Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007927.1 Hibiscus syriacus cultivar Beakdansim tig00110333_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: 706544
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 2 of 4
Found at i:287293 original size:55 final size:53
Alignment explanation
Indices: 286767--287281 Score: 169
Period size: 52 Copynumber: 9.8 Consensus size: 53
286757 GTTGGAGATT
* * * **
286767 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGACCCGTAAGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * * ** **
286819 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * ** **
286871 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * ** **
286923 ATTGTTCGAGTTCTAGTCCTTGAAGAAAATTG-G-GC-AGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * * * ** **
286975 ATTTTTCGAGTTCTAGTCCCTGAAGAAAATTG-GA-C-AGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * * ** **
287027 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * ** **
287079 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-GA-C-AGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* * * * ** **
287131 ATTGTTCGAGTTCTAGTCCCTGAAGAAAATTG-G-GC-AGTCTCGTAGGAAGATT
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAA-AGAGAGCGA-ACCCGTAAAAAGAAG
* *
287183 ATCGTTCGAGTTCTACTCCCTGAAGAAATAGAGAGCGAACCCGTAAAAAGAAG
1 ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGAACCCGTAAAAAGAAG
287236 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGAGAGCGAACCCGT
1 ATTGTTCGAGTTC--TACTCCCTGAAGAAAAAGAGAGCGAACCCGT
287282 TTGCAAAAGA
Statistics
Matches: 427, Mismatches: 27, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
51 1 0.00
52 372 0.87
53 23 0.05
54 1 0.00
55 30 0.07
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (53 bp):
ATTGTTCGAGTTCTACTCCCTGAAGAAAAAGAGAGCGAACCCGTAAAAAGAAG
Found at i:287492 original size:3 final size:3
Alignment explanation
Indices: 287468--287547 Score: 83
Period size: 3 Copynumber: 26.7 Consensus size: 3
287458 GGGATATAAA
* * * *
287468 TAT TA- TAT TAT AAT AAT AAT TAT TAT TAT TAT TA- TAT TAT AGAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
*
287512 TAT TAT TAT TAT TAT TAT TAT TAT TAA TATT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA
287548 CAACTATTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
2 4 0.06
3 59 0.88
4 4 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:293896 original size:35 final size:35
Alignment explanation
Indices: 293850--293920 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
293840 CTACTGCTCT
*
293850 ATAGTACTAGTGTGAAGTTCATATAAGAGAAAGAA
1 ATAGTACTAGTGTGAAGTTCATACAAGAGAAAGAA
*
293885 ATAGTACTAGTGTGAAGTTCATGCAAGAGAAAGAA
1 ATAGTACTAGTGTGAAGTTCATACAAGAGAAAGAA
293920 A
1 A
293921 ACAACACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.24
Consensus pattern (35 bp):
ATAGTACTAGTGTGAAGTTCATACAAGAGAAAGAA
Found at i:297833 original size:29 final size:31
Alignment explanation
Indices: 297777--297842 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
297767 GGACCTACTT
* * *
297777 ATATAATTGAAGTCAAAATGAAAGTTTAGTA
1 ATATAATTAAAGTCAAAATGAAAATTTAATA
*
297808 ATATAATTAAAG-C-AATTGAAAATTTAATA
1 ATATAATTAAAGTCAAAATGAAAATTTAATA
297837 ATATAA
1 ATATAA
297843 ACAATACACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 19 0.61
30 1 0.03
31 11 0.35
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.33
Consensus pattern (31 bp):
ATATAATTAAAGTCAAAATGAAAATTTAATA
Found at i:299186 original size:31 final size:31
Alignment explanation
Indices: 299123--299186 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
299113 TGGTGACTAC
* *
299123 ATCTTGATCAAATAAAAATGAAAGTAATCAT
1 ATCTTAATCAAATAAAAATGAAAGTAACCAT
* * *
299154 ATCTTAATTAAATAAAAATTAAAGTGACCAT
1 ATCTTAATCAAATAAAAATGAAAGTAACCAT
299185 AT
1 AT
299187 ATTATGTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.52, C:0.09, G:0.08, T:0.31
Consensus pattern (31 bp):
ATCTTAATCAAATAAAAATGAAAGTAACCAT
Found at i:304163 original size:21 final size:21
Alignment explanation
Indices: 304139--304191 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
304129 GGTGGCACTA
304139 TATATACATACATGTCTGGAT
1 TATATACATACATGTCTGGAT
304160 TATATACATACATGTCTGGAT
1 TATATACATACATGTCTGGAT
304181 TATATACATAC
1 TATATACATAC
304192 GTGCATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (21 bp):
TATATACATACATGTCTGGAT
Found at i:304737 original size:2 final size:2
Alignment explanation
Indices: 304730--304769 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
304720 GAATTCTAAA
304730 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
304770 TTAGTATTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:305575 original size:21 final size:20
Alignment explanation
Indices: 305535--305576 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
305525 TCAACTTACA
*
305535 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
305555 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
305576 A
1 A
305577 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:310177 original size:21 final size:20
Alignment explanation
Indices: 310137--310178 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
310127 TCAACTTACA
*
310137 ATGCATTATGAACCATTATT
1 ATGCATTATCAACCATTATT
*
310157 ATGCATTATACAACTATTATT
1 ATGCATTAT-CAACCATTATT
310178 A
1 A
310179 GTTGTATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.40
Consensus pattern (20 bp):
ATGCATTATCAACCATTATT
Found at i:312399 original size:42 final size:42
Alignment explanation
Indices: 312340--312459 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
312330 TTTCCCCGAA
*
312340 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
*
312382 TTCCCGTGTTTGTTTCACATAATTCGTTTTCCGGAAAACGTT
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
312424 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
1 TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAA
312460 TGTAATTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.44
Consensus pattern (42 bp):
TTCCCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAACGTT
Found at i:312698 original size:23 final size:23
Alignment explanation
Indices: 312672--312753 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
312662 TTTATTAATA
312672 TTTATAATAATATAATATATATT
1 TTTATAATAATATAATATATATT
* *
312695 TTTA-ATATTATATAAAATAATCAATT
1 TTTATA-ATAATATAATAT-AT--ATT
312721 ATATTATAATAATATAAGATATTATATT
1 -T-TTATAATAATAT-A-ATA-TATATT
312749 TTTAT
1 TTTAT
312754 TTTAACAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 17
0.68 0.06 0.26
Matches are distributed among these distances:
22 1 0.02
23 14 0.31
24 2 0.04
26 7 0.16
27 2 0.04
28 12 0.27
29 2 0.04
30 4 0.09
31 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (23 bp):
TTTATAATAATATAATATATATT
Found at i:312731 original size:30 final size:31
Alignment explanation
Indices: 312658--312736 Score: 78
Period size: 30 Copynumber: 2.6 Consensus size: 31
312648 AATATTTAAA
312658 ATAT-TTTATTAATATT-TATAATAATATAAT
1 ATATATTTA-TAATATTATATAATAATATAAT
*
312688 ATATATTTTTAATATTATATAA-AATAATCAAT
1 ATATATTTATAATATTATATAATAAT-AT-AAT
*
312720 -TATA-TTATAATAATATA
1 ATATATTTATAATATTATA
312737 AGATATTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 25 0.60
31 14 0.33
32 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (31 bp):
ATATATTTATAATATTATATAATAATATAAT
Found at i:312848 original size:22 final size:23
Alignment explanation
Indices: 312823--312866 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
312813 AATAATATTT
312823 TAATAAAGA-TATTAAAATATAC
1 TAATAAAGATTATTAAAATATAC
* * *
312845 TAATTAATATTTTTAAAATATA
1 TAATAAAGATTATTAAAATATA
312867 ATATAGTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (23 bp):
TAATAAAGATTATTAAAATATAC
Found at i:313063 original size:20 final size:20
Alignment explanation
Indices: 312985--313054 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
312975 TTTCCAGATG
*
312985 TTTTTCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
313005 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
*
313025 TTTTACAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
313045 TTTTCCAGAA
1 TTTTCCAGAA
313055 TTCAAATTCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:313063 original size:40 final size:40
Alignment explanation
Indices: 312985--313063 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
312975 TTTCCAGATG
* **
312985 TTTTTCAGAAATGTAATTCATTTTCCAGAAATGTAATTCA
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
*
313025 TTTTACAGAAATGTAATTCATTTTCCAGAATTCAAATTC
1 TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTC
313064 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (40 bp):
TTTTACAGAAATGTAATTCATTTTCCAGAAATCAAATTCA
Found at i:313073 original size:15 final size:15
Alignment explanation
Indices: 313037--313118 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
313027 TTACAGAAAT
**
313037 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
313052 G-AATTCAAATTCCA
1 GTAATTCAAATTCCA
**
313066 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
313081 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
313096 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
313111 GTAATTCA
1 GTAATTCA
313119 TTTTCTGGAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:313089 original size:30 final size:30
Alignment explanation
Indices: 313037--313118 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
313027 TTACAGAAAT
313037 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
313066 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
**
313096 GTAATTCAAATTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
313119 TTTTCTGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:313111 original size:45 final size:44
Alignment explanation
Indices: 313037--313123 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
313027 TTACAGAAAT
**
313037 GTAATTCATTTTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
1 GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
313081 GTAATTCAAATTCCAGTAATTCAAATTCCAGTAATTCATTTTC
1 GTAATTCAAATTCCAG-AATTCAAATTCCAGTAATTCATTTTC
313124 TGGAAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (44 bp):
GTAATTCAAATTCCAGAATTCAAATTCCAGTAATTCATTTTCCA
Found at i:313422 original size:5 final size:5
Alignment explanation
Indices: 313412--313440 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
313402 TTATAAATTT
313412 ATCCC ATCCC ATCCC ATCCC ATCCC ATCC
1 ATCCC ATCCC ATCCC ATCCC ATCCC ATCC
313441 TACCCATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.59, G:0.00, T:0.21
Consensus pattern (5 bp):
ATCCC
Found at i:318578 original size:41 final size:41
Alignment explanation
Indices: 318489--318578 Score: 94
Period size: 41 Copynumber: 2.2 Consensus size: 41
318479 CTTTAAATTT
* * *
318489 TAGGGTTTAAGATTTAAATGTTAGGGTTTATGTTTGGGGTT
1 TAGGGTTTAAGATTGAAATGTTAGGGTTTATGTTTAGGGTG
* * *
318530 TAAGGTTTATGATTGAACT-TTAGGGTTTA-GATTATAGGGTG
1 TAGGGTTTAAGATTGAAATGTTAGGGTTTATG-TT-TAGGGTG
318571 TAGGGTTT
1 TAGGGTTT
318579 GGATAAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
39 1 0.03
40 12 0.30
41 27 0.68
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.44
Consensus pattern (41 bp):
TAGGGTTTAAGATTGAAATGTTAGGGTTTATGTTTAGGGTG
Found at i:318892 original size:33 final size:33
Alignment explanation
Indices: 318849--318949 Score: 184
Period size: 33 Copynumber: 3.1 Consensus size: 33
318839 TGATGGAAGG
* *
318849 CCCCACTATTTTGGATTCATTCATTTCAATCAT
1 CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
318882 CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
1 CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
318915 CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
1 CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
318948 CC
1 CC
318950 ATCCAATTCA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.22, C:0.27, G:0.10, T:0.42
Consensus pattern (33 bp):
CCCCAGTATTTTGGGTTCATTCATTTCAATCAT
Found at i:321101 original size:33 final size:34
Alignment explanation
Indices: 321058--321127 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
321048 CTGTGGAAGT
* * *
321058 AAAAGAAAATATAAAATCTCATGTCTGTTTCTAG
1 AAAAGAAAATATAAAATCTCATGCCTGCTACTAG
321092 AAAA-AAAATATAAAATCTCATGCCTGCTACTAG
1 AAAAGAAAATATAAAATCTCATGCCTGCTACTAG
321125 AAA
1 AAA
321128 CTAGTGAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 29 0.88
34 4 0.12
ACGTcount: A:0.49, C:0.14, G:0.10, T:0.27
Consensus pattern (34 bp):
AAAAGAAAATATAAAATCTCATGCCTGCTACTAG
Found at i:324117 original size:16 final size:17
Alignment explanation
Indices: 324084--324121 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
324074 AGTATCGATG
* *
324084 ATATTTTTTTTGATAAA
1 ATATTTTATTTGAAAAA
324101 ATATTTTATTT-AAAAA
1 ATATTTTATTTGAAAAA
324117 ATATT
1 ATATT
324122 ATTAATGAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATATTTTATTTGAAAAA
Found at i:328748 original size:22 final size:22
Alignment explanation
Indices: 328723--328766 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
328713 TACTATATTT
*
328723 ATTTTATAATTATAAATT-TATA
1 ATTTTAT-ATTAAAAATTATATA
*
328745 ATTTTCTATTAAAAATTATATA
1 ATTTTATATTAAAAATTATATA
328767 TTTAAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTATATTAAAAATTATATA
Found at i:328769 original size:21 final size:21
Alignment explanation
Indices: 328722--328769 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
328712 ATACTATATT
*
328722 TATTTTATAATTATAAATTTA
1 TATTTTATAATTAAAAATTTA
*
328743 TAATTTTCT-ATTAAAAATTATA
1 T-ATTTTATAATTAAAAATT-TA
328765 TATTT
1 TATTT
328770 AAGAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATTTTATAATTAAAAATTTA
Found at i:330680 original size:23 final size:23
Alignment explanation
Indices: 330653--330697 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
330643 TTCCTTTATT
330653 TTTCAATAT-ATTTAAATTATTAC
1 TTTCAATATCATTT-AATTATTAC
* *
330676 TTTCATTATCATTTTATTATTA
1 TTTCAATATCATTTAATTATTA
330698 TTATAAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTCAATATCATTTAATTATTAC
Found at i:331390 original size:24 final size:22
Alignment explanation
Indices: 331353--331404 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
331343 CTGGAAAAAG
331353 AAAGGAAAATAGGAATAAGTGTT
1 AAAGGAAAATAGGAA-AAGTGTT
*
331376 AAGAGGAAGAA-AGGAAACGTGTT
1 AA-AGGAA-AATAGGAAAAGTGTT
331399 AAAGGA
1 AAAGGA
331405 TTGAGTGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 4 0.15
23 10 0.38
24 10 0.38
25 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (22 bp):
AAAGGAAAATAGGAAAAGTGTT
Found at i:333488 original size:18 final size:17
Alignment explanation
Indices: 333453--333497 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
333443 TCATCTAAAA
333453 ATTTTAAATTTTTATAT
1 ATTTTAAATTTTTATAT
*
333470 ATTTTAAATATTTTTTAT
1 ATTTTAAAT-TTTTATAT
*
333488 ATTTTCAATT
1 ATTTTAAATT
333498 GAAAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTAAATTTTTATAT
Found at i:333632 original size:23 final size:23
Alignment explanation
Indices: 333587--333633 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
333577 AACTGTCATA
*
333587 AAATCTTGTATCCATTTCAGGAT
1 AAATCTTGTATCCATTGCAGGAT
* *
333610 AAATCTTGTATCGATTGCTGGAT
1 AAATCTTGTATCCATTGCAGGAT
333633 A
1 A
333634 TATATATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
AAATCTTGTATCCATTGCAGGAT
Found at i:338576 original size:20 final size:19
Alignment explanation
Indices: 338544--338596 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
338534 CGGACCGGCT
*
338544 GAAAACCGAAAAAAAAACG
1 GAAAACCGGAAAAAAAACG
* *
338563 GAAAAACTGGAAAAAAACCG
1 G-AAAACCGGAAAAAAAACG
338583 GAAAACCGGAAAAA
1 GAAAACCGGAAAAA
338597 CTCGAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.64, C:0.15, G:0.19, T:0.02
Consensus pattern (19 bp):
GAAAACCGGAAAAAAAACG
Found at i:340682 original size:2 final size:2
Alignment explanation
Indices: 340675--340701 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
340665 GTGAGTTAAA
340675 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
340702 AACTGTGGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:344648 original size:22 final size:22
Alignment explanation
Indices: 344602--344648 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
344592 TTATCAATAA
* *
344602 TAAATTTTAAATAATAATAATT
1 TAAATTTTAAATAATAAAAAAT
344624 TAAATTTTAAA-AATATAAAAAT
1 TAAATTTTAAATAATA-AAAAAT
344646 TAA
1 TAA
344649 TAAAAAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAATTTTAAATAATAAAAAAT
Found at i:346527 original size:27 final size:30
Alignment explanation
Indices: 346479--346543 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 30
346469 TTTTTATTAA
*
346479 AAATTTATTTTTATTCCTTTAAAATGT-TAT
1 AAATTTATTATTATTCCTTTAAAAT-TATAT
346509 AAATTTATTATT-TT-C-TTAAAATTATAT
1 AAATTTATTATTATTCCTTTAAAATTATAT
*
346536 AAGTTTAT
1 AAATTTAT
346544 CACTAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 17 0.53
28 1 0.03
29 2 0.06
30 11 0.34
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (30 bp):
AAATTTATTATTATTCCTTTAAAATTATAT
Found at i:347116 original size:20 final size:20
Alignment explanation
Indices: 347091--347135 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
347081 GTCATCCAAT
*
347091 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCCCAGACCGGA
*
347111 TTTTTAAACCCCATACCGGA
1 TTTTTAAACCCCAGACCGGA
347131 TTTTT
1 TTTTT
347136 TTTTCATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (20 bp):
TTTTTAAACCCCAGACCGGA
Found at i:348395 original size:39 final size:40
Alignment explanation
Indices: 348333--348412 Score: 108
Period size: 39 Copynumber: 2.0 Consensus size: 40
348323 ATTTGTAAAC
* **
348333 ATCACAAATAGACGAAGTTTCTGACTCGAAC-TTGTTCAT
1 ATCAAAAATAGACGAAGACTCTGACTCGAACATTGTTCAT
*
348372 ATCAAAAATAGGCGAAGACTCTGACTCGAACATTTGTTCAT
1 ATCAAAAATAGACGAAGACTCTGACTCGAACA-TTGTTCAT
348413 TGAGTAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.77
41 8 0.23
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (40 bp):
ATCAAAAATAGACGAAGACTCTGACTCGAACATTGTTCAT
Found at i:349486 original size:23 final size:22
Alignment explanation
Indices: 349460--349514 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 22
349450 AACTTTAGGG
*
349460 CACATTTTTATATGCCTTTGTGA
1 CACATTTTT-TATGCCTTAGTGA
*
349483 CACATTTTCTTGTGCCTTAGTGA
1 CACATTTT-TTATGCCTTAGTGA
349506 CACATTTTT
1 CACATTTTT
349515 CGTTTTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (22 bp):
CACATTTTTTATGCCTTAGTGA
Found at i:350727 original size:77 final size:77
Alignment explanation
Indices: 350638--350782 Score: 200
Period size: 77 Copynumber: 1.9 Consensus size: 77
350628 GATTGCACCT
* * *
350638 AAAAATGTCATGGTTCACTAAGAAATAAGTTACGATGTGGAATATTAATATTTTTATTAATAAAA
1 AAAAATGCCATGGTTCACTAAGAAATAAGTTACGATCTAGAATATTAATATTTTTATTAATAAAA
350703 TAGATTACGCCA
66 TAGATTACGCCA
* * * * * * *
350715 AAAAATGCCATGGTTCATTACGAAATAGGTTGCGATCTAGAATGTTAATATTTTTATTGATAACA
1 AAAAATGCCATGGTTCACTAAGAAATAAGTTACGATCTAGAATATTAATATTTTTATTAATAAAA
350780 TAG
66 TAG
350783 GTTGCGCCCA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
77 58 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (77 bp):
AAAAATGCCATGGTTCACTAAGAAATAAGTTACGATCTAGAATATTAATATTTTTATTAATAAAA
TAGATTACGCCA
Found at i:350797 original size:40 final size:40
Alignment explanation
Indices: 350739--350841 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
350729 TCATTACGAA
** * *
350739 ATAGGTTGCGATCTAGAATGTTAATATTTTTATTGATAAC
1 ATAGGTTGCGCCCAAGAATGTCAATATTTTTATTGATAAC
350779 ATAGGTTGCGCCCAAGAATGTCAATATTTTTATTGATAAC
1 ATAGGTTGCGCCCAAGAATGTCAATATTTTTATTGATAAC
*
350819 ATAGGTTACGCCCAAGAATGTCA
1 ATAGGTTGCGCCCAAGAATGTCA
350842 TGGTTCACTA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (40 bp):
ATAGGTTGCGCCCAAGAATGTCAATATTTTTATTGATAAC
Found at i:350911 original size:117 final size:117
Alignment explanation
Indices: 350684--350916 Score: 279
Period size: 117 Copynumber: 2.0 Consensus size: 117
350674 GTGGAATATT
*
350684 AATATTTTTATTAATAAAATAGATTACGCCAAAAAATGCCATGGTTCATTACGAAATAGGTTGCG
1 AATATTTTTATTAATAAAATAGATTACGCCAAAAAATGCCATGGTTCACTACGAAATAGGTTGCG
* * * * * *
350749 ATCTAGAATGTTAATATTTTTATTGATAACATAGGTTGCGCCCAAGAATGTC
66 ATATAGAATATTAATATTCTTATTAATAAAATAGATTGCGCCCAAGAATGTC
* * * * * * * *
350801 AATATTTTTATTGATAACATAGGTTACGCCCAAGAATGTCATGGTTCACTATGAAATAGGTTGTG
1 AATATTTTTATTAATAAAATAGATTACGCCAAAAAATGCCATGGTTCACTACGAAATAGGTTGCG
* * * *
350866 ATATATACTATTAATATTCTTATTAATAAAAT-GAATTTCGTCCAAGAATGT
66 ATATAGAATATTAATATTCTTATTAATAAAATAG-ATTGCGCCCAAGAATGT
350917 TATGATTCAC
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
116 1 0.01
117 95 0.99
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (117 bp):
AATATTTTTATTAATAAAATAGATTACGCCAAAAAATGCCATGGTTCACTACGAAATAGGTTGCG
ATATAGAATATTAATATTCTTATTAATAAAATAGATTGCGCCCAAGAATGTC
Found at i:350960 original size:77 final size:76
Alignment explanation
Indices: 350828--351050 Score: 218
Period size: 77 Copynumber: 2.9 Consensus size: 76
350818 CATAGGTTAC
* * ** * *
350828 GCCCAAGAATGTCATGGTTCACTATGAAATAGGTTGTGATATATACTATTAATATTCTTATTAAT
1 GCCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATT-TTATTAAT
*
350893 AAAAT-GAATTT
65 AAAATGGAATAT
* * *
350904 CGTCCAAGAATGTTATGATTCACTAAGAAATAGGTTGTGATATGGAATGTTGATATTTTAATTAA
1 -GCCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTT-ATTAA
* **
350969 AAAAATGGGCTAT
64 TAAAATGGAATAT
* * * *
350982 GCCCAATAATGTTATGGTTCACTAAGAAAGT-GAGTTGCGATCTGGAACGTTAATATTTTTATT-
1 GCCCAAGAATGTTATGGTTCACTAAGAAA-TAG-GTTGTGATATGGAATGTTAATA-TTTTATTA
351045 ATAAAA
63 ATAAAA
351051 AATCGAAAGT
Statistics
Matches: 120, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
76 2 0.02
77 89 0.74
78 25 0.21
79 4 0.03
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (76 bp):
GCCCAAGAATGTTATGGTTCACTAAGAAATAGGTTGTGATATGGAATGTTAATATTTTATTAATA
AAATGGAATAT
Found at i:351557 original size:101 final size:101
Alignment explanation
Indices: 351325--351683 Score: 454
Period size: 100 Copynumber: 3.6 Consensus size: 101
351315 ATGTCATCCG
* * * * ** * *
351325 TAAGTATAAAATTGTTTATATGATGCAAAAGTAAGAAAAAACAAATTTATCATGATAACGTAATA
1 TAAGTATGAAATCGTTTATATTATGCAAAAGTAAGACAAAACATGTTGATCATGATAACGTACTA
* * **
351390 AGTAACGCCTTTTTTT-ATGTCAATTGTTTAAATTA
66 GGTAGCGCCTTTTTTTAATGTCAACCGTTTAAATTA
* * *
351425 TAAATATGAAATCATTTATATTATGCAAAAGTAAGACAAAACATGTTGCTCATGATAACGTACTA
1 TAAGTATGAAATCGTTTATATTATGCAAAAGTAAGACAAAACATGTTGATCATGATAACGTACTA
* *
351490 GGTAGTGCCTTTTTTTAATATCAACCGTTTAAATTA
66 GGTAGCGCCTTTTTTTAATGTCAACCGTTTAAATTA
* *
351526 TAAGTATGAAACCGTTTATATTATGCAAAAGTAAGACAAAACACGTT-ACTCATGATAACGTACT
1 TAAGTATGAAATCGTTTATATTATGCAAAAGTAAGACAAAACATGTTGA-TCATGATAACGTACT
* *
351590 AGGTAGCG-TTTTTTTTAATGTCAACCGTTTAAGTTA
65 AGGTAGCGCCTTTTTTTAATGTCAACCGTTTAAATTA
* * * * *
351626 TAAGTGTGAAATCTTTTATATTATGCAAAAGTAAAACAAAAAATGTAGATCATGATAA
1 TAAGTATGAAATCGTTTATATTATGCAAAAGTAAGACAAAACATGTTGATCATGATAA
351684 AGTAATAGAT
Statistics
Matches: 223, Mismatches: 33, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
100 141 0.63
101 82 0.37
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.35
Consensus pattern (101 bp):
TAAGTATGAAATCGTTTATATTATGCAAAAGTAAGACAAAACATGTTGATCATGATAACGTACTA
GGTAGCGCCTTTTTTTAATGTCAACCGTTTAAATTA
Found at i:352029 original size:77 final size:74
Alignment explanation
Indices: 351909--352152 Score: 207
Period size: 77 Copynumber: 3.3 Consensus size: 74
351899 CATAACATAT
* * * *
351909 GTATCAATATTTT-AATTATCT-ATCATATTCATCAACTTGTTCAATATCTAAAAGTATAGATCA
1 GTATCAATATTTTAAATT-T-TGATCTTATTTATCAACTTTTTCAATAT-TAAAAGTATCGATCA
351972 ATATCACATATAA
63 ATA-CACATATAA
** * * * * * *
351985 GTATTTATATTTTAAATTTTGATATTTTTTTATCAAATTTTTCAATTTTTAAAAGTACCGATCAT
1 GTATCAATATTTTAAATTTTGAT-CTTATTTATCAACTTTTTCAA-TATTAAAAGTATCGATCAA
*
352050 TACCGCATAT--
64 TA-CACATATAA
* * *
352060 GTATCGATATTTTAAATTTTGATCTTATTT-TCAACTTTTT-AATATTTAAATTATCGAT-AATA
1 GTATCAATATTTTAAATTTTGATCTTATTTATCAACTTTTTCAATATTAAAAGTATCGATCAATA
*
352122 -ATATATTAA
66 CACATA-TAA
352131 GTATCAATATTTTAAATTTTGA
1 GTATCAATATTTTAAATTTTGA
352153 AGTATTTTAT
Statistics
Matches: 134, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
68 3 0.02
69 1 0.01
70 3 0.02
71 33 0.25
72 2 0.01
73 9 0.07
74 5 0.04
75 22 0.16
76 14 0.10
77 40 0.30
78 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.47
Consensus pattern (74 bp):
GTATCAATATTTTAAATTTTGATCTTATTTATCAACTTTTTCAATATTAAAAGTATCGATCAATA
CACATATAA
Found at i:352365 original size:2 final size:2
Alignment explanation
Indices: 352358--352391 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
352348 CAACTGTCAT
*
352358 TA TA TA TA GA 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
352392 CTATTTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:352402 original size:22 final size:22
Alignment explanation
Indices: 352358--352424 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
352348 CAACTGTCAT
* *
352358 TATATATAGATATA-TATAT-A
1 TATATATATATATACTATTTGA
352378 TATATATATATATACTATTTGA
1 TATATATATATATACTATTTGA
352400 TATCATGA-AT-TATACTATTTGA
1 TAT-AT-ATATATATACTATTTGA
352422 TAT
1 TAT
352425 CACTCATGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 13 0.32
21 4 0.10
22 19 0.46
23 4 0.10
24 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (22 bp):
TATATATATATATACTATTTGA
Found at i:354165 original size:8 final size:9
Alignment explanation
Indices: 354139--354177 Score: 71
Period size: 9 Copynumber: 4.4 Consensus size: 9
354129 TTTTAAAAAC
354139 ACACTTAAA
1 ACACTTAAA
354148 ACACTTAAA
1 ACACTTAAA
354157 ACA-TTAAA
1 ACACTTAAA
354165 ACACTTAAA
1 ACACTTAAA
354174 ACAC
1 ACAC
354178 ACTTCTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (9 bp):
ACACTTAAA
Found at i:354165 original size:17 final size:17
Alignment explanation
Indices: 354143--354176 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
354133 AAAAACACAC
354143 TTAAAACACTTAAAACA
1 TTAAAACACTTAAAACA
354160 TTAAAACACTTAAAACA
1 TTAAAACACTTAAAACA
354177 CACTTCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.24
Consensus pattern (17 bp):
TTAAAACACTTAAAACA
Found at i:356506 original size:21 final size:22
Alignment explanation
Indices: 356455--356506 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
356445 GATTCCCCTG
356455 TGGGGGGAATCGGTTCCCATTCA
1 TGGGGGGAATCGGTTCCCA-TCA
**
356478 AAGGGGGAATCGGTTCCC-TCA
1 TGGGGGGAATCGGTTCCCATCA
356499 TGGGGGGA
1 TGGGGGGA
356507 TCGATTCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
23 16 0.64
ACGTcount: A:0.19, C:0.19, G:0.40, T:0.21
Consensus pattern (22 bp):
TGGGGGGAATCGGTTCCCATCA
Found at i:360366 original size:22 final size:21
Alignment explanation
Indices: 360324--360363 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
360314 GAGTTTGTTT
*
360324 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
360345 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
360364 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:368690 original size:15 final size:15
Alignment explanation
Indices: 368670--368699 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
368660 TGGGTTCTCC
368670 TTCCCAGGCCTAGAT
1 TTCCCAGGCCTAGAT
368685 TTCCCAGGCCTAGAT
1 TTCCCAGGCCTAGAT
368700 ACGGCCTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
TTCCCAGGCCTAGAT
Found at i:371952 original size:20 final size:19
Alignment explanation
Indices: 371925--371966 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
371915 TTTAATCTCT
*
371925 AATATTTT-ATTTTAATAAA
1 AATATTTTGA-TTAAATAAA
371944 AATATTTTTGATTAAATAAA
1 AATA-TTTTGATTAAATAAA
371964 AAT
1 AAT
371967 CATTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 15 0.75
21 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
AATATTTTGATTAAATAAA
Found at i:374757 original size:16 final size:17
Alignment explanation
Indices: 374736--374781 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
374726 AATTAAAATA
374736 AATATAAAATTTTA-AT
1 AATATAAAATTTTATAT
374752 AATATAAAATAATTTATAT
1 AATATAAAAT--TTTATAT
*
374771 GATATAAAATT
1 AATATAAAATT
374782 AAATATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 10 0.38
17 1 0.04
18 4 0.15
19 11 0.42
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
AATATAAAATTTTATAT
Found at i:374765 original size:19 final size:19
Alignment explanation
Indices: 374721--374780 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
374711 AACTTAAATC
**
374721 AAAATAATTAAAATAA-AT
1 AAAATAATTTTAATAATAT
*
374739 ATAA-AATTTTAATAATAT
1 AAAATAATTTTAATAATAT
*
374757 AAAATAA-TTTATATGATAT
1 AAAATAATTTTA-ATAATAT
374776 AAAAT
1 AAAAT
374781 TAAATATCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
17 9 0.26
18 12 0.35
19 13 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATAATTTTAATAATAT
Found at i:374798 original size:21 final size:21
Alignment explanation
Indices: 374750--374939 Score: 65
Period size: 21 Copynumber: 9.0 Consensus size: 21
374740 TAAAATTTTA
*
374750 ATAATATAAAA-T-AATTTAT
1 ATAATATAAAATTAAATATAT
* *
374769 ATGATATAAAATTAAATATCT
1 ATAATATAAAATTAAATATAT
* *
374790 ATAATATAATATTAAA-A-AA
1 ATAATATAAAATTAAATATAT
* * ** * *
374809 ATAATATTTAATTTATTTAAAA
1 ATAATA-TAAAATTAAATATAT
*
374831 ATTAATATTAAAATT-AATATCT
1 A-TAATA-TAAAATTAAATATAT
* *
374853 ATAATATAATATTAAA-AAAT
1 ATAATATAAAATTAAATATAT
* *
374873 -TAATATTTAATTTATTTAAA-AAAT
1 ATAATA--TAA---AATTAAATATAT
*
374897 -TAATATTAAAATTAAAATCAAAT
1 ATAATA-TAAAATT-AAAT-ATAT
374920 ATAATATAAAATTAAATATA
1 ATAATATAAAATTAAATATA
374940 AAACCTCTTT
Statistics
Matches: 129, Mismatches: 26, Indels: 30
0.70 0.14 0.16
Matches are distributed among these distances:
19 21 0.16
20 18 0.14
21 35 0.27
22 10 0.08
23 26 0.20
24 19 0.15
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
ATAATATAAAATTAAATATAT
Found at i:374855 original size:63 final size:64
Alignment explanation
Indices: 374775--374930 Score: 257
Period size: 63 Copynumber: 2.5 Consensus size: 64
374765 TTATATGATA
374775 TAAAATTAAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTT-AAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAATTAATAT
*
374839 TAAAATTAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAATTAATAT
*
374903 TAAAATTAAAATC-A-AATATAATA-TAAAA
1 TAAAATTAATATCTATAATATAATATTAAAA
374931 TTAAATATAA
Statistics
Matches: 89, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
61 5 0.06
62 9 0.10
63 44 0.49
64 31 0.35
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (64 bp):
TAAAATTAATATCTATAATATAATATTAAAAAAATAATATTTAATTTATTTAAAAAATTAATAT
Found at i:374864 original size:14 final size:12
Alignment explanation
Indices: 374775--374934 Score: 80
Period size: 12 Copynumber: 12.8 Consensus size: 12
374765 TTATATGATA
374775 TAAAATTAAATAT
1 TAAAATT-AATAT
*
374788 CTATAATATAATAT
1 -TAAAAT-TAATAT
*
374802 TAAAAAAATAATAT
1 T--AAAATTAATAT
* *
374816 T-TAATTTAT-T
1 TAAAATTAATAT
374826 TAAAAATTAATAT
1 T-AAAATTAATAT
374839 TAAAATTAATAT
1 TAAAATTAATAT
*
374851 CTATAATATAATAT
1 -TAAAAT-TAATAT
374865 TAAAAAATTAATAT
1 T--AAAATTAATAT
* *
374879 T-TAATTTAT-T
1 TAAAATTAATAT
374889 TAAAAAATTAATAT
1 T--AAAATTAATAT
*
374903 TAAAATTAA-AA
1 TAAAATTAATAT
*
374914 TCAAATATAATA-
1 TAAAAT-TAATAT
374926 TAAAATTAA
1 TAAAATTAA
374935 ATATAAAACC
Statistics
Matches: 113, Mismatches: 17, Indels: 35
0.68 0.10 0.21
Matches are distributed among these distances:
10 4 0.04
11 20 0.18
12 33 0.29
13 16 0.14
14 32 0.28
15 8 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATTAATAT
Found at i:374883 original size:26 final size:26
Alignment explanation
Indices: 374830--374911 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 26
374820 TTTATTTAAA
374830 AATTAATATT--AAAATTAATATCTAT
1 AATTAATATTAAAAAATTAATAT-TAT
374855 AATATAATATTAAAAAATTAATATT-T
1 AAT-TAATATTAAAAAATTAATATTAT
* *
374881 AATTTAT-TTAAAAAATTAATATTAA
1 AATTAATATTAAAAAATTAATATTAT
374906 AATTAA
1 AATTAA
374912 AATCAAATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 16 0.32
25 11 0.22
26 11 0.22
27 1 0.02
28 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
AATTAATATTAAAAAATTAATATTAT
Found at i:374937 original size:12 final size:12
Alignment explanation
Indices: 374892--374942 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
374882 ATTTATTTAA
374892 AAAATT-AATATT
1 AAAATTAAATA-T
374904 AAAATTAAA-AT
1 AAAATTAAATAT
*
374915 CAAA-TATAATAT
1 AAAATTA-AATAT
374927 AAAATTAAATAT
1 AAAATTAAATAT
374939 AAAA
1 AAAA
374943 CCTCTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:375722 original size:27 final size:28
Alignment explanation
Indices: 375665--375722 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
375655 AGAGGTGCAC
375665 AAAAAATCCGAATATCCGATTTTGGGTAA
1 AAAAAATCCGAATATCCGATTTTGGG-AA
*
375694 AAAATATCCGAA-A-CCGGATTTT-GGAA
1 AAAAAATCCGAATATCC-GATTTTGGGAA
375720 AAA
1 AAA
375723 CTGGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 4 0.15
28 7 0.26
29 11 0.41
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGGGAA
Found at i:375853 original size:28 final size:24
Alignment explanation
Indices: 375793--375856 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 24
375783 AAATTGAACG
*
375793 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATAAAAA
375817 ACCGGTTTTTTTCAAACCGGATAAAAA
1 ACCGGTTTTTTT---ACCGGATAAAAA
375844 ATCCGGTTTTTTT
1 A-CCGGTTTTTTT
375857 TAAAAACCGG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 12 0.34
27 12 0.34
28 11 0.31
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATAAAAA
Found at i:377109 original size:2 final size:2
Alignment explanation
Indices: 377102--377133 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
377092 ATTGTTTTTA
377102 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
377134 TCTCTCAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:385294 original size:21 final size:20
Alignment explanation
Indices: 385265--385322 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
385255 ATTTGTAATG
*
385265 AACTCTAAACTCTAAATCCTA
1 AACTATAAAC-CTAAATCCTA
*
385286 AACTATAAACCTTAAATCTTA
1 AACTATAAACC-TAAATCCTA
*
385307 AAATATAAACCCTAAA
1 AACTATAAA-CCTAAA
385323 CCCTTAACTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (20 bp):
AACTATAAACCTAAATCCTA
Found at i:387034 original size:17 final size:18
Alignment explanation
Indices: 387011--387052 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
387001 TGAATCGAGT
387011 TTTTGAATTTTTTTTGAA
1 TTTTGAATTTTTTTTGAA
387029 -TTTGAA-TTTTTTTGAA
1 TTTTGAATTTTTTTTGAA
387045 TTTTGAAT
1 TTTTGAAT
387053 ATTGATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (18 bp):
TTTTGAATTTTTTTTGAA
Found at i:388625 original size:29 final size:30
Alignment explanation
Indices: 388575--388631 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 30
388565 GAAATTATAA
388575 TAAAATCATATGTAAAATATC-TATAAAAT
1 TAAAATCATATGTAAAATATCTTATAAAAT
388604 TAAAAT-ATATGTTATAAA-ATCTTATAAA
1 TAAAATCATATG-TA-AAATATCTTATAAA
388632 CTTTAGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
28 5 0.20
29 11 0.44
30 9 0.36
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (30 bp):
TAAAATCATATGTAAAATATCTTATAAAAT
Found at i:392388 original size:48 final size:48
Alignment explanation
Indices: 392307--392403 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
392297 TTCTTCATAA
* *
392307 CCTGTAAAAGAGAATAATAGGATGAGAAAAATG-AGTAGTAAACACATT
1 CCTGCAAAAGAGAATAATAGGATCAGAAAAATGAAG-AGTAAACACATT
* * *
392355 CCTGCAAAATAGAATAATGGGATCAGAAAAATGAAGAGTCAACACATT
1 CCTGCAAAAGAGAATAATAGGATCAGAAAAATGAAGAGTAAACACATT
392403 C
1 C
392404 AGGACTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (48 bp):
CCTGCAAAAGAGAATAATAGGATCAGAAAAATGAAGAGTAAACACATT
Found at i:394630 original size:30 final size:29
Alignment explanation
Indices: 394595--394785 Score: 150
Period size: 30 Copynumber: 6.4 Consensus size: 29
394585 TCGTTCCTCG
* *
394595 TTCTGACATATGCATGGGATTAATTTCCCA
1 TTCTGACATCTGCATGGGATTAA-TCCCCA
* * *
394625 TTCTGACATCTTCATGGGATTAATTCCTCG
1 TTCTGACATCTGCATGGGATTAA-TCCCCA
* * *
394655 TTCTGACCTCTGTATGGGATTAGTTCCCCA
1 TTCTGACATCTGCATGGGATTA-ATCCCCA
394685 TTCTGACATCTGCATGGGATTAGATCCCCA
1 TTCTGACATCTGCATGGGATTA-ATCCCCA
* ** * * * *
394715 TTCTAACATCTATATGAGATTAGTTCTCCG
1 TTCTGACATCTGCATGGGATTA-ATCCCCA
* * *
394745 TTCTGACATCTGTATGAGATTATATCTCCA
1 TTCTGACATCTGCATGGGATTA-ATCCCCA
*
394775 TCCTGAC-TCTG
1 TTCTGACATCTG
394786 TTTGGGATCC
Statistics
Matches: 133, Mismatches: 27, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
29 4 0.03
30 129 0.97
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (29 bp):
TTCTGACATCTGCATGGGATTAATCCCCA
Found at i:394661 original size:60 final size:60
Alignment explanation
Indices: 394588--394706 Score: 184
Period size: 60 Copynumber: 2.0 Consensus size: 60
394578 TGAGACCTCG
* *
394588 TTCCTCGTTCTGACATATGCATGGGATTAATTTCCCATTCTGACATCTTCATGGGATTAA
1 TTCCTCGTTCTGACATATGCATGGGATTAATTCCCCATTCTGACATCTGCATGGGATTAA
* * * *
394648 TTCCTCGTTCTGACCTCTGTATGGGATTAGTTCCCCATTCTGACATCTGCATGGGATTA
1 TTCCTCGTTCTGACATATGCATGGGATTAATTCCCCATTCTGACATCTGCATGGGATTA
394707 GATCCCCATT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (60 bp):
TTCCTCGTTCTGACATATGCATGGGATTAATTCCCCATTCTGACATCTGCATGGGATTAA
Found at i:394690 original size:90 final size:90
Alignment explanation
Indices: 394595--394766 Score: 233
Period size: 90 Copynumber: 1.9 Consensus size: 90
394585 TCGTTCCTCG
* * *
394595 TTCTGACATATGCATGGGATTA-ATTTCCCATTCTGACATCT-TCATGGGATTAATTC-CTCGTT
1 TTCTGACATATGCATGGGATTAGA-TCCCCATTCTAACATCTAT-ATGAGATTAATTCTC-CGTT
* *
394657 CTGACCTCTGTATGGGATTAGTTCCCCA
63 CTGACATCTGTATGAGATTAGTTCCCCA
* *
394685 TTCTGACATCTGCATGGGATTAGATCCCCATTCTAACATCTATATGAGATTAGTTCTCCGTTCTG
1 TTCTGACATATGCATGGGATTAGATCCCCATTCTAACATCTATATGAGATTAATTCTCCGTTCTG
394750 ACATCTGTATGAGATTA
66 ACATCTGTATGAGATTA
394767 TATCTCCATC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 69 0.96
91 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.37
Consensus pattern (90 bp):
TTCTGACATATGCATGGGATTAGATCCCCATTCTAACATCTATATGAGATTAATTCTCCGTTCTG
ACATCTGTATGAGATTAGTTCCCCA
Found at i:394736 original size:60 final size:59
Alignment explanation
Indices: 394612--394775 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 59
394602 ATATGCATGG
* * * * * * * * *
394612 GATTAATTTCCCATTCTGACATCTTCATGGGATTAATTCCTCGTTCTGACCTCTGTATGG
1 GATTAGTTCCCCATTCTGACATCTGCATGGGATTAA-TCCCCATTCTAACATCTATATGA
394672 GATTAGTTCCCCATTCTGACATCTGCATGGGATTAGATCCCCATTCTAACATCTATATGA
1 GATTAGTTCCCCATTCTGACATCTGCATGGGATTA-ATCCCCATTCTAACATCTATATGA
* * * * *
394732 GATTAGTTCTCCGTTCTGACATCTGTATGAGATTATATCTCCAT
1 GATTAGTTCCCCATTCTGACATCTGCATGGGATTA-ATCCCCAT
394776 CCTGACTCTG
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 87 0.99
61 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (59 bp):
GATTAGTTCCCCATTCTGACATCTGCATGGGATTAATCCCCATTCTAACATCTATATGA
Found at i:394781 original size:90 final size:90
Alignment explanation
Indices: 394597--394785 Score: 226
Period size: 90 Copynumber: 2.1 Consensus size: 90
394587 GTTCCTCGTT
* * * *
394597 CTGACATATGCATGGGATTAATTTCCCATTCTGACATCTTCATGGGATTAATTCCTCGTTCTGAC
1 CTGACATCTGCATGGGATTAATTCCCCATTCTAACATCTTCATGAGATTAATTCCTCGTTCTGAC
* * *
394662 CTCTGTATGGGATTAGTTCCCCATT
66 ATCTGTATGAGATTAGTTCCCCATC
*
394687 CTGACATCTGCATGGGATTAGA-TCCCCATTCTAACATCTAT-ATGAGATTAGTT-CTCCGTTCT
1 CTGACATCTGCATGGGATTA-ATTCCCCATTCTAACATCT-TCATGAGATTAATTCCT-CGTTCT
*
394749 GACATCTGTATGAGATTA-TATCTCCATC
63 GACATCTGTATGAGATTAGT-TCCCCATC
394777 CTGAC-TCTG
1 CTGACATCTG
394786 TTTGGGATCC
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
89 7 0.08
90 77 0.90
91 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (90 bp):
CTGACATCTGCATGGGATTAATTCCCCATTCTAACATCTTCATGAGATTAATTCCTCGTTCTGAC
ATCTGTATGAGATTAGTTCCCCATC
Found at i:402254 original size:53 final size:52
Alignment explanation
Indices: 402175--402285 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
402165 AGTACAAATA
* * * *
402175 AAATTTCAGGTGGACTCCGTCCGTAAAATAATTAACTAATCGAAAAAAACTC
1 AAATTTCAGGTGGACACCATCAGTAAAATAAATAACTAATCGAAAAAAACTC
* * * *
402227 AAATTTCATTGTGGACACCATCAGTAAAATAAATAATTAATCGAAGAAAATTC
1 AAATTTCA-GGTGGACACCATCAGTAAAATAAATAACTAATCGAAAAAAACTC
402280 AAATTT
1 AAATTT
402286 GTGCCCATAC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
52 8 0.16
53 42 0.84
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (52 bp):
AAATTTCAGGTGGACACCATCAGTAAAATAAATAACTAATCGAAAAAAACTC
Found at i:406990 original size:20 final size:21
Alignment explanation
Indices: 406947--406990 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
406937 GGTAAAAAAA
* *
406947 TTACCTAAAACATTATTATTT
1 TTACCTAAAACATCAATATTT
406968 TTACCTAAAACATCAAT-TTT
1 TTACCTAAAACATCAATATTT
406988 TTA
1 TTA
406991 ACATTTCCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (21 bp):
TTACCTAAAACATCAATATTT
Found at i:408236 original size:2 final size:2
Alignment explanation
Indices: 408231--408257 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
408221 GTGTTGTGTG
408231 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
408258 AACATAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:408788 original size:32 final size:30
Alignment explanation
Indices: 408747--408834 Score: 81
Period size: 32 Copynumber: 2.8 Consensus size: 30
408737 AGTCGAGGGT
408747 TTACCTATGTTCTACAGAACATATGGACAGAA
1 TTACCTATGTTCTACAGAACATATGG--AGAA
* * * *
408779 TTACCTATG-TCTTTCGGGACATATGGATAA
1 TTACCTATGTTC-TACAGAACATATGGAGAA
408809 TATACCTATGTTCTA-AGGAACATATG
1 T-TACCTATGTTCTACA-GAACATATG
408835 AACATTTTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
30 4 0.09
31 19 0.42
32 22 0.49
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTACAGAACATATGGAGAA
Found at i:409101 original size:16 final size:17
Alignment explanation
Indices: 409048--409101 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
409038 ATGTACAGAA
*
409048 ATGATAAATACAAGATCAT
1 ATGATAAATA-GAGAT-AT
409067 ATGATAAATAGAGAT-T
1 ATGATAAATAGAGATAT
409083 ATGAT-AAT-GATGATAT
1 ATGATAAATAGA-GATAT
409099 ATG
1 ATG
409102 TGCATGTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.06
15 6 0.19
16 10 0.31
18 4 0.12
19 10 0.31
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (17 bp):
ATGATAAATAGAGATAT
Found at i:418927 original size:16 final size:16
Alignment explanation
Indices: 418906--418939 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
418896 TAGTCATTTG
418906 TTATCGTAAATTTTCA
1 TTATCGTAAATTTTCA
418922 TTATCGTAAATTTTCA
1 TTATCGTAAATTTTCA
418938 TT
1 TT
418940 CCCACTAGAT
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:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (16 bp):
TTATCGTAAATTTTCA
Found at i:421855 original size:192 final size:192
Alignment explanation
Indices: 421516--421905 Score: 606
Period size: 192 Copynumber: 2.0 Consensus size: 192
421506 TACTTCGTGG
* * *
421516 TTAAATGAATTTTTTTTGTTCTTAGAGGTCACGAGTTTTTAATATCAGTGACTATAGCATGATGA
1 TTAAAGGAATTATTTTTGTTCTTAGAGGTCACAAGTTTTTAATATCAGTGACTATAGCATGATGA
* *
421581 TTGAGCGTACATTGTCAAACTGTTTATTTTTTCCTTATATTTTTTTTTGTTATAAATTCTAGATC
66 TTGAGCGTACATTGTCAAACTGTTTATTTTTTCCTTATA-TTTTTTTTGTTATAAAGTATAGATC
*
421646 TATTAGAAATATTCTCCTTTTT-TTAGGGTCTTCCTTCCCCTCCTCTTTAAGTAAGACTAAAA
130 AATTAGAAATATTCTCCTTTTTCTTAGGGTCTTCCTTCCCCTCCTCTTTAAGTAAGACTAAAA
* *
421708 TTAAAGGAATTATTTTTGTTCTTAGAGGTCACAAGTTTTTTATATCAGTGATTATAGCA-GAGTG
1 TTAAAGGAATTATTTTTGTTCTTAGAGGTCACAAGTTTTTAATATCAGTGACTATAGCATGA-TG
* * *
421772 ATTGAGCGTTCATTGTCAAGCTGTTTATTTTTTTTCCTTATA-TTTTTTTGTTATAAAGTATATA
65 ATTGAGCGTACATTGTCAAACTGTTTA--TTTTTTCCTTATATTTTTTTTGTTATAAAGTATAGA
* *
421836 TCAATTAGAAATATTCTCCTTTTTCTTAGGGTTTTCCTTCCTCTCCTCTTTAAGTAAGACTAAAA
128 TCAATTAGAAATATTCTCCTTTTTCTTAGGGTCTTCCTTCCCCTCCTCTTTAAGTAAGACTAAAA
421901 TTAAA
1 TTAAA
421906 TTTAAATTTC
Statistics
Matches: 181, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
191 2 0.01
192 123 0.68
193 43 0.24
194 13 0.07
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (192 bp):
TTAAAGGAATTATTTTTGTTCTTAGAGGTCACAAGTTTTTAATATCAGTGACTATAGCATGATGA
TTGAGCGTACATTGTCAAACTGTTTATTTTTTCCTTATATTTTTTTTGTTATAAAGTATAGATCA
ATTAGAAATATTCTCCTTTTTCTTAGGGTCTTCCTTCCCCTCCTCTTTAAGTAAGACTAAAA
Found at i:424586 original size:2 final size:2
Alignment explanation
Indices: 424581--424626 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
424571 TATGATATAT
* *
424581 GA GA GA GA GA GA GA GA GA TA GA TA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
424623 GA GA
1 GA GA
424627 CGTATGACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.46, T:0.04
Consensus pattern (2 bp):
GA
Found at i:435079 original size:2 final size:2
Alignment explanation
Indices: 435072--435107 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
435062 TTACATGTTA
435072 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
435108 TTTTTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:437047 original size:19 final size:19
Alignment explanation
Indices: 437020--437088 Score: 129
Period size: 19 Copynumber: 3.6 Consensus size: 19
437010 ATGCCATTTA
*
437020 TGCACCGATGCATAGGTAG
1 TGCATCGATGCATAGGTAG
437039 TGCATCGATGCATAGGTAG
1 TGCATCGATGCATAGGTAG
437058 TGCATCGATGCATAGGTAG
1 TGCATCGATGCATAGGTAG
437077 TGCATCGATGCA
1 TGCATCGATGCA
437089 CCGATAGGGA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (19 bp):
TGCATCGATGCATAGGTAG
Found at i:437068 original size:38 final size:38
Alignment explanation
Indices: 437019--437133 Score: 131
Period size: 38 Copynumber: 2.9 Consensus size: 38
437009 AATGCCATTT
* *
437019 ATGCACCGATGCATAGGTAGTGCATCGATGCATAGGTA
1 ATGCATCGATGCATAGGTAGTGCATCGATGCATAGGGA
*
437057 GTGCATCGATGCATAGGTAGTGCATCGATGCACCGATAGGGA
1 ATGCATCGATGCATAGGTAGTGCATCGATG---C-ATAGGGA
* **
437099 ATGCATCGATACACTATATAGTGCATCGATGCATA
1 ATGCATCGATGCA-TAGGTAGTGCATCGATGCATA
437134 CCTTCATTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
38 28 0.43
39 3 0.05
40 1 0.02
41 1 0.02
42 17 0.26
43 15 0.23
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
ATGCATCGATGCATAGGTAGTGCATCGATGCATAGGGA
Found at i:437790 original size:23 final size:23
Alignment explanation
Indices: 437746--437790 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
437736 ATTATTATAT
* *
437746 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGATGCAATTATACGC
* *
437769 GGCACTTCGATGCATTTATACG
1 GGCACTACGATGCAATTATACG
437791 AGCTGTGGTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (23 bp):
GGCACTACGATGCAATTATACGC
Found at i:438524 original size:30 final size:30
Alignment explanation
Indices: 438483--438549 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
438473 CAACCCAATT
* * *
438483 CAATTTGTAACAAATGAT-ACTGTTAATGAC
1 CAATTTATAACAAACGATAAC-GATAATGAC
*
438513 CAATTTATAACAAACGATAACGATAGTGAC
1 CAATTTATAACAAACGATAACGATAATGAC
438543 CAATTTA
1 CAATTTA
438550 CGTAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (30 bp):
CAATTTATAACAAACGATAACGATAATGAC
Found at i:442748 original size:31 final size:31
Alignment explanation
Indices: 442710--442801 Score: 121
Period size: 31 Copynumber: 3.0 Consensus size: 31
442700 ATTTAATCAT
*
442710 TTTCGTTTCGTTTTAGTTAATATTTGGTCAC
1 TTTCGTTTCGTTTTAGTTAAAATTTGGTCAC
442741 TTTCGTTTCGTTTTAGTTAAAATTTGGTCAC
1 TTTCGTTTCGTTTTAGTTAAAATTTGGTCAC
** * * * *
442772 TTTTATTTTGTTTTAATTAAGATGTGGTCA
1 TTTCGTTTCGTTTTAGTTAAAATTTGGTCA
442802 TTGAAGGTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.20, C:0.10, G:0.16, T:0.54
Consensus pattern (31 bp):
TTTCGTTTCGTTTTAGTTAAAATTTGGTCAC
Found at i:442998 original size:31 final size:31
Alignment explanation
Indices: 442961--443038 Score: 120
Period size: 31 Copynumber: 2.5 Consensus size: 31
442951 TTAAAAAACA
*
442961 TAAGTTTTGGTCACTTAAGTTATTGTTTTAT
1 TAAGTTTTGGTCACTTAAGTTATTATTTTAT
* *
442992 TAAGTTTTGGTCACATATGTTATTATTTTAT
1 TAAGTTTTGGTCACTTAAGTTATTATTTTAT
*
443023 TAAGTTTTGATCACTT
1 TAAGTTTTGGTCACTT
443039 GGACGTTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.24, C:0.08, G:0.14, T:0.54
Consensus pattern (31 bp):
TAAGTTTTGGTCACTTAAGTTATTATTTTAT
Found at i:444949 original size:2 final size:2
Alignment explanation
Indices: 444944--444972 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
444934 CTCAGGCTAG
444944 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 T
444973 TCTTAAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:451200 original size:16 final size:16
Alignment explanation
Indices: 451179--451211 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
451169 TAGCAATGAG
*
451179 ACGAGTAACGAGCTTA
1 ACGAGTAACGAACTTA
451195 ACGAGTAACGAACTTA
1 ACGAGTAACGAACTTA
451211 A
1 A
451212 TGAACACAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (16 bp):
ACGAGTAACGAACTTA
Found at i:459879 original size:42 final size:42
Alignment explanation
Indices: 459767--459968 Score: 144
Period size: 42 Copynumber: 4.7 Consensus size: 42
459757 GGGCTTAAAC
* *
459767 TATAAAAGTAAAAAGT-ATGATTGAAAAAAAATTAGGG-ACCCAAT
1 TATAAAGGTAAAAAGTGA-GATTG-AAAAAAA-TAGGGCA-TCAAT
* * *
459811 TATAAAGATAAAAAGAGATATT-AAAAAAATAGGGCATCAAT
1 TATAAAGGTAAAAAGTGAGATTGAAAAAAATAGGGCATCAAT
* * *
459852 TATAAAGGTAAAAAGTGAGATTGAAAAAAGAAAGAGC-TTAAT
1 TATAAAGGTAAAAAGTGAGATTGAAAAAA-ATAGGGCATCAAT
* * ** *
459894 TATAAAGGT-ATAAGTTGGGATTGAAAAACTTAGGATCATCAAT
1 TATAAAGGTAAAAAG-TGAGATTGAAAAAAATAGG-GCATCAAT
* * * *
459937 TATAAAAGTAAAAAAATGGGATTTAAAAAAAT
1 TATAAAGGT-AAAAAGTGAGATTGAAAAAAAT
459969 TAAGTGCCCT
Statistics
Matches: 124, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
41 34 0.27
42 40 0.32
43 17 0.14
44 29 0.23
45 4 0.03
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.24
Consensus pattern (42 bp):
TATAAAGGTAAAAAGTGAGATTGAAAAAAATAGGGCATCAAT
Found at i:461614 original size:15 final size:15
Alignment explanation
Indices: 461580--461626 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
461570 ATTAACAAAT
461580 AATAAACAAACTAAA
1 AATAAACAAACTAAA
* * *
461595 TATAAACACATTAAA
1 AATAAACAAACTAAA
*
461610 AATAAGCAAA-TAAA
1 AATAAACAAACTAAA
461624 AAT
1 AAT
461627 TAATAAAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.68, C:0.11, G:0.02, T:0.19
Consensus pattern (15 bp):
AATAAACAAACTAAA
Found at i:465107 original size:12 final size:12
Alignment explanation
Indices: 465079--465124 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
465069 TGTGAATAAA
465079 ATATA-TAAT-T
1 ATATATTAATAT
465089 A-ATATTAATAT
1 ATATATTAATAT
465100 ATATATTAATAT
1 ATATATTAATAT
*
465112 ATAT-TTGATAT
1 ATATATTAATAT
465123 AT
1 AT
465125 TTTCAATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 3 0.09
10 5 0.16
11 10 0.31
12 14 0.44
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (12 bp):
ATATATTAATAT
Found at i:465377 original size:19 final size:19
Alignment explanation
Indices: 465353--465412 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
465343 AACTCCAATT
465353 TCGCAACCCAATTTGTAAA
1 TCGCAACCCAATTTGTAAA
* **
465372 TCGCAACAC-ATAAGTCAAA
1 TCGCAACCCAATTTGT-AAA
*
465391 TCGCAACGCGAATTTGTAAA
1 TCGCAAC-CCAATTTGTAAA
465411 TC
1 TC
465413 ACAATGTGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 4 0.13
19 18 0.58
20 5 0.16
21 4 0.13
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.23
Consensus pattern (19 bp):
TCGCAACCCAATTTGTAAA
Found at i:465472 original size:21 final size:21
Alignment explanation
Indices: 465446--465585 Score: 188
Period size: 19 Copynumber: 7.0 Consensus size: 21
465436 AACAAAGAAG
*
465446 TCAAATTTGCAACACTGAATT
1 TCAAATTCGCAACACTGAATT
465467 TCAAATTCGCAACACTGAATT
1 TCAAATTCGCAACACTGAATT
465488 TCAAATTCGC-A-ACTGAATT
1 TCAAATTCGCAACACTGAATT
465507 TCAAATTCGC-A-ACTGAATT
1 TCAAATTCGCAACACTGAATT
465526 TCAAATTCGC-A-ACTGAATT
1 TCAAATTCGCAACACTGAATT
* *
465545 TCAAATTCGCAACTC-GATTT
1 TCAAATTCGCAACACTGAATT
*
465565 TCGAATTCGCAACAC-GAATT
1 TCAAATTCGCAACACTGAATT
465585 T
1 T
465586 AATTTCACAA
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
19 56 0.50
20 24 0.22
21 31 0.28
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (21 bp):
TCAAATTCGCAACACTGAATT
Found at i:465504 original size:19 final size:19
Alignment explanation
Indices: 465459--465577 Score: 193
Period size: 19 Copynumber: 6.1 Consensus size: 19
465449 AATTTGCAAC
465459 ACTGAATTTCAAATTCGCAA
1 ACTGAATTTCAAATTCGC-A
465479 CACTGAATTTCAAATTCGCA
1 -ACTGAATTTCAAATTCGCA
465499 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGCA
465518 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGCA
465537 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGCA
* *
465556 ACTCGATTTTCGAATTCGCA
1 ACT-GAATTTCAAATTCGCA
465576 AC
1 AC
465578 ACGAATTTAA
Statistics
Matches: 95, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
19 60 0.63
20 17 0.18
21 18 0.19
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (19 bp):
ACTGAATTTCAAATTCGCA
Found at i:466538 original size:24 final size:24
Alignment explanation
Indices: 466511--466556 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
466501 TATTTGAAAT
466511 TTGATATTAGTCAATACCCGGACA
1 TTGATATTAGTCAATACCCGGACA
* * *
466535 TTGATCTTGGTCAATACTCGGA
1 TTGATATTAGTCAATACCCGGA
466557 TTTTGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (24 bp):
TTGATATTAGTCAATACCCGGACA
Found at i:466562 original size:24 final size:24
Alignment explanation
Indices: 466510--466563 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
466500 GTATTTGAAA
466510 TTTGATATTAGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCGGAC
* * * * *
466534 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATATTAGTCAATACCCGGAC
466558 TTTGAT
1 TTTGAT
466564 GATGTTTCAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCGGAC
Found at i:466747 original size:3 final size:3
Alignment explanation
Indices: 466739--466765 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
466729 TATAACCCTA
466739 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
466766 TCCCCGAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:469395 original size:37 final size:35
Alignment explanation
Indices: 469345--469462 Score: 108
Period size: 37 Copynumber: 3.5 Consensus size: 35
469335 CAAATCAACT
469345 TTTACAAATCAATTAAAATAGCAAAAAATAAGTCTTA
1 TTTACAAATCAATTAAAA-AGCAAAAAATAA-TCTTA
* *
469382 TTTACACATCAATT--AAA-C---AAATAAAC-T-
1 TTTACAAATCAATTAAAAAGCAAAAAATAATCTTA
469409 TTTACAAATCAATTAAACAAGCAAAAAATAATTCTTA
1 TTTACAAATCAATTAAA-AAGCAAAAAATAA-TCTTA
**
469446 TTTACTCATCAATTAAA
1 TTTACAAATCAATTAAA
469463 CAAATCAACT
Statistics
Matches: 65, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
27 13 0.20
28 1 0.02
29 2 0.03
30 8 0.12
31 1 0.02
33 1 0.02
34 7 0.11
35 3 0.05
36 1 0.02
37 28 0.43
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (35 bp):
TTTACAAATCAATTAAAAAGCAAAAAATAATCTTA
Found at i:469432 original size:64 final size:64
Alignment explanation
Indices: 469333--469492 Score: 259
Period size: 64 Copynumber: 2.5 Consensus size: 64
469323 TTGAATAAAC
469333 AACAAATCAACTTTTACAAATCAATTAAAATAGCAAAAAATAAGTCTTATTTACACATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAAATAGCAAAAAATAAGTCTTATTTACACATCAATTA
* * *
469397 AACAAATAAACTTTTACAAATCAATTAAACA-AGCAAAAAATAATTCTTATTTACTCATCAATTA
1 AACAAATCAACTTTTACAAATCAATTAAA-ATAGCAAAAAATAAGTCTTATTTACACATCAATTA
*
469461 AACAAATCAACTTTTAAAAATCAATGTAAAAT
1 AACAAATCAACTTTTACAAATCAAT-TAAAAT
469493 TCAATTAAAC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
64 83 0.94
65 5 0.06
ACGTcount: A:0.53, C:0.15, G:0.03, T:0.30
Consensus pattern (64 bp):
AACAAATCAACTTTTACAAATCAATTAAAATAGCAAAAAATAAGTCTTATTTACACATCAATTA
Found at i:470899 original size:21 final size:21
Alignment explanation
Indices: 470875--470942 Score: 84
Period size: 21 Copynumber: 3.2 Consensus size: 21
470865 GGGAGAGACA
*
470875 TCTTGAACGATGACAGGGGCC
1 TCTTGAACGATGAGAGGGGCC
* *
470896 TCTTGAATTG-TGGGAGAGGGCC
1 TCTTGAA-CGATGAGAG-GGGCC
470918 TCTTGAACGATGAGAGGGGCC
1 TCTTGAACGATGAGAGGGGCC
470939 TCTT
1 TCTT
470943 TAATGATAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
21 21 0.54
22 18 0.46
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.25
Consensus pattern (21 bp):
TCTTGAACGATGAGAGGGGCC
Found at i:470900 original size:42 final size:43
Alignment explanation
Indices: 470853--470942 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
470843 GTGAATCGGG
470853 CTCTTGAACGGTGGGAGA-GACATCTTGAACGATGACAGGGGC
1 CTCTTGAACGGTGGGAGAGGACATCTTGAACGATGACAGGGGC
** * * *
470895 CTCTTGAATTGTGGGAGAGGGCCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGGTGGGAGAGGACATCTTGAACGATGACAGGGGC
470938 CTCTT
1 CTCTT
470943 TAATGATAGG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 16 0.38
43 26 0.62
ACGTcount: A:0.22, C:0.19, G:0.36, T:0.23
Consensus pattern (43 bp):
CTCTTGAACGGTGGGAGAGGACATCTTGAACGATGACAGGGGC
Found at i:471278 original size:21 final size:21
Alignment explanation
Indices: 471253--471301 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
471243 GAAACAATCT
* *
471253 CACGTAGAGCGGCTACCTCAC
1 CACGTAGAGCAGATACCTCAC
* *
471274 CACGTAAAGTAGATACCTCAC
1 CACGTAGAGCAGATACCTCAC
471295 CACGTAG
1 CACGTAG
471302 CGCACCATTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.16
Consensus pattern (21 bp):
CACGTAGAGCAGATACCTCAC
Found at i:471417 original size:63 final size:63
Alignment explanation
Indices: 471287--471426 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 63
471277 GTAAAGTAGA
* * * * *
471287 TACCTCACCACGTAGCGCACCATTGTCATCGCGTAAAATATCCACCTCACCATGTAAAGACCG
1 TACCTCATCACGTAGCGCACCACTGTCATCACGTAAAATATCCACCTCACCACGCAAAGACCG
* * * **
471350 TACCTCGTCACGTAGCGCACCACTGTCTTCACGTAAAGTA-CCAACCTCATGACGCAAAGCACC-
1 TACCTCATCACGTAGCGCACCACTGTCATCACGTAAAATATCC-ACCTCACCACGCAAAG-ACCG
471413 TACCTCATCACGTA
1 TACCTCATCACGTA
471427 ACTCCCCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 2 0.03
63 59 0.92
64 3 0.05
ACGTcount: A:0.29, C:0.36, G:0.14, T:0.21
Consensus pattern (63 bp):
TACCTCATCACGTAGCGCACCACTGTCATCACGTAAAATATCCACCTCACCACGCAAAGACCG
Found at i:473168 original size:20 final size:20
Alignment explanation
Indices: 473126--473168 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
473116 CGAAACTAAA
* * *
473126 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGAATTTAAGT
*
473146 TTCGTGTTGCGAATTTAAGT
1 TTCGCGTTGCGAATTTAAGT
473166 TTC
1 TTC
473169 AAAAACTATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.49
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTAAGT
Found at i:473515 original size:26 final size:26
Alignment explanation
Indices: 473486--473545 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
473476 GGTTGCTATG
*
473486 AGAGATGGAGATAGACGGATTTCGTC
1 AGAGATGGAGATAGACGAATTTCGTC
473512 AGAGATGGAGATAGACGAATTTCGTC
1 AGAGATGGAGATAGACGAATTTCGTC
473538 AGAGATGG
1 AGAGATGG
473546 GGACGGATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.22
Consensus pattern (26 bp):
AGAGATGGAGATAGACGAATTTCGTC
Found at i:473701 original size:20 final size:20
Alignment explanation
Indices: 473676--473714 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
473666 ATAAATGCGC
473676 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
473696 TTTGACTTCTGTGTTGCGA
1 TTTGACTTCTGTGTTGCGA
473715 TTTATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.13, C:0.15, G:0.26, T:0.46
Consensus pattern (20 bp):
TTTGACTTCTGTGTTGCGAA
Found at i:473748 original size:21 final size:21
Alignment explanation
Indices: 473731--473771 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
473721 AATTCGCGTT
*
473731 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTAGAAAATCGCAAC
*
473752 GCGAATTTAGAAAATTGCAA
1 GCGAATTTAGAAAATCGCAA
473772 TGTGATTCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (21 bp):
GCGAATTTAGAAAATCGCAAC
Found at i:475908 original size:30 final size:30
Alignment explanation
Indices: 475879--475964 Score: 84
Period size: 31 Copynumber: 2.8 Consensus size: 30
475869 ATTAAAATTA
*
475879 TTGATTTTTTAGTCTAAAAATTTAGAATTAAT
1 TTGATATTTTA-TC-AAAAATTTAGAATTAAT
*
475911 TTGATATTTTATCAAAAATTTAAAAATTAA-
1 TTGATATTTTATCAAAAATTT-AGAATTAAT
* **
475941 ATGTATATTTTATTTAAAATTTAG
1 TTG-ATATTTTATCAAAAATTTAG
475965 GATTCAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
30 11 0.24
31 25 0.54
32 10 0.22
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (30 bp):
TTGATATTTTATCAAAAATTTAGAATTAAT
Found at i:477142 original size:21 final size:20
Alignment explanation
Indices: 477115--477213 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
477105 AATCAGTTTC
477115 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
477136 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
477157 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
477177 CCAGAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
477198 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
477214 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 15 0.25
21 44 0.75
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:477242 original size:20 final size:20
Alignment explanation
Indices: 477181--477409 Score: 230
Period size: 20 Copynumber: 11.4 Consensus size: 20
477171 GATTTTCCAG
* ** *
477181 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
477201 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
477221 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
477241 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
477261 AATAGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
477281 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
477301 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
477321 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
477341 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
477361 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
477381 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
477401 AATCACAAC
1 AATCGCAAC
477410 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 171 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:478139 original size:24 final size:24
Alignment explanation
Indices: 478100--478146 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
478090 AAATTTGGTC
478100 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
478124 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
478147 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:478338 original size:12 final size:12
Alignment explanation
Indices: 478321--478345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
478311 ATATAATCCT
478321 GAAGAAGAAAAA
1 GAAGAAGAAAAA
478333 GAAGAAGAAAAA
1 GAAGAAGAAAAA
478345 G
1 G
478346 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:479531 original size:20 final size:20
Alignment explanation
Indices: 479500--479606 Score: 104
Period size: 19 Copynumber: 5.7 Consensus size: 20
479490 TTTTGGTTGA
479500 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
479520 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
479540 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
479559 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
*
479574 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
479593 AATGAAAATCGCAA
1 AATGAAAATCGCAA
479607 TGCGATTTTG
Statistics
Matches: 74, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 30 0.41
20 17 0.23
21 12 0.16
ACGTcount: A:0.47, C:0.19, G:0.23, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:479552 original size:21 final size:21
Alignment explanation
Indices: 479498--479562 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
479488 TCTTTTGGTT
479498 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
479519 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
479539 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
479560 GAA
1 GAA
479563 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:479655 original size:33 final size:33
Alignment explanation
Indices: 479607--479686 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
479597 AAAATCGCAA
** * *
479607 TGCGATTTTGGTTTCGCATTGCGATTCTCTGGT
1 TGCGATTTTCATTTCGCATTGCGAATCTCTCGT
*
479640 TGCGATTTTCATTTCGCGTTGCGAATCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGAATCTCTCGT
*
479673 TGTGATTTTCATTT
1 TGCGATTTTCATTT
479687 TTCTCGTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGAATCTCTCGT
Found at i:479738 original size:21 final size:21
Alignment explanation
Indices: 479665--479740 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
479655 GCGTTGCGAA
*
479665 TCTCTCGTTGTGATTTTCATT
1 TCTCTCGTTGCGATTTTCATT
* **
479686 TTTCTCGTTGCAGATAGTCATT
1 TCTCTCGTTGC-GATTTTCATT
*
479708 T-TCACGTTGCGATTTTCATT
1 TCTCTCGTTGCGATTTTCATT
479728 TCTCTCGTTGCGA
1 TCTCTCGTTGCGA
479741 CTCTTCTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 9 0.20
21 27 0.60
22 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (21 bp):
TCTCTCGTTGCGATTTTCATT
Found at i:479862 original size:33 final size:33
Alignment explanation
Indices: 479820--479890 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
479810 AATACTAACT
479820 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* * *
479853 TGAAAATCGCAACGAGAGAATCGTAATGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
479886 TGAAA
1 TGAAA
479891 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.15, G:0.24, T:0.13
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:480295 original size:20 final size:20
Alignment explanation
Indices: 480270--480462 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
480260 CTTTAAAAAT
*
480270 CGCGTTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
*
480290 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
* **
480310 TGTCGTTATGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
480331 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
480351 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
480371 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
480391 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
480411 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
480431 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
480451 CGCGTTGCGATT
1 CGCGTTGCGATT
480463 CTGGAAAATC
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
20 132 0.90
21 15 0.10
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:480515 original size:21 final size:21
Alignment explanation
Indices: 480491--480548 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
480481 AATTTGTACT
*
480491 ATCGCATTGCGATTTTCAAGA
1 ATCGCGTTGCGATTTTCAAGA
480512 ATCGCGTTGCGATTTTCAAGA
1 ATCGCGTTGCGATTTTCAAGA
480533 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
480549 GGAAACTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTTTCAAGA
Found at i:485336 original size:37 final size:37
Alignment explanation
Indices: 485278--485351 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
485268 GATATGGAGG
* *
485278 ATTTTATGTTGGAAACGAACTTATAATATTATAAAAC
1 ATTTTATGTTGGAAACAAACTTATAATAATATAAAAC
*
485315 ATTTTATGTTGTAAACAAACTTATAATAATATAAAAC
1 ATTTTATGTTGGAAACAAACTTATAATAATATAAAAC
485352 GGATAAACTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (37 bp):
ATTTTATGTTGGAAACAAACTTATAATAATATAAAAC
Found at i:490558 original size:2 final size:2
Alignment explanation
Indices: 490553--490643 Score: 182
Period size: 2 Copynumber: 45.5 Consensus size: 2
490543 TACTCTACAC
490553 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
490595 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
490637 AT AT AT A
1 AT AT AT A
490644 AATTAGAAGA
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:491163 original size:27 final size:27
Alignment explanation
Indices: 491125--491321 Score: 243
Period size: 27 Copynumber: 7.3 Consensus size: 27
491115 CATTATAACA
* *
491125 ACCGGCCTCCCCACCAGCAATTCGATT
1 ACCGGCCTCCCCACCCGCAATTCGATC
*
491152 ACCGGCCTCCCCACCCGCAATTTGATC
1 ACCGGCCTCCCCACCCGCAATTCGATC
*
491179 ACCGGCCTCCCCACCCGCAATTTGATC
1 ACCGGCCTCCCCACCCGCAATTCGATC
491206 ACCGGCCTCCCCACCCGCAATTCGATC
1 ACCGGCCTCCCCACCCGCAATTCGATC
*
491233 ACCGGCCTCCTCACCCGCAATTCGATC
1 ACCGGCCTCCCCACCCGCAATTCGATC
* * * *
491260 ACCGGCC-CACCCAGCAGCCATTCGAAC
1 ACCGGCCTC-CCCACCCGCAATTCGATC
** * * * *
491287 ACCGGCCTAGCCAGCAGCCATTCGAAC
1 ACCGGCCTCCCCACCCGCAATTCGATC
491314 ACCGGCCT
1 ACCGGCCT
491322 AGCCAGCATC
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
26 1 0.01
27 155 0.99
ACGTcount: A:0.21, C:0.47, G:0.17, T:0.15
Consensus pattern (27 bp):
ACCGGCCTCCCCACCCGCAATTCGATC
Done.