Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003336.1 Hibiscus syriacus cultivar Beakdansim tig00007022_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: 68100
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:967 original size:29 final size:30
Alignment explanation
Indices: 910--971 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
900 AAATTTTGTC
** *
910 TAGTGACTAAAATGTAAGTTTTTGAAAGTT
1 TAGTGACTAAAATGTAAGACTTTAAAAGTT
*
940 TAGTGACTAAATTGTAA-ACTTTAAAAGTT
1 TAGTGACTAAAATGTAAGACTTTAAAAGTT
969 TAG
1 TAG
972 GGACCATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (30 bp):
TAGTGACTAAAATGTAAGACTTTAAAAGTT
Found at i:14247 original size:24 final size:25
Alignment explanation
Indices: 14215--14270 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
14205 TATTTTTATA
*
14215 TATTTTTTGTTGTTTT-ACTATTTT
1 TATTATTTGTTGTTTTAACTATTTT
*
14239 TATTATTTGTTGTTTTAATTATTTT
1 TATTATTTGTTGTTTTAACTATTTT
*
14264 AATTATT
1 TATTATT
14271 ATTAAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (25 bp):
TATTATTTGTTGTTTTAACTATTTT
Found at i:14268 original size:25 final size:24
Alignment explanation
Indices: 14220--14270 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
14210 TTATATATTT
*
14220 TTTGTTGTTTTACTATTTTTATTA
1 TTTGTTGTTTTACTATTTTAATTA
*
14244 TTTGTTGTTTTAATTATTTTAATTA
1 TTTGTTGTTTT-ACTATTTTAATTA
14269 TT
1 TT
14271 ATTAAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.71
Consensus pattern (24 bp):
TTTGTTGTTTTACTATTTTAATTA
Found at i:25078 original size:22 final size:21
Alignment explanation
Indices: 25040--25080 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
25030 TGCAAAAATT
25040 AAAATAACAGTAGCTAAATCA
1 AAAATAACAGTAGCTAAATCA
25061 AAAACTAACAG-AGACTAAAT
1 AAAA-TAACAGTAG-CTAAAT
25081 TGAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATAACAGTAGCTAAATCA
Found at i:26272 original size:75 final size:75
Alignment explanation
Indices: 26114--26322 Score: 242
Period size: 75 Copynumber: 2.8 Consensus size: 75
26104 CAAAGCCAAA
* * * **
26114 AATTCCAGATTGCTC-AGAGGGAACCGATTCCCCCCCATCGGAGGAACCGATTCCCCCCTGAATG
1 AATTCCAGAATGCTCGA-AGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACA
26178 GTTTGGCTCCGAG
63 GTTTGGCTCCGAG
*
26191 ATTTCCAGAATGCTCGAAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGAAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* * *
26256 TTGTTCTGAG
66 TGGCTCCGAG
* * * * *
26266 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCT
1 AATTCCAGAATGCTCGAAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCT
26323 TGTACAACGG
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
75 83 0.72
76 6 0.05
77 25 0.22
78 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGAAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:27347 original size:14 final size:13
Alignment explanation
Indices: 27312--27356 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
27302 TAAAATAATA
27312 ATAATAATTAAAAT
1 ATAA-AATTAAAAT
**
27326 ATTGAATTAAACAT
1 ATAAAATTAAA-AT
27340 ATAAAATTAAAAT
1 ATAAAATTAAAAT
27353 ATAA
1 ATAA
27357 CTAAACAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 13 0.50
14 13 0.50
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (13 bp):
ATAAAATTAAAAT
Found at i:27361 original size:25 final size:28
Alignment explanation
Indices: 27312--27363 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
27302 TAAAATAATA
*
27312 ATAATAATTAAAATATTGAATTAAACAT
1 ATAATAATTAAAATATTGAACTAAACAT
27340 ATAA-AATTAAAATA-T-AACTAAACA
1 ATAATAATTAAAATATTGAACTAAACA
27364 GTGACTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 8 0.35
26 1 0.04
27 10 0.43
28 4 0.17
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.31
Consensus pattern (28 bp):
ATAATAATTAAAATATTGAACTAAACAT
Found at i:27462 original size:32 final size:30
Alignment explanation
Indices: 27370--27463 Score: 86
Period size: 32 Copynumber: 3.0 Consensus size: 30
27360 AACAGTGACT
27370 AAATAAATAAA--ATTAAAACTATAGTATTAA
1 AAATAAATAAAGTATTAAAA-T-TAGTATTAA
* * *
27400 AATATAAA-AAAGTAATAAATTTTGTAATTAA
1 AA-ATAAATAAAGTATTAAAATTAGT-ATTAA
27431 AAATAAATGAAAGTATTAAAATTAGTGATTAA
1 AAATAAAT-AAAGTATTAAAATTAGT-ATTAA
27463 A
1 A
27464 CTATAACATA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
30 13 0.25
31 13 0.25
32 25 0.49
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.32
Consensus pattern (30 bp):
AAATAAATAAAGTATTAAAATTAGTATTAA
Found at i:27678 original size:2 final size:2
Alignment explanation
Indices: 27671--27726 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
27661 TATTTTCCTA
27671 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
27713 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
27727 TATGCTAGGG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28731 original size:3 final size:3
Alignment explanation
Indices: 28723--28828 Score: 153
Period size: 3 Copynumber: 35.7 Consensus size: 3
28713 TTTGGGCCTG
28723 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
28771 TAA TAA TAA TAG TAA TAA -AA TAA TAA TAG TAA TAAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
* *
28815 TAA AAA TAA AAA TA
1 TAA TAA TAA TAA TA
28829 TAAAACCCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
2 4 0.04
3 85 0.92
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:32788 original size:2 final size:2
Alignment explanation
Indices: 32781--32842 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
32771 TATTCACCCC
32781 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
32823 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
32843 CCGTATATGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38008 original size:41 final size:42
Alignment explanation
Indices: 37951--38031 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
37941 GGTCTTATGG
* * * *
37951 ATGACCCGAAGGATTT-ATCTTCTTGCTCGAGAGACTCACAA
1 ATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTCACAA
37992 ATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTCAC
1 ATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTCAC
38032 TGATAGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
41 15 0.43
42 20 0.57
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTCACAA
Found at i:38526 original size:215 final size:212
Alignment explanation
Indices: 38061--39151 Score: 1669
Period size: 215 Copynumber: 5.1 Consensus size: 212
38051 CTCTCTTGTG
* * * *
38061 AAGGCTTAAAAATTACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
38126 ACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* *
38191 ATCAATTTTCATTTTCAAATTCTTGTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAT
131 -TCATTTTTCATTTTCAAATTCTT-TGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAG
38256 GACTTATCATCTTGCTCTA
194 GACTTATCATCTTGCTCTA
*
38275 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGTCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
38340 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATATTCTTGAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
*
38405 GTCATTTTCTCATTTTCACATTCATTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
131 -TCATTTT-TCATTTTCAAATTC-TTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
38470 GGACTTATCATCTTGCTCTA
193 GGACTTATCATCTTGCTCTA
* * * *
38490 AAGACTTACAGATGACTCGAAAGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
38555 ACTTATAAATCGTGAAATTTTGAAAATCGCATTCTTCATTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* * * * *
38620 ACTATTTTTTATTTTTCAAATTCATGTGAAAACATCCTACCCGAAGATTTTATGGATAGCCCGAA
131 TC-ATTTTTCA-TTTTCAAATTC-TTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
38685 GGACTTATCATCTTGCTCTA
193 GGACTTATCATCTTGCTCTA
*
38705 AAGGCTTACAGATGACCCTAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
38770 ACTTATAAATTATGAAATTTTGAAAATCGCATTCTTCGTTTTCGAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* * * * *
38835 ACTATTTTTTTATTTTCAAATTCGTGTGAAAACATCCTACCCGAAGGTCTTATGGATGGACCGAA
131 TC-A-TTTTTCATTTTCAAATTC-TTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAA
*
38900 GGACTTTTCATCTTGCTCTA
193 GGACTTATCATCTTGCTCTA
* * *
38920 AAGGTTTACAGATGAACCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
38985 ACTTATAAATTGTGAAATTTTGAAAATCGCATTATTCGTTTTCAAAAATTCCATATTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
* * *
39050 ATAATTTTTTTTCATTTCCAAATTCTTGTGAAAATATCCTACCCGAAGGTTTTATGGATGGCCCG
131 -TCA---TTTTTCATTTTCAAATTCTT-TGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCG
39115 AAGGACTTATCATCTTGCTCTA
191 AAGGACTTATCATCTTGCTCTA
39137 AAGGCTTACAGATGA
1 AAGGCTTACAGATGA
39152 TTTGTTTCAC
Statistics
Matches: 807, Mismatches: 61, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
214 131 0.16
215 580 0.72
216 10 0.01
217 86 0.11
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (212 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAAC
TCATTTTTCATTTTCAAATTCTTTGAAAACATCCTACCCGAAGGTTTTATGGATGGCCCGAAGGA
CTTATCATCTTGCTCTA
Found at i:39204 original size:36 final size:37
Alignment explanation
Indices: 39137--39265 Score: 149
Period size: 36 Copynumber: 3.5 Consensus size: 37
39127 TCTTGCTCTA
* * * *
39137 AAGGCTTACAGA-TGATTTGTTTCACTCCTCTTCGGTG
1 AAGGCTTA-AGATTGACTTGCTTCACTACTCTTCAGTG
39174 AAGGCTTAAGATTGA-TTGCTTCACTACTCTTCAGTG
1 AAGGCTTAAGATTGACTTGCTTCACTACTCTTCAGTG
** *
39210 AAGGCTTAAGA-TGGTTTGCTTCATTACTC-TCTAGTG
1 AAGGCTTAAGATTGACTTGCTTCACTACTCTTC-AGTG
39246 AAGGCTTAAGATTGACTTGC
1 AAGGCTTAAGATTGACTTGC
39266 CTCAATCTCA
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
35 4 0.05
36 60 0.74
37 17 0.21
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (37 bp):
AAGGCTTAAGATTGACTTGCTTCACTACTCTTCAGTG
Found at i:44642 original size:14 final size:14
Alignment explanation
Indices: 44623--44676 Score: 63
Period size: 14 Copynumber: 3.6 Consensus size: 14
44613 TTAATAAGAA
44623 AATGCAAAAATAAG
1 AATGCAAAAATAAG
*
44637 AATGCAAATATAGATG
1 AATGCAAAAATA-A-G
44653 CAAATGCAAAAATAAG
1 --AATGCAAAAATAAG
44669 AATGCAAA
1 AATGCAAA
44677 TGTAGATGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 1 0.03
18 11 0.32
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.17
Consensus pattern (14 bp):
AATGCAAAAATAAG
Found at i:44653 original size:12 final size:14
Alignment explanation
Indices: 44623--44690 Score: 59
Period size: 14 Copynumber: 4.7 Consensus size: 14
44613 TTAATAAGAA
*
44623 AATGCAAAAATAAG
1 AATGCAAATATAAG
44637 AATGCAAATATAGATG
1 AATGCAAATATA-A-G
*
44653 CAAATGCAAAAATAAG
1 --AATGCAAATATAAG
*
44669 AATGCAAATGT-AG
1 AATGCAAATATAAG
44682 -ATGCAAATA
1 AATGCAAATA
44691 CAAATGCACG
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
12 8 0.18
13 2 0.04
14 20 0.44
15 1 0.02
16 2 0.04
17 1 0.02
18 11 0.24
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (14 bp):
AATGCAAATATAAG
Found at i:44658 original size:32 final size:32
Alignment explanation
Indices: 44622--44694 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
44612 ATTAATAAGA
44622 AAATGCAAAAATAAGAATGCAAATATAGATGC
1 AAATGCAAAAATAAGAATGCAAATATAGATGC
*
44654 AAATGCAAAAATAAGAATGCAAATGTAGATGC
1 AAATGCAAAAATAAGAATGCAAATATAGATGC
*
44686 AAATACAAA
1 AAATGCAAA
44695 TGCACGAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.18
Consensus pattern (32 bp):
AAATGCAAAAATAAGAATGCAAATATAGATGC
Found at i:49264 original size:32 final size:32
Alignment explanation
Indices: 49223--49294 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
49213 ATTAATAAGA
49223 AAATG-AAAAATAAGAATGCAAATATAGATGC
1 AAATGCAAAAATAAGAATGCAAATATAGATGC
*
49254 AAATGCAAAAATAAGAATGCAAATGTAGATGC
1 AAATGCAAAAATAAGAATGCAAATATAGATGC
*
49286 AAATACAAA
1 AAATGCAAA
49295 TGCACGAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 5 0.13
32 33 0.87
ACGTcount: A:0.58, C:0.08, G:0.15, T:0.18
Consensus pattern (32 bp):
AAATGCAAAAATAAGAATGCAAATATAGATGC
Found at i:49273 original size:20 final size:18
Alignment explanation
Indices: 49237--49278 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
49227 GAAAAATAAG
*
49237 AATGCAAATATAGATGCA
1 AATGCAAAAATAGATGCA
49255 AATGCAAAAATAAGAATGCA
1 AATGCAAAAAT-AG-ATGCA
49275 AATG
1 AATG
49279 TAGATGCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 2 0.10
20 9 0.43
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.19
Consensus pattern (18 bp):
AATGCAAAAATAGATGCA
Found at i:54815 original size:17 final size:18
Alignment explanation
Indices: 54778--54815 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
54768 TTTATTTTTA
*
54778 TTTTATGTTTTTTACTGT
1 TTTTATGTTTTTTACTAT
*
54796 TTTTAT-TTTTTTAGTAT
1 TTTTATGTTTTTTACTAT
54813 TTT
1 TTT
54816 AATTATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTATGTTTTTTACTAT
Found at i:56665 original size:22 final size:22
Alignment explanation
Indices: 56640--56696 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
56630 CCTAAACTTA
*
56640 TTTCAATTCATATATGTATGGT
1 TTTCTATTCATATATGTATGGT
56662 TTTCTATTCATATATGTATGGT
1 TTTCTATTCATATATGTATGGT
56684 TTTCTATTCATAT
1 TTTCTATTCATAT
56697 TATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (22 bp):
TTTCTATTCATATATGTATGGT
Found at i:62214 original size:18 final size:18
Alignment explanation
Indices: 62174--62214 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
62164 TTTTTGCGTT
*
62174 CACCATTTCCTCGACCTC
1 CACCATTTCCTCGACCAC
62192 CACCATTTCCTCGACCAC
1 CACCATTTCCTCGACCAC
*
62210 GACCA
1 CACCA
62215 CGTCCTCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.22, C:0.49, G:0.07, T:0.22
Consensus pattern (18 bp):
CACCATTTCCTCGACCAC
Done.