACCAAAAGAAAAAT
Found at i:49917 original size:15 final size:13
Alignment explanation
Indices: 49890--49958 Score: 50
Period size: 14 Copynumber: 5.2 Consensus size: 13
49880 TAAAAAAACC
*
49890 AAAAAGAAAAATA
1 AAAAACAAAAATA
49903 GAAAAACAAATAATA
1 -AAAAACAAA-AATA
* *
49918 AAAAGCCAAAATA
1 AAAAACAAAAATA
**
49931 AAAATAGTAAAATA
1 AAAA-ACAAAAATA
*
49945 AAAAA-AAATATA
1 AAAAACAAAAATA
49957 AA
1 AA
49959 GTATATACAT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
12 7 0.16
13 9 0.20
14 25 0.56
15 4 0.09
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (13 bp):
AAAAACAAAAATA
Found at i:51171 original size:16 final size:16
Alignment explanation
Indices: 51141--51224 Score: 64
Period size: 16 Copynumber: 5.1 Consensus size: 16
51131 CCGGACCTGG
*
51141 AAAAGAAAT-AATAAA
1 AAAATAAATAAATAAA
51156 AAAATAAATAAATAAA
1 AAAATAAATAAATAAA
*
51172 AATAA-AAATAAGTAATA
1 AA-AATAAATAAATAA-A
* *
51189 AGTAATAAAAATAATAATA
1 A-AAATAAATA-AATAA-A
*
51208 ATAATAAATAAATAAA
1 AAAATAAATAAATAAA
51224 A
1 A
51225 GTATTTTTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.14
16 19 0.33
17 11 0.19
18 12 0.21
19 7 0.12
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (16 bp):
AAAATAAATAAATAAA
Found at i:51201 original size:26 final size:26
Alignment explanation
Indices: 51146--51224 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
51136 CCTGGAAAAG
51146 AAATAATAAA-AA-AATAAATAAATAA
1 AAATAA-AAATAATAATAAATAAATAA
*
51171 AAATAAAAATAAGTAATAAGT-AATAA
1 AAATAAAAATAA-TAATAAATAAATAA
*
51197 AAATAATAATAATAATAAATAAATAA
1 AAATAAAAATAATAATAAATAAATAA
51223 AA
1 AA
51225 GTATTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
24 3 0.06
25 15 0.32
26 23 0.49
27 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (26 bp):
AAATAAAAATAATAATAAATAAATAA
Found at i:51206 original size:3 final size:3
Alignment explanation
Indices: 51147--51214 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
51137 CTGGAAAAGA
* * *
51147 AAT AAT AA- AAA AAT AAAT AAAT AAA AAT AAA AAT AAGT AAT AAGT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AA-T AAT AA-T AAT
*
51195 AAA AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
51215 ATAAATAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 2 0.04
3 39 0.72
4 13 0.24
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:51262 original size:38 final size:39
Alignment explanation
Indices: 51221--51328 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 39
51211 ATAAATAAAT
* *
51221 AAAAGTATTTTTTTTAAAACTATATAATATAAATATTTA
1 AAAAGTGTTTTTTTAAAAACTATATAATATAAATATTTA
* *
51260 AAAAG-GTTTTTTAAAAAACTATATATTATATATAAAATTTCA
1 AAAAGTGTTTTTTTAAAAACTATATA--ATATA-AATATTT-A
51302 AAAA-TGTTTTTTTAAAAACTATATAAT
1 AAAAGTGTTTTTTTAAAAACTATATAAT
51329 CTTAAAAAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
38 17 0.29
39 5 0.08
40 7 0.12
41 6 0.10
42 24 0.41
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (39 bp):
AAAAGTGTTTTTTTAAAAACTATATAATATAAATATTTA
Found at i:51311 original size:42 final size:38
Alignment explanation
Indices: 51236--51361 Score: 136
Period size: 42 Copynumber: 3.3 Consensus size: 38
51226 TATTTTTTTT
*
51236 AAAACTATATAATATAAATATTTAAAAAGGTTTTTTAA
1 AAAACTATATAATATAAAAATTTAAAAAGGTTTTTTAA
* *
51274 AAAACTATATATTATATATAAAATTTCAAAAATGTTTTTTTA
1 AAAACTATATA--ATATA-AAAATTT-AAAAAGGTTTTTTAA
* *
51316 AAAACTATATAATCTTAAAA---AAAAA-GTTTTTT-A
1 AAAACTATATAATATAAAAATTTAAAAAGGTTTTTTAA
51349 AAAACTATATAAT
1 AAAACTATATAAT
51362 TTTCAAAAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 13
0.81 0.05 0.13
Matches are distributed among these distances:
33 14 0.18
34 7 0.09
35 5 0.06
38 11 0.14
39 4 0.05
40 8 0.10
41 6 0.08
42 24 0.30
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (38 bp):
AAAACTATATAATATAAAAATTTAAAAAGGTTTTTTAA
Found at i:51325 original size:33 final size:33
Alignment explanation
Indices: 51288--51376 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
51278 CTATATATTA
51288 TATATAAAATTTCAAAAATGTTTTTTTAAAAAC
1 TATATAAAATTTCAAAAATGTTTTTTTAAAAAC
** ** *
51321 TATATAATCTTAAAAAAAAAG-TTTTTTAAAAAC
1 TATATAAAATT-TCAAAAATGTTTTTTTAAAAAC
*
51354 TATAT-AATTTTCAAAAATGTTTT
1 TATATAAAATTTCAAAAATGTTTT
51377 CAATAACCAT
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
31 6 0.14
32 6 0.14
33 26 0.59
34 6 0.14
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (33 bp):
TATATAAAATTTCAAAAATGTTTTTTTAAAAAC
Found at i:51395 original size:37 final size:36
Alignment explanation
Indices: 51354--51580 Score: 199
Period size: 36 Copynumber: 6.2 Consensus size: 36
51344 TTTTAAAAAC
*
51354 TATATAATTTTCAAAAATGTTTTCAATAACCATATAT
1 TATATAATTTTCAAAAATGTTTT-AAAAACCATATAT
*** * *
51391 TATATAAGTTTTCAATTTTTTTTTCAAAAACTATATAT
1 TATATAA-TTTTCAAAAATGTTTT-AAAAACCATATAT
*
51429 TATATAAGTTTTC-AAAATGATTTTAAAAATCATATAT
1 TATATAA-TTTTCAAAAATG-TTTTAAAAACCATATAT
* * * * *
51466 TATATACTTTCCTAAAATATTTTAAAAACTATATAT
1 TATATAATTTTCAAAAATGTTTTAAAAACCATATAT
* * *
51502 TATACAGTTTTCAAAAGTGTTTTAAAAACCATATAT
1 TATATAATTTTCAAAAATGTTTTAAAAACCATATAT
* * *
51538 TATATTCATTTTC-AAAAGGTTTTTAGAAAA-TATATAT
1 TATA-TAATTTTCAAAAATG-TTTTA-AAAACCATATAT
51575 TATATA
1 TATATA
51581 CGTATTTTCA
Statistics
Matches: 153, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
36 57 0.37
37 51 0.33
38 45 0.29
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATAATTTTCAAAAATGTTTTAAAAACCATATAT
Found at i:51500 original size:36 final size:36
Alignment explanation
Indices: 51354--51581 Score: 178
Period size: 37 Copynumber: 6.2 Consensus size: 36
51344 TTTTAAAAAC
* * * * *
51354 TATATAATTTTCAAAAATGTTTTCAATAACCATATAT
1 TATATACTTTTCAAAAGTATTTT-AAAAACTATATAT
* *** *
51391 TATATAAGTTTTCAATTTTTTTTTCAAAAACTATATAT
1 TATAT-ACTTTTCAAAAGTATTTT-AAAAACTATATAT
*
51429 TATATAAGTTTTCAAAA-TGATTTTAAAAA-TCATATAT
1 TATAT-ACTTTTCAAAAGT-ATTTTAAAAACT-ATATAT
*
51466 TATATACTTTCCTAAAA-TATTTTAAAAACTATATAT
1 TATATACTTTTC-AAAAGTATTTTAAAAACTATATAT
* * * *
51502 TATACAGTTTTCAAAAGTGTTTTAAAAACCATATAT
1 TATATACTTTTCAAAAGTATTTTAAAAACTATATAT
*
51538 TATATTCATTTTCAAAAGGT-TTTTAGAAAA-TATATAT
1 TATATAC-TTTTCAAAA-GTATTTTA-AAAACTATATAT
51575 TATATAC
1 TATATAC
51582 GTATTTTCAA
Statistics
Matches: 160, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
35 4 0.03
36 52 0.32
37 54 0.34
38 50 0.31
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.45
Consensus pattern (36 bp):
TATATACTTTTCAAAAGTATTTTAAAAACTATATAT
Found at i:51616 original size:2 final size:2
Alignment explanation
Indices: 51605--51650 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
51595 GTTTGTGAAC
51605 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51646 TA TA T
1 TA TA T
51651 TCAAATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:52184 original size:21 final size:21
Alignment explanation
Indices: 52158--52215 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
52148 GATTTATTAT
52158 TATGGATTTCAAGTTTCTTGA
1 TATGGATTTCAAGTTTCTTGA
* * *
52179 TATGGATTTCAAATTTGTTGT
1 TATGGATTTCAAGTTTCTTGA
*
52200 TATGGATGTCAAGTTT
1 TATGGATTTCAAGTTT
52216 ATTGGATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (21 bp):
TATGGATTTCAAGTTTCTTGA
Found at i:52629 original size:42 final size:42
Alignment explanation
Indices: 52566--52646 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
52556 GCGTTTGGAG
* *
52566 AAAATGCCGCTAAATATCATAACCATTAGCGGCGTTTGTAAA
1 AAAATGCCGCTAAATAACATAACCATTAGCGGCATTTGTAAA
* *
52608 AAAATGGCGCTTAAA-AACATAACCTTTAGCGGCATTTGT
1 AAAATGCCGC-TAAATAACATAACCATTAGCGGCATTTGT
52647 TAACGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.88
43 4 0.12
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (42 bp):
AAAATGCCGCTAAATAACATAACCATTAGCGGCATTTGTAAA
Found at i:60209 original size:5 final size:5
Alignment explanation
Indices: 60195--60243 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
60185 TCCGTCTCTT
* * * * *
60195 CTCGT CTCGG CTCGG CACGG CACGG CACGA CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
60244 TGGTCGTGGT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.08, C:0.41, G:0.35, T:0.16
Consensus pattern (5 bp):
CTCGG
Found at i:69230 original size:20 final size:20
Alignment explanation
Indices: 69205--69259 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
69195 CCGATACTTA
69205 TGTGAGTATTGATACCTAGG
1 TGTGAGTATTGATACCTAGG
69225 TGTGAGTATTGATACCTAGG
1 TGTGAGTATTGATACCTAGG
*
69245 -GCTGAGTATCGATAC
1 TG-TGAGTATTGATAC
69260 TATCCTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.25, C:0.13, G:0.29, T:0.33
Consensus pattern (20 bp):
TGTGAGTATTGATACCTAGG
Found at i:73007 original size:57 final size:57
Alignment explanation
Indices: 72906--73076 Score: 198
Period size: 57 Copynumber: 3.0 Consensus size: 57
72896 CATAACCATA
* * *
72906 CAACCCCGTCACGAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTGAGCAAAAAGCCAAGGAACCCGCAAGTATT
* * *** *
72963 CAACCCCGTCACGAACAGTAAGGCTCTTAGTAAAAAGTTGAGGAACCCGTAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTGAGCAAAAAGCCAAGGAACCCGCAAGTATT
* * ** * **
73020 CAACCCCGTCACAAACAGTAAGGCTCTCAGCGCAAAGCCGAGGAACCTACAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTGAGCAAAAAGCCAAGGAACCCGCAAGTATT
73077 ATTCCTCCAA
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 95 1.00
ACGTcount: A:0.35, C:0.29, G:0.20, T:0.16
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCTCTGAGCAAAAAGCCAAGGAACCCGCAAGTATT
Found at i:77155 original size:57 final size:57
Alignment explanation
Indices: 77085--77256 Score: 247
Period size: 57 Copynumber: 3.0 Consensus size: 57
77075 CATAACCATA
* * *
77085 CAACCCCTTCACGAACAGTAAGGCCTTGAGCACAAAGCCAAGGAACCTGTAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCTTCAGCACAAAGCCGAGGAACCTGTAAGTATT
* * *
77142 CAACCCCGTCACGAACAGTAAGGCCCTCAGCACAAAGGCGAGGAACCTATAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCTTCAGCACAAAGCCGAGGAACCTGTAAGTATT
* * *
77199 CAACTCCGTCACGAACAGTAAGG-CTCTCAGCACAAAGTCGAGGAACCTGAAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCCT-TCAGCACAAAGCCGAGGAACCTGTAAGTATT
77256 C
1 C
77257 CTCCTCCAAC
Statistics
Matches: 103, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
56 1 0.01
57 102 0.99
ACGTcount: A:0.35, C:0.28, G:0.20, T:0.16
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCCTTCAGCACAAAGCCGAGGAACCTGTAAGTATT
Found at i:80734 original size:19 final size:19
Alignment explanation
Indices: 80710--80761 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
80700 AATAGCCTGA
*
80710 GTGCATCGGTGCATTGCTT
1 GTGCATCGATGCATTGCTT
*
80729 GTGCATCGATACATTGCTT
1 GTGCATCGATGCATTGCTT
80748 GTGCATCGATGCAT
1 GTGCATCGATGCAT
80762 GAAATGCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.27, T:0.35
Consensus pattern (19 bp):
GTGCATCGATGCATTGCTT
Done.