Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005104.1 Hibiscus syriacus cultivar Beakdansim tig00011473_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: 120941
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:2617 original size:13 final size:13
Alignment explanation
Indices: 2599--2624 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2589 CTTTCAACAA
2599 TCCTTTCTTTGCC
1 TCCTTTCTTTGCC
2612 TCCTTTCTTTGCC
1 TCCTTTCTTTGCC
2625 AGAATTTGCA
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:0.00, C:0.38, G:0.08, T:0.54
Consensus pattern (13 bp):
TCCTTTCTTTGCC
Found at i:7287 original size:19 final size:21
Alignment explanation
Indices: 7247--7293 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7237 ATTTTATATA
7247 AAATTTTAAAAAATAAATTAT
1 AAATTTTAAAAAATAAATTAT
* *
7268 ATATTTTAAAAAA-ACA-TAT
1 AAATTTTAAAAAATAAATTAT
7287 AAATTTT
1 AAATTTT
7294 GAAATAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 9 0.39
20 2 0.09
21 12 0.52
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTTAAAAAATAAATTAT
Found at i:7521 original size:31 final size:31
Alignment explanation
Indices: 7483--7669 Score: 108
Period size: 31 Copynumber: 5.6 Consensus size: 31
7473 AAACTACATA
7483 TTTGGTCACTTATATATTATCTAATTTATGT
1 TTTGGTCACTTATATATTATCTAATTTATGT
* * ** *
7514 TTTGGTCACTCA-ATTATTATTTAGGGCAAACTATCT
1 TTTGGTCACTTATA-TATTATCT-----AATTTATGT
*
7550 ATTTGTTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
* ** ** **
7582 TTTGGTCACTCGATTATTATTTAGGGTAAACTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
*
7618 ATTTGGTCACTTATATATTATCTAATTTTTGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
7650 TTTGGTCACTCTAT-TATTAT
1 TTTGGTCACT-TATATATTAT
7670 TTTTTCCAAA
Statistics
Matches: 114, Mismatches: 27, Indels: 30
0.67 0.16 0.18
Matches are distributed among these distances:
30 1 0.01
31 43 0.38
32 15 0.13
33 5 0.04
34 4 0.04
35 5 0.04
36 13 0.11
37 27 0.24
38 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (31 bp):
TTTGGTCACTTATATATTATCTAATTTATGT
Found at i:7574 original size:68 final size:67
Alignment explanation
Indices: 7465--7671 Score: 342
Period size: 68 Copynumber: 3.0 Consensus size: 67
7455 TTAGAGGTTT
7465 TTTAGGGTAAACTACATATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
1 TTTAGGGTAAACTAC-TATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
7530 TTA
65 TTA
* * *
7533 TTTAGGGCAAACTATCTATTTGTTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTA-CTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
7598 TTA
65 TTA
* *
7601 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTTTGTTTTGGTCACTCTATTA
1 TTTAGGGTAAACTA-CTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
7666 TTA
65 TTA
7669 TTT
1 TTT
7672 TTTCCAAAAT
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
68 129 0.99
69 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.49
Consensus pattern (67 bp):
TTTAGGGTAAACTACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTAT
TA
Found at i:7788 original size:32 final size:32
Alignment explanation
Indices: 7752--7815 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
7742 TGCTAACATG
*
7752 ACATTTTTTAATTATGTTTGGATGTTGGACTA
1 ACATTTTTTAATTAAGTTTGGATGTTGGACTA
7784 ACATTTTTTAATTAAGTTTGGATGTTGGACTA
1 ACATTTTTTAATTAAGTTTGGATGTTGGACTA
7816 TGTAATTCGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.06, G:0.19, T:0.48
Consensus pattern (32 bp):
ACATTTTTTAATTAAGTTTGGATGTTGGACTA
Found at i:8970 original size:2 final size:2
Alignment explanation
Indices: 8963--8991 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8953 GACTATCAAT
8963 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8992 CAATTTTATT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30108 original size:11 final size:12
Alignment explanation
Indices: 30066--30107 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
30056 GTCAAGTAGT
30066 AAATAATATTTA
1 AAATAATATTTA
*
30078 AAATAATAAATTTT
1 AAATAAT--ATTTA
30092 AAAT-ATATTTA
1 AAATAATATTTA
30103 AAATA
1 AAATA
30108 TCGAATTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 8 0.32
12 7 0.28
13 2 0.08
14 8 0.32
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATAATATTTA
Found at i:33949 original size:2 final size:2
Alignment explanation
Indices: 33944--33970 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33934 TATTTTTTTC
33944 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
33971 TCGTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42522 original size:18 final size:17
Alignment explanation
Indices: 42490--42524 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
42480 CACGTGAGGA
42490 TTATTTTCTTCTTATTT
1 TTATTTTCTTCTTATTT
*
42507 TTATTTATCTTTTTATTT
1 TTATTT-TCTTCTTATTT
42525 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (17 bp):
TTATTTTCTTCTTATTT
Found at i:52017 original size:17 final size:16
Alignment explanation
Indices: 51986--52019 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
51976 CACGTGAGGA
51986 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
52002 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
52019 T
1 T
52020 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:55093 original size:2 final size:2
Alignment explanation
Indices: 55086--55136 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
55076 AATTAAATTA
* * *
55086 AT AT AT AT AT AT AT AT AT AT AT -T AT TT AT AT AT TT A- AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
55126 AA AT AT AT AT A
1 AT AT AT AT AT A
55137 CCCGGCCCGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:58393 original size:14 final size:14
Alignment explanation
Indices: 58371--58400 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
58361 TTTCTTAAAT
58371 AATAAATTAATTAA
1 AATAAATTAATTAA
*
58385 AATAGATTAATTAA
1 AATAAATTAATTAA
58399 AA
1 AA
58401 ATTAAACCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAAATTAATTAA
Found at i:59654 original size:30 final size:30
Alignment explanation
Indices: 59619--59703 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
59609 TTGAAGGGCT
*
59619 AAAATAGCTAAAATAGAAAGTTAAAGGACA
1 AAAATAGCTAAAAAAGAAAGTTAAAGGACA
* * *
59649 AAAATATC-AAAAAAGGAAACTTAAAGGACT
1 AAAATAGCTAAAAAA-GAAAGTTAAAGGACA
* *
59679 AAAATAGCTAAAACAGAAAGGTAAA
1 AAAATAGCTAAAAAAGAAAGTTAAA
59704 TTGACTAAAC
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
29 5 0.11
30 35 0.78
31 5 0.11
ACGTcount: A:0.61, C:0.08, G:0.15, T:0.15
Consensus pattern (30 bp):
AAAATAGCTAAAAAAGAAAGTTAAAGGACA
Found at i:61186 original size:3 final size:3
Alignment explanation
Indices: 61178--61229 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
61168 AAAATAACAT
61178 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61226 TAA T
1 TAA T
61230 CACCTTGTGT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:62716 original size:23 final size:23
Alignment explanation
Indices: 62690--62738 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
62680 TTATAGTACG
* *
62690 TTTTCGTCTA-CTTTTATGATAT
1 TTTTTGTCTATCTTTTATCATAT
* *
62712 TTTTTTTTTATCTTTTATCATAT
1 TTTTTGTCTATCTTTTATCATAT
62735 TTTT
1 TTTT
62739 CACTCGTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.16, C:0.10, G:0.04, T:0.69
Consensus pattern (23 bp):
TTTTTGTCTATCTTTTATCATAT
Found at i:69804 original size:2 final size:2
Alignment explanation
Indices: 69797--69842 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
69787 GGTAGTTTTA
69797 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
69839 AT AT
1 AT AT
69843 TGGTTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70180 original size:2 final size:2
Alignment explanation
Indices: 70173--70214 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
70163 AAATAAATAA
70173 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
70215 GAATTGGGTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79458 original size:3 final size:3
Alignment explanation
Indices: 79437--79526 Score: 53
Period size: 3 Copynumber: 28.7 Consensus size: 3
79427 ATCTATTTTA
*
79437 ATT ATT A-T ATTT ATAT ATT ATT A-T ATT -TT AATT ATTT ATT ATT TTT
1 ATT ATT ATT A-TT AT-T ATT ATT ATT ATT ATT -ATT A-TT ATT ATT ATT
* *
79483 AATA ATT ATT ATT ATTT ATT ATT TTT ATT A-T ATTT ATTT ATT AT
1 -ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT A-TT A-TT ATT AT
79527 AATATAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 22
0.71 0.06 0.22
Matches are distributed among these distances:
2 8 0.11
3 42 0.60
4 20 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:79458 original size:16 final size:16
Alignment explanation
Indices: 79437--79531 Score: 77
Period size: 16 Copynumber: 5.6 Consensus size: 16
79427 ATCTATTTTA
79437 ATTATTATATTTATAT
1 ATTATTATATTTATAT
79453 ATTATTATATTT-TA-
1 ATTATTATATTTATAT
*
79467 ATTATTTATTATTTTTAAT
1 ATTA-TTA-TATTTAT-AT
79486 AATTATTATTATTTATTATT
1 -ATTATTA-TATTTA-TA-T
* *
79506 TTTATTATATTTATTT
1 ATTATTATATTTATAT
*
79522 ATTATAATAT
1 ATTATTATAT
79532 AATTTTTCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
14 4 0.06
15 5 0.08
16 26 0.39
17 2 0.03
18 7 0.11
19 16 0.24
20 6 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:79523 original size:26 final size:26
Alignment explanation
Indices: 79438--79524 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 26
79428 TCTATTTTAA
*
79438 TTATTATATTTA-TA-TATTATTATATT
1 TTATT-TATTTATTATTTTTATTATA-T
* *
79464 TTAATTATTTATTATTTTTA--ATAA
1 TTATTTATTTATTATTTTTATTATAT
79488 TTATTATTATTTATTATTTTTATTATAT
1 TTA-T-TTATTTATTATTTTTATTATAT
79516 TTATTTATT
1 TTATTTATT
79525 ATAATATAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
24 3 0.06
25 9 0.18
26 27 0.54
27 5 0.10
28 6 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTATTTATTTATTATTTTTATTATAT
Found at i:79524 original size:13 final size:13
Alignment explanation
Indices: 79439--79527 Score: 57
Period size: 13 Copynumber: 7.2 Consensus size: 13
79429 CTATTTTAAT
79439 TATTATATTTA-TA
1 TATT-TATTTATTA
*
79452 TA-TTATTATATTT
1 TATTTATT-TATTA
*
79465 TAATTATTTATTA
1 TATTTATTTATTA
* * *
79478 TTTTTAATAATTA
1 TATTTATTTATTA
79491 T-TATTATTTA-T-
1 TAT-TTATTTATTA
79502 TA-TT-TTTATTA
1 TATTTATTTATTA
79513 TATTTATTTATTA
1 TATTTATTTATTA
79526 TA
1 TA
79528 ATATAATTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 18
0.69 0.09 0.21
Matches are distributed among these distances:
9 4 0.07
10 3 0.05
11 7 0.12
12 7 0.12
13 33 0.56
14 5 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTTATTTATTA
Found at i:79618 original size:16 final size:16
Alignment explanation
Indices: 79597--79691 Score: 77
Period size: 16 Copynumber: 5.6 Consensus size: 16
79587 TTCCATTTTA
79597 ATTATTATATTTATAT
1 ATTATTATATTTATAT
79613 ATTATTATATTT-TAATT
1 ATTATTATATTTAT-A-T
79630 ATTTATTATATTTA-AT
1 A-TTATTATATTTATAT
* *
79646 AATTAATATTTTTACTTATT
1 -ATTATTATATTTA--TA-T
*
79666 ATTATTATATTTATTT
1 ATTATTATATTTATAT
*
79682 ATTATAATAT
1 ATTATTATAT
79692 AACTTTTGGA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
15 1 0.02
16 34 0.53
17 5 0.08
18 11 0.17
19 12 0.19
20 1 0.02
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATATTTATAT
Found at i:79647 original size:160 final size:161
Alignment explanation
Indices: 79398--79698 Score: 507
Period size: 160 Copynumber: 1.9 Consensus size: 161
79388 AAAATTTTAG
* * *
79398 AATATATTATAATTATTTTTTTATAAGATATCTATTTTAATTATTATATTTATATATTATTATAT
1 AATATATTATAATTACTTTTTTATAAAATATCCATTTTAATTATTATATTTATATATTATTATAT
* * *
79463 TTTAATTATTTATTATTTTTAATAATTATTATTATTTA-TTATTTTTATTATATTTATTTATTAT
66 TTTAATTATTTATTATATTTAATAATTAATATT-TTTACTTATTATTATTATATTTATTTATTAT
*
79527 AATATAATTTTTCATTATTTCAAAATTTACAA
130 AATATAACTTTTCATTATTTCAAAATTTACAA
*
79559 AATATATTATAATT-CTTTTTTATAAAATTTCCATTTTAATTATTATATTTATATATTATTATAT
1 AATATATTATAATTACTTTTTTATAAAATATCCATTTTAATTATTATATTTATATATTATTATAT
79623 TTTAATTATTTATTATATTTAATAATTAATATTTTTACTTATTATTATTATATTTATTTATTATA
66 TTTAATTATTTATTATATTTAATAATTAATATTTTTACTTATTATTATTATATTTATTTATTATA
79688 ATATAACTTTT
131 ATATAACTTTT
79699 GGATCACAAA
Statistics
Matches: 131, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
159 4 0.03
160 113 0.86
161 14 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (161 bp):
AATATATTATAATTACTTTTTTATAAAATATCCATTTTAATTATTATATTTATATATTATTATAT
TTTAATTATTTATTATATTTAATAATTAATATTTTTACTTATTATTATTATATTTATTTATTATA
ATATAACTTTTCATTATTTCAAAATTTACAA
Found at i:79669 original size:19 final size:19
Alignment explanation
Indices: 79647--79692 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
79637 ATATTTAATA
*
79647 ATTAATATTTTTACTTATT
1 ATTAATATATTTACTTATT
* *
79666 ATTATTATATTTATTTATT
1 ATTAATATATTTACTTATT
79685 A-TAATATA
1 ATTAATATA
79693 ACTTTTGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTAATATATTTACTTATT
Found at i:81701 original size:39 final size:38
Alignment explanation
Indices: 81621--81706 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 38
81611 ATCATACTTG
*
81621 AAATTTAGTTTTTATTTCATTTTTAGTATCCATTGTTAA
1 AAATTTAATTTTTATTTCATTTTTAGTATCCA-TGTTAA
81660 AAACTTTAATTTTTATTTCA-TTTTAGTACTCC-TGTTCAA
1 AAA-TTTAATTTTTATTTCATTTTTAGTA-TCCATGTT-AA
81699 AAATTTAA
1 AAATTTAA
81707 CTTTAAATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
38 9 0.21
39 16 0.37
40 18 0.42
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (38 bp):
AAATTTAATTTTTATTTCATTTTTAGTATCCATGTTAA
Found at i:82495 original size:18 final size:18
Alignment explanation
Indices: 82474--82508 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
82464 TGTTGAAATG
82474 GAAAGTGGAG-GAGAAAGA
1 GAAAG-GGAGAGAGAAAGA
82492 GAAAGGGAGAGAGAAAG
1 GAAAGGGAGAGAGAAAG
82509 GTCGTGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.00, G:0.46, T:0.03
Consensus pattern (18 bp):
GAAAGGGAGAGAGAAAGA
Found at i:89092 original size:23 final size:23
Alignment explanation
Indices: 89045--89093 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
89035 GAAAAAATGG
* * *
89045 AAAAAAAATCAAAATAAACAGCA
1 AAAAAAAATCAAAAGAAAAACCA
*
89068 AAAAAAAATTAAAAGAAAAACCA
1 AAAAAAAATCAAAAGAAAAACCA
89091 AAA
1 AAA
89094 CTTTGAACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.78, C:0.10, G:0.04, T:0.08
Consensus pattern (23 bp):
AAAAAAAATCAAAAGAAAAACCA
Found at i:92016 original size:16 final size:15
Alignment explanation
Indices: 91991--92024 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
91981 AAGTTTCATT
91991 AACATGATTAAAATTC
1 AACATGATTAAAA-TC
*
92007 AACATTATTAAAATC
1 AACATGATTAAAATC
92022 AAC
1 AAC
92025 TTTAAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (15 bp):
AACATGATTAAAATC
Found at i:92546 original size:17 final size:17
Alignment explanation
Indices: 92524--92556 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92514 TTTTCAATTA
92524 AATAATTGTTTTTATTG
1 AATAATTGTTTTTATTG
*
92541 AATAATTTTTTTTATT
1 AATAATTGTTTTTATT
92557 TCGGGTCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
AATAATTGTTTTTATTG
Found at i:92920 original size:17 final size:15
Alignment explanation
Indices: 92898--92929 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
92888 ATCTGATTAG
92898 AATAAAT-AA-TTAA
1 AATAAATAAATTTAA
92911 AATAAATAAATTTAA
1 AATAAATAAATTTAA
92926 AATA
1 AATA
92930 TAAAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATAAATAAATTTAA
Found at i:94902 original size:29 final size:30
Alignment explanation
Indices: 94869--94935 Score: 109
Period size: 29 Copynumber: 2.3 Consensus size: 30
94859 AAATTATCAC
*
94869 TTTATTTTTGTTTTAAATTATTAAATAT-T
1 TTTATTTTTGTCTTAAATTATTAAATATAT
*
94898 TTTATTTTTGTCTTAATTTATTAAATATAT
1 TTTATTTTTGTCTTAAATTATTAAATATAT
94928 TTTATTTT
1 TTTATTTT
94936 ATTTTAATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.67
Consensus pattern (30 bp):
TTTATTTTTGTCTTAAATTATTAAATATAT
Found at i:94942 original size:29 final size:27
Alignment explanation
Indices: 94869--94943 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 27
94859 AAATTATCAC
*
94869 TTTATTTTTGTTTTAAATTATTAAATATT
1 TTTA-TTTT-TTTTAATTTATTAAATATT
94898 TTTATTTTTGTCTTAATTTATTAAATATAT
1 TTTATTTTT-T-TTAATTTATTAAATAT-T
94928 TTTATTTTATTTTAAT
1 TTTATTTT-TTTTAAT
94944 GTAAAAATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
27 1 0.02
28 5 0.12
29 24 0.59
30 10 0.24
31 1 0.02
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (27 bp):
TTTATTTTTTTTAATTTATTAAATATT
Found at i:95127 original size:31 final size:29
Alignment explanation
Indices: 95092--95253 Score: 112
Period size: 31 Copynumber: 5.2 Consensus size: 29
95082 ATAATATTTT
* *
95092 AATATATTTTTAAAAGTTAATATAATAATAA
1 AATATATTTTT--AAGTTAAAATAAGAATAA
*
95123 AATATATTTTTAATTTAAAATAAGAATAAA
1 AATATATTTTTAAGTTAAAATAAGAAT-AA
*
95153 ATATATATTTTTTAG-TAAAGATAAGAATAAAA
1 A-ATATATTTTTAAGTTAAA-ATAAGAAT--AA
* *
95185 TATTATATATTTTTTAATTTAAAATAAGAGTAA
1 -A--ATATA-TTTTTAAGTTAAAATAAGAATAA
* *
95218 CATATATATTTTTATA-TTAAATTAATAATAA
1 -A-ATATATTTTTA-AGTTAAAATAAGAATAA
95249 AATAT
1 AATAT
95254 TTATATATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 20
0.77 0.08 0.14
Matches are distributed among these distances:
29 17 0.15
30 8 0.07
31 48 0.44
32 10 0.09
33 4 0.04
34 6 0.05
35 13 0.12
36 4 0.04
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.43
Consensus pattern (29 bp):
AATATATTTTTAAGTTAAAATAAGAATAA
Found at i:95202 original size:66 final size:67
Alignment explanation
Indices: 95124--95261 Score: 201
Period size: 66 Copynumber: 2.1 Consensus size: 67
95114 TAATAATAAA
95124 ATATA-TTTTTAATTTAAAATAAGAATAAAATATATATTTTT-TAGTAAAGATAAGAATAAAATA
1 ATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTTTATAGTAAA-ATAAGAATAAAATA
95187 -TT
65 TTT
* * * * *
95189 ATATATTTTTTAATTTAAAATAAGAGTAACATATATATTTTTATATTAAATTAATAATAAAATAT
1 ATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTTTATAGTAAAATAAGAATAAAATAT
95254 TT
66 TT
95256 ATATAT
1 ATATAT
95262 ATTTCAAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 5 0.08
66 46 0.71
67 14 0.22
ACGTcount: A:0.50, C:0.01, G:0.04, T:0.45
Consensus pattern (67 bp):
ATATATTTTTTAATTTAAAATAAGAATAAAATATATATTTTTATAGTAAAATAAGAATAAAATAT
TT
Found at i:95869 original size:18 final size:18
Alignment explanation
Indices: 95846--95884 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
95836 CAAATTTTAG
*
95846 TCCCTAATTCTGA-TTTGA
1 TCCCTAAATCT-ATTTTGA
95864 TCCCTAAATCTATTTTGA
1 TCCCTAAATCTATTTTGA
95882 TCC
1 TCC
95885 ACATCAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.44
Consensus pattern (18 bp):
TCCCTAAATCTATTTTGA
Found at i:109231 original size:120 final size:120
Alignment explanation
Indices: 108911--109745 Score: 760
Period size: 120 Copynumber: 7.0 Consensus size: 120
108901 ATCAACAGCA
* *
108911 GCTTCAGAAACAGTGGCCTTAGCACTATCATAAGCTAAACCATCTCCATTGC-A-----ATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * * * * * * *
108970 AGCTACAACTAGTTCAGAACTCTCATTATCTTTCGAACT-GAAGTCCATAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAA-TCGATAACATTG
* * * * * *
109025 GCTTCAGAAACAGTAG-C--ACCACTATCATTTGCTAAACCATCTCCATAGCAA-CTGTCATCAT
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATC-GCCATCAT
** * * * *
109086 CAGCTATGGCCATTTGAGAACCCTCATTCTCTTTTGACTTGGAATTGATAACATTG
65 CAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* *
109142 GCTTCAGAGACAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCGATTGCAATCGCCATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * * * * * *
109207 AGCTACAGCCATTCCAGAGTCCTCATTCTCTCTCGACCCGGGATCCAGAAC-TTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * * ** *
109261 TCTTCAGAGACAGTTGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAATCTTCATGATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * *** *
109326 AGCAAAAACCATTTCAGAGCCCTCGGACTCTTTTGACCTGGAATCAATAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
* * * ** * * * * *
109381 GCTTCAGGGACATTGGGCTCGGCACTATCATCAGCTAAAGCATTTCCATTGCAATCACTATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * * *
109446 AGCTAAAGCCGTTTCAGAG-TCTCCATTCTCTTTTGACCTGGAATAGATAATATTG
66 AGCTACAGCCATTTCAGAGCCCT-CATTCTCTTTTGACCTGGAATCGATAACATTG
* * *
109501 GTTTCAGAGACAGTGGCCTTAGCACTATCATTAACTAAACCTTCTCCATTGCAATCGCCATCATC
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * * * *
109566 ATTAGCTAGAGCCTTTTCAGGGCCCTCGTTCTCTTTTGACCTGAAATCGAGAACATTG
66 ---AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
** * * * * * * * **
109624 GGATCAGACACATTGGCGTTAGCACCATCATTTGGTAAACCATCTCCATTGCAATCACCATCAGA
1 GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
* * * *
109689 AGCTACAGCCATTTCAGAGTCCTCATTCTCTTTTGACCTGAAATCAAGAACATTG
66 AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
109744 GC
1 GC
109746 CATGGCAGTA
Statistics
Matches: 577, Mismatches: 127, Indels: 28
0.79 0.17 0.04
Matches are distributed among these distances:
111 28 0.05
112 1 0.00
113 1 0.00
114 15 0.03
117 58 0.10
118 4 0.01
119 101 0.18
120 271 0.47
121 1 0.00
123 95 0.16
124 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (120 bp):
GCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCGCCATCATC
AGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCGATAACATTG
Found at i:109380 original size:239 final size:240
Alignment explanation
Indices: 108911--109941 Score: 764
Period size: 239 Copynumber: 4.4 Consensus size: 240
108901 ATCAACAGCA
* * *
108911 GCTTCAGAAACAGTGGCCTTAGCACTATCATAAGCTAAACCATCTCCATTG----CA--ATCATC
1 GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * * * * * * * * *
108970 AGCTACAACTAGTTCAGA-ACTCTCATTATCTTTCGA-ACTGAAGTCCATAACATTGGCTTCAGA
66 AGCTACAGCCATTTCAGAGTC-CTCATTCTCTCTCGACCCGGAA-TACAGAATATTGGTTTCAGA
* * * * * * **
109033 AACAGTAG-C--ACCACTATCATTTGCTAAACCATCTCCATAGCAA-CTGTCATCATCAGCTATG
129 GACAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAATCT-TCATCATCAGCTAAA
* * * * *
109094 GCCATTTGAGAACCCTCATTCTCTTTTGACTTGGAATTGATAACATTG
193 GCCATTTCAGAGCCCTCGTTCTCTTTTGACCTGGAATCGATAACATTG
* * * *
109142 GCTTCAGAGACAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCGATTGCAATCGCCATCATC
1 GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * *
109207 AGCTACAGCCATTCCAGAGTCCTCATTCTCTCTCGACCCGGGATCCAGAA-CTT-GTCTTCAGAG
66 AGCTACAGCCATTTCAGAGTCCTCATTCTCTCTCGACCCGGAATACAGAATATTGGT-TTCAGAG
* * * *
109270 ACAGTTGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAATCTTCATGATCAGCAAAAAC
130 ACAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAATCTTCATCATCAGCTAAAGC
** *
109335 CATTTCAGAGCCCTCGGACTCTTTTGACCTGGAATCAATAACATTG
195 CATTTCAGAGCCCTCGTTCTCTTTTGACCTGGAATCGATAACATTG
* * ** * * * *
109381 GCTTCAGGGACATTGGGCTCGGCACTATCATCAGCTAAAGCATTTCCATTGCAATCACTATCATC
1 GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * * * *
109446 AGCTAAAGCCGTTTCAGAGT-CTCCATTCTCTTTTGACCTGGAATAGATAATATTGGTTTCAGAG
66 AGCTACAGCCATTTCAGAGTCCT-CATTCTCTCTCGACCCGGAATACAGAATATTGGTTTCAGAG
* * * * * *
109510 ACAGTGGCCTTAGCACTATCATTAACTAAACCTTCTCCATTGCAATCGCCATCATCATTAGCTAG
130 ACAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAAT---CTTCATCATCAGCTAA
* * * *
109575 AGCCTTTTCAGGGCCCTCGTTCTCTTTTGACCTGAAATCGAGAACATTG
192 AGCCATTTCAGAGCCCTCGTTCTCTTTTGACCTGGAATCGATAACATTG
** * * * * * **
109624 GGATCAGACACATTGGCGTTAGCACCATCATTTGGTAAACCATCTCCATTGCAATCACCATCAGA
1 GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
* * * * *
109689 AGCTACAGCCATTTCAGAGTCCTCATTCTCTTTTGACCTGAAAT-CAAGAACATTGG---C----
66 AGCTACAGCCATTTCAGAGTCCTCATTCTCTCTCGACCCGGAATAC-AGAATATTGGTTTCAGAG
* * *
109746 -CA-TGG-C--AG---TA-CAATTAGCTAAACCGA-CTCCATTGCAATC-AC-TGGCACCAGCTC
130 ACAGTGGCCTTAGCAATATC-ATTAGCTAAACC-ATCTCCATTGCAATCTTCAT--CATCAGCTA
* * * * * *
109799 CATCCATTTCAGAGCCTTCATTCTCTTTTGACCTGGAATCAATATCATTG
191 AAGCCATTTCAGAGCCCTCGTTCTCTTTTGACCTGGAATCGATAACATTG
* * * * ** * * * *
109849 ACTTTAGACACAATGGCCTTAGCACTATCATTTCCTAAATCGTCTCCATTGCAATCACTAGCATC
1 GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
** *
109914 AGCTACAGCCATCACAGACTCCTCATTC
66 AGCTACAGCCATTTCAGAGTCCTCATTC
109942 CCTTTTGACC
Statistics
Matches: 641, Mismatches: 134, Indels: 56
0.77 0.16 0.07
Matches are distributed among these distances:
223 1 0.00
224 1 0.00
225 122 0.19
227 1 0.00
228 25 0.04
231 49 0.08
233 1 0.00
234 3 0.00
235 4 0.01
236 14 0.02
237 40 0.06
238 6 0.01
239 170 0.27
240 54 0.08
241 2 0.00
243 146 0.23
244 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (240 bp):
GCTTCAGAGACATTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCACCATCATC
AGCTACAGCCATTTCAGAGTCCTCATTCTCTCTCGACCCGGAATACAGAATATTGGTTTCAGAGA
CAGTGGCCTTAGCAATATCATTAGCTAAACCATCTCCATTGCAATCTTCATCATCAGCTAAAGCC
ATTTCAGAGCCCTCGTTCTCTTTTGACCTGGAATCGATAACATTG
Found at i:110933 original size:2 final size:2
Alignment explanation
Indices: 110928--110964 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
110918 ACGACAAACG
110928 AT AT AT AT 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 AT AT AT AT A
110965 GAGAGAGAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:110969 original size:2 final size:2
Alignment explanation
Indices: 110964--110997 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110954 ATATATATAT
110964 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
110998 TTGGGCACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:111981 original size:19 final size:20
Alignment explanation
Indices: 111948--111987 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
111938 ATATTATTTT
111948 ATAATATGAATCTAAT-TAA
1 ATAATATGAATCTAATATAA
111967 ATAATATG-ATACTAATATAA
1 ATAATATGAAT-CTAATATAA
111987 A
1 A
111988 CAACGACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.11
19 13 0.68
20 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAATATGAATCTAATATAA
Found at i:112984 original size:26 final size:27
Alignment explanation
Indices: 112939--112995 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
112929 TTTTTATCCT
112939 AAAATCGAACCCAAACATCACATTAAA
1 AAAATCGAACCCAAACATCACATTAAA
**
112966 AAAATTCG-ACCCAAA-ATCATTTTAAA
1 AAAA-TCGAACCCAAACATCACATTAAA
112992 AAAA
1 AAAA
112996 ATCTAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 13 0.48
27 11 0.41
28 3 0.11
ACGTcount: A:0.56, C:0.21, G:0.04, T:0.19
Consensus pattern (27 bp):
AAAATCGAACCCAAACATCACATTAAA
Found at i:113008 original size:5 final size:5
Alignment explanation
Indices: 112994--113029 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
112984 ATTTTAAAAA
*
112994 AAATC TAATC AAATC AAATC AAATC AAATC AAATC A
1 AAATC AAATC AAATC AAATC AAATC AAATC AAATC A
113030 GAGCCATCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATC
Found at i:117647 original size:102 final size:102
Alignment explanation
Indices: 117471--117674 Score: 390
Period size: 102 Copynumber: 2.0 Consensus size: 102
117461 AAAATTAGAG
117471 TAAACTATATCACAAGTCATTGAATTATATTTGAATAATTTTCTATCATTAAATTTATAAGATCA
1 TAAACTATATCACAAGTCATTGAATTATATTTGAATAATTTTCTATCATTAAATTTATAAGATCA
117536 TTACAGAATGGTCATCATGATATTATATTAATGATGA
66 TTACAGAATGGTCATCATGATATTATATTAATGATGA
*
117573 TAAACTATATCACAAGTCATTGAATTATATTTGAATAATTTTTTATCATTAAATTTATAAGATCA
1 TAAACTATATCACAAGTCATTGAATTATATTTGAATAATTTTCTATCATTAAATTTATAAGATCA
*
117638 TTATAGAATGGTCATCATGATATTATATTAATGATGA
66 TTACAGAATGGTCATCATGATATTATATTAATGATGA
117675 AATTTGATAC
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (102 bp):
TAAACTATATCACAAGTCATTGAATTATATTTGAATAATTTTCTATCATTAAATTTATAAGATCA
TTACAGAATGGTCATCATGATATTATATTAATGATGA
Found at i:118054 original size:3 final size:3
Alignment explanation
Indices: 118046--118076 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
118036 TTAATTTAGG
118046 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
118077 TGTGTGTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Done.