Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006775.1 Hibiscus syriacus cultivar Beakdansim tig00017126_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: 75198
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:278 original size:18 final size:18
Alignment explanation
Indices: 255--289 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
245 AGCAAAAGGC
*
255 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
273 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
290 CCGGCTTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:640 original size:33 final size:34
Alignment explanation
Indices: 586--662 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 34
576 TTCATTTCAA
* *
586 TATCGCAACGCAAAAATCGCAACGTGAATTTGAC
1 TATCGCAACACAAAAATCGCAACGCGAATTTGAC
620 TATCGCAACAC-AAAATCGCAACGCGAATTTGAC
1 TATCGCAACACAAAAATCGCAACGCGAATTTGAC
*
653 TATCTCAACA
1 TATCGCAACA
663 AATTTGACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (34 bp):
TATCGCAACACAAAAATCGCAACGCGAATTTGAC
Found at i:688 original size:20 final size:20
Alignment explanation
Indices: 634--740 Score: 137
Period size: 20 Copynumber: 5.5 Consensus size: 20
624 GCAACACAAA
*
634 ATCGCAACGCGAATTTGACT
1 ATCGCAACGTGAATTTGACT
* *
654 ATCTCAAC--AAATTTGACT
1 ATCGCAACGTGAATTTGACT
*
672 ATCGCAACGTGAATTTGATT
1 ATCGCAACGTGAATTTGACT
* *
692 ATCACAACGTGAATTTGATT
1 ATCGCAACGTGAATTTGACT
*
712 ATCGCAACGGGAATTTGACT
1 ATCGCAACGTGAATTTGACT
732 ATCGCAACG
1 ATCGCAACG
741 AGAAAATTGC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
18 16 0.21
20 60 0.79
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (20 bp):
ATCGCAACGTGAATTTGACT
Found at i:832 original size:22 final size:22
Alignment explanation
Indices: 806--848 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
796 ATTTTGGCTT
*
806 TCGCATTTCGATAACGACAAAA
1 TCGCATTGCGATAACGACAAAA
*
828 TCGCATTGCGATAATGACAAA
1 TCGCATTGCGATAACGACAAA
849 TCAACAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGATAACGACAAAA
Found at i:2397 original size:41 final size:42
Alignment explanation
Indices: 2340--2448 Score: 114
Period size: 41 Copynumber: 2.6 Consensus size: 42
2330 ATGAATCGGG
*
2340 CTCTTGAATGGTGGGAGAGACCTCTTCAACGATGACA-GGGC
1 CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
* * ** *
2381 CTCTTGAACGGTGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGA-GAGACCTCTTCAACGATGACAGGGGC
* * *
2423 CTCTTGAACGATAGGAGAGGCCTCTT
1 CTCTTGAACGGTGGGAGAGACCTCTT
2449 GAACATTGGC
Statistics
Matches: 55, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
41 29 0.53
42 26 0.47
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGACCTCTTCAACGATGACAGGGGC
Found at i:2407 original size:21 final size:21
Alignment explanation
Indices: 2340--2452 Score: 77
Period size: 21 Copynumber: 5.4 Consensus size: 21
2330 ATGAATCGGG
* * *
2340 CTCTTGAATGGTGGGAGAGAC
1 CTCTTGAACGGTGGGAGGGGC
* * **
2361 CTCTTCAACGATGACA-GGGC
1 CTCTTGAACGGTGGGAGGGGC
*
2381 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGC
* **
2402 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
2423 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
2444 CTCTTGAAC
1 CTCTTGAAC
2453 ATTGGCAGGT
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
20 17 0.25
21 48 0.72
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:3048 original size:19 final size:19
Alignment explanation
Indices: 3026--3170 Score: 86
Period size: 20 Copynumber: 7.7 Consensus size: 19
3016 CGAAACTAAA
*
3026 TTCGCATTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3045 TTCGCATTGCGA--TT-A-
1 TTCGCGTTGCGATTTTCAT
* ** *
3060 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTTTC-AT
**
3079 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
**
3099 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
**
3119 TTCGCGTTGCGATTTTGGT
1 TTCGCGTTGCGATTTTCAT
3138 TTCGCGTTGCGATTGTT-AT
1 TTCGCGTTGCGATT-TTCAT
* *
3157 TTCACATTGCGATT
1 TTCGCGTTGCGATT
3171 ATCTTGTTGT
Statistics
Matches: 106, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
14 9 0.08
16 2 0.02
17 2 0.02
18 1 0.01
19 41 0.39
20 51 0.48
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:3088 original size:20 final size:20
Alignment explanation
Indices: 3063--3223 Score: 133
Period size: 20 Copynumber: 8.4 Consensus size: 20
3053 GCGATTATCC
**
3063 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
3083 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
3103 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* ***
3123 CGTTGCGAT-TTTGGTTTCG
1 CGTTGCGATAGTCATTTTCG
* * *
3142 CGTTGCGATTGTTA-TTTCA
1 CGTTGCGATAGTCATTTTCG
* *
3161 CATTGCGAT--T-ATCTT--
1 CGTTGCGATAGTCATTTTCG
* *
3176 -GTTGTGATAGTCAAATTT-G
1 CGTTGCGATAGTC-ATTTTCG
3195 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
3215 CGTTGCGAT
1 CGTTGCGAT
3224 TTTAAGTTTC
Statistics
Matches: 115, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
14 6 0.05
16 2 0.02
17 3 0.03
18 3 0.03
19 31 0.27
20 70 0.61
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:3234 original size:112 final size:112
Alignment explanation
Indices: 3026--3244 Score: 323
Period size: 112 Copynumber: 2.0 Consensus size: 112
3016 CGAAACTAAA
*
3026 TTCGCATTGCGATTTTCATTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
1 TTCGCATTGCGATTTTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
* *
3091 TAGTCATTTTCGCGTTGCGATAGTCATTTTCGCGTTGCGATTTTGGT
66 TAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATTTTGGT
* ** * *
3138 TTCGCGTTGCGATTGTT-ATTTCACATTGCGATTATCTTGTTGTGATAGTCAAATTTGCGTTGCG
1 TTCGCATTGCGATT-TTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
** *
3202 ATAGTCATTTTCGCGTTGCGATTTTAAGTTTCGTGTTGCGATT
65 ATAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATT
3245 ATTCTTCTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
112 93 0.98
113 2 0.02
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.42
Consensus pattern (112 bp):
TTCGCATTGCGATTTTCATTTCACATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCGA
TAGTCATTTTCGCGTTGCGATAGTAAGTTTCGCGTTGCGATTTTGGT
Found at i:3803 original size:18 final size:19
Alignment explanation
Indices: 3774--3809 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3764 TGGTCGATCA
3774 GGTGATGGTGATGGCTCTG
1 GGTGATGGTGATGGCTCTG
3793 GGTGA-GGTGATGGCTCT
1 GGTGATGGTGATGGCTCT
3810 TGAAGTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.11, C:0.11, G:0.47, T:0.31
Consensus pattern (19 bp):
GGTGATGGTGATGGCTCTG
Found at i:5575 original size:22 final size:22
Alignment explanation
Indices: 5548--5599 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
5538 GGAGATAGAT
* *
5548 GGATTTCGTCGGAGATGGGGAG
1 GGATTTCGTCGGAGATGAGGAC
5570 GGATTTCGTCGGAGATGAGGAC
1 GGATTTCGTCGGAGATGAGGAC
5592 GGATTTCG
1 GGATTTCG
5600 CCGTAGAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.44, T:0.25
Consensus pattern (22 bp):
GGATTTCGTCGGAGATGAGGAC
Found at i:5767 original size:21 final size:21
Alignment explanation
Indices: 5741--5795 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
5731 CTCTTTGAAA
5741 ATCGCATTGCGATTATATATT
1 ATCGCATTGCGATTATATATT
*
5762 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATATATT
*
5783 ATCGCGTTGCGAT
1 ATCGCATTGCGAT
5796 AGTCAGAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (21 bp):
ATCGCATTGCGATTATATATT
Found at i:5808 original size:20 final size:20
Alignment explanation
Indices: 5783--5855 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
5773 ATTATGTATT
5783 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
* *
5803 ATCGCGTTGCGATAGTAAAA
1 ATCGCGTTGCGATAGTCAGA
5823 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
5843 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
5856 TCATAGATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:10394 original size:29 final size:30
Alignment explanation
Indices: 10362--10420 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
10352 TTTTTTTACG
10362 ATGA-ATGAAATAAAAATT-AAACTTTAAAT
1 ATGATATGAAA-AAAAATTAAAACTTTAAAT
* * *
10391 ATGATTTTAAAAAAAATTAAAAGTTTAAAT
1 ATGATATGAAAAAAAATTAAAACTTTAAAT
10421 GTAAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (30 bp):
ATGATATGAAAAAAAATTAAAACTTTAAAT
Found at i:13585 original size:28 final size:26
Alignment explanation
Indices: 13524--13586 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 26
13514 TATGTGATTT
13524 TAAAAATAAATAAAATTCAAGTACTAA
1 TAAAAA-AAATAAAATTCAAGTACTAA
* * *
13551 -AACAAAAATAATAATTTAATTACTATA
1 TAAAAAAAATAA-AATTCAAGTACTA-A
13578 TAAAAAAAA
1 TAAAAAAAA
13587 AATGGCTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
25 6 0.21
26 15 0.52
27 1 0.03
28 7 0.24
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAAAAAAATAAAATTCAAGTACTAA
Found at i:16796 original size:33 final size:33
Alignment explanation
Indices: 16750--16822 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
16740 CACAGTTATC
*
16750 TTGCCTCTTTTCAT-TGATCCCCACCACATTAAT
1 TTGCCTCTTTTCATCAG-TCCCCACCACATTAAT
* *
16783 TTGCCT-TTCTTCATCAGTCCCCACCGCTTTAAT
1 TTGCCTCTT-TTCATCAGTCCCCACCACATTAAT
16816 TTGCCTC
1 TTGCCTC
16823 GAATTATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 2 0.06
33 31 0.91
34 1 0.03
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (33 bp):
TTGCCTCTTTTCATCAGTCCCCACCACATTAAT
Found at i:24738 original size:29 final size:29
Alignment explanation
Indices: 24636--24743 Score: 135
Period size: 30 Copynumber: 3.7 Consensus size: 29
24626 TAGAGAATAA
24636 TTTACGTAAAATGAATTACTTGAAAACTGT
1 TTTACGTAAAATGAATTA-TTGAAAACTGT
* *
24666 TTTACGTAAAATAAATTGTTTGAAAACTGT
1 TTTACGTAAAATGAATT-ATTGAAAACTGT
* ** *
24696 TTTACGTAACATGAATTATCAAAAATTGT
1 TTTACGTAAAATGAATTATTGAAAACTGT
*
24725 TTTACTTAAAATGAATTAT
1 TTTACGTAAAATGAATTAT
24744 ATTTTTTGAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
29 25 0.37
30 42 0.63
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (29 bp):
TTTACGTAAAATGAATTATTGAAAACTGT
Found at i:30516 original size:15 final size:15
Alignment explanation
Indices: 30496--30534 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
30486 AAAAAATAAC
* *
30496 ATAACTAGATTGTAG
1 ATAACTAAATTATAG
30511 ATAACTAAATTATAG
1 ATAACTAAATTATAG
30526 ATAACTAAA
1 ATAACTAAA
30535 CCATCCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (15 bp):
ATAACTAAATTATAG
Found at i:36809 original size:24 final size:23
Alignment explanation
Indices: 36776--36823 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
36766 CATATATGTA
36776 TAAATAAATATATAATAA-ATAAT
1 TAAATAAATATAT-ATAATATAAT
36799 TAAATCAAATATATATAATATAAT
1 TAAAT-AAATATATATAATATAAT
36823 T
1 T
36824 TAAAACGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATAAATATATATAATATAAT
Found at i:40875 original size:2 final size:2
Alignment explanation
Indices: 40868--40912 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
40858 GTTTATTAGA
40868 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
40910 AT A
1 AT A
40913 AAACAAATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:40966 original size:40 final size:40
Alignment explanation
Indices: 40911--40993 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
40901 TATATATATA
40911 TAAAACAAATTAATTCATATTATGACTATGTCTGATATTT
1 TAAAACAAATTAATTCATATTATGACTATGTCTGATATTT
*
40951 TAAAATAAATTAATTCATATTATGACTATGTCTGATATTT
1 TAAAACAAATTAATTCATATTATGACTATGTCTGATATTT
40991 TAA
1 TAA
40994 TAGATTAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.43
Consensus pattern (40 bp):
TAAAACAAATTAATTCATATTATGACTATGTCTGATATTT
Found at i:43434 original size:31 final size:31
Alignment explanation
Indices: 43396--43580 Score: 327
Period size: 31 Copynumber: 6.0 Consensus size: 31
43386 GGGTCGAGGG
43396 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
43427 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
43458 TTACCTATGTTCTTCGGGACATATGGGCTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
43489 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
43520 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
43551 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
43581 GTCCTTCGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:47844 original size:31 final size:31
Alignment explanation
Indices: 47806--47990 Score: 336
Period size: 31 Copynumber: 6.0 Consensus size: 31
47796 GGGTCGAGGG
47806 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
47837 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
47868 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
47899 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
47930 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
47961 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
47991 GTCCTTCGGG
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:50275 original size:18 final size:18
Alignment explanation
Indices: 50252--50294 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50242 ACTTGGGGAT
**
50252 GATGATTAGATGTGCTAG
1 GATGATTAGACATGCTAG
*
50270 GATGATTGGACATGCTAG
1 GATGATTAGACATGCTAG
50288 GATGATT
1 GATGATT
50295 GAAGGTCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (18 bp):
GATGATTAGACATGCTAG
Found at i:60526 original size:57 final size:57
Alignment explanation
Indices: 60438--60552 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
60428 GATTACTAAA
60438 TTTAAAATGTACAAAGAGTATAAGAACTTACAACTAACAAACATTGTATTGGGTTTT
1 TTTAAAATGTACAAAGAGTATAAGAACTTACAACTAACAAACATTGTATTGGGTTTT
60495 TTTAAAATGTACAAAGAGTATAAGAACTTACAACTAACAAACATTGTATTGGGTTTT
1 TTTAAAATGTACAAAGAGTATAAGAACTTACAACTAACAAACATTGTATTGGGTTTT
60552 T
1 T
60553 GGTAAGTATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (57 bp):
TTTAAAATGTACAAAGAGTATAAGAACTTACAACTAACAAACATTGTATTGGGTTTT
Done.