Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007796.1 Hibiscus syriacus cultivar Beakdansim tig00110101_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: 101895
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:635 original size:31 final size:31
Alignment explanation
Indices: 541--635 Score: 77
Period size: 31 Copynumber: 3.1 Consensus size: 31
531 TTTTGATAAG
* * *
541 TTTAATAATTATTTTATAATAATTT-AAGAA
1 TTTAATAATAATTTTATAATTATTTAAAAAA
* * * * * *
571 TTTCACTGATCATTTTATAA-TAGATCAATAAA
1 TTT-AATAATAATTTTATAATTA-TTTAAAAAA
603 TTTAATAATAATTTTATAATTATTTAAAAAA
1 TTTAATAATAATTTTATAATTATTTAAAAAA
634 TT
1 TT
636 AATTATTGTT
Statistics
Matches: 47, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
30 4 0.09
31 35 0.74
32 8 0.17
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.47
Consensus pattern (31 bp):
TTTAATAATAATTTTATAATTATTTAAAAAA
Found at i:1758 original size:226 final size:225
Alignment explanation
Indices: 1344--1800 Score: 662
Period size: 226 Copynumber: 2.0 Consensus size: 225
1334 AAATAATCGT
* * * *
1344 TAATTACTAGAAACATTATCACCATAATAACATAACATGTAGCGCTTATTTAACGTAATAGCTAG
1 TAATTACTAGAAACATTATCACCATAATAACATAACAAGTAACGCTTATTTAACGTAATAGATAA
** * * *
1409 CGTCTTTTTAAAACTGACGGGGCCTTAGAAATCCAACGATAACAAAATATGTTAATTACTTGATT
66 CACCTTTTTAAAACTGACGGGGCCTTAGAAATCCAACGATAACAAAATAGGTTAACTACTTAATT
* * *
1474 TGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAATTTTAAGCTGATGGAG
131 TGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGATGGAA
1539 CCTTAGAAATCCGACAATAACAAAATAGGC
196 CCTTAGAAATCCGACAATAACAAAATAGGC
* * * *
1569 TAATTGCTGGAAACATTATCAACCATAATAATATAACAAGTAACGCTTATTTAATGTAATAGATA
1 TAATTACTAGAAACATTATC-ACCATAATAACATAACAAGTAACGCTTATTTAACGTAATAGATA
* * * * * *
1634 ATACCTTTTTAAAGCTGATGGGGTCTTAGAAATCCGATGATAACAAAATAGGTTAACTACTTAAT
65 ACACCTTTTTAAAACTGACGGGGCCTTAGAAATCCAACGATAACAAAATAGGTTAACTACTTAAT
* *
1699 TTGTTATTAATATTATCAACATATTAGGTAGCGCCTAAAATATTATCAAAGTTTAAGCTGATGGA
130 TTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGATGGA
* * *
1764 ACCTTAGAAATCTGACGATAACAAAATAGGT
195 ACCTTAGAAATCCGACAATAACAAAATAGGC
1795 TAATTA
1 TAATTA
1801 TTTATTTTGT
Statistics
Matches: 203, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
225 18 0.09
226 185 0.91
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.32
Consensus pattern (225 bp):
TAATTACTAGAAACATTATCACCATAATAACATAACAAGTAACGCTTATTTAACGTAATAGATAA
CACCTTTTTAAAACTGACGGGGCCTTAGAAATCCAACGATAACAAAATAGGTTAACTACTTAATT
TGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATATTACCAAAGTTTAAGCTGATGGAA
CCTTAGAAATCCGACAATAACAAAATAGGC
Found at i:1787 original size:108 final size:108
Alignment explanation
Indices: 1658--1870 Score: 329
Period size: 108 Copynumber: 2.0 Consensus size: 108
1648 CTGATGGGGT
*
1658 CTTAGAAATCCGATGATAACAAAATAGGTTAACTACTTAATTTGTTATTAATATTATCAACATAT
1 CTTAGAAATCCGACGATAACAAAATAGGTTAACTACTTAATTTGTTATTAATATTATCAACATAT
*
1723 TAGGTAGCGCCTAAAATATTA-TCAAAGTTTAAGCTGATGGAAC
66 TAAGTAGCGCCTAAAATATTACT-AAAGTTTAAGCTGATGGAAC
* * * * *
1766 CTTAGAAATCTGACGATAACAAAATAGGTTAATTATTTATTTTGTTGTTAATATTATCAACATAT
1 CTTAGAAATCCGACGATAACAAAATAGGTTAACTACTTAATTTGTTATTAATATTATCAACATAT
* *
1831 TAAGTAGCGCCTAAAATGTTACTAAAGTTTAAGTTGATGG
66 TAAGTAGCGCCTAAAATATTACTAAAGTTTAAGCTGATGG
1871 GGCCTTCAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 94 0.99
109 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (108 bp):
CTTAGAAATCCGACGATAACAAAATAGGTTAACTACTTAATTTGTTATTAATATTATCAACATAT
TAAGTAGCGCCTAAAATATTACTAAAGTTTAAGCTGATGGAAC
Found at i:2608 original size:17 final size:18
Alignment explanation
Indices: 2580--2613 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2570 TTTTGTTAGT
*
2580 ATTTTATTTAATTATTTA
1 ATTTTATTTAATAATTTA
2598 ATTTT-TTTAATAATTT
1 ATTTTATTTAATAATTT
2614 TTTGTGCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATTTAATAATTTA
Found at i:4547 original size:18 final size:18
Alignment explanation
Indices: 4524--4563 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4514 GATGTCTGTG
4524 TTTTTTGAGTTTTCCCTA
1 TTTTTTGAGTTTTCCCTA
*
4542 TTTTTTGAGTTTTCCCTG
1 TTTTTTGAGTTTTCCCTA
4560 TTTT
1 TTTT
4564 CTATTAGCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.07, C:0.15, G:0.12, T:0.65
Consensus pattern (18 bp):
TTTTTTGAGTTTTCCCTA
Found at i:5430 original size:17 final size:17
Alignment explanation
Indices: 5405--5451 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
5395 GAAAGAAAAA
* *
5405 AATATTAATATAATAAT
1 AATAATAATAAAATAAT
5422 AATAATAATAAAATAAAT
1 AATAATAATAAAAT-AAT
5440 AA-AATAGATAAA
1 AATAATA-ATAAA
5452 CAAAGATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 16 0.62
18 10 0.38
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAATAATAAAATAAT
Found at i:5487 original size:22 final size:21
Alignment explanation
Indices: 5436--5504 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
5426 ATAATAAAAT
* * *
5436 AAATAAAATAGATAAACAAAGAT
1 AAATAAAA-ACATAAA-AAATAA
5459 AAAT-AAAACATAGTAAAAATAA
1 AAATAAAAACATA--AAAAATAA
5481 AAATAAAAACATAAAAAATAA
1 AAATAAAAACATAAAAAATAA
5502 AAA
1 AAA
5505 GGGTTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 15 0.38
22 11 0.28
23 14 0.35
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (21 bp):
AAATAAAAACATAAAAAATAA
Found at i:5621 original size:23 final size:23
Alignment explanation
Indices: 5595--5646 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
5585 ATGAAAAAAT
*
5595 AAAAAAACAGTGGGTAAATCAAA
1 AAAAAAACAGTGGCTAAATCAAA
* * *
5618 AAAATAATAGTGGCTAAATTAAA
1 AAAAAAACAGTGGCTAAATCAAA
*
5641 ATAAAA
1 AAAAAA
5647 CAAAACTGAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.19
Consensus pattern (23 bp):
AAAAAAACAGTGGCTAAATCAAA
Found at i:6781 original size:13 final size:14
Alignment explanation
Indices: 6763--6801 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
6753 CCTGGACCAC
6763 AATAAAATAA-AAT
1 AATAAAATAATAAT
6776 AAT-AAATAATAAT
1 AATAAAATAATAAT
6789 AATAAAAATAATA
1 AAT-AAAATAATA
6802 TATTTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
15 8 0.35
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:6797 original size:15 final size:15
Alignment explanation
Indices: 6768--6801 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6758 ACCACAATAA
6768 AATAAAATAATAAAT
1 AATAAAATAATAAAT
6783 AATAATAATAA-AAAT
1 AATAA-AATAATAAAT
6798 AATA
1 AATA
6802 TATTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:6837 original size:2 final size:2
Alignment explanation
Indices: 6826--6858 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6816 TTTTAAAACC
6826 AT AT -T 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
6859 TTAAAAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6881 original size:24 final size:24
Alignment explanation
Indices: 6852--6900 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
6842 TATATATATA
6852 TATATATTTAAAAAAGTTTTCAAAAC
1 TATATA-TT-AAAAAGTTTTCAAAAC
* *
6878 TATATATTATATAGTTTTCAAAA
1 TATATATTAAAAAGTTTTCAAAA
6901 TGTTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 2 0.10
26 6 0.29
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (24 bp):
TATATATTAAAAAGTTTTCAAAAC
Found at i:7070 original size:35 final size:36
Alignment explanation
Indices: 6842--7070 Score: 213
Period size: 37 Copynumber: 6.4 Consensus size: 36
6832 TATATATATA
* * *
6842 TATATATATATATATATTTAAAAAAG-TTTTCAAAACT
1 TATAT-TATATATAT-TTTCAAAATGTTTTTAAAAACT
*
6879 ATATATTATATA-GTTTTCAAAATG-TTTTAAAAATCT
1 -TATATTATATATATTTTCAAAATGTTTTTAAAAA-CT
* **
6915 TATATTATATATATTTTCAAAACGTTTTTTTAAAC-
1 TATATTATATATATTTTCAAAATGTTTTTAAAAACT
* *
6950 CATA-TAT-TA-AGTTTTCAAAATGTTTTTAAAAACCA
1 TATATTATATATA-TTTTCAAAATGTTTTTAAAAA-CT
* * *
6985 TATATTATATAAATTTTTAAAATGTTTTTAAAAAACA
1 TATATTATATATATTTTCAAAATGTTTTT-AAAAACT
*
7022 TATATTATATATATTTTCAAAATGTTTTTTAAAA-T
1 TATATTATATATATTTTCAAAATGTTTTTAAAAACT
*
7057 TATATAATATATAT
1 TATATTATATATAT
7071 ATATATATAT
Statistics
Matches: 162, Mismatches: 19, Indels: 23
0.79 0.09 0.11
Matches are distributed among these distances:
32 1 0.01
33 20 0.12
34 4 0.02
35 46 0.28
36 21 0.13
37 59 0.36
38 11 0.07
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (36 bp):
TATATTATATATATTTTCAAAATGTTTTTAAAAACT
Found at i:7105 original size:50 final size:53
Alignment explanation
Indices: 7035--7132 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 53
7025 ATTATATATA
7035 TTTTCAAAATGTTTTTTAAAATTAT-ATA-ATATATATATATATATATTTTTT
1 TTTTCAAAATGTTTTTTAAAATTATAATATATATATATATATATATATTTTTT
7086 TTTTCAAAATG-TTTTTAAAATTATAATATATATATATATATATATAT
1 TTTTCAAAATGTTTTTTAAAATTATAATATATATATATATATATATAT
7133 ATTCGAAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 13 0.29
51 14 0.31
52 18 0.40
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (53 bp):
TTTTCAAAATGTTTTTTAAAATTATAATATATATATATATATATATATTTTTT
Found at i:7750 original size:85 final size:83
Alignment explanation
Indices: 7633--7885 Score: 256
Period size: 83 Copynumber: 3.0 Consensus size: 83
7623 TACCATGTGG
* * * * * * *
7633 TTGATATGCCCTCGAGCTGAATGAAATCGAACTCGAAAGTTTTTTTATTGATATAACCGTTCTCG
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGA--CAGATAACCCTTCTCG
* *
7698 CCTTTAGTTAT-ACTATAAAC
64 CCTTGAGCTATGA-TATAAAC
* * * * *
7718 TTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTGTTGACAGATAGCCCTTTTCTCC
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGACAGATAACCCTTCTCGCC
* *
7783 TTGAGCTATGATGTAAAT
66 TTGAGCTATGATATAAAC
* * *
7801 TTGATATACCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGTTGGCAAATAACCCTTCTC
1 TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGG--TTTT-TTGACAGATAACCCTTCTC
* *
7866 GCCTTGAGCTACGCTATAAA
63 GCCTTGAGCTATGATATAAA
7886 TAGTTCATTT
Statistics
Matches: 137, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
83 61 0.45
84 1 0.01
85 44 0.32
86 31 0.23
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (83 bp):
TTGATATGCCCTTGAGCTGAATGTAATCGAACTCGAAGGTTTTTTGACAGATAACCCTTCTCGCC
TTGAGCTATGATATAAAC
Found at i:9224 original size:99 final size:99
Alignment explanation
Indices: 9053--9251 Score: 308
Period size: 99 Copynumber: 2.0 Consensus size: 99
9043 CATATCAATG
*
9053 TTATAATCACCTTTATCAGGATACCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCT
1 TTATAATCACCTTTATCAGGATACCTAAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCT
* *
9118 TTAGAGGGACAACTCAAGCTTTATTGTATAGATA
66 CTAGAGGGACAACTCAAGCTTTATTGTATACATA
* * * * * *
9152 TTATAATTACCTTTGTCAGGCTAGCTAAATTTTATCCATAAAGCCGGGGTGTTTAACCAATTGCT
1 TTATAATCACCTTTATCAGGATACCTAAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCT
*
9217 CTAGAGGGACAACTCGAGCTTTATTGTATACATA
66 CTAGAGGGACAACTCAAGCTTTATTGTATACATA
9251 T
1 T
9252 AAAATTATAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
99 90 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.34
Consensus pattern (99 bp):
TTATAATCACCTTTATCAGGATACCTAAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTGCT
CTAGAGGGACAACTCAAGCTTTATTGTATACATA
Found at i:14550 original size:42 final size:42
Alignment explanation
Indices: 14486--14566 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
14476 GATAATAATA
*
14486 ATATATTTTCAAAAATATTTTAAAACCATATATTATATATAT
1 ATATATTTTAAAAAATATTTTAAAACCATATATTATATATAT
* *
14528 ATATTTTTTAAAAAAGT-TTTTAAAACTATATATTATATA
1 ATATATTTTAAAAAA-TATTTTAAAACCATATATTATATA
14567 GTTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (42 bp):
ATATATTTTAAAAAATATTTTAAAACCATATATTATATATAT
Found at i:14647 original size:40 final size:38
Alignment explanation
Indices: 14544--14657 Score: 141
Period size: 40 Copynumber: 3.1 Consensus size: 38
14534 TTTAAAAAAG
*
14544 TTTTT-AAAACTATATATTATAT-AGTTTT-AAAATG-
1 TTTTTAAAAACCATATATTATATAAGTTTTCAAAATGT
*
14578 -TTTTAAAAATCATATATTATATATA-TTTTCAAAATGAT
1 TTTTTAAAAACCATATATTATATA-AGTTTTCAAAATG-T
14616 TTTTTAAAAAACCATATATTATATAAGTTTTCAAAATGT
1 TTTTT-AAAAACCATATATTATATAAGTTTTCAAAATGT
14655 TTT
1 TTT
14658 ATATTATGTA
Statistics
Matches: 68, Mismatches: 3, Indels: 13
0.81 0.04 0.15
Matches are distributed among these distances:
33 4 0.06
34 15 0.22
35 4 0.06
36 7 0.10
39 9 0.13
40 29 0.43
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (38 bp):
TTTTTAAAAACCATATATTATATAAGTTTTCAAAATGT
Found at i:14660 original size:27 final size:27
Alignment explanation
Indices: 14630--14684 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
14620 TAAAAAACCA
14630 TATATTATATAAGTTTTCAAAATGTTT
1 TATATTATATAAGTTTTCAAAATGTTT
* **
14657 TATATTATGTATTTTTTCAAAATGTTT
1 TATATTATATAAGTTTTCAAAATGTTT
14684 T
1 T
14685 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (27 bp):
TATATTATATAAGTTTTCAAAATGTTT
Found at i:14767 original size:37 final size:36
Alignment explanation
Indices: 14699--14779 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
14689 AATTATATAA
**
14699 TATATATATATATATATATTCAAAATGTTTTCAAAC
1 TATATATATATATATATATTCAAAACATTTTCAAAC
* *
14735 TATATA-ATATATATATTTTCGAAAACCATTTTCAAAA
1 TATATATATATATATATATTC-AAAA-CATTTTCAAAC
14772 T-TATATAT
1 TATATATAT
14780 TTTTAAAATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
35 13 0.34
36 14 0.37
37 11 0.29
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (36 bp):
TATATATATATATATATATTCAAAACATTTTCAAAC
Found at i:14837 original size:35 final size:38
Alignment explanation
Indices: 14773--14853 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
14763 TTTTCAAAAT
* *
14773 TATATATTTTTAAAATCTGTTTTCTAAAAATTATA-TA
1 TATATATTTTTAAAATATATTTTCTAAAAATTATACTA
*
14810 TATATTTTTTTAAAA-ATATTTTC-AAAAATTATACTA
1 TATATATTTTTAAAATATATTTTCTAAAAATTATACTA
14846 TATTATAT
1 TA-TATAT
14854 ATATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 10 0.26
36 10 0.26
37 18 0.47
ACGTcount: A:0.42, C:0.05, G:0.01, T:0.52
Consensus pattern (38 bp):
TATATATTTTTAAAATATATTTTCTAAAAATTATACTA
Found at i:14856 original size:2 final size:2
Alignment explanation
Indices: 14839--14916 Score: 140
Period size: 2 Copynumber: 39.0 Consensus size: 2
14829 TTTCAAAAAT
14839 TA TA CTA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14881 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14917 ATAAAAAATA
Statistics
Matches: 74, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.01
2 71 0.96
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:16204 original size:60 final size:60
Alignment explanation
Indices: 16136--16256 Score: 197
Period size: 60 Copynumber: 2.0 Consensus size: 60
16126 ACTACTAAGG
* *
16136 TCAAACCATTAAAATATTTAAACTAACTCTTAAAATATTAAACTTTCAAATTCAAGTTAA
1 TCAAACCATTAAAATATTTAAACTAACCCTTAAAATATTAAACTTTCAAATTAAAGTTAA
* * *
16196 TCAAACCATTAAAATATTTAGACTAACCCTTACAGTATTAAACTTTCAAATTAAAGTTAA
1 TCAAACCATTAAAATATTTAAACTAACCCTTAAAATATTAAACTTTCAAATTAAAGTTAA
16256 T
1 T
16257 TAAAGAAAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (60 bp):
TCAAACCATTAAAATATTTAAACTAACCCTTAAAATATTAAACTTTCAAATTAAAGTTAA
Found at i:16561 original size:3 final size:3
Alignment explanation
Indices: 16545--16604 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
16535 GTCGAAAAAA
* * * *
16545 TAT TAT TAAA TAT TAT TAT TAT TAA TAT TTT TAT TAT TTT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16591 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
16605 ATTAAAACCT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
3 46 0.96
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:16688 original size:33 final size:33
Alignment explanation
Indices: 16618--16706 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
16608 AAAACCTAAT
* ** *
16618 CTAAAAATCCAATACCTATTAAATAATCATACG
1 CTAAAAACCCAATACCTATTAAATAAAAATACA
* * *
16651 CTAAAAACCCACTACCCATTAAATAAAAATTCA
1 CTAAAAACCCAATACCTATTAAATAAAAATACA
* *
16684 CTAAAAACTCATTACCTATTAAA
1 CTAAAAACCCAATACCTATTAAA
16707 CAAAGAAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (33 bp):
CTAAAAACCCAATACCTATTAAATAAAAATACA
Found at i:17904 original size:21 final size:21
Alignment explanation
Indices: 17874--18019 Score: 133
Period size: 21 Copynumber: 7.0 Consensus size: 21
17864 GATTTACATA
* *
17874 TTCGCATTGCGATAGTCTAAG
1 TTCGCGTTGCGATAGTCCAAG
*
17895 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
17918 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
17937 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
17960 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
17979 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
18002 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
18020 AATCGCAACG
Statistics
Matches: 103, Mismatches: 12, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
19 25 0.24
21 51 0.50
23 27 0.26
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:17931 original size:42 final size:42
Alignment explanation
Indices: 17880--18019 Score: 253
Period size: 42 Copynumber: 3.3 Consensus size: 42
17870 CATATTCGCA
*
17880 TTGCGATAGTCTAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
17922 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
17964 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
18006 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
18020 AATCGCAACG
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 94 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:18138 original size:6 final size:6
Alignment explanation
Indices: 18111--18150 Score: 50
Period size: 5 Copynumber: 7.2 Consensus size: 6
18101 TATTACGTGT
*
18111 CCACGA CCACAA CCACGA -CACGA CCACGA -CACGA -CACGA C
1 CCACGA CCACGA CCACGA CCACGA CCACGA CCACGA CCACGA C
18151 ACTACCAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 15 0.50
6 15 0.50
ACGTcount: A:0.38, C:0.47, G:0.15, T:0.00
Consensus pattern (6 bp):
CCACGA
Found at i:18138 original size:11 final size:11
Alignment explanation
Indices: 18111--18157 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
18101 TATTACGTGT
*
18111 CCACGACCACAA
1 CCACGA-CACGA
18123 CCACGACACGA
1 CCACGACACGA
18134 CCACGACACGA
1 CCACGACACGA
*
18145 -CACGACACTA
1 CCACGACACGA
18155 CCA
1 CCA
18158 GACCCGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 9 0.28
11 17 0.53
12 6 0.19
ACGTcount: A:0.38, C:0.47, G:0.13, T:0.02
Consensus pattern (11 bp):
CCACGACACGA
Found at i:18826 original size:21 final size:21
Alignment explanation
Indices: 18765--18826 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
18755 CGTTGCGATT
*
18765 TTGGACTATCGCAAT--GAAT
1 TTGGACTATCGCAATGCGAAC
* * *
18784 TTGGAATAAATCACAACGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
18807 TTGGACTATCGCAATGCGAA
1 TTGGACTATCGCAATGCGAA
18827 TATGTAAATC
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
19 6 0.19
21 17 0.53
23 9 0.28
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.24
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:18867 original size:21 final size:21
Alignment explanation
Indices: 18841--18970 Score: 158
Period size: 21 Copynumber: 6.2 Consensus size: 21
18831 TAAATCGTAA
18841 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAAGTTCGCAT
* *
18862 TGCGATAGT-CGACTATCGCAT
1 TGCGATAGTCCAAGT-TCGCAT
* *
18883 TGCGAT-TTACATA-TTCGCAT
1 TGCGATAGTCCA-AGTTCGCAT
18903 TGCGATAGTCCAAGTTCGCAT
1 TGCGATAGTCCAAGTTCGCAT
*
18924 TGCGATAGTCCAAGTTTGCAT
1 TGCGATAGTCCAAGTTCGCAT
* *
18945 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCCAAGTTCGCAT
18966 TGCGA
1 TGCGA
18971 ATCTGGAAAC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
20 17 0.18
21 76 0.81
22 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (21 bp):
TGCGATAGTCCAAGTTCGCAT
Found at i:18887 original size:62 final size:62
Alignment explanation
Indices: 18810--18933 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 62
18800 CGCGAACTTG
*
18810 GACTATCGCAATGCGAATATGTA-A-A-TCGTAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATGCG-AT-T-TACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
* *
18872 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
1 GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
18934 CAAGTTTGCA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 3 0.05
62 49 0.88
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (62 bp):
GACTATCGCAATGCGATTTACATATTCGCAATGCGATAGTCCAAGTTCGCATTGCGATAGTC
Found at i:22147 original size:2 final size:2
Alignment explanation
Indices: 22140--22178 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22130 TCTAGCTAGA
22140 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
22179 ATTTATATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:28268 original size:14 final size:14
Alignment explanation
Indices: 28249--28278 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
28239 GCAAGTTCAT
28249 GTATGATAAGAAAA
1 GTATGATAAGAAAA
*
28263 GTATGATAAGCAAA
1 GTATGATAAGAAAA
28277 GT
1 GT
28279 TAGAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.23, T:0.23
Consensus pattern (14 bp):
GTATGATAAGAAAA
Found at i:34649 original size:31 final size:31
Alignment explanation
Indices: 34582--34641 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
34572 CAATTTAAGG
*
34582 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
34613 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
34642 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:34733 original size:19 final size:19
Alignment explanation
Indices: 34706--34772 Score: 91
Period size: 19 Copynumber: 3.5 Consensus size: 19
34696 AATGTTTTTA
* *
34706 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
34725 TGAACAGTAAATTACTATT
1 TGAACAGTAAATTACTATT
*
34744 TGAACAGTAAATCAC-AGTT
1 TGAACAGTAAATTACTA-TT
34763 TGAACAGTAA
1 TGAACAGTAA
34773 CCCGAGGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
18 1 0.02
19 43 0.98
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:34905 original size:21 final size:22
Alignment explanation
Indices: 34879--34921 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34869 ATTTGAATAT
*
34879 TATGAA-GGGGTATCGATTCCC
1 TATGAAGGGGGTACCGATTCCC
34900 TATGAAGGGGGTACCGATTCCC
1 TATGAAGGGGGTACCGATTCCC
34922 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (22 bp):
TATGAAGGGGGTACCGATTCCC
Found at i:34983 original size:21 final size:21
Alignment explanation
Indices: 34950--34989 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
34940 TTTTTACAGA
*
34950 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
34972 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
34990 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:39148 original size:21 final size:21
Alignment explanation
Indices: 39124--39165 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
39114 TTGCTGCCAT
*
39124 GGTATCGATACCATGCTACAG
1 GGTACCGATACCATGCTACAG
*
39145 GGTACCGATACCCTGCTACAG
1 GGTACCGATACCATGCTACAG
39166 TACTTCCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (21 bp):
GGTACCGATACCATGCTACAG
Found at i:39748 original size:18 final size:18
Alignment explanation
Indices: 39725--39759 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
39715 ACTGAATATT
39725 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
39743 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
39760 GATAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:44521 original size:24 final size:24
Alignment explanation
Indices: 44481--44561 Score: 67
Period size: 24 Copynumber: 3.4 Consensus size: 24
44471 AATGTACTTT
* *
44481 GAATGTCAAA-GAGCACATCTTTTG
1 GAATTTCAAATGA-CACATCATTTG
* *
44505 GAATTTCAAATGTCACACCATTT-
1 GAATTTCAAATGACACATCATTTG
* *
44528 GAATCTTCAAATGACAAATCCTTTG
1 GAAT-TTCAAATGACACATCATTTG
*
44553 GAACTTCAA
1 GAATTTCAA
44562 TGGACATATT
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
23 4 0.09
24 37 0.82
25 4 0.09
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (24 bp):
GAATTTCAAATGACACATCATTTG
Found at i:47580 original size:15 final size:16
Alignment explanation
Indices: 47549--47581 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47539 TTATAATGTT
*
47549 TATGCATGAATTGAGC
1 TATGAATGAATTGAGC
47565 TATGAATGAA-TGAGC
1 TATGAATGAATTGAGC
47580 TA
1 TA
47582 ACATAACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.36, C:0.09, G:0.24, T:0.30
Consensus pattern (16 bp):
TATGAATGAATTGAGC
Found at i:49604 original size:23 final size:23
Alignment explanation
Indices: 49569--49641 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
49559 ATACTTTACA
*
49569 ATATAAGCACTACTTATTACATT
1 ATATAAGCACTACCTATTACATT
* *
49592 ATATAAACGCTACCTATTACATT
1 ATATAAGCACTACCTATTACATT
*
49615 ATATAAGCACTACCTATTACATC
1 ATATAAGCACTACCTATTACATT
49638 ATAT
1 ATAT
49642 TTTACCTATT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATT
Found at i:49683 original size:21 final size:21
Alignment explanation
Indices: 49658--49700 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
49648 TATTATATTG
49658 AAATG-TCCATACTTTTTATAA
1 AAATGATCCATACTTTTT-TAA
*
49679 AAATGATCGATACTTTTTTAA
1 AAATGATCCATACTTTTTTAA
49700 A
1 A
49701 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.42
Consensus pattern (21 bp):
AAATGATCCATACTTTTTTAA
Found at i:49938 original size:155 final size:158
Alignment explanation
Indices: 49703--50017 Score: 561
Period size: 157 Copynumber: 2.0 Consensus size: 158
49693 TTTTTAAAGT
49703 TATGTAATTATGTTTCAATTTTTTTAATAGTGTTTTCATGTTTTCCACCTACAATATAATTTAAT
1 TATGTAATTATGTTTCAATTTTTTTAATAGTGTTTTCATGTTTTCCACCTACAATATAATTTAAT
49768 AATTTTATTTATAC-AAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTAGAATTTA
66 AATTTTATTTATACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTA
49831 AATTTAACAATA-TAACCAAAGATAATAA
131 AATTTAACAATATTAACC-AAGATAATAA
49859 TATGTAATTTATG-TTCAATTTTTTTAATAGTG-TTT-ATGTTTTCCACCTACAATATTAATTTA
1 TATGTAA-TTATGTTTCAATTTTTTTAATAGTGTTTTCATGTTTTCCACCTACAATA-TAATTTA
49921 ATAATTTTATTTATACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATT
64 ATAATTTTATTTATACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATT
49986 TAAATTTAACAATATTAACCAAGATAATAA
129 TAAATTTAACAATATTAACCAAGATAATAA
50016 TA
1 TA
50018 AATATGTAAT
Statistics
Matches: 154, Mismatches: 0, Indels: 9
0.94 0.00 0.06
Matches are distributed among these distances:
154 19 0.12
155 26 0.17
156 50 0.32
157 54 0.35
158 5 0.03
ACGTcount: A:0.40, C:0.07, G:0.06, T:0.47
Consensus pattern (158 bp):
TATGTAATTATGTTTCAATTTTTTTAATAGTGTTTTCATGTTTTCCACCTACAATATAATTTAAT
AATTTTATTTATACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTA
AATTTAACAATATTAACCAAGATAATAA
Found at i:50233 original size:23 final size:23
Alignment explanation
Indices: 50198--50270 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
50188 GATACTTACA
*
50198 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
50221 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
50244 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
50267 ATAT
1 ATAT
50271 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:50456 original size:632 final size:631
Alignment explanation
Indices: 49230--50492 Score: 2097
Period size: 632 Copynumber: 2.0 Consensus size: 631
49220 TAAAGTTATA
*
49230 TAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCATCTACAATATTAATTTAATAATT
1 TAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
*
49295 TCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTAGAATTTAAATTTAA
66 TCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTAGAATTTAAATTTAA
*
49360 CAATATTAACCAAAGATAATAATAAATATGTAATTATATGTTTTTGTTTTTAATTTAATGATAAT
131 CAATATTAACCAAAGATAATAATAAATATGTAATTATATGTTTTTGTTTTTAATTTAATAATAAT
*
49425 ATATAACGTAACGTAAAAAAATAAATCATTAGATACTATAATTACTAAATGATATCTTAAAACTC
196 ATATAAC-TAACGTAAAAAAATAAATCATTAGATACTATAATTACTAAATAATATCTTAAAACTC
*
49490 ACTCAAAAGATAACCTTAAATTAATGTTTCTACAGTGAAAAAGTATGGACACTTTTATAAAAAGG
260 ACTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGG
*
49555 ATAGATACTTTACAATATAAGCACTACTTATTACATTATATAAACGCTACCTATTACATTATATA
325 ATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATA
*
49620 AGCACTACCTATTACATCATATTTTACCTATTATATTGAAATGTCCATACTTTTTATAAAAATGA
390 AGCACTACCTATTACATCATATTTTACCTATTATATTGAAATGTCCATACTTTTTATAAAAAGGA
*
49685 TCGATACTTTTTTAAAGTTATGTAATTATGTTTCAATTTTTTTAATAGTGTTTTCATGTTTTCCA
455 TCGATACTTTTTTAAAGTTATGTAATTATGTTTCAATTTTTTTAATAGTGATTTCATGTTTTCCA
49750 CCTACAATATAATTTAATAATTTTATTTATACAAAAATTATTTGATTGTTTTGATATTTATAAAA
520 CCTACAATATAATTTAATAATTTTATTTATACAAAAATTATTTGATTGTTTTGATATTTATAAAA
49815 TAATATTTAGAATTTAAATTTAACAATA-TAACCAAAGATAATAATATG
585 T-ATATTTAGAATTTAAATTTAACAATATTAACC-AAGATAATAATATG
49863 TAATTTATG-TTCAATTTTTTTAATAGTGTTT-ATGTTTTCCACCTACAATATTAATTTAATAAT
1 TAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
* *
49926 TTTATTTATACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAAT
65 TTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTAT--AA-AATATTTAGAATTTAAAT
*
49991 TTAACAATATTAACC-AAGATAATAATAAATATGTAA-TATATTTTTATTGTTTTTAATTTAATA
127 TTAACAATATTAACCAAAGATAATAATAAATATGTAATTATATGTTT-TTGTTTTTAATTTAATA
* *
50054 ATAATATATTA-TAACGT-AAAAAAT-AATCATTAGATGCCTATAATTACTAAATTAATATCTTA
191 ATAATATATAACTAACGTAAAAAAATAAATCATTAGAT-ACTATAATTACTAAA-TAATATCTTA
*
50116 AAACTCACTC-AAAGATAACCTT-AATTAATGTTTTCCACGGTGAAAAAGTATGGACAC-TTTAT
254 AAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAAAAGTATGGACACTTTTAT
50178 AAAAAGGATAGATAC-TTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACA
318 AAAAAGGATAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACA
* * *
50242 TTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTTTCTATACTTTTTA
383 TTATATAAGCACTACCTATTACATCATA-TTTTACCTATTATATTGAAA-TGTCCATACTTTTTA
50307 TAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT-ATTT
446 TAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAA-TTATGTTTCAATTTTTTTAATAGTGATTT
50371 CATGTTTTCCACCTACAATATTAATTTAATAATTTT-TTTATACAAAAATTATTTGATTGTTTTT
509 CATGTTTTCCACCTACAATA-TAATTTAATAATTTTATTTATACAAAAATTATTTGATTG-TTTT
*
50435 GATATTTTATAAAAT-TATTTAGTATTTAAATTTAACAATATTAACCAAGATAATAATA
572 GATA-TTTATAAAATATATTTAGAATTTAAATTTAACAATATTAACCAAGATAATAATA
50493 ATATAATATA
Statistics
Matches: 596, Mismatches: 18, Indels: 33
0.92 0.03 0.05
Matches are distributed among these distances:
629 75 0.13
630 59 0.10
631 85 0.14
632 200 0.34
633 85 0.14
634 59 0.10
635 33 0.06
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (631 bp):
TAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATT
TCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTAGAATTTAAATTTAA
CAATATTAACCAAAGATAATAATAAATATGTAATTATATGTTTTTGTTTTTAATTTAATAATAAT
ATATAACTAACGTAAAAAAATAAATCATTAGATACTATAATTACTAAATAATATCTTAAAACTCA
CTCAAAAGATAACCTTAAATTAATGTTTCCACAGTGAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAA
GCACTACCTATTACATCATATTTTACCTATTATATTGAAATGTCCATACTTTTTATAAAAAGGAT
CGATACTTTTTTAAAGTTATGTAATTATGTTTCAATTTTTTTAATAGTGATTTCATGTTTTCCAC
CTACAATATAATTTAATAATTTTATTTATACAAAAATTATTTGATTGTTTTGATATTTATAAAAT
ATATTTAGAATTTAAATTTAACAATATTAACCAAGATAATAATATG
Found at i:50637 original size:25 final size:25
Alignment explanation
Indices: 50609--50673 Score: 112
Period size: 25 Copynumber: 2.6 Consensus size: 25
50599 ACTCAAAAGA
50609 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
50634 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
* *
50659 TCTACATAACTAAAT
1 TGTACATACCTAAAT
50674 TTAATGATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:53487 original size:160 final size:164
Alignment explanation
Indices: 53215--53539 Score: 563
Period size: 160 Copynumber: 2.0 Consensus size: 164
53205 TTCCGATGTG
53215 TAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCG
1 TAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCG
53280 ACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATA-TTTATA
66 ACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATATTTTA-A
53344 CCGGTTATATTAC-AAATTATCTATTACATTATAA
130 CCGGTTATATTACAAAATTATCTATTACATTATAA
* *
53378 TAAATGTCGACAC-TTTTGACAAGGTATCGACATATTTTTCTTCCAATCTGGACA-AACGTA-CG
1 TAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCG
*
53440 ACACAATATTAAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCATAAAATCGGTATATTTTAA
66 ACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTA-TCGCTCATAAAACCGGTATATTTTAA
53504 CCGGTTATATTACAAAATTATCTATTACATTATAA
130 CCGGTTATATTACAAAATTATCTATTACATTATAA
53539 T
1 T
53540 TCTGGGTTCC
Statistics
Matches: 156, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
159 10 0.06
160 62 0.40
161 31 0.20
162 40 0.26
163 13 0.08
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (164 bp):
TAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCG
ACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATATTTTAAC
CGGTTATATTACAAAATTATCTATTACATTATAA
Found at i:53718 original size:340 final size:340
Alignment explanation
Indices: 53098--53994 Score: 1282
Period size: 340 Copynumber: 2.6 Consensus size: 340
53088 TTAAAATTAC
*
53098 CGACACAATATTAAAAGTGTCGATATAGATTGTAGA-CTATTCGCTCATAAAA-CTGGTATA-TT
1 CGACACAATATTAAAAGTGTCGATATAG-GTGTAGACCTATTCGCTCATAAAATC-GGTATATTT
*
53160 TATACCGGTTATATTATAAAATTATCTATTACA-TATAATTCTGGGTTCCGATGTGTAAATGTCG
64 TA-ACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCG
*
53224 ACACTTTTTGACAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATAT
128 ACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT-T
*
53289 TAAAAGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATATTTATACCGGTTATAT
192 AAAAAGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATATTTATACCGGTTATAT
* *
53354 TACAAATTATCTATTACATTATAA-T-AAATG-TCGACACTTTTGACAAGGTATCGACATATTTT
257 TACAAATTATCTATTACATTATAATTCAAATGTTCGACACTTTTGAAAAGGTA-CGACACA-TTT
53416 TCTTCCAATCTGGACA-AACGTA
320 TCTTCCAATCT-GACATAA-GTA
53438 CGACACAATATTAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTTTA
1 CGACACAATATTAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTTTA
53503 ACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACA
66 ACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACA
53568 CTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATTAAAA
131 CTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATTAAAA
53633 AGTGTCGATATAGG-TGTAGACCTATTCGCTCAT-AAACCGGTATATTTATACCGGTTATATTAC
196 AGTGTCGATATAGGTTGTAGACCTA-TCGCTCATAAAACCGGTATATTTATACCGGTTATATTAC
**
53696 AAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTTTCAATCGACACTTTTGAAAAGGTA
260 -AAATTATCTATTACATTATAA-------TT-C-AAATG--T---TCGACACTTTTGAAAAGGTA
*
53761 CGACACATTTTCTTCCATTCTGACATAAGTA
310 CGACACATTTTCTTCCAATCTGACATAAGTA
* *
53792 CGACACAATATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAATC-GTATATTA
1 CGACACAATATT-AAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCATAAAATCGGTATATTT
* * *
53856 T-ATCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA--T
64 TAACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG---TGTAAATGT
*
53918 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAAT
126 CGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC-A-
53983 ATTAAAAAGTGT
189 ATTAAAAAGTGT
53995 GAAAACTTTG
Statistics
Matches: 511, Mismatches: 15, Indels: 45
0.89 0.03 0.08
Matches are distributed among these distances:
339 46 0.09
340 126 0.25
341 98 0.19
348 1 0.00
351 3 0.01
354 69 0.14
355 102 0.20
356 31 0.06
357 35 0.07
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (340 bp):
CGACACAATATTAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTTTA
ACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGACA
CTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATTAAAA
AGTGTCGATATAGGTTGTAGACCTATCGCTCATAAAACCGGTATATTTATACCGGTTATATTACA
AATTATCTATTACATTATAATTCAAATGTTCGACACTTTTGAAAAGGTACGACACATTTTCTTCC
AATCTGACATAAGTA
Found at i:53894 original size:175 final size:181
Alignment explanation
Indices: 53384--53994 Score: 957
Period size: 179 Copynumber: 3.4 Consensus size: 181
53374 ATAATAAATG
* * *
53384 TCGACAC-TTTTGACAAGGTATCGACATATTTTTCTTCCAATCTGGACA-AACGTA-CGACACAA
1 TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
*
53446 TATT-AAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTTTAACCGGTT
66 TATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTAT-ACCGGTT
*
53510 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTG--TAAA
130 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTTTCAA
53560 TGTCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
1 --TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACAC
*
53625 -A-ATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCAT-AAACCGGTATATTTATACCGG
64 AATATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATA-TTATACCGG
53687 TTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTTTCAA
128 TTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTTTCAA
*
53741 TCGACAC-TTTTGAAAAGGTA-CGACACA-TTTTCTTCCATTCT-GACAT-AAGTA-CGACACAA
1 TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
* *
53800 TATTAAAAAGTGTCGATATAGGTTGTATACCTATTCGCTCATAAAATC-GTATATTATATCGGTT
66 TATTAAAAAGTGTCGATATAGG-TGTAGACCTATTCGCTCATAAAATCGGTATATTATACCGGTT
*
53864 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTTTTTTCAA
130 ATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATG-TGTTTCAA
*
53917 TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAA
1 TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
53982 TATTAAAAAGTGT
66 TATTAAAAAGTGT
53995 GAAAACTTTG
Statistics
Matches: 404, Mismatches: 11, Indels: 32
0.90 0.02 0.07
Matches are distributed among these distances:
173 6 0.01
174 6 0.01
175 80 0.20
176 50 0.12
177 24 0.06
178 27 0.07
179 126 0.31
180 50 0.12
181 14 0.03
182 21 0.05
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (181 bp):
TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
TATTAAAAAGTGTCGATATAGGTGTAGACCTATTCGCTCATAAAATCGGTATATTATACCGGTTA
TATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTTTCAA
Found at i:55227 original size:3 final size:3
Alignment explanation
Indices: 55219--55251 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
55209 ACTTGTTTGG
*
55219 ATC ATC ATC ATC ATC ATC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
55252 TCGTCAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:55257 original size:8 final size:9
Alignment explanation
Indices: 55220--55257 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
55210 CTTGTTTGGA
*
55220 TCATCATCA
1 TCATCATCG
*
55229 TCATCATCA
1 TCATCATCG
55238 TCATCATCG
1 TCATCATCG
55247 TCATC-TCG
1 TCATCATCG
55255 TCA
1 TCA
55258 GCTTCATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.26, C:0.34, G:0.05, T:0.34
Consensus pattern (9 bp):
TCATCATCG
Found at i:57273 original size:200 final size:200
Alignment explanation
Indices: 56745--58124 Score: 2415
Period size: 200 Copynumber: 6.9 Consensus size: 200
56735 TTTAAATTAG
* * *
56745 TATCGACA-AAACATTAAAAAGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTA
1 TATCGACACAAAC-TAAAAAAGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTA
* * *
56808 TACTTGTTCCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
64 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGG
* * * *
56873 GATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTATTTGTCATTCATTCTAGA
129 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
56938 CCAAAAA
194 CCAAAAA
* * * *
56945 TATCGACACAAACTAAAAAAAGTGTCAACACATTATTTAGACCAATTCTCTCATAAAATCGGTAT
1 TATCGACACAAACT-AAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTAT
* * *
57010 ACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATATTTATGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGG
*
57075 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
57140 CAAAAA
195 CAAAAA
*
57146 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
57211 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
*
57276 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCATGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
57341 AAAAA
196 AAAAA
* *
57346 TATCGACACAAACTATAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
57411 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
57476 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
57541 AAAAA
196 AAAAA
*
57546 TATCGACACAAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
*
57611 CTTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
*
57676 TCGACACTTTTTATATATGGATCGACACTTTATAGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
57741 AAAAA
196 AAAAA
* * *
57746 TATCGACACTAACTACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCAGTATA
1 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
57811 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
57876 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
57941 AAAAA
196 AAAAA
* *
57946 TATCGACACAAACTACAAAAGTGTCGATATATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
*
58011 CTTGTACCGATTAGATTGAAAAATTATC-TATTACATTATACTTTTGGGTTTCGATGTTTATGGG
66 CTTGTACCGGTTAGATTGAAAAATTA-CATATTACATTATACTTTTGGGTTTCGATGTTTATGGG
*
58075 ATCGACACTTTTTATATATGGATCGATACTTTATGGTTGCACCCTGTTTG
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTG
58125 TCATATTGTA
Statistics
Matches: 1139, Mismatches: 37, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
200 947 0.83
201 188 0.17
202 4 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
AAAAA
Found at i:58252 original size:18 final size:18
Alignment explanation
Indices: 58229--58289 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
58219 TCTTATTCAT
*
58229 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
58247 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
58266 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
58285 AATTA
1 AATTA
58290 ACCCTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:58265 original size:19 final size:19
Alignment explanation
Indices: 58241--58289 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
58231 TTATATTCAC
58241 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
58260 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
58279 ATACAAAATTA
1 ATACAAAATTA
58290 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:60106 original size:33 final size:33
Alignment explanation
Indices: 60069--60134 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
60059 CATCTTAATA
*
60069 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
60102 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
60135 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:60193 original size:21 final size:21
Alignment explanation
Indices: 60168--60211 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
60158 CCCCTTATGC
60168 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
60189 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
60210 CT
1 CT
60212 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:62658 original size:20 final size:19
Alignment explanation
Indices: 62613--62658 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
62603 TCCGGTAACG
62613 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
62632 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
62653 TTTTAC
1 TTTTAC
62659 ATGGTATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.17, C:0.15, G:0.11, T:0.57
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:62703 original size:181 final size:182
Alignment explanation
Indices: 62399--62874 Score: 695
Period size: 181 Copynumber: 2.6 Consensus size: 182
62389 CGTACTTACG
* *** *
62399 AAAGTATCGACACTTTCAATATATCTGGTATTATTTGACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * *
62464 TATCATATTTTTACATGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
62529 AGG-CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
131 AGGAC-CTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
62580 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
62645 TATCATATTTTTACATGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
* *
62710 AGGACTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * ** * * **
62762 AAAGTACCGACACTTTAAATGTATCCAATAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
62827 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTTTAA
66 TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAA
62875 TTTGGATTGA
Statistics
Matches: 265, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
181 165 0.62
182 100 0.38
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.42
Consensus pattern (182 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACATGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
AGGACCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:64385 original size:15 final size:15
Alignment explanation
Indices: 64367--64402 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
64357 TGCGTCATCT
64367 TCACTGTCCTCAACG
1 TCACTGTCCTCAACG
64382 TCACTGTCCTCAACG
1 TCACTGTCCTCAACG
64397 TCACTG
1 TCACTG
64403 ATACTGCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.19, C:0.39, G:0.14, T:0.28
Consensus pattern (15 bp):
TCACTGTCCTCAACG
Found at i:70567 original size:21 final size:20
Alignment explanation
Indices: 70541--70630 Score: 92
Period size: 20 Copynumber: 4.4 Consensus size: 20
70531 AATTTCTTTC
*
70541 TCGCAACGCAATTTTCCAAAT
1 TCGCAACGCGA-TTTCCAAAT
*
70562 TCGCAATGCGATTTCCAAAT
1 TCGCAACGCGATTTCCAAAT
* *
70582 TTGCAACACGGAGTTT-CAAAT
1 TCGCAACGC-GA-TTTCCAAAT
* *
70603 TCGCAACTCGATTTCTAAAT
1 TCGCAACGCGATTTCCAAAT
70623 TCGCAACG
1 TCGCAACG
70631 TGAATTTCCT
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.05
20 28 0.49
21 23 0.40
22 3 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (20 bp):
TCGCAACGCGATTTCCAAAT
Found at i:70588 original size:41 final size:41
Alignment explanation
Indices: 70541--70638 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
70531 AATTTCTTTC
*
70541 TCGCAACGC-AATTTTCCAAATTCGCAA-TGCGATTTCCAAAT
1 TCGCAACGCGAAGTTT-CAAATTCGCAACT-CGATTTCCAAAT
* * * *
70582 TTGCAACACGGAGTTTCAAATTCGCAACTCGATTTCTAAAT
1 TCGCAACGCGAAGTTTCAAATTCGCAACTCGATTTCCAAAT
*
70623 TCGCAACGTGAA-TTTC
1 TCGCAACGCGAAGTTTC
70639 CTTTTCGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 4 0.09
41 37 0.80
42 5 0.11
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (41 bp):
TCGCAACGCGAAGTTTCAAATTCGCAACTCGATTTCCAAAT
Found at i:70636 original size:102 final size:101
Alignment explanation
Indices: 70456--70659 Score: 263
Period size: 102 Copynumber: 2.0 Consensus size: 101
70446 AAATGACCAA
* *
70456 CAAATTCGCAACGCGAACTCCAATTTTGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTGTAA
1 CAAATTCGCAACGCGAACTCCAAATTTGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTGAAA
* *
70521 TCGCAACGCGAATTT-CTTTCTCGCAACGCAATTTTC
66 TCGCAACGCGAATTTCCTTT-TCGCAACACAAGTTTC
* **
70557 CAAATTCGCAATGCGATTTCCAAATTTGCAACACGGAGTTT-CAAATTCGCAACTC-GATTTCT-
1 CAAATTCGCAACGCGAACTCCAAATTTGCAACAC--AGTTTCCAAATTCGCAACTCAG-TTTCTG
*
70619 AAATTCGCAACGTGAATTTCCTTTTCGCAACACAAGTTTC
63 AAA-TCGCAACGCGAATTTCCTTTTCGCAACACAAGTTTC
70659 C
1 C
70660 TTTTCGCAAC
Statistics
Matches: 90, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
101 33 0.37
102 48 0.53
103 9 0.10
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.30
Consensus pattern (101 bp):
CAAATTCGCAACGCGAACTCCAAATTTGCAACACAGTTTCCAAATTCGCAACTCAGTTTCTGAAA
TCGCAACGCGAATTTCCTTTTCGCAACACAAGTTTC
Found at i:70868 original size:14 final size:15
Alignment explanation
Indices: 70849--70886 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
70839 TCCCCATCTC
70849 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
70863 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
70879 TAATTTTT
1 TAATTTTT
70887 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:74155 original size:20 final size:20
Alignment explanation
Indices: 74130--74178 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
74120 TGCGATTGTT
*
74130 GCGAAAGTCAAATTCGCAAC
1 GCGAAAATCAAATTCGCAAC
*
74150 GCGAAAATCAAATTCGTAAC
1 GCGAAAATCAAATTCGCAAC
*
74170 GCAAAAATC
1 GCGAAAATC
74179 GCAACGCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.16
Consensus pattern (20 bp):
GCGAAAATCAAATTCGCAAC
Found at i:74297 original size:16 final size:16
Alignment explanation
Indices: 74276--74311 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
74266 TGCAGATTGA
*
74276 AATTAAACAAAAAATC
1 AATTAAACAAAAAAAC
74292 AATTAAACAAAAAAAC
1 AATTAAACAAAAAAAC
74308 AATT
1 AATT
74312 CTTATTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.19
Consensus pattern (16 bp):
AATTAAACAAAAAAAC
Found at i:75711 original size:21 final size:21
Alignment explanation
Indices: 75687--75740 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
75677 GTGAATCGGG
* **
75687 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGATAAGAGGGGC
75708 CTCTTGAACGATAAGAGGGGC
1 CTCTTGAACGATAAGAGGGGC
75729 CTCTTGAACGAT
1 CTCTTGAACGAT
75741 GACAGGTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.35, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGATAAGAGGGGC
Found at i:81159 original size:23 final size:21
Alignment explanation
Indices: 81107--81186 Score: 83
Period size: 21 Copynumber: 3.8 Consensus size: 21
81097 CCAGAACCCT
* **
81107 AGGGGGTATCGATTCCCCTGT
1 AGGGGGAATCGATTCCCCTCA
*
81128 GGGGGGAATCGATTCCCCTTCAA
1 AGGGGGAATCGATTCCCC-TC-A
*
81151 AGGGGGAATCGGTT-CCCTCA
1 AGGGGGAATCGATTCCCCTCA
81171 AGGGGG-ATCGATTCCC
1 AGGGGGAATCGATTCCC
81187 TCTGCACCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
19 6 0.12
20 9 0.18
21 18 0.37
22 4 0.08
23 12 0.24
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.23
Consensus pattern (21 bp):
AGGGGGAATCGATTCCCCTCA
Found at i:81180 original size:19 final size:20
Alignment explanation
Indices: 81129--81188 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 20
81119 TTCCCCTGTG
81129 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC-AA
*
81152 GGGGGAATCGGTTCCCTCAA
1 GGGGGAATCGATTCCCTCAA
81172 GGGGG-ATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
81189 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.31
20 7 0.20
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAA
Found at i:85039 original size:20 final size:20
Alignment explanation
Indices: 84997--85039 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
84987 TTGTTTTCAT
* *
84997 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
85017 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
85037 TTT
1 TTT
85040 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:88068 original size:20 final size:20
Alignment explanation
Indices: 88045--88137 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
88035 TGACTTATGT
88045 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* * *
88065 GTTGTGATTTACATATTCTC
1 GTTGCGATTTACAAATTCGC
**
88085 GTTGCGAATTTGGAAATTCGC
1 GTTGCG-ATTTACAAATTCGC
* ** *
88106 ATTGATATTTACATATTCGC
1 GTTGCGATTTACAAATTCGC
88126 GTTGCGAATTTA
1 GTTGCG-ATTTA
88138 GAAAATTGAG
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
20 36 0.67
21 18 0.33
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:88104 original size:41 final size:42
Alignment explanation
Indices: 88045--88169 Score: 143
Period size: 41 Copynumber: 3.1 Consensus size: 42
88035 TGACTTATGT
* *
88045 GTTGCG-ATTTA-CAAATTCGCGTTGTGATTTACATATTCTC
1 GTTGCGAATTTAGAAAATTCGCGTTGTGATTTACATATTCGC
* *
88085 GTTGCGAATTT-GGAAATTCGCATTGAT-ATTTACATATTCGC
1 GTTGCGAATTTAGAAAATTCGCGTTG-TGATTTACATATTCGC
* * *
88126 GTTGCGAATTTAGAAAATT-GAGTTGTGGTTTACATATTTGC
1 GTTGCGAATTTAGAAAATTCGCGTTGTGATTTACATATTCGC
88167 GTT
1 GTT
88170 ATGAATTTCA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
40 7 0.10
41 58 0.81
42 7 0.10
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.42
Consensus pattern (42 bp):
GTTGCGAATTTAGAAAATTCGCGTTGTGATTTACATATTCGC
Found at i:88176 original size:41 final size:40
Alignment explanation
Indices: 88113--88190 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
88103 CGCATTGATA
* * *
88113 TTTACATATTCGCGTTGCGAATTTAGAAAATTGAGTTGTGG
1 TTTACATATTCGCGTTACGAATTT-CAAAACTGAGTTGTGG
* *
88154 TTTACATATTTGCGTTATGAATTTCAAAACTGAGTTG
1 TTTACATATTCGCGTTACGAATTTCAAAACTGAGTTG
88191 CGAAAATAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 11 0.34
41 21 0.66
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (40 bp):
TTTACATATTCGCGTTACGAATTTCAAAACTGAGTTGTGG
Found at i:88731 original size:13 final size:13
Alignment explanation
Indices: 88710--88739 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
88700 AGAAAGTATG
*
88710 TTTTGTTTTTAGT
1 TTTTATTTTTAGT
88723 TTTTATTTTTAGT
1 TTTTATTTTTAGT
88736 TTTT
1 TTTT
88740 GAAAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTAGT
Found at i:91678 original size:25 final size:25
Alignment explanation
Indices: 91650--91707 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
91640 ATTGATTGGA
91650 TTTAAATTTTATATATTTAATTTAT
1 TTTAAATTTTATATATTTAATTTAT
91675 TTTAAATTTTATATATTTAATTTAT
1 TTTAAATTTTATATATTTAATTTAT
91700 TTTAAATT
1 TTTAAATT
91708 ATTAATTCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTAAATTTTATATATTTAATTTAT
Found at i:92219 original size:16 final size:17
Alignment explanation
Indices: 92179--92224 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
92169 ATCTTATTGA
92179 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** *
92196 TTTTATATTT-TTAAAT
1 TTAAATATTTAATAAAT
92212 TTAAATATTTAAT
1 TTAAATATTTAAT
92225 TTTACATAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Done.