Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006724.1 Hibiscus syriacus cultivar Beakdansim tig00016844_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: 97069
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:1398 original size:17 final size:18
Alignment explanation
Indices: 1365--1399 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
1355 TATAATTATT
1365 TATTCATATTATCTTTTA
1 TATTCATATTATCTTTTA
*
1383 TATTCA-ATTATGTTTTA
1 TATTCATATTATCTTTTA
1400 ATTTTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.60
Consensus pattern (18 bp):
TATTCATATTATCTTTTA
Found at i:3342 original size:19 final size:20
Alignment explanation
Indices: 3318--3356 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3308 TTTTCCTTTA
*
3318 GGGGGGAATCGATTCCCCTG
1 GGGGGGAATCGATACCCCTG
3338 GGGGGGAATCGATACCCCT
1 GGGGGGAATCGATACCCCT
3357 TGGACATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (20 bp):
GGGGGGAATCGATACCCCTG
Found at i:4577 original size:17 final size:18
Alignment explanation
Indices: 4544--4578 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4534 GAGACAACTA
4544 ATTTTTAATTTTCTTTAT
1 ATTTTTAATTTTCTTTAT
*
4562 ATTTTTAGTTTT-TTTAT
1 ATTTTTAATTTTCTTTAT
4579 TTTAATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
ATTTTTAATTTTCTTTAT
Found at i:5359 original size:26 final size:27
Alignment explanation
Indices: 5330--5380 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
5320 TATGTTAAGG
* *
5330 GATGAACTTATAAAA-TTTGAAGGAGA
1 GATGAACATATAAAACTTTAAAGGAGA
5356 GATGAACATATAAAACTTTAAAGGA
1 GATGAACATATAAAACTTTAAAGGA
5381 ATAAAAACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.25
Consensus pattern (27 bp):
GATGAACATATAAAACTTTAAAGGAGA
Found at i:6428 original size:10 final size:10
Alignment explanation
Indices: 6413--6453 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
6403 GTGTTTGTGT
6413 TGTTCGTTTA
1 TGTTCGTTTA
**
6423 TGTTCGTTCG
1 TGTTCGTTTA
*
6433 TGTTTGTTTA
1 TGTTCGTTTA
6443 TGTTCGTTTA
1 TGTTCGTTTA
6453 T
1 T
6454 TATTTAAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.07, C:0.10, G:0.22, T:0.61
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:6441 original size:20 final size:20
Alignment explanation
Indices: 6413--6450 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6403 GTGTTTGTGT
6413 TGTTCGTTTATGTTCGTTCG
1 TGTTCGTTTATGTTCGTTCG
*
6433 TGTTTGTTTATGTTCGTT
1 TGTTCGTTTATGTTCGTT
6451 TATTATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.11, G:0.24, T:0.61
Consensus pattern (20 bp):
TGTTCGTTTATGTTCGTTCG
Found at i:7577 original size:22 final size:23
Alignment explanation
Indices: 7552--7603 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
7542 ACTTTAAAAA
7552 TTATATTTTA-AAAAAAGAATTT
1 TTATATTTTATAAAAAAGAATTT
* * *
7574 TTATTTTTTATAAAATATAATTT
1 TTATATTTTATAAAAAAGAATTT
7597 TATATAT
1 T-TATAT
7604 GTTCATTCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTATATTTTATAAAAAAGAATTT
Found at i:7922 original size:21 final size:21
Alignment explanation
Indices: 7854--7940 Score: 86
Period size: 21 Copynumber: 4.1 Consensus size: 21
7844 TTTATAAAAA
* *
7854 GTTAAATCCTTTCGT-GAAAAG
1 GTTAAGTCCTTTCATCG-AAAG
* *
7875 GTTAAGCCCTTTCATCGAAAT
1 GTTAAGTCCTTTCATCGAAAG
* *
7896 GATAAGTCCTTTGATCGAAAG
1 GTTAAGTCCTTTCATCGAAAG
* *
7917 GTTAAGTCATTTCATCAAAAG
1 GTTAAGTCCTTTCATCGAAAG
7938 GTT
1 GTT
7941 TTAACCCATC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (21 bp):
GTTAAGTCCTTTCATCGAAAG
Found at i:8451 original size:2 final size:2
Alignment explanation
Indices: 8444--8476 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8434 AAAAGAGTTT
8444 TA 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 TA T
8477 GCACACACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11219 original size:2 final size:2
Alignment explanation
Indices: 11212--11245 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11202 TGATATAAAT
11212 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11246 AAAGAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16558 original size:230 final size:222
Alignment explanation
Indices: 16273--16698 Score: 637
Period size: 230 Copynumber: 1.9 Consensus size: 222
16263 GTTTCACCCG
*
16273 ACCCGACCCGAATATATGAATTAGAAACCCGACCCGAAATAATAAAGAAATTATTTTTATTCAAT
1 ACCCGACCCGAATATATGAATTAGAAACCCAACCCGAAATAATAAAGAAATTATTTTTATTCAAT
* * *
16338 AAAAACAGTGACTTAATT-AAATATA-TATATAT-AGGGGTATTATTGTAATT-TTTCATAAATA
66 AAAAACAGTGACTTAATTGAAAAAAATTATATATAAAGGGTATTATTGTAATTATTTC-TAAATA
* *
16399 TATAAGGTAAAATTATATATATTTTTTGGATCGGGTCGGGTATTTTTTACCCTAAATCCGAACCC
130 TATAAGGTAAAATTATATATA---TTT---TCGGGTCGGGTATTTTTCACCCTAAACCCGAACCC
16464 GACCCGATCCGAATATTACACCTAAAAAAAATCA
189 GACCCGATCCGAATATTACACCTAAAAAAAATCA
16498 ACCCGACCCGAATATATGAATTAGAAATCCGACCCAACCCGAAATAATAATA-AAATTATTTTTA
1 ACCCGACCCGAATATATGAATTAG-AA----ACCCAACCCGAAATAATAA-AGAAATTATTTTTA
16562 TTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATGAAAGGGTATTATTGTAATTATTTC
60 TTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATAT-AAAGGGTATTATTGTAATTATTTC
16627 TAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCC
124 TAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCC
16692 GACCCGA
189 GACCCGA
16699 ATATTACACT
Statistics
Matches: 184, Mismatches: 6, Indels: 19
0.88 0.03 0.09
Matches are distributed among these distances:
225 24 0.13
226 2 0.01
228 40 0.22
230 54 0.29
231 9 0.05
232 7 0.04
234 44 0.24
235 4 0.02
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (222 bp):
ACCCGACCCGAATATATGAATTAGAAACCCAACCCGAAATAATAAAGAAATTATTTTTATTCAAT
AAAAACAGTGACTTAATTGAAAAAAATTATATATAAAGGGTATTATTGTAATTATTTCTAAATAT
ATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGACCCGA
TCCGAATATTACACCTAAAAAAAATCA
Found at i:27439 original size:55 final size:54
Alignment explanation
Indices: 27335--27701 Score: 505
Period size: 54 Copynumber: 6.8 Consensus size: 54
27325 AAAAAAGTTT
* * ** **
27335 GCTCCCTATTGCTTCAGGGAG--TAGAACTCGAATAATCTTCGACAAACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAA-CATCTTCTTCTTACGGGTTC
* *
27388 GCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
1 GCTCCCTCTTGC-TTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
27443 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAATCTTCTTCTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAAC-ATCTTCTTCTTACGGGTTC
*
27498 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAACTTCTTCTTACGGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
*
27552 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACTGGTTC
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
* *
27606 GCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAACA---TCTTCTTACGGGTTC
1 GCTCCCTCTTGCTTC-AGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
* * *
27657 GCTCACTCTTTC-TCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 GCTCCCTCTTGCTTC-AGGGAGTATAGAACTCGAACATCTTCTTCT
27702 GCTTTACTAC
Statistics
Matches: 289, Mismatches: 17, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
51 49 0.17
53 12 0.04
54 137 0.47
55 80 0.28
56 11 0.04
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (54 bp):
GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACGGGTTC
Found at i:27577 original size:163 final size:160
Alignment explanation
Indices: 27335--27701 Score: 501
Period size: 163 Copynumber: 2.3 Consensus size: 160
27325 AAAAAAGTTT
* * ** *
27335 GCTCCCTATTGCTTCAGGGAG--TAGAACTCGAATAATCTTCGACAAACGGGTTCGCTCCCTCTT
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAA-CTTCTTCTAACGGGTTCGCTCCCTCTT
*
27398 TCTTTCAGGAAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTGCT-TCAGGG
65 GCTTTCAGGAAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTGCTCT-AGGG
27462 AGTATAGAACTCGAACAATCTTCTTCTTACGGGTTC
129 AGTATAGAACTCGAAC-A---TCTTCTTACGGGTTC
*
27498 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAACTTCTTCTTACGGGTTCGCTCCCTCTTG
1 GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAACTTCTTCTAACGGGTTCGCTCCCTCTTG
* * *
27563 C-TTCAGGGAGTATAGAACTCGAACATCTTCTTCTTACTGGTTCGCTCCCTCTTTCTCTAGGGAG
66 CTTTCAGGAAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTGCTCTAGGGAG
*
27627 TATGGAACTCGAACATCTTCTTACGGGTTC
131 TATAGAACTCGAACATCTTCTTACGGGTTC
* * * *
27657 GCTCACTCTTTC-TCTAGGGAGTATGGAACTCGAACATCTTCTTCT
1 GCTCCCTCTTGCTTC-AGGGAGTATAGAACTCGAACAACTTCTTCT
27702 GCTTTACTAC
Statistics
Matches: 185, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
158 2 0.01
159 53 0.29
162 1 0.01
163 91 0.49
164 25 0.14
165 13 0.07
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (160 bp):
GCTCCCTCTTGCTTCAGGGAGTATAGAACTCGAACAACTTCTTCTAACGGGTTCGCTCCCTCTTG
CTTTCAGGAAGTATAGAACTCGAACATCTTCTTCTTACGGGTTCGCTCCCTCTTGCTCTAGGGAG
TATAGAACTCGAACATCTTCTTACGGGTTC
Found at i:28168 original size:36 final size:37
Alignment explanation
Indices: 28105--28184 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
28095 ACACTTCCGA
*
28105 GAAGGCTTAAAAAGGATATGCTTCACTACTCTTTGGT
1 GAAGGCTTAAAAAGGATATGCTTCACTAATCTTTGGT
* * *
28142 GAAGGCTTAAGATGG-TTTGCTTCACTAATCTTTGGT
1 GAAGGCTTAAAAAGGATATGCTTCACTAATCTTTGGT
28178 GAAGGCT
1 GAAGGCT
28185 CGACTTTGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 26 0.67
37 13 0.33
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (37 bp):
GAAGGCTTAAAAAGGATATGCTTCACTAATCTTTGGT
Found at i:29163 original size:125 final size:125
Alignment explanation
Indices: 28958--29185 Score: 303
Period size: 125 Copynumber: 1.8 Consensus size: 125
28948 TGGATCAAGC
* ** * * * * *
28958 CTTCAAAATGCCCCAACATTTCAAGTTGTAAGACTCACTCTCAACGTCCTCTTGGTCTGAATCTT
1 CTTCAAAATGCCCCAAAACCTCAAATTGTAAGACTCACTCTCAACGACCTCTTCGTCCGAATCAT
* ** *
29023 GTCATTTCATCATGATGTGGGTTCAGTCATGCCCCAATATTATCTTTTACTGGTACGAGT
66 GTCATCTCAAAATGATGGGGGTTCAGTCATGCCCCAATATTATCTTTTACTGGTACGAGT
* * * * *
29083 CTTCAAAATGCCCCAAAACCTCAAATTGTAAGGCTTATTCTCAATGACTTCTTCGTCCGAATCAT
1 CTTCAAAATGCCCCAAAACCTCAAATTGTAAGACTCACTCTCAACGACCTCTTCGTCCGAATCAT
29148 GTCATCTCAAAATGATGGGGGTTCAGTCATGCCCCAAT
66 GTCATCTCAAAATGATGGGGGTTCAGTCATGCCCCAAT
29186 GTGGGTATTC
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
125 86 1.00
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (125 bp):
CTTCAAAATGCCCCAAAACCTCAAATTGTAAGACTCACTCTCAACGACCTCTTCGTCCGAATCAT
GTCATCTCAAAATGATGGGGGTTCAGTCATGCCCCAATATTATCTTTTACTGGTACGAGT
Found at i:29396 original size:3 final size:3
Alignment explanation
Indices: 29388--29455 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
29378 TCATTTAAAT
** * *
29388 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
29436 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
29456 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30770 original size:16 final size:16
Alignment explanation
Indices: 30749--30781 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30739 TTGCTTTTAA
30749 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
30765 ATTTATTTATAATATT
1 ATTTATTTATAATATT
30781 A
1 A
30782 ATTTGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:30980 original size:31 final size:33
Alignment explanation
Indices: 30945--31007 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
30935 ATAATTAAAC
30945 ATTATAAAAATTAT-A-ATTTAGTTTTATTTAA
1 ATTATAAAAATTATAATATTTAGTTTTATTTAA
* * *
30976 ATTATTAAAATTTTAATATTTATTTTTATTTA
1 ATTATAAAAATTATAATATTTAGTTTTATTTA
31008 TTAATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 12 0.44
32 1 0.04
33 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTATAAAAATTATAATATTTAGTTTTATTTAA
Found at i:31057 original size:132 final size:128
Alignment explanation
Indices: 30921--31204 Score: 297
Period size: 128 Copynumber: 2.2 Consensus size: 128
30911 GGATGTCCTA
* * ** **
30921 TTCTGGTATTTTAAATAATTAAACAT-TATA-AAAATTATAATTTAGTTTTATTTAAATTATTAA
1 TTCTGATATTTTAAATAA-TAAACATCT-TACAAAATTAAAATAAAGTTTTA-TTAAATTAAGAA
* * *
30984 AAT-TTTAATATTTATTTTTATTTATTAATATCAAAGAAAAAAGCTGTCTTAAGGTACCTAGAAG
63 AATGTTT--TAGTCA--TTTATTTATTAATATCAAAGAAAAAAGCTGTCTTAAGGCACCTAGAAG
31048 CCATT
124 CCATT
* * * * **
31053 TTCTGATATTTTTAAA-AATAAATATCTTACTATATTAAAATAAATTTTTATTATCTTAAGAAAA
1 TTCTGATA-TTTTAAATAATAAACATCTTACAAAATTAAAATAAAGTTTTATTAAATTAAGAAAA
* *
31117 TGTTTTAGTCATTTATTTATTAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATT
65 TGTTTTAGTCATTTATTTATTAATATCAAAGAAAAAAGCTGTCTTAAGGCACCTAGAAGCCATT
31181 TTCTGATATTTCTAAATAAATAAA
1 TTCTGATATTT-TAAAT-AATAAA
31205 TATTTTTATA
Statistics
Matches: 128, Mismatches: 17, Indels: 16
0.80 0.11 0.10
Matches are distributed among these distances:
127 3 0.02
128 62 0.48
130 10 0.08
131 19 0.15
132 27 0.21
133 7 0.05
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (128 bp):
TTCTGATATTTTAAATAATAAACATCTTACAAAATTAAAATAAAGTTTTATTAAATTAAGAAAAT
GTTTTAGTCATTTATTTATTAATATCAAAGAAAAAAGCTGTCTTAAGGCACCTAGAAGCCATT
Found at i:31227 original size:26 final size:28
Alignment explanation
Indices: 31197--31263 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
31187 TATTTCTAAA
31197 TAAATAAATATTTT-TATAAATA-TAT-T
1 TAAATAAATATTTTCT-TAAATATTATAT
31223 TAAATTAATATATTTTCTTAAATATTATAT
1 TAAA-TAA-ATATTTTCTTAAATATTATAT
31253 T-AATAAA-ATTT
1 TAAATAAATATTT
31264 GAAATAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 8 0.22
27 4 0.11
28 16 0.44
29 6 0.17
30 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAATAAATATTTTCTTAAATATTATAT
Found at i:31717 original size:20 final size:21
Alignment explanation
Indices: 31694--31745 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
31684 AGAAATTAAA
31694 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
31714 AATTCTTTTCTTTCAAATTTTT
1 AATTCATTTATTT-AAATTTTT
31736 -ATT-ATTTATT
1 AATTCATTTATT
31746 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 16 0.62
21 3 0.12
22 7 0.27
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:38565 original size:114 final size:114
Alignment explanation
Indices: 38365--38698 Score: 560
Period size: 114 Copynumber: 2.9 Consensus size: 114
38355 CACATTCTCG
* *
38365 TAGTAGAAATAAGGAGCCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
*
38430 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTTA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
38479 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
38544 GGTATGAACCCCAAAACCAATCATTAGATTTAAAAGATGAATTTGTTCA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
* *
38593 TAGTAGAAATAAGAAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * * * *
38658 GGTAGGAATCCCATAACCAATCATTGAAATTGAAAGATGAA
66 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAA
38699 CTGCATGATC
Statistics
Matches: 206, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 206 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGTTCA
Found at i:41299 original size:22 final size:22
Alignment explanation
Indices: 41268--41388 Score: 179
Period size: 22 Copynumber: 5.5 Consensus size: 22
41258 ATCTACACTC
*
41268 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
*
41290 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
41312 TTCAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
*
41334 TTCAAAGTTGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
41356 TTTAAAGATGGTAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
41378 TTCAAAAATGA
1 TTCAAAGATGA
41389 AAGCTTTATT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 87 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:41371 original size:66 final size:66
Alignment explanation
Indices: 41265--41388 Score: 212
Period size: 66 Copynumber: 1.9 Consensus size: 66
41255 TACATCTACA
*
41265 CTCTTCAAAGATGATAGATTCCCTTTTTAAAGATGATAGATTCTCTTTTCAAAGATGATAGATTC
1 CTCTTCAAAGATGATAGATTCCCTTTTTAAAGATGATAGATTCTCTTTTCAAAAATGATAGATTC
41330 T
66 T
* * *
41331 CTCTTCAAAGTTGATAGATTCTCTTTTTAAAGATGGTAGATTCTCTTTTCAAAAATGA
1 CTCTTCAAAGATGATAGATTCCCTTTTTAAAGATGATAGATTCTCTTTTCAAAAATGA
41389 AAGCTTTATT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (66 bp):
CTCTTCAAAGATGATAGATTCCCTTTTTAAAGATGATAGATTCTCTTTTCAAAAATGATAGATTC
T
Found at i:42211 original size:166 final size:168
Alignment explanation
Indices: 41906--42230 Score: 548
Period size: 166 Copynumber: 1.9 Consensus size: 168
41896 ATGAGCATTA
41906 TCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAACATAATGAGAAAACGAT
1 TCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAAAACATAATGAGAAAACGAT
* ** * *
41971 TTTCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTTCT
65 TTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAACTAAGAAAACGATTTCCT
42036 TAG-TTTTTTTACTTAGTAAACTATTTCCAACAACCTTG
130 TAGTTTTTTTTACTTAGTAAACTATTTCCAACAACCTTG
**
42074 TCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAATGAGAAAACGATT
1 TCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACATAATGAGAAAACGATT
42137 TCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAACTAAGAAAACGATTTCCT
66 TCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAACTAAGAAAACGATTTCCT
42202 TAGTTTTTTTTACTTAGTAAACTATTTCC
130 TAGTTTTTTTTACTTAGTAAACTATTTCC
42231 CACATCTGTA
Statistics
Matches: 148, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
165 41 0.28
166 42 0.28
167 25 0.17
168 40 0.27
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (168 bp):
TCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACATAATGAGAAAACGATT
TCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAACTAAGAAAACGATTTCCTT
AGTTTTTTTTACTTAGTAAACTATTTCCAACAACCTTG
Found at i:42332 original size:76 final size:76
Alignment explanation
Indices: 42233--42836 Score: 1169
Period size: 76 Copynumber: 8.0 Consensus size: 76
42223 CTATTTCCCA
*
42233 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42298 AGCCTTCGGGT
66 AGCCTTCGGGT
42309 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42374 AGCCTTCGGGT
66 AGCCTTCGGGT
42385 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42449 A-CCTTCGGGT
66 AGCCTTCGGGT
42459 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42524 AGCCTTCGGGT
66 AGCCTTCGGGT
42535 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42600 A-CCTTCGGGT
66 AGCCTTCGGGT
42610 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42675 AGCCTTCGGGT
66 AGCCTTCGGGT
42686 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42751 AGCCTTCGGGT
66 AGCCTTCGGGT
*
42762 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42827 AGCCTTCGGG
66 AGCCTTCGGG
42837 AGCTTTTTGA
Statistics
Matches: 523, Mismatches: 2, Indels: 6
0.98 0.00 0.01
Matches are distributed among these distances:
74 58 0.11
75 107 0.20
76 358 0.68
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:42708 original size:151 final size:152
Alignment explanation
Indices: 42233--42836 Score: 1169
Period size: 151 Copynumber: 4.0 Consensus size: 152
42223 CTATTTCCCA
*
42233 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42298 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42363 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
42385 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42449 A-CCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42513 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
42535 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42600 A-CCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42664 GATGTTTTCAAAGCCTTCGGGT
131 GATGTTTTCAAAGCCTTCGGGT
42686 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42751 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTT
66 AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
42816 GATGTTTTCAAAGCCTTCGGG
131 GATGTTTTCAAAGCCTTCGGG
42837 AGCTTTTTGA
Statistics
Matches: 448, Mismatches: 2, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
150 134 0.30
151 183 0.41
152 131 0.29
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (152 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGT
Found at i:42832 original size:29 final size:29
Alignment explanation
Indices: 42796--42894 Score: 180
Period size: 29 Copynumber: 3.4 Consensus size: 29
42786 ATGTTTCCAA
*
42796 AAAGCCTTCGGGAGCTTCTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
42825 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
42854 AAAGCCTTCGAGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
42883 AAAGCCTTCGGG
1 AAAGCCTTCGGG
42895 GCATCTGTAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:42960 original size:134 final size:134
Alignment explanation
Indices: 42720--42970 Score: 475
Period size: 134 Copynumber: 1.9 Consensus size: 134
42710 ATGTTTCCAA
* *
42720 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
42785 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
42850 TTTC
131 TTTC
42854 AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
*
42919 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGG
42971 TCATCTGTAA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 114 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (134 bp):
AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
TTTC
Found at i:42980 original size:76 final size:76
Alignment explanation
Indices: 42854--43046 Score: 359
Period size: 76 Copynumber: 2.5 Consensus size: 76
42844 TGATGTTTTC
*
42854 AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
42919 GATGTTTCCAA
66 GATGTTTCCAA
*
42930 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
42995 GATGTTTCCAA
66 GATGTTTCCAA
*
43006 AAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGG
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
43047 AGCTTTTTGA
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 114 1.00
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
GATGTTTCCAA
Found at i:43006 original size:210 final size:210
Alignment explanation
Indices: 42644--43180 Score: 1047
Period size: 210 Copynumber: 2.6 Consensus size: 210
42634 ATGTTTCCAA
42644 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
42709 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
42774 CTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAG
131 CTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAG
42839 CTTTTTGATGTTTTC
196 CTTTTTGATGTTTTC
* *
42854 AAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCCTTCGGGGCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
42919 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
42984 CTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAG
131 CTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAG
43049 CTTTTTGATGTTTTC
196 CTTTTTGATGTTTTC
*
43064 AAAGCCTTCGGGAGCTTTTGGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
43129 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
43181 AGCTTTTTGA
Statistics
Matches: 322, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
210 322 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (210 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTC
CTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAG
CTTTTTGATGTTTTC
Found at i:43042 original size:29 final size:28
Alignment explanation
Indices: 43006--43104 Score: 171
Period size: 29 Copynumber: 3.4 Consensus size: 28
42996 ATGTTTCCAA
43006 AAAGCCTTCGGGAGCTTCTTGATGTTTTC
1 AAAGCCTTCGGGAGCTT-TTGATGTTTTC
43035 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGC-TTTTGATGTTTTC
43064 AAAGCCTTCGGGAGCTTTTGGATGTTTTC
1 AAAGCCTTCGGGAGCTTTT-GATGTTTTC
43093 AAAGCCTTCGGG
1 AAAGCCTTCGGG
43105 TCATCTGTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
28 4 0.06
29 62 0.91
30 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.36
Consensus pattern (28 bp):
AAAGCCTTCGGGAGCTTTTGATGTTTTC
Found at i:43068 original size:134 final size:134
Alignment explanation
Indices: 42930--43203 Score: 530
Period size: 134 Copynumber: 2.0 Consensus size: 134
42920 ATGTTTCCAA
*
42930 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTGGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
42995 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
43060 TTTC
131 TTTC
43064 AAAGCCTTCGGGAGCTTTTGGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTGGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
*
43129 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
43194 TTTC
131 TTTC
43198 AAAGCC
1 AAAGCC
43204 CTTCAGTGCA
Statistics
Matches: 138, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 138 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (134 bp):
AAAGCCTTCGGGAGCTTTTGGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTGCAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTCTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGT
TTTC
Found at i:43166 original size:31 final size:31
Alignment explanation
Indices: 43128--43200 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
43118 CTGCAGTGCA
*
43128 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
43159 TGATGTTTTC--AAAGCCTTCGGGAGCTTTT
1 TGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
43188 TGATGTTTTCAAA
1 TGATGTTTTCAAA
43201 GCCCTTCAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 29 0.74
31 10 0.26
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (31 bp):
TGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:43176 original size:29 final size:29
Alignment explanation
Indices: 43140--43203 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
43130 ATGTTTCCAA
43140 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
43169 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
43198 AAAGCC
1 AAAGCC
43204 CTTCAGTGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:43360 original size:3 final size:3
Alignment explanation
Indices: 43352--43413 Score: 79
Period size: 3 Copynumber: 20.0 Consensus size: 3
43342 TCATTTAAAT
** *
43352 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43400 TATA TTA TTTA TTA
1 T-TA TTA -TTA TTA
43414 AATATTACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
3 45 0.88
4 6 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:44722 original size:16 final size:16
Alignment explanation
Indices: 44701--44733 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44691 TTACTTTTAA
44701 ATTTATTT-TAAATATT
1 ATTTATTTAT-AATATT
44717 ATTTATTTATAATATT
1 ATTTATTTATAATATT
44733 A
1 A
44734 ATTTGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTATTTATAATATT
Found at i:44793 original size:2 final size:2
Alignment explanation
Indices: 44786--44815 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
44776 ACATAAATTA
44786 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
44816 TAAATAATAA
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:44938 original size:41 final size:41
Alignment explanation
Indices: 44893--44978 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
44883 ATTCTGGTAT
*
44893 TTTAAATAATTAAACATTA-TAAAA-ATTATAATTTAGTTTTA
1 TTTAAATAATT-AA-ATTATTAAAATATTAAAATTTAGTTTTA
* * *
44934 TTTAAATTATTAAATTATTAAAATTTTAAAATTTATTTTTA
1 TTTAAATAATTAAATTATTAAAATATTAAAATTTAGTTTTA
44975 TTTA
1 TTTA
44979 TTAATATCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 4 0.10
40 7 0.18
41 28 0.72
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (41 bp):
TTTAAATAATTAAATTATTAAAATATTAAAATTTAGTTTTA
Found at i:44966 original size:17 final size:17
Alignment explanation
Indices: 44931--44963 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44921 TAATTTAGTT
*
44931 TTATTTAAATTATTAAA
1 TTATTAAAATTATTAAA
44948 TTATTAAAATT-TTAAA
1 TTATTAAAATTATTAAA
44964 ATTTATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTATTAAAATTATTAAA
Found at i:45197 original size:26 final size:28
Alignment explanation
Indices: 45168--45234 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
45158 TATTTCTAAA
45168 TAAATAAATATTTT-TATAAATA-TAT-T
1 TAAATAAATATTTTCT-TAAATATTATAT
45194 TAAATTAATATATTTTCTTAAATATTATAT
1 TAAA-TAA-ATATTTTCTTAAATATTATAT
45224 T-AATAAA-ATTT
1 TAAATAAATATTT
45235 GAAATAACAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
26 8 0.22
27 4 0.11
28 16 0.44
29 6 0.17
30 2 0.06
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAATAAATATTTTCTTAAATATTATAT
Found at i:49976 original size:56 final size:57
Alignment explanation
Indices: 49870--49978 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 57
49860 AAATCCTAAC
* * * * *
49870 CGCATGATATCTAATTCGCATGCTTGTTCGAGAAAAATAAACCTAGCCGCATGTATG
1 CGCATGATATCTAATTCGCATACATGCTCGAAAAAAATAAACCTAACCGCATGTATG
* *
49927 CGCATGATTTCTAGTTCGCATACATGCTC-AAAAAAATAAACCTAACCGCATG
1 CGCATGATATCTAATTCGCATACATGCTCGAAAAAAATAAACCTAACCGCATG
49979 ATTTCTAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
56 21 0.47
57 24 0.53
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.27
Consensus pattern (57 bp):
CGCATGATATCTAATTCGCATACATGCTCGAAAAAAATAAACCTAACCGCATGTATG
Found at i:51386 original size:16 final size:16
Alignment explanation
Indices: 51365--51398 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
51355 GCCTGATTTT
51365 TGGGACCGAAATGGAA
1 TGGGACCGAAATGGAA
51381 TGGGACCGAAATGGAA
1 TGGGACCGAAATGGAA
51397 TG
1 TG
51399 CGCGCAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.38, T:0.15
Consensus pattern (16 bp):
TGGGACCGAAATGGAA
Found at i:60117 original size:18 final size:18
Alignment explanation
Indices: 60094--60130 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
60084 TATATGTTCG
60094 TTTATGTTCGTTCATTTA
1 TTTATGTTCGTTCATTTA
60112 TTTATGTTCGTTCATTTA
1 TTTATGTTCGTTCATTTA
60130 T
1 T
60131 GTTCGAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTATGTTCGTTCATTTA
Found at i:68275 original size:18 final size:18
Alignment explanation
Indices: 68252--68286 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
68242 CTCCCAATAT
68252 TAGTGAGT-TTCTTGTAAG
1 TAGTGAGTGTT-TTGTAAG
68270 TAGTGAGTGTTTTGTAA
1 TAGTGAGTGTTTTGTAA
68287 ATACCTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.03, G:0.29, T:0.46
Consensus pattern (18 bp):
TAGTGAGTGTTTTGTAAG
Found at i:73337 original size:75 final size:76
Alignment explanation
Indices: 73179--73342 Score: 188
Period size: 75 Copynumber: 2.2 Consensus size: 76
73169 ATTACTACCC
* * *
73179 TAGTATCGATACTTCCATACTATGGTACCGATACCCCCCTTCGGGTATCGATACCAAAAATAGGT
1 TAGTATCGATACTACCATACTAGGGTACCGATA-CCCCCTTCGGGTATCGATACCAAAAATAGAT
*
73244 TCGGTGTTGCCA
65 TCGATGTTGCCA
** * * *
73256 GGGTATCGATACTACCCTACTAGGGTATCGATA-CCCCTATC-GGTATCGATACCAAAATTAGAT
1 TAGTATCGATACTACCATACTAGGGTACCGATACCCCCT-TCGGGTATCGATACCAAAAATAGAT
** *
73319 TCGATGTTTTCT
65 TCGATGTTGCCA
73331 TAGTATCGATAC
1 TAGTATCGATAC
73343 CTCTTATCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
75 43 0.60
76 2 0.03
77 27 0.38
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (76 bp):
TAGTATCGATACTACCATACTAGGGTACCGATACCCCCTTCGGGTATCGATACCAAAAATAGATT
CGATGTTGCCA
Found at i:74139 original size:21 final size:21
Alignment explanation
Indices: 74115--74158 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
74105 GTTTGATGTT
74115 TTCTCT-TTGATTCTCTCTTGA
1 TTCTCTCTTGATTCT-TCTTGA
*
74136 TTCTCTCTTGATTCTTGTTGA
1 TTCTCTCTTGATTCTTCTTGA
74157 TT
1 TT
74159 GTTGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.09, C:0.20, G:0.11, T:0.59
Consensus pattern (21 bp):
TTCTCTCTTGATTCTTCTTGA
Found at i:74158 original size:10 final size:11
Alignment explanation
Indices: 74115--74150 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
74105 GTTTGATGTT
74115 TTCTCT-TTGA
1 TTCTCTCTTGA
74125 TTCTCTCTTGA
1 TTCTCTCTTGA
74136 TTCTCTCTTGA
1 TTCTCTCTTGA
74147 TTCT
1 TTCT
74151 TGTTGATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:74442 original size:64 final size:63
Alignment explanation
Indices: 74390--74545 Score: 235
Period size: 64 Copynumber: 2.5 Consensus size: 63
74380 GTGCACTAAG
*
74390 AGTGCATCGATGCATAAAATACATTCGATGTTTT-A-AACAAGCCTGAATGCATCGATGCATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAATGCATCGATGCATGGT
* * *
74453 CTGTGCATCGGTGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
1 -AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAATGCATCGATGCATGGT
74517 AGTGCATCGATGCATAAAATGCATTCGAT
1 AGTGCATCGATGCATAAAATGCATTCGAT
74546 ATGGTGAGTG
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
63 27 0.32
64 52 0.62
65 3 0.04
66 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAATGCATCGATGCATGGT
Found at i:77214 original size:21 final size:21
Alignment explanation
Indices: 77196--77259 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 21
77186 TCGGTGCATC
77196 TTCATGATGTATCGATGCACA
1 TTCATGATGTATCGATGCACA
* *
77217 TTCAAATGGATGCATCGATGCACT
1 TTC--AT-GATGTATCGATGCACA
77241 TTCAT-AGTGTATCGATGCA
1 TTCATGA-TGTATCGATGCA
77260 TTATGCACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.03
21 14 0.39
22 2 0.06
23 2 0.06
24 17 0.47
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (21 bp):
TTCATGATGTATCGATGCACA
Found at i:77252 original size:45 final size:44
Alignment explanation
Indices: 77157--77259 Score: 122
Period size: 45 Copynumber: 2.3 Consensus size: 44
77147 AAACCCGACG
* * *
77157 GATGCATCGATGCACATTCAAGGCGTGCATCGGTGCATCTTCAT
1 GATGTATCGATGCACATTCAAGGCATGCATCGATGCATCTTCAT
77201 GATGTATCGATGCACATTCAAATGG-ATGCATCGATGCA-CTTTCAT
1 GATGTATCGATGCACATTC-AA-GGCATGCATCGATGCATC-TTCAT
77246 -AGTGTATCGATGCA
1 GA-TGTATCGATGCA
77260 TTATGCACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
44 20 0.38
45 30 0.58
46 2 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (44 bp):
GATGTATCGATGCACATTCAAGGCATGCATCGATGCATCTTCAT
Found at i:83202 original size:20 final size:20
Alignment explanation
Indices: 83177--83214 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
83167 TTCGATATAG
83177 TGAGTGCATCAATGCATCAA
1 TGAGTGCATCAATGCATCAA
*
83197 TGAGTGCATCGATGCATC
1 TGAGTGCATCAATGCATC
83215 CTTTCTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (20 bp):
TGAGTGCATCAATGCATCAA
Found at i:89695 original size:2 final size:2
Alignment explanation
Indices: 89690--89715 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
89680 TCATTAACTG
89690 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
89716 TTGAAAAAAA
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:90022 original size:20 final size:20
Alignment explanation
Indices: 89997--90041 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
89987 GTCGTCCAAT
*
89997 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
90017 TTTTTAAACCCCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
90037 TTTTT
1 TTTTT
90042 TTCCGGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:91645 original size:30 final size:30
Alignment explanation
Indices: 91568--91647 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
91558 CGGATTTTTG
* * *
91568 AAAAAATGACCGAAAACATTATTAGGCGTT
1 AAAAAATGACCGAAAATATTATCAGGCGCT
* * * *
91598 AAAAAATGACTGGAAATATTATCATGTGCT
1 AAAAAATGACCGAAAATATTATCAGGCGCT
91628 AAAAAATGACCGAAAATATT
1 AAAAAATGACCGAAAATATT
91648 TAAAAATGAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (30 bp):
AAAAAATGACCGAAAATATTATCAGGCGCT
Found at i:91747 original size:11 final size:11
Alignment explanation
Indices: 91733--91766 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
91723 AATCGATAAC
*
91733 ATCTTATTTTA
1 ATCTTATATTA
91744 ATCTTATATTA
1 ATCTTATATTA
*
91755 ACCTTATATTA
1 ATCTTATATTA
91766 A
1 A
91767 GGTGTCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (11 bp):
ATCTTATATTA
Found at i:92104 original size:30 final size:31
Alignment explanation
Indices: 92050--92110 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
92040 TTTAATAATA
*
92050 ATTAGATAGTTTATATATATTATAA-ATTTT
1 ATTAGATAGTTTATATATAATATAATATTTT
*
92080 ATTAGATAGTTTAT-TTTAAATATAATATTTT
1 ATTAGATAGTTTATATAT-AATATAATATTTT
92111 TTTAATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 2 0.07
30 20 0.74
31 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (31 bp):
ATTAGATAGTTTATATATAATATAATATTTT
Found at i:92744 original size:28 final size:26
Alignment explanation
Indices: 92672--92768 Score: 158
Period size: 26 Copynumber: 3.7 Consensus size: 26
92662 AGTTAATTTC
* *
92672 TGTTAACTAACTTGTTTTTTAACAAT
1 TGTTAAGTAACTTGTTTTTTAATAAT
92698 TGTTAAGTAACTTGTTTTTTAATAAT
1 TGTTAAGTAACTTGTTTTTTAATAAT
92724 TGTTAAGTAACTTGTTTTTTTTAATAAT
1 TGTTAAGTAACTTG--TTTTTTAATAAT
92752 TGTTAAGTAACTTGTTT
1 TGTTAAGTAACTTGTTT
92769 ACAACAGACT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
26 41 0.61
28 26 0.39
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (26 bp):
TGTTAAGTAACTTGTTTTTTAATAAT
Found at i:93143 original size:2 final size:2
Alignment explanation
Indices: 93136--93170 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
93126 TTCTTCCCGC
93136 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
93171 GGGGGGGGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Done.