Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001641.1 Hibiscus syriacus cultivar Beakdansim tig00003287_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: 120178
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:123 original size:18 final size:18
Alignment explanation
Indices: 100--145 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
90 GAACGACTCC
100 TTAGAACAACTCTTTATA
1 TTAGAACAACTCTTTATA
118 TTAGAACAACTCTTTATA
1 TTAGAACAACTCTTTATA
136 TTAGAACAAC
1 TTAGAACAAC
146 GTTCAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.35
Consensus pattern (18 bp):
TTAGAACAACTCTTTATA
Found at i:2549 original size:47 final size:45
Alignment explanation
Indices: 2444--2554 Score: 116
Period size: 47 Copynumber: 2.4 Consensus size: 45
2434 CCATGCTTTG
* *
2444 TTATTCACAAAAAGAAATCTACCGCATGATATCTAATTCGCATGC
1 TTATTCACAAAAAGAAACCTACCGCATGATATCTAATTCGCAAGC
* * * *
2489 TTGTTCGAGAAAAATAAACCTAACCGCATGATATCTAGTTCGCAAGC
1 TTATTC-ACAAAAAGAAACCT-ACCGCATGATATCTAATTCGCAAGC
2536 ATTTATTCA-AAAAACGAAA
1 --TTATTCACAAAAA-GAAA
2555 ATAAATGACT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
45 5 0.09
46 11 0.21
47 28 0.53
48 4 0.08
49 5 0.09
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (45 bp):
TTATTCACAAAAAGAAACCTACCGCATGATATCTAATTCGCAAGC
Found at i:6575 original size:22 final size:22
Alignment explanation
Indices: 6548--6592 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6538 CTCACGCTCA
6548 CACTCGCTCGCTACTCTCGACT
1 CACTCGCTCGCTACTCTCGACT
6570 CACTCGCTCGCTACTCTCGACT
1 CACTCGCTCGCTACTCTCGACT
6592 C
1 C
6593 TTGTCTTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.47, G:0.13, T:0.27
Consensus pattern (22 bp):
CACTCGCTCGCTACTCTCGACT
Found at i:19953 original size:18 final size:17
Alignment explanation
Indices: 19927--19961 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
19917 CTAAAAAATC
19927 TAATATATTATTTATAAT
1 TAATATATTATTT-TAAT
*
19945 TAATTTATTATTTTAAT
1 TAATATATTATTTTAAT
19962 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATATATTATTTTAAT
Found at i:27837 original size:22 final size:22
Alignment explanation
Indices: 27812--27862 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
27802 TAATGTAACT
27812 ATTCAGCGCTAAATGCTGAACC
1 ATTCAGCGCTAAATGCTGAACC
*
27834 ATTCAGCGCTAAATGTTGAACC
1 ATTCAGCGCTAAATGCTGAACC
27856 ATTCAGC
1 ATTCAGC
27863 ATTCAGCGCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (22 bp):
ATTCAGCGCTAAATGCTGAACC
Found at i:32625 original size:31 final size:31
Alignment explanation
Indices: 32592--32651 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
32582 ATACTTAATA
32592 TTTTTAATATT-TAAAAATATTATTTTATTTAT
1 TTTTTAA-ATTATAAAAAT-TTATTTTATTTAT
*
32624 TTTTTAAATTATACAAATTTATTTTATT
1 TTTTTAAATTATAAAAATTTATTTTATT
32652 ATCAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTAAATTATAAAAATTTATTTTATTTAT
Found at i:34731 original size:22 final size:22
Alignment explanation
Indices: 34703--34746 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34693 CACAGTCTGC
34703 CCTTTCAGATGGTGGACACTAA
1 CCTTTCAGATGGTGGACACTAA
34725 CCTTTCAGATGGTGGACACTAA
1 CCTTTCAGATGGTGGACACTAA
34747 ATGTTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (22 bp):
CCTTTCAGATGGTGGACACTAA
Found at i:39385 original size:12 final size:12
Alignment explanation
Indices: 39368--39398 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
39358 TGTATTGTGG
39368 AACAGGCTTTTA
1 AACAGGCTTTTA
39380 AACAGGCTTTTA
1 AACAGGCTTTTA
*
39392 ATCAGGC
1 AACAGGC
39399 CAGGCTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (12 bp):
AACAGGCTTTTA
Found at i:39404 original size:17 final size:17
Alignment explanation
Indices: 39382--39420 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
39372 GGCTTTTAAA
**
39382 CAGGCTTTTAATCAGGC
1 CAGGCTTTTAAAAAGGC
39399 CAGGCTTTTAAAAAGGC
1 CAGGCTTTTAAAAAGGC
39416 CAGGC
1 CAGGC
39421 CGAGCCGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (17 bp):
CAGGCTTTTAAAAAGGC
Found at i:39506 original size:7 final size:7
Alignment explanation
Indices: 39494--39543 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
39484 GGCCAGACTC
39494 AGGGTTT
1 AGGGTTT
39501 AGGGTTT
1 AGGGTTT
*
39508 AGGATTT
1 AGGGTTT
*
39515 AGAGTTT
1 AGGGTTT
39522 AGGGTTT
1 AGGGTTT
*
39529 AAGGTTT
1 AGGGTTT
39536 AGGGTTT
1 AGGGTTT
39543 A
1 A
39544 TTTAAAACCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.36, T:0.42
Consensus pattern (7 bp):
AGGGTTT
Found at i:39629 original size:17 final size:17
Alignment explanation
Indices: 39607--39642 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
39597 TTTCGGTTTG
39607 AAAAAAAACCGATTTTT
1 AAAAAAAACCGATTTTT
*
39624 AAAAAAAACCGGTTTTT
1 AAAAAAAACCGATTTTT
39641 AA
1 AA
39643 TCCGGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAAAAAACCGATTTTT
Found at i:42858 original size:10 final size:10
Alignment explanation
Indices: 42845--42873 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
42835 AATAATTTTT
42845 TAATATTTAA
1 TAATATTTAA
42855 TAATATTTAA
1 TAATATTTAA
42865 TAATATTTA
1 TAATATTTA
42874 TTAACTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
TAATATTTAA
Found at i:42964 original size:33 final size:31
Alignment explanation
Indices: 42881--42979 Score: 94
Period size: 32 Copynumber: 3.1 Consensus size: 31
42871 TTATTAACTT
42881 TTAAAA-TTAATTTTTTAAAATATTAAA-AAAA
1 TTAAAATTTAATTTTTTAAAA-A-TAAATAAAA
** * *
42912 TTATTATTCACTTTTTTAAAAATAAATAAATA
1 TTAAAATTTAATTTTTTAAAAATAAATAAA-A
*
42944 TTAAAATTTAATTTTATTAAAAATTAATAAACA
1 TTAAAATTTAATTTT-TTAAAAATAAATAAA-A
42977 TTA
1 TTA
42980 TTAACTGTTG
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
30 4 0.07
31 8 0.15
32 24 0.44
33 18 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TTAAAATTTAATTTTTTAAAAATAAATAAAA
Found at i:42979 original size:17 final size:17
Alignment explanation
Indices: 42927--42979 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
42917 ATTCACTTTT
*
42927 TTAAAAATAAATAAATA
1 TTAAAAATTAATAAATA
* **
42944 TTAAAATTTAAT-TTTA
1 TTAAAAATTAATAAATA
*
42960 TTAAAAATTAATAAACA
1 TTAAAAATTAATAAATA
42977 TTA
1 TTA
42980 TTAACTGTTG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATTAATAAATA
Found at i:42997 original size:64 final size:61
Alignment explanation
Indices: 42881--43000 Score: 145
Period size: 64 Copynumber: 1.9 Consensus size: 61
42871 TTATTAACTT
*
42881 TTAAAATTAATTTTTTAAAATATTAAAAAAATTATTATTCACTTTTTTAAAAATAAATAAATA
1 TTAAAATTAATTTTTTAAAATATTAAAAAAATTATTA-T-ACTTTTTAAAAAATAAATAAATA
*
42944 TTAAAATTTAATTTTATTAAAA-ATTAATAAACATTATTA-ACTGTTGTTAAAAAATAA
1 TTAAAA-TTAATTTT-TTAAAATATTAA-AAAAATTATTATACT-TT-TTAAAAAATAA
43001 TAATTAACGA
Statistics
Matches: 50, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
62 3 0.06
63 8 0.16
64 23 0.46
65 16 0.32
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (61 bp):
TTAAAATTAATTTTTTAAAATATTAAAAAAATTATTATACTTTTTAAAAAATAAATAAATA
Found at i:43526 original size:11 final size:10
Alignment explanation
Indices: 43496--43551 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
43486 TTTACATTAT
*
43496 ATTTTTATTG
1 ATTTTTATTC
*
43506 AATTTTATTC
1 ATTTTTATTC
43516 ATTTTTAATTC
1 ATTTTT-ATTC
*
43527 CTTTTTATTGC
1 ATTTTTATT-C
*
43538 A-TTTTATTT
1 ATTTTTATTC
43547 ATTTT
1 ATTTT
43552 ATAATTAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 1 0.03
10 26 0.70
11 10 0.27
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:43532 original size:31 final size:32
Alignment explanation
Indices: 43497--43557 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
43487 TTACATTATA
43497 TTTTTATTGAATTTTATTCATTTT-TAATTCC
1 TTTTTATTGAATTTTATTCATTTTATAATTCC
* *
43528 TTTTTATTGCATTTTATTTATTTTATAATT
1 TTTTTATTGAATTTTATTCATTTTATAATT
43558 AATATTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 22 0.81
32 5 0.19
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (32 bp):
TTTTTATTGAATTTTATTCATTTTATAATTCC
Found at i:44838 original size:16 final size:17
Alignment explanation
Indices: 44819--44858 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
44809 GGTTTTGTTT
*
44819 TATTAAGTTT-TGTAAC
1 TATTAAATTTATGTAAC
44835 TATTAAATTTATGTAAC
1 TATTAAATTTATGTAAC
44852 TATTAAA
1 TATTAAA
44859 AGTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (17 bp):
TATTAAATTTATGTAAC
Found at i:45623 original size:8 final size:8
Alignment explanation
Indices: 45610--45728 Score: 77
Period size: 8 Copynumber: 16.1 Consensus size: 8
45600 TATATATAAA
45610 ATATTATT
1 ATATTATT
45618 ATATTATT
1 ATATTATT
45626 ATA-TATT
1 ATATTATT
45633 -TAATTATT
1 AT-ATTATT
*
45641 A-A-TAAT
1 ATATTATT
45647 ATATTATT
1 ATATTATT
45655 ATA-TATT
1 ATATTATT
45662 -TAATTATT
1 AT-ATTATT
*
45670 A-A-TACT
1 ATATTATT
45676 ATATTATT
1 ATATTATT
45684 ATA-TATT
1 ATATTATT
45691 -TAATTATT
1 AT-ATTATT
*
45699 A-A-TAAT
1 ATATTATT
45705 ATATTATT
1 ATATTATT
45713 ATA-TATT
1 ATATTATT
45720 -TAATTATT
1 AT-ATTATT
45728 A
1 A
45729 AAAAATAATA
Statistics
Matches: 87, Mismatches: 6, Indels: 35
0.68 0.05 0.27
Matches are distributed among these distances:
6 16 0.18
7 26 0.30
8 45 0.52
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (8 bp):
ATATTATT
Found at i:45650 original size:19 final size:20
Alignment explanation
Indices: 45599--45717 Score: 80
Period size: 19 Copynumber: 6.3 Consensus size: 20
45589 TTAGGGATTT
*
45599 TTATAT-ATAAAATA-TT-A
1 TTATATAATAATATATTTAA
* *
45616 TTATATTATTATATATTTAA
1 TTATATAATAATATATTTAA
45636 TTAT-TAATAATATA-TT-A
1 TTATATAATAATATATTTAA
*
45653 TTATATATTTAAT-TA-TTAA
1 TTATATA-ATAATATATTTAA
* *
45672 TACTATATTATTATATATTTAA
1 T--TATATAATAATATATTTAA
45694 TTAT-TAATAATATA-TT-A
1 TTATATAATAATATATTTAA
45711 TTATATA
1 TTATATA
45718 TTTAATTATT
Statistics
Matches: 81, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
17 16 0.20
18 18 0.22
19 24 0.30
20 11 0.14
21 7 0.09
22 5 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
TTATATAATAATATATTTAA
Found at i:45656 original size:29 final size:29
Alignment explanation
Indices: 45617--45729 Score: 217
Period size: 29 Copynumber: 3.9 Consensus size: 29
45607 AAAATATTAT
45617 TATATTATTATATATTTAATTATTAATAA
1 TATATTATTATATATTTAATTATTAATAA
*
45646 TATATTATTATATATTTAATTATTAATAC
1 TATATTATTATATATTTAATTATTAATAA
45675 TATATTATTATATATTTAATTATTAATAA
1 TATATTATTATATATTTAATTATTAATAA
45704 TATATTATTATATATTTAATTATTAA
1 TATATTATTATATATTTAATTATTAA
45730 AAAATAATAT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (29 bp):
TATATTATTATATATTTAATTATTAATAA
Found at i:54852 original size:26 final size:26
Alignment explanation
Indices: 54823--54874 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
54813 CTGACATTAA
54823 GAATAAAGCTAAAATTAATACGGTGG
1 GAATAAAGCTAAAATTAATACGGTGG
*
54849 GAATGAAGCTAAAATTAATACGGTGG
1 GAATAAAGCTAAAATTAATACGGTGG
54875 TATCTTATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.25, T:0.23
Consensus pattern (26 bp):
GAATAAAGCTAAAATTAATACGGTGG
Found at i:55226 original size:34 final size:32
Alignment explanation
Indices: 55173--55242 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
55163 CCTTACAAAC
*
55173 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
* *
55205 TCCCTAGCTTTTACACGGGCTAAGCTATAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
55239 TCCC
1 TCCC
55243 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:55650 original size:43 final size:42
Alignment explanation
Indices: 55596--55715 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 42
55586 GATAGGGGGG
* *
55596 ATCGATACCCCCTAGGGGGGAATCTGTTCCCCCTGGGGGGAGA-
1 ATCGGTACCCCCT-GGGGGGAATCTGTTCCCTCTGGGGGGA-AT
*
55639 ATCGGTACCCCCTGGGGGGGAATCGGTTCCCTCTGGGGGGAAT
1 ATCGGTACCCCCT-GGGGGGAATCTGTTCCCTCTGGGGGGAAT
* *
55682 AT--GTACCCCCTGGGGGGAATATGTACCCTCTGGG
1 ATCGGTACCCCCTGGGGGGAATCTGTTCCCTCTGGG
55716 CAATCTGATT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 20 0.29
41 9 0.13
42 1 0.01
43 39 0.57
ACGTcount: A:0.17, C:0.27, G:0.36, T:0.21
Consensus pattern (42 bp):
ATCGGTACCCCCTGGGGGGAATCTGTTCCCTCTGGGGGGAAT
Found at i:55678 original size:20 final size:20
Alignment explanation
Indices: 55601--55715 Score: 122
Period size: 20 Copynumber: 5.5 Consensus size: 20
55591 GGGGGATCGA
55601 TACCCCCTAGGGGGGAATCTG
1 TACCCCCT-GGGGGGAATCTG
* *
55622 TTCCCCCTGGGGGGAGAATCGG
1 TACCCCCT-GGGGG-GAATCTG
*
55644 TACCCCCTGGGGGGGAATCGG
1 TACCCCCT-GGGGGGAATCTG
* * *
55665 TTCCCTCTGGGGGGAATATG
1 TACCCCCTGGGGGGAATCTG
*
55685 TACCCCCTGGGGGGAATATG
1 TACCCCCTGGGGGGAATCTG
*
55705 TACCCTCTGGG
1 TACCCCCTGGG
55716 CAATCTGATT
Statistics
Matches: 82, Mismatches: 11, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
20 38 0.46
21 25 0.30
22 19 0.23
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.21
Consensus pattern (20 bp):
TACCCCCTGGGGGGAATCTG
Found at i:56922 original size:22 final size:22
Alignment explanation
Indices: 56897--56947 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
56887 TGTCACCACT
*
56897 CGTATAAATGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
*
56919 CGTAGAATTGCACCGAAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
56941 CGTAGAA
1 CGTAGAA
56948 TTGTCCATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (22 bp):
CGTAGAAATGCACCGAAGTGCC
Found at i:56948 original size:22 final size:22
Alignment explanation
Indices: 56905--56950 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56895 CTCGTATAAA
56905 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
56927 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
56949 TG
1 TG
56951 TCCATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:57239 original size:27 final size:29
Alignment explanation
Indices: 57208--57273 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 29
57198 TTTCTGCATA
*
57208 TCATGTCATGCAATAC-CA-CATATAAAT
1 TCATGTCATGCAATACACATAATATAAAT
57235 TCATGTCATGCAATACACATAATATAAAT
1 TCATGTCATGCAATACACATAATATAAAT
57264 TCATGTCATG
1 TCATGTCATG
57274 TATCATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 16 0.44
28 2 0.06
29 18 0.50
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (29 bp):
TCATGTCATGCAATACACATAATATAAAT
Found at i:57267 original size:24 final size:27
Alignment explanation
Indices: 57210--57268 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
57200 TCTGCATATC
**
57210 ATGTCATGCAATACCACATATAAATTC
1 ATGTCATGCAATACCACATATAAATAA
*
57237 ATGTCATGCAATA-CACATA-ATATAA
1 ATGTCATGCAATACCACATATAAATAA
57262 AT-TCATG
1 ATGTCATG
57269 TCATGTATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 5 0.17
25 5 0.17
26 6 0.21
27 13 0.45
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
ATGTCATGCAATACCACATATAAATAA
Found at i:58281 original size:194 final size:193
Alignment explanation
Indices: 57912--58301 Score: 705
Period size: 194 Copynumber: 2.0 Consensus size: 193
57902 GAGGTTCTGG
57912 AACCTAAAATCACACGTGGGTATCATATACCCCATAACATTTTATTTTTAATTAAAATTTTCCTT
1 AACCTAAAAT-ACACGTGGGTATCATATACCCCATAACATTTTATTTTTAATTAAAATTTTCCTT
57977 ACCAATGACCATTGGTCCTCACCTTAATCTCATATTTACCAACCTTATTTTTAAACTATATAATT
65 ACCAATGACCATTGGTCCTCACCTTAATCTCATATTTACCAACCTTATTTTTAAAC-ATATAATT
58042 GTTCTACTTTAATCACCAAATGTTGAAACTTTGCAAATTATCACTAACCC-GCATGGAGGATGTT
129 GTTCTACTTTAATCACCAAATGTTGAAACTTTGCAAATTATCACTAACCCGGCATGGAGGATGTT
58106 AACCTAAAAT-CACGTGGGTATCATATATACCCCATAACATTTTATTTTTAATTAAAATTTTCCT
1 AACCTAAAATACACGTGGGTATC--ATATACCCCATAACATTTTATTTTTAATTAAAATTTTCCT
58170 TACCAATGACCATTTGGTCCTCACCTTAATCTCATATTTACCAACCTTATTTTTAAAC-TATAAT
64 TACCAATGACCA-TTGGTCCTCACCTTAATCTCATATTTACCAACCTTATTTTTAAACATATAAT
58234 TGTTCTACTTTAATCACCAAATGTTGAAACTTTGCAAATTAATCACTAACCCGGCATGGAGGATG
128 TGTTCTACTTTAATCACCAAATGTTGAAACTTTGCAAATT-ATCACTAACCCGGCATGGAGGATG
58299 TT
192 TT
58301 A
1 A
58302 CAAATCTCTC
Statistics
Matches: 191, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
192 12 0.06
193 46 0.24
194 73 0.38
195 60 0.31
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (193 bp):
AACCTAAAATACACGTGGGTATCATATACCCCATAACATTTTATTTTTAATTAAAATTTTCCTTA
CCAATGACCATTGGTCCTCACCTTAATCTCATATTTACCAACCTTATTTTTAAACATATAATTGT
TCTACTTTAATCACCAAATGTTGAAACTTTGCAAATTATCACTAACCCGGCATGGAGGATGTT
Found at i:63568 original size:22 final size:22
Alignment explanation
Indices: 63551--63618 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
63541 CTCGTATAAA
63551 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
63573 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
63595 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
63617 TG
1 TG
63619 TCCATAAGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:63949 original size:34 final size:29
Alignment explanation
Indices: 63879--63948 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
63869 TTTTCTGCAT
63879 ATTCATGTCATGCAATACACATAATATAA
1 ATTCATGTCATGCAATACACATAATATAA
63908 ATTCATGTCATGCAATACACATAATATAA
1 ATTCATGTCATGCAATACACATAATATAA
63937 ATTCATGTCATG
1 ATTCATGTCATG
63949 TATCATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (29 bp):
ATTCATGTCATGCAATACACATAATATAA
Found at i:64385 original size:67 final size:67
Alignment explanation
Indices: 64250--64400 Score: 214
Period size: 67 Copynumber: 2.3 Consensus size: 67
64240 TTTTTCTCAT
* * *
64250 GGGGGAATCGGTTCCCCCCCTGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGAT
1 GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
64315 GA
66 GA
* * * * *
64317 GGGGGTATCGATTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGT
1 GGGGGTATCGGTTCCCCCCCT-GGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
64381 TGA
65 TGA
64384 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
64401 TTGAATGGGT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 41 0.55
68 33 0.45
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCCTGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:64412 original size:67 final size:67
Alignment explanation
Indices: 64250--64422 Score: 190
Period size: 67 Copynumber: 2.6 Consensus size: 67
64240 TTTTTCTCAT
* * * *
64250 GGGGGAATCGGTTCCCCCCCT-GGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGATT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
64314 TGA
65 TGA
* * * *
64317 GGGGGTATCGATTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGT
1 GGGGGTATCGATT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
64381 TGA
65 TGA
* * *
64384 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGATTCCCCCCTG--GGGGTACCGATTCCCCT
64423 AACCCAGAAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 6 0.07
67 53 0.58
68 33 0.36
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGATTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:67362 original size:34 final size:32
Alignment explanation
Indices: 67300--67369 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
67290 CCTTACAAAC
* * *
67300 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACATT
*
67332 TCCCTAGCTTTTACACGGGATAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACATT
67366 TCCC
1 TCCC
67370 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACATT
Found at i:67743 original size:20 final size:20
Alignment explanation
Indices: 67718--67772 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
67708 CCGTTAGACA
*
67718 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
67738 GGGGGAATCTGTTCCCCCTG
1 GGGGGAATCTGTACCCCCTG
67758 GGGGGAATCTGTACC
1 GGGGGAATCTGTACC
67773 TCTTGGACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.27, G:0.38, T:0.20
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:68450 original size:17 final size:17
Alignment explanation
Indices: 68428--68463 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
68418 ATAAAATACT
68428 ACCTTTGGAAGTTATGA
1 ACCTTTGGAAGTTATGA
68445 ACCTTTGGAAGTTATGA
1 ACCTTTGGAAGTTATGA
68462 AC
1 AC
68464 AATGAGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (17 bp):
ACCTTTGGAAGTTATGA
Found at i:69165 original size:2 final size:2
Alignment explanation
Indices: 69158--69231 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
69148 AAAGAAAAAC
69158 TA TA TA TA 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
69200 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
69232 CATACAACAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:69976 original size:25 final size:23
Alignment explanation
Indices: 69945--70029 Score: 82
Period size: 25 Copynumber: 3.5 Consensus size: 23
69935 CAAAACTTCG
69945 TCAAACATTCTTCAAAATTATTTCA
1 TCAAACATT-TTCAAAATT-TTTCA
*
69970 TCAAACATTTTTTAAAATTCTTTCA
1 TCAAACA-TTTTCAAAATT-TTTCA
*
69995 T-AAAGCATTTTCAAAACTTCTTCA
1 TCAAA-CATTTTCAAAA-TTTTTCA
*
70019 TCAAACTTTTT
1 TCAAACATTTT
70030 AACCTTTTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
24 21 0.41
25 28 0.55
26 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.01, T:0.44
Consensus pattern (23 bp):
TCAAACATTTTCAAAATTTTTCA
Found at i:73462 original size:16 final size:18
Alignment explanation
Indices: 73436--73469 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73426 TTTTAAGAGG
73436 TAAAAATAAACT-TTTAA
1 TAAAAATAAACTATTTAA
73453 TAAAAA-AAACTATTTAA
1 TAAAAATAAACTATTTAA
73470 AATATATAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
TAAAAATAAACTATTTAA
Found at i:90081 original size:21 final size:21
Alignment explanation
Indices: 90052--90105 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
90042 ATTTACATAT
*
90052 TCGCATTGCGATAGTCCAAGC
1 TCGCGTTGCGATAGTCCAAGC
* *
90073 TCGCGTTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCCAAGC
*
90094 TCGAGTTGCGAT
1 TCGCGTTGCGAT
90106 TTATTCCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCCAAGC
Found at i:90122 original size:21 final size:21
Alignment explanation
Indices: 90098--90332 Score: 243
Period size: 21 Copynumber: 11.4 Consensus size: 21
90088 CGAAGTTCGA
90098 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
90119 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
90140 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
* *
90161 GTTGCGA--TAGTCCAAGTTC
1 GTTGCGATTTATTCCAAATTC
* * * *
90180 GTTGAGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCCAAATT--C
90201 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
*
90222 GTTGCTATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
* *
90243 GTTGTGATTTATTTCAAATTC
1 GTTGCGATTTATTCCAAATTC
* * *
90264 GTTGCGA--TAGTCGAAGTTC
1 GTTGCGATTTATTCCAAATTC
* * *
90283 GTTGCGA--TAGTCGAAGTTCGC
1 GTTGCGATTTATTCCAAATT--C
90304 GTTGCGATTTATTCCAAATTC
1 GTTGCGATTTATTCCAAATTC
90325 GTTGCGAT
1 GTTGCGAT
90333 AGTTCAAAAT
Statistics
Matches: 186, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
19 52 0.28
21 118 0.63
23 16 0.09
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (21 bp):
GTTGCGATTTATTCCAAATTC
Found at i:90194 original size:103 final size:103
Alignment explanation
Indices: 90057--90332 Score: 471
Period size: 103 Copynumber: 2.7 Consensus size: 103
90047 CATATTCGCA
* *
90057 TTGCGATAGTCCAAGCTCGCGTTGCGATAGTCGAAGTTCGAGTTGCGATTTATTCCAAATTCGTT
1 TTGCGATAGTCCAAG-T-TCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTT
90122 GCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
64 GCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
*
90162 TTGCGATAGTCCAAGTTCGTTGAGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
1 TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
* * *
90227 TATTTATTCCAAATTCGTTGTGATTTATTTCAAATTCG
66 GATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
*
90265 TTGCGATAGTCGAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
1 TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
90330 GAT
66 GAT
90333 AGTTCAAAAT
Statistics
Matches: 162, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
103 146 0.90
104 1 0.01
105 15 0.09
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (103 bp):
TTGCGATAGTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGC
GATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
Found at i:90226 original size:82 final size:80
Alignment explanation
Indices: 90116--90340 Score: 292
Period size: 82 Copynumber: 2.8 Consensus size: 80
90106 TTATTCCAAA
*
90116 TTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCG
1 TTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAATTCG
90181 TTGAGATAGTCGAAG
66 TTGAGATAGTCGAAG
* * * *
90196 TTCGCGTTGCGATTTATTCCAAATTCGTTGCTATTTATTCCAAATTCGTTGTGATTTATTTCAAA
1 TT--CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCCAAA
*
90261 TTCGTTGCGATAGTCGAAG
62 TTCGTTGAGATAGTCGAAG
* * * *
90280 TTCGTTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTTCAAA
1 TTCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAA
90341 ATCGCAACGA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
80 18 0.14
82 83 0.65
84 26 0.20
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (80 bp):
TTCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAATTCG
TTGAGATAGTCGAAG
Found at i:91032 original size:19 final size:19
Alignment explanation
Indices: 91010--91076 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
91000 TCGTTGCGAT
91010 TTTGGACTATCGTAACGAA
1 TTTGGACTATCGTAACGAA
*
91029 TTTGGAATAAATCGTAACGCGAA
1 TTTGGACT--ATCGTAA--CGAA
* * *
91052 CTTCGACTATCGCAACGAA
1 TTTGGACTATCGTAACGAA
91071 TTTGGA
1 TTTGGA
91077 AAATCGCAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 15 0.41
21 13 0.35
23 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (19 bp):
TTTGGACTATCGTAACGAA
Found at i:91063 original size:21 final size:21
Alignment explanation
Indices: 91039--91112 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
91029 TTTGGAATAA
* *
91039 ATCGTAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT
* **
91060 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
91079 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
91100 ATCGCAATGCGAA
1 ATCGCAACGCGAA
91113 TATGTAAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 15 0.36
21 27 0.64
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:91113 original size:42 final size:40
Alignment explanation
Indices: 91011--91106 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
91001 CGTTGCGATT
* *
91011 TTGGACTATCGTAACGAATTTGGAATAAATCGTAACGCGAAC
1 TTGGACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAAC
*
91053 TTCGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
91093 TTGGACTATCGCAA
1 TTGGACTATCGCAA
91107 TGCGAATATG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 28 0.56
41 1 0.02
42 21 0.42
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
Found at i:95126 original size:17 final size:17
Alignment explanation
Indices: 95085--95127 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
95075 GTAATCTCAG
*
95085 CCTCCTTCGGTGTAACA
1 CCTCCTTTGGTGTAACA
95102 CCTCCTTTGGTGTAACA
1 CCTCCTTTGGTGTAACA
95119 CCTCCTTTG
1 CCTCCTTTG
95128 TCCCCATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.35, G:0.16, T:0.35
Consensus pattern (17 bp):
CCTCCTTTGGTGTAACA
Found at i:108361 original size:72 final size:73
Alignment explanation
Indices: 108249--108390 Score: 196
Period size: 72 Copynumber: 2.0 Consensus size: 73
108239 TAAATAAGAT
* * *
108249 TTGGTCACCACGTATTGACTGTAGTTGAATCACTAACATTTATTGAGCTTTCACATAAGGGTAAA
1 TTGGTCACCACGGATTGACTGTAGTTGAATCACTAACATTTATTAAGCTTTCACATAAGAGTAAA
108314 CTACATAG
66 CTACATAG
* * * * * *
108322 TTGGTCATCACGGGTTGATTGTA-TTGGATCACTACCATTTGTTAAGCTTTCACATAAGAGTAAA
1 TTGGTCACCACGGATTGACTGTAGTTGAATCACTAACATTTATTAAGCTTTCACATAAGAGTAAA
108386 CTACA
66 CTACA
108391 GAATTAGTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
72 41 0.68
73 19 0.32
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (73 bp):
TTGGTCACCACGGATTGACTGTAGTTGAATCACTAACATTTATTAAGCTTTCACATAAGAGTAAA
CTACATAG
Found at i:109094 original size:17 final size:17
Alignment explanation
Indices: 109062--109095 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109052 TGGGATAATC
**
109062 AATATTTCAGTGACCCA
1 AATATTTCAGCAACCCA
109079 AATATTTCAGCAACCCA
1 AATATTTCAGCAACCCA
109096 TTATTTGTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.26
Consensus pattern (17 bp):
AATATTTCAGCAACCCA
Done.