Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002825.1 Hibiscus syriacus cultivar Beakdansim tig00005809_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: 70819
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:869 original size:31 final size:31
Alignment explanation
Indices: 770--887 Score: 127
Period size: 31 Copynumber: 3.8 Consensus size: 31
760 CCCGAAGGAC
* *
770 CTATCCATATGTTCCGAAGAACATAGGT-AA
1 CTATCCATATATCCCGAAGAACATAGGTAAA
*
800 CTATCCATATAT-CCGAAGAACATAGGTAAT
1 CTATCCATATATCCCGAAGAACATAGGTAAA
* *
830 CTTGTCCATATGTCCCGAA-AGACATAGGTAAA
1 C-TATCCATATATCCCGAAGA-ACATAGGTAAA
*
862 CTATCCATATATCTCGAA-AGACATAG
1 CTATCCATATATCCCGAAGA-ACATAG
888 ATACCCTCGA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
29 15 0.20
30 13 0.17
31 32 0.42
32 16 0.21
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (31 bp):
CTATCCATATATCCCGAAGAACATAGGTAAA
Found at i:3229 original size:23 final size:20
Alignment explanation
Indices: 3176--3254 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
3166 TCGAAATGGA
3176 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTACATG
*
3196 GTGCATCGATGCACTAGTGCCA-G
1 GTGCATGGATGCACTA----CATG
* *
3219 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTACA-TG
*
3240 GTGTATGGATGCACT
1 GTGCATGGATGCACT
3255 TTGACACCCT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 15 0.31
21 15 0.31
23 15 0.31
24 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (20 bp):
GTGCATGGATGCACTACATG
Found at i:3527 original size:18 final size:18
Alignment explanation
Indices: 3478--3535 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
3468 AAGTTTAATG
*
3478 AAAAAGATACCAATTGTT
1 AAAAAGATATCAATTGTT
*
3496 AGCAGAATGATATCAATTGTT
1 A--A-AAAGATATCAATTGTT
3517 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
3535 A
1 A
3536 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 17 0.50
19 1 0.03
20 1 0.03
21 15 0.44
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (18 bp):
AAAAAGATATCAATTGTT
Found at i:6554 original size:21 final size:21
Alignment explanation
Indices: 6528--6577 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
6518 CCCATAACAT
6528 GGTGCATCGGTGCACTATCA-A
1 GGTGCATCGGTGCACTAT-ATA
6549 GGTGCATCGGTGCACTATATA
1 GGTGCATCGGTGCACTATATA
6570 GGTGCATC
1 GGTGCATC
6578 AATACCCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (21 bp):
GGTGCATCGGTGCACTATATA
Found at i:8402 original size:2 final size:2
Alignment explanation
Indices: 8395--8437 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8385 GCATTTACTC
8395 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
8437 A
1 A
8438 ACAACATATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9493 original size:30 final size:30
Alignment explanation
Indices: 9459--9566 Score: 110
Period size: 30 Copynumber: 3.5 Consensus size: 30
9449 GAAGGACCTA
*
9459 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGAACATAGGTAACTG
*
9489 TCCATATGTCCCGAA-AGACATAAGTAATCATG
1 TCCATATGTCCCGAAGA-ACATAGGTAA-C-TG
* * * *
9521 TCCATATATCCCGAAGGATATAGGTAAACTA
1 TCCATATGTCCCGAAGAACATAGGT-AACTG
*
9552 TCCATATGTCTCGAA
1 TCCATATGTCCCGAA
9567 AGGCATAAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.02
30 23 0.36
31 15 0.23
32 23 0.36
33 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (30 bp):
TCCATATGTCCCGAAGAACATAGGTAACTG
Found at i:9533 original size:32 final size:31
Alignment explanation
Indices: 9459--9578 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
9449 GAAGGACCTA
* *
9459 TCCATATGTTCCG-AAGAACATAGGT-AACTG
1 TCCATATGTCCCGAAAG-ACATAAGTAAACTG
*
9489 TCCATATGTCCCGAAAGACATAAGTAATCATG
1 TCCATATGTCCCGAAAGACATAAGTAAAC-TG
* * * * *
9521 TCCATATATCCCGAAGGATATAGGTAAACTA
1 TCCATATGTCCCGAAAGACATAAGTAAACTG
* *
9552 TCCATATGTCTCGAAAGGCATAAGTAA
1 TCCATATGTCCCGAAAGACATAAGTAA
9579 CCCTCGACTC
Statistics
Matches: 72, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
30 19 0.26
31 27 0.38
32 26 0.36
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (31 bp):
TCCATATGTCCCGAAAGACATAAGTAAACTG
Found at i:9574 original size:63 final size:62
Alignment explanation
Indices: 9459--9578 Score: 168
Period size: 63 Copynumber: 1.9 Consensus size: 62
9449 GAAGGACCTA
* * *
9459 TCCATATGTTCCGAAGAACATAGGTAACTGTCCATATGTCCCGAAAGACATAAGTAATCATG
1 TCCATATATCCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAAGTAATCATG
* * * *
9521 TCCATATATCCCGAAGGATATAGGTAAACTATCCATATGTCTCGAAAGGCATAAGTAA
1 TCCATATATCCCGAAGAACATAGGT-AACTATCCATATGTCCCGAAAGACATAAGTAA
9579 CCCTCGACTC
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
62 21 0.42
63 29 0.58
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (62 bp):
TCCATATATCCCGAAGAACATAGGTAACTATCCATATGTCCCGAAAGACATAAGTAATCATG
Found at i:11566 original size:44 final size:44
Alignment explanation
Indices: 11516--11601 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
11506 CAGCTCGTAA
* *
11516 TTTGCACCGAAGTGCCATATAATTGTCCTGAAAGACAACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAAGACAACATAGG
* *
11560 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAAGACAACATA
11602 ATTATCCCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCGAAAGACAACATAGG
Found at i:11591 original size:21 final size:20
Alignment explanation
Indices: 11566--11623 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
11556 TAGGTTTGCA
*
11566 CCGAAGTGCCACATAATTGTC
1 CCGAAG-GCCACATAATTATC
11587 CCGAAGGACCACATAATTATC
1 CCGAAGG-CCACATAATTATC
* *
11608 CCAAAGAACCACATAA
1 CCGAAG-GCCACATAA
11624 AACCCTCGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.40, C:0.29, G:0.14, T:0.17
Consensus pattern (20 bp):
CCGAAGGCCACATAATTATC
Found at i:13430 original size:31 final size:31
Alignment explanation
Indices: 13392--13469 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
13382 GTTTTAAAAG
* *
13392 TAACAAATTGGTTACTAACATTATCGATTTA
1 TAACAAATTGGTCACTAACATTATCAATTTA
* ** *
13423 TAACAAATTTGTCACTAATGTTATCAATTTG
1 TAACAAATTGGTCACTAACATTATCAATTTA
13454 TAACAAATTGGTCACT
1 TAACAAATTGGTCACT
13470 CATTACTAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.38
Consensus pattern (31 bp):
TAACAAATTGGTCACTAACATTATCAATTTA
Found at i:15574 original size:23 final size:23
Alignment explanation
Indices: 15541--15591 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
15531 CCGGCTTTTT
* *
15541 TTCTTCTTCAACCCAACCTGATC
1 TTCTTCCTCAACCCAACCTCATC
15564 TTCTTCCTCAACCCAACCTCATC
1 TTCTTCCTCAACCCAACCTCATC
15587 TTCTT
1 TTCTT
15592 ATTTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.41, G:0.02, T:0.37
Consensus pattern (23 bp):
TTCTTCCTCAACCCAACCTCATC
Found at i:21351 original size:20 final size:21
Alignment explanation
Indices: 21311--21351 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21301 AAAATTAGTG
*
21311 TTTTTTATAAATATCATAATA
1 TTTTTTATAAATATCAAAATA
*
21332 TTTTTT-TAAATTTCAAAATA
1 TTTTTTATAAATATCAAAATA
21352 CCAAATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTTTTATAAATATCAAAATA
Found at i:26721 original size:23 final size:23
Alignment explanation
Indices: 26691--26734 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
26681 CTAACAAGTT
26691 ACAATATTTCATCAAATAAACTC
1 ACAATATTTCATCAAATAAACTC
26714 ACAATATTTCATCAAATAAAC
1 ACAATATTTCATCAAATAAAC
26735 CCATAATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (23 bp):
ACAATATTTCATCAAATAAACTC
Found at i:27674 original size:20 final size:21
Alignment explanation
Indices: 27636--27677 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
27626 GTCATACAAC
*
27636 TAATAATAGTTGTATAATGCA
1 TAATAATAGTTGCATAATGCA
27657 TAATAATAGTT-CATAATGCA
1 TAATAATAGTTGCATAATGCA
27677 T
1 T
27678 TGTAAGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (21 bp):
TAATAATAGTTGCATAATGCA
Found at i:32336 original size:21 final size:20
Alignment explanation
Indices: 32312--32353 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
32302 GTCATACAAC
*
32312 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
32333 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
32353 T
1 T
32354 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:33776 original size:2 final size:2
Alignment explanation
Indices: 33769--33794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33759 TCTAACCATA
33769 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
33795 TATTCTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34324 original size:157 final size:158
Alignment explanation
Indices: 34056--34452 Score: 514
Period size: 158 Copynumber: 2.5 Consensus size: 158
34046 AGTTACATTG
* * * * *
34056 GTATTCTATTGTGGTATATGAGCATGTGGTTCAAATTT-AGTAAAAAAAAAGACTTAAAATAAAT
1 GTATTCTACTATGGTTTAAGAGCATGTGGTTCAAATTTGA-T-AAAAAATAGACTTAAAATAAAT
* * * * ** *
34120 CACAAATTGAAGGAATAAGGAGATTATGAAAAATTGAAGGACTAAATTGAAAAATATAAAAA-T-
64 GACAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGAAAAAAATTAAAAAATA-AAAAATTC
* *
34183 GTTATCAAAAAGAGGATTTGAAAGTACAAAT
128 GTTATCAAAAAGAGAAATTGAAAGTACAAAT
* *
34214 GTATTCTACTATGGTTTAGGAGCATGTGGTTCAATTTTGATAAAAAATAGACTTAAAATAAATGA
1 GTATTCTACTATGGTTTAAGAGCATGTGGTTCAAATTTGATAAAAAATAGACTTAAAATAAATGA
*
34279 CAAATTGAAGAAATAAGGAGATTATGAAAAATTAAATAAAAAAATTAAAAAATAAAAAATTCGTT
66 CAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGAAAAAAATTAAAAAATAAAAAATTCGTT
* *
34344 ATCAAAAAGAGAAATTGGAAGTACACAT
131 ATCAAAAAGAGAAATTGAAAGTACAAAT
* * *
34372 GTATTCTACTATAGTTTAAGAGCATGTGGTTCAAATTTGGTAAAAAAT-GAACTTAAAATAAAGG
1 GTATTCTACTATGGTTTAAGAGCATGTGGTTCAAATTTGATAAAAAATAG-ACTTAAAATAAATG
**
34436 AGGAATTGAAGAAATAA
65 ACAAATTGAAGAAATAA
34453 TGAAATCAAA
Statistics
Matches: 210, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
156 5 0.02
157 71 0.34
158 133 0.63
159 1 0.00
ACGTcount: A:0.49, C:0.06, G:0.17, T:0.28
Consensus pattern (158 bp):
GTATTCTACTATGGTTTAAGAGCATGTGGTTCAAATTTGATAAAAAATAGACTTAAAATAAATGA
CAAATTGAAGAAATAAGGAGATTATGAAAAATTAAAGAAAAAAATTAAAAAATAAAAAATTCGTT
ATCAAAAAGAGAAATTGAAAGTACAAAT
Found at i:36587 original size:18 final size:18
Alignment explanation
Indices: 36566--36611 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
36556 AGTAAAAATT
36566 AAAATTAAAGATACTAAG
1 AAAATTAAAGATACTAAG
36584 AAAATTAAAGATACTAAG
1 AAAATTAAAGATACTAAG
36602 AAAATTAAAG
1 AAAATTAAAG
36612 CCTTCCAATG
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:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (18 bp):
AAAATTAAAGATACTAAG
Found at i:45216 original size:21 final size:21
Alignment explanation
Indices: 45190--45229 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45180 CCTCCTTTGA
*
45190 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
45211 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
45230 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:50641 original size:17 final size:16
Alignment explanation
Indices: 50616--50655 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
50606 AGCTCCAAAG
50616 AAAGAATAAAGAAGAA
1 AAAGAATAAAGAAGAA
* *
50632 GAAGAGATAAATAAGAA
1 AAAGA-ATAAAGAAGAA
50649 AAAGAAT
1 AAAGAAT
50656 GAGGTGGAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (16 bp):
AAAGAATAAAGAAGAA
Found at i:51316 original size:24 final size:29
Alignment explanation
Indices: 51289--51348 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 29
51279 AGAAAAAGCT
51289 AATTTTG-A-AAAAT-TTA-TTAAAAT-A
1 AATTTTGAAGAAAATATTACTTAAAATCA
51313 AA-TTTGAAAGAAAATATTACTTAAAATCA
1 AATTTTG-AAGAAAATATTACTTAAAATCA
51342 AATTTTG
1 AATTTTG
51349 TCAAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
23 4 0.14
24 2 0.07
25 1 0.03
26 5 0.17
27 3 0.10
28 7 0.24
29 3 0.10
30 4 0.14
ACGTcount: A:0.52, C:0.03, G:0.07, T:0.38
Consensus pattern (29 bp):
AATTTTGAAGAAAATATTACTTAAAATCA
Found at i:59129 original size:21 final size:22
Alignment explanation
Indices: 59088--59130 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
59078 CTGGAATTTC
59088 GTTCAAGCCCAGAAAAATCACT
1 GTTCAAGCCCAGAAAAATCACT
* *
59110 GTTCATGCCC-GAAAATTCACT
1 GTTCAAGCCCAGAAAAATCACT
59131 ATGTCAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (22 bp):
GTTCAAGCCCAGAAAAATCACT
Found at i:60544 original size:64 final size:65
Alignment explanation
Indices: 60387--60545 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
60377 AATTAAATTG
* * *
60387 AACATCGAATGCATTTCATGCATCGATGTACATACCATGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACATACCATGCACCGATGCACTCAGGATTTTATGAA
* * * *
60452 AACATCGAATGCATTTGATGCATCGATGCACCA-ACCATGCATCGATGCATTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCA-CATACCATGCACCGATGCACTCAGGAT-TTTATG
60515 -A
64 AA
*
60516 AACATCGAATGCACTTGATGCATCGATGCA
1 AACATCGAATGCATTTGATGCATCGATGCA
60546 TTAAGGGTCC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
64 30 0.36
65 49 0.58
66 5 0.06
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACCATGCACCGATGCACTCAGGATTTTATGAA
Found at i:69036 original size:64 final size:62
Alignment explanation
Indices: 68915--69144 Score: 209
Period size: 64 Copynumber: 3.6 Consensus size: 62
68905 TTTTTCAGAG
* * * *
68915 TGATGCATCGATGCACCAATCCATGCATCGATGCGCCATGA-ATTAAATTG-AACATCGAATGCA
1 TGATGCATCGATGCA-C-ATCCATGCACCGATGCACTAGGATATT---TTGAAACATCGAATGCA
68978 TT
61 TT
* *
68980 TCATGCATCGATGCACATACCATGCACCGATGCACTAGGAT-TTTATGAAAATATCGAATGCATT
1 TGATGCATCGATGCACAT-CCATGCACCGATGCACTAGGATATTT-TG-AAACATCGAATGCATT
* * * *
69044 TGATGCATCGATGCACCAGT-CATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CA-TCCATGCACCGATGCACT-AGGATATTTTGAAACATCGAATGCATT
*
69108 TGATGCATCGATGCAC-TCTTAGTGCACCGATGCACTA
1 TGATGCATCGATGCACATC-CA-TGCACCGATGCACTA
69145 AGGGTCCAAC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
61 2 0.01
62 2 0.01
63 4 0.03
64 105 0.76
65 21 0.15
66 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (62 bp):
TGATGCATCGATGCACATCCATGCACCGATGCACTAGGATATTTTGAAACATCGAATGCATT
Found at i:69123 original size:17 final size:19
Alignment explanation
Indices: 69095--69143 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
69085 TATTTTGAAA
69095 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
69113 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
69132 CACCGATGCACT
1 CATCGATGCACT
69144 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Done.