Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004663.1 Hibiscus syriacus cultivar Beakdansim tig00010455_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: 90133
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:21616 original size:2 final size:2
Alignment explanation
Indices: 21609--21636 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21599 AAGCAAATGT
21609 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
21637 ATGGTGATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25962 original size:19 final size:19
Alignment explanation
Indices: 25938--25981 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
25928 ATCTTTCATG
25938 AAATTAATAAATAATATTA
1 AAATTAATAAATAATATTA
* * *
25957 AAATTATTATATATTATTA
1 AAATTAATAAATAATATTA
25976 AAATTA
1 AAATTA
25982 CTAATAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTAATAAATAATATTA
Found at i:26526 original size:20 final size:20
Alignment explanation
Indices: 26461--26690 Score: 246
Period size: 20 Copynumber: 11.5 Consensus size: 20
26451 CGATTTTCCA
** *
26461 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
26481 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
* *
26501 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26521 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26541 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26561 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
**
26581 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26601 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
26621 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
*
26641 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
26661 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
26681 AAATCACAAC
1 AAATCGCAAC
26691 ACTGAAATTT
Statistics
Matches: 184, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 183 0.99
21 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:27412 original size:24 final size:24
Alignment explanation
Indices: 27373--27419 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
27363 AAATTTGGTC
27373 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
27397 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
27420 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:27611 original size:12 final size:12
Alignment explanation
Indices: 27594--27618 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27584 ATATAATCCT
27594 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27606 GAAGAAGAAAAA
1 GAAGAAGAAAAA
27618 G
1 G
27619 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:29995 original size:19 final size:19
Alignment explanation
Indices: 29955--30123 Score: 225
Period size: 19 Copynumber: 9.4 Consensus size: 19
29945 GATTCTCTCG
29955 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
29975 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
29994 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
30008 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
30028 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
30047 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
30061 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
30080 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
30099 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
30117 TTGCGAT
1 TTGCGAT
30124 AGTCAATTTT
Statistics
Matches: 133, Mismatches: 4, Indels: 25
0.82 0.02 0.15
Matches are distributed among these distances:
14 12 0.09
16 14 0.11
17 12 0.09
18 20 0.15
19 45 0.34
20 30 0.23
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:30003 original size:53 final size:53
Alignment explanation
Indices: 29936--30106 Score: 335
Period size: 53 Copynumber: 3.2 Consensus size: 53
29926 GAAATGAAAA
29936 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
29989 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
30042 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
30094 TCGCATTGCGATT
1 TCGCATTGCGATT
30107 TCATTTCGCA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
52 31 0.26
53 87 0.74
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:30070 original size:33 final size:34
Alignment explanation
Indices: 29936--30123 Score: 165
Period size: 33 Copynumber: 5.4 Consensus size: 34
29926 GAAATGAAAA
29936 TCGCATTGCGATTCTCTCG-TTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGATTGCGATTTTCATT
* *
29969 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 T-CGCATTGCGA--TTC-TCTCG-ATTGCGATT-T-TCATT
* *
30010 GCG-ATTTTC-ATT-TC-CGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCG-ATTGCGATTTTCATT
30042 TCGCATTGCGATTCTCTCG-TTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGATTGCGATTTTCATT
*
30075 TCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCATT
1 TCGCATTGCGA--TTC-TCTCG-ATTGCGATTTTCATT
30112 TCGCATTGCGAT
1 TCGCATTGCGAT
30124 AGTCAATTTT
Statistics
Matches: 128, Mismatches: 9, Indels: 34
0.75 0.05 0.20
Matches are distributed among these distances:
32 9 0.07
33 31 0.24
34 24 0.19
35 7 0.05
36 7 0.05
37 24 0.19
38 6 0.05
39 10 0.08
40 6 0.05
41 4 0.03
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (34 bp):
TCGCATTGCGATTCTCTCGATTGCGATTTTCATT
Found at i:30234 original size:33 final size:33
Alignment explanation
Indices: 30182--30343 Score: 159
Period size: 33 Copynumber: 4.7 Consensus size: 33
30172 CCATTACATT
30182 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAA
* *
30216 TCGCAATGCGAAATGAAAATCGCAATGCGA-AA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
* * * *
30248 T-GAAAAT-CGCAACGATAGAATCGCAATGCGAAATGAAAA
1 TCG-CAATGCGAAATGA-A-AATCGCAA--CG--A-GAGAA
30287 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
*
30320 TCGCAATGCGAAATTAAAATCGCA
1 TCGCAATGCGAAATGAAAATCGCA
30344 TTGCGATTCT
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.07
32 7 0.07
33 54 0.51
34 10 0.10
35 1 0.01
36 2 0.02
38 10 0.10
39 7 0.07
40 7 0.07
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAA
Found at i:30238 original size:19 final size:19
Alignment explanation
Indices: 30182--30349 Score: 177
Period size: 19 Copynumber: 9.6 Consensus size: 19
30172 CCATTACATT
30182 TCGCAATGCGGAAATGAAAA
1 TCGCAATGC-GAAATGAAAA
*
30202 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
30216 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
30235 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
30254 TCGCAA--CG--AT-AGAA
1 TCGCAATGCGAAATGAAAA
30268 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
30287 TCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAA
*
30306 TCGCAA--CG--A-GAGAA
1 TCGCAATGCGAAATGAAAA
*
30320 TCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAA
*
30339 TCGCATTGCGA
1 TCGCAATGCGA
30350 TTCTCCCATT
Statistics
Matches: 125, Mismatches: 8, Indels: 31
0.76 0.05 0.19
Matches are distributed among these distances:
14 29 0.23
15 4 0.03
16 6 0.05
17 5 0.04
18 5 0.04
19 70 0.56
20 6 0.05
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
TCGCAATGCGAAATGAAAA
Found at i:30261 original size:52 final size:52
Alignment explanation
Indices: 30182--30349 Score: 300
Period size: 52 Copynumber: 3.2 Consensus size: 52
30172 CCATTACATT
30182 TCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
30235 TCGCAATGCGAAATGAAAATCGCAACGATAGAATCGCAATGCGAAATGAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
30287 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATTAAAA
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
*
30339 TCGCATTGCGA
1 TCGCAATGCGA
30350 TTCTCCCATT
Statistics
Matches: 111, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 102 0.92
53 9 0.08
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (52 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAA
Found at i:30398 original size:19 final size:19
Alignment explanation
Indices: 30356--30454 Score: 138
Period size: 19 Copynumber: 5.5 Consensus size: 19
30346 GCGATTCTCC
30356 CATTGCGATTTTCATTTCCG
1 CATTGCGATTTTCATTT-CG
30376 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
30395 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
30411 --TTGCGA-TTTCATTTCG
1 CATTGCGATTTTCATTTCG
30427 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
30446 CATTGCGAT
1 CATTGCGAT
30455 AATCAATTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.40
20 17 0.24
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:30449 original size:51 final size:53
Alignment explanation
Indices: 30339--30454 Score: 200
Period size: 51 Copynumber: 2.2 Consensus size: 53
30329 GAAATTAAAA
30339 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
* *
30392 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
30443 TCGCATTGCGAT
1 TCGCATTGCGAT
30455 AATCAATTTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 30 0.49
52 8 0.13
53 23 0.38
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (53 bp):
TCGCATTGCGATTCTCCCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:30580 original size:14 final size:14
Alignment explanation
Indices: 30561--30597 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
30551 CATCAATTAC
30561 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
30575 ACAAATCATCTTTT
1 ACAAATCAACTTTT
30589 ACAAATCAA
1 ACAAATCAA
30598 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:32600 original size:14 final size:14
Alignment explanation
Indices: 32581--32637 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
32571 GCGAAATGAA
*
32581 AATCGCAACGACAG
1 AATCGCAACGAAAG
32595 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
32612 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
32628 AATCGCAACG
1 AATCGCAACG
32638 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:32608 original size:33 final size:33
Alignment explanation
Indices: 32562--32654 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
32552 GCGAAACCAA
*
32562 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
32595 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
32628 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
32655 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:32619 original size:19 final size:19
Alignment explanation
Indices: 32525--32659 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
32515 TAGTTTACTT
* *
32525 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
32545 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
32564 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
32583 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
32597 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
32616 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
32630 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
32649 TCGCAATGCGA
1 TCGCAACGCGA
32660 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:32677 original size:19 final size:19
Alignment explanation
Indices: 32655--32783 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
32645 AAAATCGCAA
*
32655 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGGTTTCGCGT
*
32674 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
32688 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
32707 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
32721 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
32740 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
32759 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
32779 TGCGA
1 TGCGA
32784 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:32697 original size:33 final size:33
Alignment explanation
Indices: 32655--32746 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
32645 AAAATCGCAA
*
32655 TGCGATTTTGGTTTCACGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
32688 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
32721 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
32747 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:32986 original size:93 final size:93
Alignment explanation
Indices: 32827--33300 Score: 912
Period size: 93 Copynumber: 5.1 Consensus size: 93
32817 TTGAATGGAT
32827 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
32892 AGTTTAGCAGAATTGGCAGCAACGGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
32920 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
32985 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
33013 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTATAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
33078 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
33106 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
33171 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
33199 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
33264 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
33292 AAATTTACT
1 AAATTTACT
33301 AAGCAATCTA
Statistics
Matches: 377, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 377 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:35038 original size:33 final size:33
Alignment explanation
Indices: 34993--35107 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
34983 TCTTTTGGTT
34993 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
35026 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
35059 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
35092 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
35108 TTCTCGTTGC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:35039 original size:19 final size:18
Alignment explanation
Indices: 35000--35107 Score: 87
Period size: 14 Copynumber: 6.5 Consensus size: 18
34990 GTTGAAATGA
35000 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
35015 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
35032 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
35048 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
35065 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
35081 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
35098 AAAATCGCAA
1 -AAATCGCAA
35108 TTCTCGTTGC
Statistics
Matches: 75, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
14 24 0.32
16 15 0.20
17 12 0.16
19 24 0.32
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:35167 original size:20 final size:21
Alignment explanation
Indices: 35109--35181 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
35099 AAATCGCAAT
35109 TCTCGTTGCGATTTTCATTTC
1 TCTCGTTGCGATTTTCATTTC
***
35130 TCTCGTTGCGACAGTCA-TTC
1 TCTCGTTGCGATTTTCATTTC
*
35150 TCTCGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTC
35171 TCTCGTTGCGA
1 TCTCGTTGCGA
35182 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.12, C:0.25, G:0.18, T:0.45
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTC
Found at i:35308 original size:33 final size:33
Alignment explanation
Indices: 35261--35331 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
35251 AATACTAACT
* *
35261 TGAAAATCGGAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
35294 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
35327 TGAAA
1 TGAAA
35332 TCTAAGTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:35738 original size:20 final size:20
Alignment explanation
Indices: 35713--35906 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
35703 CTTTAAATAT
35713 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
35733 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
35755 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
35774 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
35794 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
35814 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
35834 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
35854 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
35874 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
35894 CGCGTTGCGATTT
1 CGCGTTGCGATTT
35907 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:35900 original size:60 final size:60
Alignment explanation
Indices: 35713--35906 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
35703 CTTTAAATAT
**
35713 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
35774 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
35834 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
35894 CGCGTTGCGATTT
1 CGCGTTGCGATTT
35907 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:35923 original size:21 final size:21
Alignment explanation
Indices: 35893--35975 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
35883 ATTTTCATAT
*
35893 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
35914 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
35935 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
35956 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
35976 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:35966 original size:42 final size:43
Alignment explanation
Indices: 35873--35971 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
35863 ATTTATGTGT
* *
35873 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
35914 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
35956 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
35972 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:36482 original size:37 final size:37
Alignment explanation
Indices: 36402--36487 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 37
36392 TTCGTACTTT
*
36402 TTAATAATTTTAGTTAAATCAAAAATATTACGAAGAAA
1 TTAAT-ATTTTAGTTAAATCAAAAATATTAAGAAGAAA
*
36440 ATAATATTTTCAGTTAAATCAAAAATATTAAGAA-AAA
1 TTAATATTTT-AGTTAAATCAAAAATATTAAGAAGAAA
36477 TTAATATTTTA
1 TTAATATTTTA
36488 ACTTACGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 1 0.02
37 17 0.39
38 26 0.59
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (37 bp):
TTAATATTTTAGTTAAATCAAAAATATTAAGAAGAAA
Found at i:36986 original size:18 final size:18
Alignment explanation
Indices: 36938--36989 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
36928 TAATTTTTTA
36938 AATA-AAATATATAAATAT
1 AATACAAATATAT-AATAT
** *
36956 TTTAC-AATTTATAATAT
1 AATACAAATATATAATAT
36973 AATACAAATATATAATA
1 AATACAAATATATAATA
36990 AGGACAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 8 0.31
18 18 0.69
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
AATACAAATATATAATAT
Found at i:37118 original size:16 final size:16
Alignment explanation
Indices: 37091--37141 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 16
37081 AAAATACAAC
37091 ATTCCC-AGTAATCTT
1 ATTCCCTAGTAATCTT
*
37106 ATTCCCTAGTAATATTT
1 ATTCCCTAGTAAT-CTT
*
37123 ATTCTCACTGGTAATCTT
1 ATTC-C-CTAGTAATCTT
37141 A
1 A
37142 CATTCCGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 6 0.21
16 6 0.21
17 6 0.21
18 4 0.14
19 7 0.24
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.43
Consensus pattern (16 bp):
ATTCCCTAGTAATCTT
Found at i:38477 original size:17 final size:17
Alignment explanation
Indices: 38455--38496 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
38445 ATTTCAGGCA
38455 ACCCCTCCACAAGTGTC
1 ACCCCTCCACAAGTGTC
**
38472 ACCCCTAATACAAGTGTC
1 ACCCCT-CCACAAGTGTC
38490 ACCCCTC
1 ACCCCTC
38497 AAAAGTGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.26, C:0.45, G:0.10, T:0.19
Consensus pattern (17 bp):
ACCCCTCCACAAGTGTC
Found at i:38508 original size:16 final size:16
Alignment explanation
Indices: 38455--38508 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
38445 ATTTCAGGCA
*
38455 ACCCCTCCACAAGTGTC
1 ACCCCT-CAAAAGTGTC
*
38472 ACCCCTAATACAAGTGTC
1 ACCCCTCA-A-AAGTGTC
*
38490 ACCCCTCAAAAGTGCC
1 ACCCCTCAAAAGTGTC
38506 ACC
1 ACC
38509 TCTGGGGCTC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 10 0.32
17 7 0.23
18 14 0.45
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.17
Consensus pattern (16 bp):
ACCCCTCAAAAGTGTC
Found at i:45232 original size:35 final size:35
Alignment explanation
Indices: 45186--45296 Score: 136
Period size: 35 Copynumber: 3.2 Consensus size: 35
45176 AAAACAATCC
* *
45186 TCAATTTCATTCTATACCAC-AAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CTAAATTCCAAAATAAT
45221 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
* * * *
45256 TCAATTACATTCTAAAACCC-AAACTCTAAAATACT
1 TCAATTTCATTCT-AAACCCTAAATTCCAAAATAAT
45291 TCAATT
1 TCAATT
45297 CCCGTCTTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 1 0.01
35 61 0.90
36 6 0.09
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.33
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:46402 original size:35 final size:35
Alignment explanation
Indices: 46354--46430 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
46344 ATTCCTCCTT
46354 AAATTGAAATATTTTAGAATTT-GGGTTTTAGAATG
1 AAATTGAAATATTTTAGAATTTAGGG-TTTAGAATG
* *
46389 TAATTGAATTATTTTAGAATTTAGGGTTTAGAATG
1 AAATTGAAATATTTTAGAATTTAGGGTTTAGAATG
46424 AAATTGA
1 AAATTGA
46431 GGAATGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 35 0.92
36 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (35 bp):
AAATTGAAATATTTTAGAATTTAGGGTTTAGAATG
Found at i:50025 original size:20 final size:20
Alignment explanation
Indices: 50000--50040 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
49990 AAATTTATAT
50000 ATTATA-TATAATTTAATTTA
1 ATTATATTATAA-TTAATTTA
*
50020 ATTATATTTTAATTAATTTA
1 ATTATATTATAATTAATTTA
50040 A
1 A
50041 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTATATTATAATTAATTTA
Found at i:50049 original size:16 final size:17
Alignment explanation
Indices: 50030--50061 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
50020 ATTATATTTT
50030 AATT-AATTTAAAAAAA
1 AATTAAATTTAAAAAAA
50046 AATTAAATTTAAAAAA
1 AATTAAATTTAAAAAA
50062 TATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AATTAAATTTAAAAAAA
Found at i:54186 original size:148 final size:149
Alignment explanation
Indices: 53913--54207 Score: 470
Period size: 148 Copynumber: 2.0 Consensus size: 149
53903 AAAAACTATT
** * * *
53913 TAAATTAAAATCAAATAATATTATTGTATTATAAATATTTGTAATTAAATTTAAACAGAAACTCG
1 TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCG
*
53978 AAAATTCATTTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTCAA
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGT-AA
54043 A-TATTTTATAAA-TGAAAC
130 ACTATTTTATAAACTGAAAC
*
54061 TAAATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTC-
1 TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCG
* *
54125 AAAATTTTAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAATTCGAGTAA
66 AAAA-TTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTAA
54190 ACTATTTTATAAACTGAA
130 ACTATTTTATAAACTGAA
54208 TTGAGTATTT
Statistics
Matches: 135, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
147 7 0.05
148 124 0.92
149 4 0.03
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (149 bp):
TAAATTAAAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCG
AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAAAATCGAGTAAA
CTATTTTATAAACTGAAAC
Found at i:58251 original size:36 final size:36
Alignment explanation
Indices: 58176--58255 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
58166 ACTCATTCCT
**
58176 ATTTTC-AACAAACATCTACCAAACTTTGAAAAATT
1 ATTTTCAAACAAACATCTACCAAACTTTGAAAAACC
* *
58211 ATTTTTCAAATAAACATTTACCAAACTTTG-AAAACC
1 A-TTTTCAAACAAACATCTACCAAACTTTGAAAAACC
58247 ATTTTCAAA
1 ATTTTCAAA
58256 GTTGGTTGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 9 0.23
36 10 0.26
37 20 0.51
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.34
Consensus pattern (36 bp):
ATTTTCAAACAAACATCTACCAAACTTTGAAAAACC
Found at i:59871 original size:17 final size:16
Alignment explanation
Indices: 59844--59878 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
59834 AATTTACAAT
59844 TAATTTAAATAATATC
1 TAATTTAAATAATATC
59860 TAATTATAAATAATATC
1 TAATT-TAAATAATATC
59877 TA
1 TA
59879 GTTAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATTTAAATAATATC
Found at i:60011 original size:9 final size:9
Alignment explanation
Indices: 59997--60022 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
59987 TATATTTAAA
59997 GGTTAATTC
1 GGTTAATTC
60006 GGTTAATTC
1 GGTTAATTC
60015 GGTTAATT
1 GGTTAATT
60023 AACCAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:63388 original size:35 final size:35
Alignment explanation
Indices: 63317--63418 Score: 141
Period size: 35 Copynumber: 2.9 Consensus size: 35
63307 TTTACCAAAC
* *
63317 TTTACCAAACTTTGAAAAAATATTTTTCAAAGAAATA
1 TTTACTAAACTTTG-AAAACTA-TTTTCAAAGAAATA
*
63354 TTTACTAAACTTTGAAAACTATTTTCAAATAAATA
1 TTTACTAAACTTTGAAAACTATTTTCAAAGAAATA
* *
63389 TTTATTAAACTTTGAAAACAATTTTCAAAG
1 TTTACTAAACTTTGAAAACTATTTTCAAAG
63419 TTGGTTGTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 40 0.68
36 6 0.10
37 13 0.22
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (35 bp):
TTTACTAAACTTTGAAAACTATTTTCAAAGAAATA
Found at i:70888 original size:79 final size:80
Alignment explanation
Indices: 70800--70960 Score: 218
Period size: 80 Copynumber: 2.0 Consensus size: 80
70790 GTAGAAAAAT
* * * * * *
70800 AACATTTTAGGTAGCG-CATGATATTAACATTTTCGGTA-GAAAAAATAATGTTTTAGGTAGCGA
1 AACATTTTAGGTAGCGTCA-AATATTAACATTTCCAGTATAAAAAAATAATGTTTTAGGCAACGA
70863 TTTACCGAAAATATTA
65 TTTACCGAAAATATTA
*
70879 AACATTTTAGGTAGCGTCAAATATTAACATTTCCAGTATAAAAAAATAATGTTTTAGGCAACGCT
1 AACATTTTAGGTAGCGTCAAATATTAACATTTCCAGTATAAAAAAATAATGTTTTAGGCAACGAT
* *
70944 TTACCGAAGATGTTA
66 TTACCGAAAATATTA
70959 AA
1 AA
70961 AAAATATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
79 32 0.45
80 39 0.55
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (80 bp):
AACATTTTAGGTAGCGTCAAATATTAACATTTCCAGTATAAAAAAATAATGTTTTAGGCAACGAT
TTACCGAAAATATTA
Found at i:84953 original size:21 final size:21
Alignment explanation
Indices: 84927--84972 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
84917 GACTACCATG
* *
84927 TCAATACATTAAACTGTCACA
1 TCAATACACTAAACTGCCACA
*
84948 TCAATACACTGAACTGCCACA
1 TCAATACACTAAACTGCCACA
84969 TCAA
1 TCAA
84973 CCTTGTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.28, G:0.07, T:0.24
Consensus pattern (21 bp):
TCAATACACTAAACTGCCACA
Done.