Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007569.1 Hibiscus syriacus cultivar Beakdansim tig00021541_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: 103840
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:312 original size:110 final size:111
Alignment explanation
Indices: 141--358 Score: 321
Period size: 110 Copynumber: 2.0 Consensus size: 111
131 GTTGAGATTA
* * ** *
141 ACTCTTTATTTTTTTTTGAGTGAATATTTTTTATCGTCAAACGGTTCTATTTATGTGTAAAACTA
1 ACTCTTTATTTTTTTTCGAGTGAATATTTTTTATCATCAAACGGTTCTAAATATGTATAAAACTA
* * *
206 AAAGAGTTTTATATTGTATAACAGGATCATATCCTCTCTCTCTCTT
66 AAAGAATTTTACATTGTAAAACAGGATCATATCCTCTCTCTCTCTT
* *
252 ACTCTTTGTTTTTTTTCGAGTGAATA-TTTTTATCATCAAATGGTTCTAAATATGTATAAAACTA
1 ACTCTTTATTTTTTTTCGAGTGAATATTTTTTATCATCAAACGGTTCTAAATATGTATAAAACTA
* *
316 AAATAATTTTACATTGTAAAACAGTATCATATCCTCTCTCTCT
66 AAAGAATTTTACATTGTAAAACAGGATCATATCCTCTCTCTCT
359 ATAGTGTGTA
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
110 71 0.75
111 24 0.25
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (111 bp):
ACTCTTTATTTTTTTTCGAGTGAATATTTTTTATCATCAAACGGTTCTAAATATGTATAAAACTA
AAAGAATTTTACATTGTAAAACAGGATCATATCCTCTCTCTCTCTT
Found at i:12657 original size:70 final size:70
Alignment explanation
Indices: 12544--12732 Score: 333
Period size: 70 Copynumber: 2.7 Consensus size: 70
12534 CATCTGAGAT
* * * *
12544 GCGAGCCTCGGACATAGGTATGTTTTCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
12609 AAGAC
66 AAGAC
12614 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
12679 AAGAC
66 AAGAC
*
12684 GCGAGTCTCGGACATAGGCATGTATCCAACATGGATGGGTTAAATTTTT
1 GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTT
12733 GTATGCTTTT
Statistics
Matches: 114, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 114 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (70 bp):
GCGAGTCTCGGACATAGGCATGTATCCGACATGGATGGGTTAAATTTTTCAATGTTCTTCTATTC
AAGAC
Found at i:13462 original size:30 final size:28
Alignment explanation
Indices: 13411--13480 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 28
13401 GGAATGCTTA
*
13411 AAAAGTTT-AGGACCAATTTAAAATGAATTCC
1 AAAA-TTTGAGGACCAAATTAAAAT--ATT-C
*
13442 ATAATTTGAGGA-CAAATTAAAATATTC
1 AAAATTTGAGGACCAAATTAAAATATTC
13469 AAAATTTGAGGA
1 AAAATTTGAGGA
13481 TTGATTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 12 0.34
28 3 0.09
30 13 0.37
31 7 0.20
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (28 bp):
AAAATTTGAGGACCAAATTAAAATATTC
Found at i:16767 original size:2 final size:2
Alignment explanation
Indices: 16760--16789 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16750 TATGTTAATC
16760 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
16790 TAAAGTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17527 original size:20 final size:20
Alignment explanation
Indices: 17504--17617 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
17494 GAATAAGTAA
*
17504 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
17524 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
17544 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
17565 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
17585 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
17605 TTCGCAACGCGAT
1 ATCGCAACGCGAT
17618 TTACATAGCA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:17579 original size:61 final size:61
Alignment explanation
Indices: 17502--17617 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 61
17492 GCGAATAAGT
* * * * *
17502 AAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATACA
1 AAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACA
* * *
17563 AAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
17618 TTACATAGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACA
Found at i:18173 original size:19 final size:19
Alignment explanation
Indices: 18135--18201 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
18125 TTCGAGAATG
*
18135 AAAATCGTAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
18155 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* *
18174 AAAAACGCAACGCGAAACA
1 AAAATCGCAACGCGAAATA
18193 AAAATCGCA
1 AAAATCGCA
18202 TTGCGATTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 29 0.74
20 10 0.26
ACGTcount: A:0.51, C:0.22, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:18219 original size:19 final size:19
Alignment explanation
Indices: 18197--18266 Score: 122
Period size: 19 Copynumber: 3.7 Consensus size: 19
18187 GAAACAAAAA
*
18197 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
18216 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
18235 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
18254 TCGCGTTGCGATT
1 TCGCGTTGCGATT
18267 CTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 48 1.00
ACGTcount: A:0.11, C:0.20, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:18352 original size:20 final size:20
Alignment explanation
Indices: 18311--18367 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
18301 TTTCTTTGCG
* **
18311 ATTATCTCGTTGCGATAGTC
1 ATTATCGCGTTGCGATTCTC
18331 ATT-TCCGCGTTGCGATTCTC
1 ATTAT-CGCGTTGCGATTCTC
*
18351 ATTATCTCGTTGCGATT
1 ATTATCGCGTTGCGATT
18368 TCCATTTCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (20 bp):
ATTATCGCGTTGCGATTCTC
Found at i:18493 original size:25 final size:26
Alignment explanation
Indices: 18439--18493 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
18429 TTATGTTTAT
*
18439 TGTTTTTGGTATATCTTGACAGTGTA
1 TGTTTTTGGTATATCTTAACAGTGTA
18465 -GTTTTTGGTATATC-TAAC-GTGGTA
1 TGTTTTTGGTATATCTTAACAGT-GTA
18489 TGTTT
1 TGTTT
18494 ATTGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.23
25 18 0.69
ACGTcount: A:0.18, C:0.07, G:0.24, T:0.51
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACAGTGTA
Found at i:20597 original size:21 final size:21
Alignment explanation
Indices: 20555--20597 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
20545 TTTTTGGGCT
* * *
20555 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
20576 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
20597 A
1 A
20598 CGAATATGAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:21303 original size:149 final size:150
Alignment explanation
Indices: 21114--21429 Score: 544
Period size: 150 Copynumber: 2.1 Consensus size: 150
21104 GGGTAGAGGG
* * *
21114 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAGGTCTT-GAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
21178 TACTTGATCCTTAGTAGATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTAGATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
* *
21243 ATATGGCACTACGGTGTAAT
131 ATATAGCACTACGGTGCAAT
*
21263 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
*
21328 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTAGATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
21393 ATATAGCACTACGGTGCAAT
131 ATATAGCACTACGGTGCAAT
*
21413 TCTACGCGGTACTTCGG
1 TCTACGCGGTCCTTCGG
21430 TGCAATTATA
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
149 50 0.32
150 107 0.68
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTAGATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATAGCACTACGGTGCAAT
Found at i:27519 original size:21 final size:21
Alignment explanation
Indices: 27477--27519 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27467 TTTTTGGGCT
* *
27477 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
27498 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
27519 A
1 A
27520 CGAATATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:28247 original size:149 final size:150
Alignment explanation
Indices: 28057--28372 Score: 537
Period size: 150 Copynumber: 2.1 Consensus size: 150
28047 GGGTAGAGGG
* * * *
28057 TCTACGCGGTCTTTCGGGACATATGTATATTCTTTGGAACATGTGTGAGGTCTT-GAAAGACACA
1 TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
* *
28121 TACTTGATCCTTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
*
28186 ATATGGCACTACGGTGCAAT
131 ATATAGCACTACGGTGCAAT
*
28206 TCTACGCGGTCATTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
1 TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
28271 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
66 TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
28336 ATATAGCACTACGGTGCAAT
131 ATATAGCACTACGGTGCAAT
28356 TCTACGCGG-CACTTCGG
1 TCTACGCGGTCA-TTCGG
28373 TGCAATTATA
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 51 0.32
150 106 0.68
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (150 bp):
TCTACGCGGTCATTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGGAAAGACACA
TACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTATATGTGGTCCTTATGGACATCATT
ATATAGCACTACGGTGCAAT
Found at i:28373 original size:23 final size:23
Alignment explanation
Indices: 28341--28384 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
28331 TCATTATATA
*
28341 GCACTACGGTGCAATTCTACGCG
1 GCACTACGGTGCAATTATACGCG
*
28364 GCACTTCGGTGCAATTATACG
1 GCACTACGGTGCAATTATACG
28385 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
GCACTACGGTGCAATTATACGCG
Found at i:29559 original size:42 final size:42
Alignment explanation
Indices: 29508--29601 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
29498 CCACTCCTAT
* *
29508 CATTGAAGAGGCCCCTATAATTCCTCG-AGA-GTCCCCTCCCAC
1 CATTCAAGAGGCCACTATAA-TCCTCGAAGAGGT-CCCTCCCAC
* * * *
29550 CGTTCAAGAGGCCACTGTAATCGTTGAAGAGGTCCCTCCCAC
1 CATTCAAGAGGCCACTATAATCCTCGAAGAGGTCCCTCCCAC
29592 CATTCAAGAG
1 CATTCAAGAG
29602 CCTGATTCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.09
42 37 0.86
43 2 0.05
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (42 bp):
CATTCAAGAGGCCACTATAATCCTCGAAGAGGTCCCTCCCAC
Found at i:30978 original size:14 final size:14
Alignment explanation
Indices: 30959--30994 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30949 ATTGTTTAAT
30959 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
30973 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
30987 TGATTTGT
1 TGATTTGT
30995 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:31151 original size:34 final size:35
Alignment explanation
Indices: 31104--31181 Score: 126
Period size: 34 Copynumber: 2.3 Consensus size: 35
31094 AAGTACTATC
*
31104 GCAATGCG-AAATGAAAATCGCAACGAGAGAAT-A
1 GCAACGCGAAAATGAAAATCGCAACGAGAGAATCA
31137 GCAACGCGAAAATGAAAATCGCAACGAGAGAATCA
1 GCAACGCGAAAATGAAAATCGCAACGAGAGAATCA
31172 -CAACGCGAAA
1 GCAACGCGAAA
31182 TTAAATTCGC
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
33 7 0.17
34 34 0.81
35 1 0.02
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (35 bp):
GCAACGCGAAAATGAAAATCGCAACGAGAGAATCA
Found at i:31209 original size:19 final size:19
Alignment explanation
Indices: 31187--31317 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
31177 CGAAATTAAA
*
31187 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
* *
31206 TTCGCATTACGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
31222 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
31239 TTCGCATTGCGA---T-A-
1 TTCGCATTGCGATTTTCAT
* *
31253 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
31272 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
31288 CTCG--TTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
31305 TTCGTATTGCGAT
1 TTCGCATTGCGAT
31318 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 15, Indels: 30
0.65 0.12 0.24
Matches are distributed among these distances:
14 20 0.24
15 1 0.01
16 14 0.17
17 14 0.17
18 1 0.01
19 32 0.39
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:31233 original size:33 final size:33
Alignment explanation
Indices: 31191--31317 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
31181 ATTAAATTCG
* *
31191 CGTTGCGATTTTCATTTCGCATTACGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
**
31224 CGTTGCGATTTTCATTTCGCATTGCGATAT-TAG
1 CGTTGCGATTTTCATTTCGCATTGCGAT-TCTCT
31257 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* *
31290 CGTTGCAATTTTCATTTCGTATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
31318 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:31301 original size:66 final size:66
Alignment explanation
Indices: 31190--31318 Score: 222
Period size: 66 Copynumber: 2.0 Consensus size: 66
31180 AATTAAATTC
*
31190 GCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGATATT
1 GCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCAATTTTCATTTCGCATTGCGATATT
31255 A
66 A
* * *
31256 GCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCAATTTTCATTTCGTATTGCGATA
1 GCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCAATTTTCATTTCGCATTGCGATA
31319 GTAATTTCCA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
GCGTTGCGATTTTCATTTCGCATTACGATTCCCTCGTTGCAATTTTCATTTCGCATTGCGATATT
A
Found at i:33829 original size:24 final size:24
Alignment explanation
Indices: 33795--33848 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
33785 CTGAAACATC
* * *
33795 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGAACAAG
*
33819 ATCAAAGTCCGGGTATTGAACAAG
1 ATCAAAATCCGGGTATTGAACAAG
33843 ATCAAA
1 ATCAAA
33849 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGAACAAG
Found at i:34976 original size:20 final size:20
Alignment explanation
Indices: 34903--34970 Score: 136
Period size: 20 Copynumber: 3.4 Consensus size: 20
34893 ATTCATTTGA
34903 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
34923 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
34943 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
34963 CTATCGCA
1 CTATCGCA
34971 TTGCGATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:35117 original size:14 final size:14
Alignment explanation
Indices: 35098--35134 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
35088 CATCAATTAA
35098 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
35112 ACAAATCATCTTTT
1 ACAAATCAACATTT
35126 ACAAATCAA
1 ACAAATCAA
35135 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:36633 original size:42 final size:41
Alignment explanation
Indices: 36553--36633 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
36543 TTCAACGATG
* * *
36553 ATAGTGGCCTCTTGAACGGTGGGGGGGAATTTTGAGGGAGA
1 ATAGGGGCCTCTTGAACGGTGGAGGGGAATCTTGAGGGAGA
* *
36594 ATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGA
1 ATAGGGGCCTCTTGAACG-GTGGAGGGGAATCTTGAGGGA
36634 TGACTGGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.23
Consensus pattern (41 bp):
ATAGGGGCCTCTTGAACGGTGGAGGGGAATCTTGAGGGAGA
Found at i:37025 original size:20 final size:19
Alignment explanation
Indices: 37002--37069 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
36992 GAAACTTAAA
37002 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
37022 ATCGCAACGCTGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
37042 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
37061 ATCGCAACG
1 ATCGCAACG
37070 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:37077 original size:14 final size:14
Alignment explanation
Indices: 37058--37115 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
37048 ATGCGAAATG
37058 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
37072 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
*
37088 ATGAAATCGCAATGAC
1 A--AAATCGCAACGAC
37104 AAAATCGCAACG
1 AAAATCGCAACG
37116 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 7 0.19
18 9 0.25
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:37105 original size:32 final size:33
Alignment explanation
Indices: 37042--37120 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
37032 TGAAATGGCT
*
37042 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
37075 ATCGCAACGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
37107 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
37121 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:37166 original size:14 final size:14
Alignment explanation
Indices: 37143--37206 Score: 76
Period size: 14 Copynumber: 4.4 Consensus size: 14
37133 TGCGATTTTC
37143 ATTTTG-CGTTGCG
1 ATTTTGTCGTTGCG
37156 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
*
37170 ATTTCATTTCGCATTGCG
1 ATTT--TGTCG--TTGCG
37188 ATTTTGTCGTTGCG
1 ATTTTGTCGTTGCG
37202 ATTTT
1 ATTTT
37207 CATTTCGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
13 6 0.14
14 21 0.48
16 8 0.18
18 9 0.20
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (14 bp):
ATTTTGTCGTTGCG
Found at i:37213 original size:33 final size:33
Alignment explanation
Indices: 37132--37222 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
37122 ACAAATCGCA
* *
37132 TTGCGATTTTCATTTTGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
37165 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
37197 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
37223 AGCCATTTCC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:37241 original size:20 final size:19
Alignment explanation
Indices: 37207--37261 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
37197 TTGCGATTTT
*
37207 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
37226 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
37246 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
37262 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:37769 original size:18 final size:18
Alignment explanation
Indices: 37743--37787 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
37733 GTCGATCAGA
*
37743 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
37761 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
37779 TGATGGCTC
1 TGATGGCTC
37788 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:39132 original size:20 final size:20
Alignment explanation
Indices: 39107--39144 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
39097 AATAGTTTCT
39107 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
**
39127 GAAAATGACTATCGCAAC
1 GAAAATGAAAATCGCAAC
39145 GAGAGAATCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.16, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:39434 original size:22 final size:22
Alignment explanation
Indices: 39407--39453 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
39397 ATATGGAGAT
39407 AGACGGATTTCGCCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
*
39429 AGACGGATTTCGTCGGAGATGG
1 AGACGGATTTCGCCGGAGATGG
39451 AGA
1 AGA
39454 TGGGACTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.15, G:0.40, T:0.19
Consensus pattern (22 bp):
AGACGGATTTCGCCGGAGATGG
Found at i:39645 original size:20 final size:20
Alignment explanation
Indices: 39620--39713 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
39610 GATTATGTAT
39620 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
39640 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
39660 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
39681 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
39701 TATCGCATTGCGA
1 TATCGCGTTGCGA
39714 TTTTCCCAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 45 0.73
21 12 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:39714 original size:20 final size:19
Alignment explanation
Indices: 39600--39714 Score: 86
Period size: 20 Copynumber: 5.7 Consensus size: 19
39590 CGCTTTGAAA
*
39600 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* *
39621 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* *
39641 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
39661 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
39682 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
39702 ATCGCATTGCGAT
1 ATCGCATTGCGAT
39715 TTTCCCAATT
Statistics
Matches: 78, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.06
20 48 0.62
21 23 0.29
22 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:39732 original size:21 final size:21
Alignment explanation
Indices: 39703--39795 Score: 100
Period size: 20 Copynumber: 4.5 Consensus size: 21
39693 ATAGTCAGTA
39703 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
39724 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
39744 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
39765 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
39785 TCGCATTGCGA
1 TCGCATTGCGA
39796 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:39733 original size:41 final size:41
Alignment explanation
Indices: 39642--39776 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
39632 AAAGTCAGTA
* * * ** *
39642 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
39682 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
39724 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
39765 TCGCGTTGCGAT
1 TCGCGTTGCGAT
39777 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:39777 original size:41 final size:41
Alignment explanation
Indices: 39703--39795 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
39693 ATAGTCAGTA
39703 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
39744 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
39785 TCGCATTGCGA
1 TCGCATTGCGA
39796 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:50863 original size:2 final size:2
Alignment explanation
Indices: 50843--50894 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
50833 CACCGTTATT
*
50843 TA TA TA -A TA T- TA TA T- TA TA TA -A T- TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
50880 TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA T
50895 TTACATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:52118 original size:17 final size:16
Alignment explanation
Indices: 52096--52129 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52086 AAATTCACCA
52096 TATGGTCCTTTATTTAT
1 TATGGT-CTTTATTTAT
*
52113 TATGGTTTTTATTTAT
1 TATGGTCTTTATTTAT
52129 T
1 T
52130 TATTTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.12, T:0.65
Consensus pattern (16 bp):
TATGGTCTTTATTTAT
Found at i:53462 original size:18 final size:19
Alignment explanation
Indices: 53441--53485 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
53431 ATTTAAACAT
*
53441 TTTGCATTTT-TTATTTTC
1 TTTGCATTTTGTTATTTTA
53459 TTTGCATTTTGTTATTTTA
1 TTTGCATTTTGTTATTTTA
53478 TTTGCATT
1 TTTGCATT
53486 CACATTAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTA
Found at i:57012 original size:84 final size:84
Alignment explanation
Indices: 56865--57285 Score: 496
Period size: 84 Copynumber: 5.1 Consensus size: 84
56855 TTTTAAACAA
* * * * * * *
56865 ATCATTTGCGGCATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
*
56929 ACGCTCAGCTCCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* * *
56948 GTCATTTGCAGCACAAATTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
57013 ACGCTCAGCT-CAACGGCAC
66 ACGCTCAGCTCCAA-GGCAC
* * * * ** *
57032 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCTGAGTTCGATT
1 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
* * *
57093 ACACTCAGCTTCGAGGGCAC
66 ACGCTCAGC-TCCAAGGCAC
* * * * *
57113 ATCCTTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
* *
57178 ACGCTCAGCTTCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* *
57197 GTCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
57262 ACGCTCAGCT-CAACGGCAC
66 ACGCTCAGCTCCAA-GGCAC
57281 ATCAT
1 ATCAT
57286 CAGCTCAACG
Statistics
Matches: 284, Mismatches: 45, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
80 25 0.09
81 43 0.15
82 2 0.01
83 40 0.14
84 150 0.53
85 24 0.08
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (84 bp):
ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACT
ACGCTCAGCTCCAAGGCAC
Found at i:58379 original size:2 final size:2
Alignment explanation
Indices: 58359--58410 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
58349 CACCGTTATT
*
58359 TA TA TA -A TA T- TA TA T- TA TA TA -A T- TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
58396 TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA T
58411 TTACATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
1 5 0.12
2 36 0.88
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:59934 original size:15 final size:16
Alignment explanation
Indices: 59914--59943 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59904 ATCCATGTTA
59914 AGGACTT-AAACAAAC
1 AGGACTTAAAACAAAC
59929 AGGACTTAAAACAAA
1 AGGACTTAAAACAAA
59944 ACGGGGTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (16 bp):
AGGACTTAAAACAAAC
Found at i:65560 original size:44 final size:44
Alignment explanation
Indices: 65512--65676 Score: 258
Period size: 44 Copynumber: 3.8 Consensus size: 44
65502 AATACCATGA
* *
65512 GCCAATAATGCACTATTATGCATTTTCATTTATGACACATTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
* *
65556 GCCAATAATGTACCATTATGCATTTTCATTTATCACACCTTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
* * *
65600 GTCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTCT
1 GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
*
65644 GCCAATAATGCACCGTTATGCATTTTCATTTAT
1 GCCAATAATGCACCATTATGCATTTTCATTTAT
65677 TTCGGTAACA
Statistics
Matches: 111, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 111 1.00
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (44 bp):
GCCAATAATGCACCATTATGCATTTTCATTTATGACACCTTTCT
Found at i:79039 original size:2 final size:2
Alignment explanation
Indices: 79032--79062 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
79022 CTAATGAATC
79032 TA 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 TA T
79063 TTGATATTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:85581 original size:2 final size:2
Alignment explanation
Indices: 85519--85567 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
85509 ATTTGGCTTA
85519 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
85561 AT -T AT AT
1 AT AT AT AT
85568 TTGGCTTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:89463 original size:2 final size:2
Alignment explanation
Indices: 89456--89491 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
89446 GCTTTGAAGT
89456 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89492 ATCTTTTTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:90012 original size:25 final size:25
Alignment explanation
Indices: 89962--90013 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
89952 ATTTTTGGTG
** * *
89962 TAATTAATCCATTAATAAGGTTAGT
1 TAATTAATAAATTAATAAGATGAGT
89987 TAATTAATAAATTAATAAGATGAGT
1 TAATTAATAAATTAATAAGATGAGT
90012 TA
1 TA
90014 TTTTCATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (25 bp):
TAATTAATAAATTAATAAGATGAGT
Found at i:94795 original size:30 final size:30
Alignment explanation
Indices: 94759--94819 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
94749 GGTAAATACT
94759 AACCAACGCTTATTACCATATGAACTTATC
1 AACCAACGCTTATTACCATATGAACTTATC
94789 AACCAACGCTTATTACCATATGAACTTATC
1 AACCAACGCTTATTACCATATGAACTTATC
94819 A
1 A
94820 GTGTCGAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.30
Consensus pattern (30 bp):
AACCAACGCTTATTACCATATGAACTTATC
Found at i:95253 original size:2 final size:2
Alignment explanation
Indices: 95246--95272 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
95236 TTAATTTTTA
95246 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 A
95273 AACAATAAAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95468 original size:21 final size:20
Alignment explanation
Indices: 95383--95539 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
95373 AAATGACCAA
**
95383 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
95402 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** * *
95422 CAGAATCGCAAATC-AGTTC
1 CAAAATCGCAACGCGATTTT
95441 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
95462 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
95483 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
95503 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
95524 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
95540 ACATAAATCG
Statistics
Matches: 102, Mismatches: 31, Indels: 9
0.72 0.22 0.06
Matches are distributed among these distances:
19 28 0.27
20 28 0.27
21 46 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.18
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:95568 original size:20 final size:20
Alignment explanation
Indices: 95506--95697 Score: 219
Period size: 20 Copynumber: 9.7 Consensus size: 20
95496 CGATTTTCCA
* ** *
95506 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
95526 AAATCGCAACGCG-A-ACAT
1 AAATCGCAACGCGTATCCGT
95544 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
95564 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
95584 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
95604 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
95624 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
95644 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
95664 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
95685 AAATCGCAACGCG
1 AAATCGCAACGCG
95698 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
18 14 0.10
19 3 0.02
20 113 0.77
21 15 0.10
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:96119 original size:33 final size:33
Alignment explanation
Indices: 96080--96150 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
96070 TTCACTTAGA
*
96080 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
96113 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
96146 TTTCA
1 TTTCA
96151 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:96287 original size:41 final size:41
Alignment explanation
Indices: 96229--96306 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
96219 TTGCAGAAGA
*
96229 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
96270 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
96307 CGCAACGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:96303 original size:21 final size:21
Alignment explanation
Indices: 96230--96305 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
96220 TGCAGAAGAG
*
96230 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
96251 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
96271 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
96292 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
96306 TCGCAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:96309 original size:14 final size:14
Alignment explanation
Indices: 96290--96346 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
96280 GAGAAATGAA
96290 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
96304 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
*
96323 AATCACAACGAGAG
1 AATCGCAACGAGAG
96337 AATCGCAACG
1 AATCGCAACG
96347 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:96322 original size:33 final size:33
Alignment explanation
Indices: 96282--96362 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
96272 CGCAACGAGA
96282 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
96315 GAAATGAAAATCACAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
96348 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
96363 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.48, C:0.22, G:0.21, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:96380 original size:19 final size:18
Alignment explanation
Indices: 96358--96477 Score: 84
Period size: 19 Copynumber: 7.1 Consensus size: 18
96348 GAAACCAAAA
96358 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
96377 TCGCGTTGCGA--TT-ATC
1 TCGC-TTGCGATTTTCATT
96393 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
96410 TCGCGTTGCGA--TT-ATC
1 TCGC-TTGCGATTTTCATT
*
96426 TCG-TTGCGATTGTCATT
1 TCGCTTGCGATTTTCATT
*
96443 TCGCATTGCGA--TTC-TC
1 TCGC-TTGCGATTTTCATT
96459 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
96476 TC
1 TC
96478 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
14 18 0.23
16 20 0.25
17 19 0.24
19 22 0.28
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:96399 original size:14 final size:14
Alignment explanation
Indices: 96380--96469 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
96370 TTTCATTTCG
96380 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
96394 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
96413 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
96427 CGTTGCGATTGTCATTT
1 CGTTGCGA-T-T-ATCT
*
96444 CGCATTGCGATTCTCT
1 CG--TTGCGATTATCT
96460 CGTTGCGATT
1 CGTTGCGATT
96470 TTCATTTCAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 26 0.43
15 1 0.02
16 8 0.13
17 9 0.15
18 1 0.02
19 16 0.26
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:96405 original size:33 final size:33
Alignment explanation
Indices: 96363--96477 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
96353 CAAAATCGCA
96363 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
96396 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
* * *
96429 TTGCGATTGTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
96462 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
96478 AACCAAAAGA
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:0.12, C:0.22, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
Found at i:98497 original size:185 final size:186
Alignment explanation
Indices: 98171--98820 Score: 1249
Period size: 185 Copynumber: 3.5 Consensus size: 186
98161 TAGATTGCTT
*
98171 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98236 -TTGTCTTTGTTTTGTC-TTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
98299 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
98355 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98420 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
98484 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
98540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98605 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
98669 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTG-TTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
98724 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98789 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
98821 TGCAATCCAT
Statistics
Matches: 462, Mismatches: 1, Indels: 7
0.98 0.00 0.01
Matches are distributed among these distances:
183 6 0.01
184 172 0.37
185 260 0.56
186 24 0.05
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:98516 original size:92 final size:93
Alignment explanation
Indices: 98171--98820 Score: 1249
Period size: 92 Copynumber: 7.1 Consensus size: 93
98161 TAGATTGCTT
*
98171 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98236 -TTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98262 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98327 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98355 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98420 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98448 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98512 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98605 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98633 AGTAAATTTGTTCGG-TGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98697 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98724 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
98789 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
98816 AGTAA
1 AGTAA
98821 TGCAATCCAT
Statistics
Matches: 553, Mismatches: 1, Indels: 9
0.98 0.00 0.02
Matches are distributed among these distances:
91 96 0.17
92 232 0.42
93 225 0.41
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:98893 original size:20 final size:20
Alignment explanation
Indices: 98868--98933 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
98858 TAGTTTACTT
* *
98868 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
98888 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
98907 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
98926 TCGCAACG
1 TCGCAACG
98934 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:98908 original size:19 final size:19
Alignment explanation
Indices: 98868--98996 Score: 89
Period size: 19 Copynumber: 7.3 Consensus size: 19
98858 TAGTTTACTT
* *
98868 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
98888 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
98907 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
98926 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
* **
98940 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
* *
98959 TCGCAA--CG--A-TAAGA
1 TCGCAACGCGAAACCAAAA
98973 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
98992 TCGCA
1 TCGCA
98997 TTGCGATTTT
Statistics
Matches: 87, Mismatches: 12, Indels: 21
0.73 0.10 0.17
Matches are distributed among these distances:
14 18 0.21
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 44 0.51
20 13 0.15
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:98951 original size:33 final size:32
Alignment explanation
Indices: 98904--98996 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 32
98894 CGCGAAACCA
98904 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
* *
98936 AGAATCGCAATGCGAAATGAAAATCGCAACGAT
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
**
98969 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAATGAAAATCGCA
98997 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
32 2 0.04
33 52 0.96
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:99014 original size:19 final size:19
Alignment explanation
Indices: 98992--99126 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
98982 GAAACCAAAA
*
98992 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
99011 TCGCGTTGTGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
99027 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
99044 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
99060 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
99077 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
99096 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
99116 TCGTGTTGCGA
1 TCGCGTTGCGA
99127 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 11 0.12
17 11 0.12
19 45 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:99037 original size:14 final size:14
Alignment explanation
Indices: 99014--99070 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
99004 TTTCATTTCG
*
99014 CGTTGTGATTCTTT
1 CGTTGCGATTCTTT
99028 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
99045 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
99061 CGTTGCGATT
1 CGTTGCGATT
99071 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 15 0.42
16 7 0.19
17 8 0.22
19 6 0.17
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:99039 original size:33 final size:33
Alignment explanation
Indices: 98997--99089 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
98987 CAAAATCGCA
* *
98997 TTGCGATTTTCATTTCGCGTTGTGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
99030 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
99063 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
99090 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:101059 original size:14 final size:14
Alignment explanation
Indices: 101040--101075 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
101030 ATTGTTTAAT
101040 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
101054 TGATTTGTATAAGT
1 TGATTTGTAAAAGA
101068 TGATTTGT
1 TGATTTGT
101076 GTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:101198 original size:19 final size:18
Alignment explanation
Indices: 101182--101278 Score: 121
Period size: 19 Copynumber: 5.4 Consensus size: 18
101172 AAAAATGACT
101182 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
101200 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
*
101219 ATCGCAA--CGAGAT--A
1 ATCGCAATGCGAAATGAA
101233 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
101252 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATG-AA
101272 ATCGCAA
1 ATCGCAA
101279 CGAGAGAATC
Statistics
Matches: 70, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
14 8 0.11
16 5 0.07
17 5 0.07
18 16 0.23
19 20 0.29
20 16 0.23
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:101310 original size:53 final size:53
Alignment explanation
Indices: 101182--101296 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
101172 AAAAATGACT
*
101182 ATCGCAATGCGAAATG-AAATCGCAATGC-GAAATGAAAATCGCAACGAGATA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
101233 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
101286 ATCGCAATGCG
1 ATCGCAATGCG
101297 TTTATAATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 16 0.26
52 12 0.20
53 33 0.54
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:101360 original size:33 final size:32
Alignment explanation
Indices: 101303--101384 Score: 148
Period size: 33 Copynumber: 2.6 Consensus size: 32
101293 TGCGTTTATA
101303 ATTTCGCATTGCGA-TTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTCTCGTTGCGATTTTC
101334 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATT-TCTCGTTGCGATTTTC
101367 ATTTCGCATTGCGATTTC
1 ATTTCGCATTGCGATTTC
101385 ATTTCGCATT
Statistics
Matches: 49, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
31 14 0.29
32 3 0.06
33 32 0.65
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (32 bp):
ATTTCGCATTGCGATTTCTCGTTGCGATTTTC
Found at i:101361 original size:14 final size:16
Alignment explanation
Indices: 101318--101414 Score: 60
Period size: 18 Copynumber: 5.9 Consensus size: 16
101308 GCATTGCGAT
101318 TCTCG-TTGCGATTTTCA
1 TCTCGATTGCGA--TTCA
*
101335 TTTCGCATTGCGATTC-
1 TCTCG-ATTGCGATTCA
101351 TCTCG-TTGCGATTTTCA
1 TCTCGATTGCGA--TTCA
*
101368 TTTCGCATTGCGATTTCA
1 TCTCG-ATTGCGA-TTCA
*
101386 TTTCGCATTGCGATTC-
1 TCTCG-ATTGCGATTCA
101402 TCTCG-TTGCGATT
1 TCTCGATTGCGATT
101415 TTCATTTCCG
Statistics
Matches: 69, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
14 14 0.20
16 11 0.16
17 14 0.20
18 18 0.26
19 12 0.17
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (16 bp):
TCTCGATTGCGATTCA
Found at i:101389 original size:51 final size:52
Alignment explanation
Indices: 101323--101438 Score: 216
Period size: 51 Copynumber: 2.2 Consensus size: 52
101313 GCGATTCTCG
101323 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
1 TTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
101375 TTGCGATTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
101427 TTGCGATTTCAT
1 TTGCGATTTCAT
101439 GTTGGGATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 41 0.65
52 22 0.35
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
TTGCGATTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
Found at i:101410 original size:84 final size:82
Alignment explanation
Indices: 101303--101466 Score: 269
Period size: 84 Copynumber: 2.0 Consensus size: 82
101293 TGCGTTTATA
101303 ATTTCGCATTGCGATTCTCGTTGCGATTTTCATTT-CGCATTGCGATTCTC-TCGTTGCGATTTT
1 ATTTCGCATTGCGATTCTCGTTGCGATTTTCATTTCCGCATTGCGATT-TCAT-GTTGCGATTTT
101366 CATTTCGCATTGCGATTTC
64 CATTTCGCATTGCGATTTC
*
101385 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTCATGTTGGGATTTT
1 ATTTCGCATTGCGA-T-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTCATGTTGCGATTTT
101450 CATTTCGCATTGCGATT
64 CATTTCGCATTGCGATT
101467 CTCTCGTTGC
Statistics
Matches: 77, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
82 14 0.18
83 1 0.01
84 49 0.64
85 13 0.17
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (82 bp):
ATTTCGCATTGCGATTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTCATGTTGCGATTTTCA
TTTCGCATTGCGATTTC
Found at i:101422 original size:33 final size:33
Alignment explanation
Indices: 101375--101480 Score: 164
Period size: 33 Copynumber: 3.2 Consensus size: 33
101365 TCATTTCGCA
101375 TTGCGA-TTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
101407 TTGCGATTTTCATTTCCGCATTGCGATT-TCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
101440 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
101473 TTGCGATT
1 TTGCGATT
101481 GTAATTTCCG
Statistics
Matches: 67, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
32 19 0.28
33 35 0.52
34 13 0.19
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:103749 original size:12 final size:12
Alignment explanation
Indices: 103732--103756 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
103722 TTCTTCGGGA
103732 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103744 CTTTTTCTTCTT
1 CTTTTTCTTCTT
103756 C
1 C
103757 AGGATATATG
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Done.