Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 20
Found at i:4148 original size:33 final size:33
Alignment explanation
Indices: 4083--4149 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
4073 TTTCACATAA
* **
4083 TGTATCAATACATTGCAAGGTGTATCGTTACAT
1 TGTATCAATACATTGCAAGATGTATCAATACAT
* * *
4116 TGTATCGATACATTGCCATATGTATCAATACAT
1 TGTATCAATACATTGCAAGATGTATCAATACAT
4149 T
1 T
4150 TTCATGTGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATCAATACATTGCAAGATGTATCAATACAT
Found at i:4232 original size:20 final size:20
Alignment explanation
Indices: 4207--4247 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
4197 GTCAACCATA
4207 TGTATCAATAAAAATAGTAT
1 TGTATCAATAAAAATAGTAT
* *
4227 TGTATCGATACAAATAGTAT
1 TGTATCAATAAAAATAGTAT
4247 T
1 T
4248 TATACTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTATCAATAAAAATAGTAT
Found at i:8138 original size:104 final size:104
Alignment explanation
Indices: 7955--8147 Score: 298
Period size: 104 Copynumber: 1.9 Consensus size: 104
7945 GAAAAGTTGT
* *
7955 CTGCATGTATCGATACATTTAACAGTGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCAATACATTTAACAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCGA
***
8020 TACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
66 TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
* * *
8059 CTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGA
1 CTGCATGTATCAATACATTTAACAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCGA
8124 TACA-AAGATCAATGTATCGATACA
66 TACATAAGAT-AATGTATCGATACA
8148 ATGTATTGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 2 0.03
104 78 0.98
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (104 bp):
CTGCATGTATCAATACATTTAACAATGTATCGATACATCTGGGAAAATTTGCCTGCATGTATCGA
TACATAAGATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:8147 original size:52 final size:52
Alignment explanation
Indices: 7955--8127 Score: 301
Period size: 52 Copynumber: 3.3 Consensus size: 52
7945 GAAAAGTTGT
* * * *
7955 CTGCATGTATCGATACATTTAACAGTGTATCGATACATCTGGGAAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
8007 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
*
8059 CTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
8111 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
8128 AAGATCAATG
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 115 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:8240 original size:13 final size:13
Alignment explanation
Indices: 8222--8246 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8212 ACAAAACTTA
8222 TGTATCGATACAT
1 TGTATCGATACAT
8235 TGTATCGATACA
1 TGTATCGATACA
8247 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:8242 original size:32 final size:33
Alignment explanation
Indices: 8201--8266 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
8191 AGTAGCTTAA
*
8201 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCAATAC
*
8233 ATTGTATCGATACAACACTTTATGTATCAATAC
1 ATTGTATCGATACAAAACTTTATGTATCAATAC
8266 A
1 A
8267 AATCATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCAATAC
Found at i:15487 original size:27 final size:27
Alignment explanation
Indices: 15456--15510 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
15446 TGCAAAGAAG
*
15456 AAACCAAAGGCATTCAGCAATGGCAGT
1 AAACCAAAGGCATTCAGCAACGGCAGT
15483 AAACCAAAGGCATTCAGCAACGGCAGT
1 AAACCAAAGGCATTCAGCAACGGCAGT
15510 A
1 A
15511 GATGGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.42, C:0.24, G:0.22, T:0.13
Consensus pattern (27 bp):
AAACCAAAGGCATTCAGCAACGGCAGT
Found at i:22232 original size:21 final size:20
Alignment explanation
Indices: 22216--22256 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
22206 ATTTTAATGA
*
22216 TTAAATTTAAATATTTAAATAT
1 TTAAA-TTAAAAATTT-AATAT
22238 TTAAATTAAAAATTTAATA
1 TTAAATTAAAAATTTAATA
22257 AAATAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAATTAAAAATTTAATAT
Found at i:22591 original size:20 final size:21
Alignment explanation
Indices: 22566--22609 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
22556 TTTAAATAAA
22566 AATTTATATAAATT-TAATTT
1 AATTTATATAAATTATAATTT
* *
22586 AATTTATTTAAATTATTATTT
1 AATTTATATAAATTATAATTT
22607 AAT
1 AAT
22610 AATAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTTATATAAATTATAATTT
Found at i:22629 original size:48 final size:49
Alignment explanation
Indices: 22532--22647 Score: 123
Period size: 48 Copynumber: 2.3 Consensus size: 49
22522 CAATCCGACA
* *
22532 ATATTTAATTTATATAAATTAAATTTTAAATAAAAATTTATATAAATTT
1 ATATTTAATTTATTTAAATTAAATTTAAAATAAAAATTTATATAAATTT
* *
22581 A-ATTTAATTTATTTAAATTATTATTTAATAATAAAAATATT-T-T-TATTT
1 ATATTTAATTTATTTAAATTA-AATTTAA-AATAAAAAT-TTATATAAATTT
22629 ATATTTAATTATATATTAA
1 ATATTTAATT-TAT-TTAA
22648 TATAAAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
48 23 0.40
49 15 0.26
50 13 0.23
51 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (49 bp):
ATATTTAATTTATTTAAATTAAATTTAAAATAAAAATTTATATAAATTT
Found at i:24763 original size:13 final size:13
Alignment explanation
Indices: 24728--24763 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
24718 GAGGCTCTCT
*
24728 CATCCCTCTCAAG
1 CATCCCTCTTAAG
*
24741 CATCTCTCTTAAG
1 CATCCCTCTTAAG
24754 CATCCCTCTT
1 CATCCCTCTT
24764 CAATTCTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.42, G:0.06, T:0.33
Consensus pattern (13 bp):
CATCCCTCTTAAG
Found at i:27271 original size:774 final size:775
Alignment explanation
Indices: 25731--27277 Score: 2801
Period size: 774 Copynumber: 2.0 Consensus size: 775
25721 GAAGGGAAAC
*
25731 AGAGAGAGATCAAAGTCGAAACCCAGACTAGGAAAAGATGAATGCGTCCTTTTGTCATGAGAAAG
1 AGAGAGAGATCAAAGTCGAAACCCAGACTAGGAAAAGATGAATGCGTCCTTTTGCCATGAGAAAG
25796 ACCATTGGAAGAAAGATTGTCCAAAGCTGAAGAAGAAAGGAAAAGCTGCCCCAGATGTATGTGTT
66 ACCATTGGAAGAAAGATTGTCCAAAGCTGAAGAAGAAAGGAAAAGCTGCCCCAGATGTATGTGTT
*
25861 GCAGAGCATGATGCTAGTGACTCTGACATATCACTGGTTGCTTCATCATCAGCATTCCATTCAGA
131 GCAGAGCATGATGCTAGTGACTCTGACATATCACTAGTTGCTTCATCATCAGCATTCCATTCAGA
25926 TGAGTGGATATTAGATTCGGGTTGCACCTATCATATGTCCCCTAATCGGGAGTGGTTCTCCGATT
196 TGAGTGGATATTAGATTCGGGTTGCACCTATCATATGTCCCCTAATCGGGAGTGGTTCTCCGATT
*
25991 TAGTAGAACTAAATGGAGGAGTTGTTTATATGGGTAATGACAACACTTGTAAAACTGTTGGGATA
261 TAGTAGAACTAAATGGAGGAGTTGTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATA
26056 GGTTCAATCCGATTGAAGAATCAAGATGGATAAACTACAGTTCTGAATAATGTCCATTACGTGCC
326 GGTTCAATCCGATTGAAGAATCAAGATGGATAAACTACAGTTCTGAATAATGTCCATTACGTGCC
*
26121 TAGTTTGAAGAAAAATCTCATCTCGTTAAGAGCCTTAGAATCTAAAGGCTCAGTCATCACTTTAA
391 TAGTTTGAAGAAAAATCTCATCTCGTTAAGAGCCTTAGAATCCAAAGGCTCAGTCATCACTTTAA
* * *
26186 TAGATGGAGTTTTAAAAGTCACATCTGGTGCACTCGTGATAATGAAAGGCATCAGAAAAAATAAC
456 GAGATGGAGTTTTAAAAGTCACATCTGGCGCACTCGTGATAATGAAAGGCATCAAAAAAAATAAC
* *
26251 TTGTATTACTATCAGGGTAGTACAGTTATTGGAGCAGTAGCAGCAGCTTTCGGTGGTGACAATTT
521 TTGTATTACTATCAGGATAGTACAGTTATTGGAGCAGTAGCAGCAGCTTCCGGTGGTGACAATTT
*
26316 GGATTCAACCCAGTTGTGGCATATGCGATTGGGACACACTAGTGAGAAATCCTTACAAATTCTGG
586 GGATTCAACCCAATTGTGGCATATGCGATTGGGACACACTAGTGAGAAATCCTTACAAATTCTGG
*
26381 CAAAACAAGGATTGTTGAAAGGTGCAAAGGCTTACAAGCTAAAATTTTGTGAGCATTATGTTCTG
651 CAAAACAAGGATTGTTGAAAGGTGCAAAGGCTTACAAGCTAAAATTTTGCGAGCATTATGTTCTG
*
26446 GGAAAGCAAAAGAGATTGAAGTTTGGTACTGCTATCCATAATACAAAAGGTATTTTGGGA
716 GGAAAGCAAAAGAGATTGAAGTTTGGCACTGCTATCCATAATACAAAAGGTATTTTGGGA
* * *
26506 AGAGGGAGATCAAAGTCGAAACCCAGACTGGGAAGAGATGAATGCG-CCTTTTGCCATGAGAAAG
1 AGAGAGAGATCAAAGTCGAAACCCAGACTAGGAAAAGATGAATGCGTCCTTTTGCCATGAGAAAG
*
26570 ACCATTGGAAGAAAGATTTTCCAAAGCTGAAGAAGAAAGGAAAAGCTGCCCCAGATGTATGTGTT
66 ACCATTGGAAGAAAGATTGTCCAAAGCTGAAGAAGAAAGGAAAAGCTGCCCCAGATGTATGTGTT
26635 GCAGAGCATGATGCTAGTGACTCTGACATATCACTAGTTGCTTCATCATCAGCATTCCATTCAGA
131 GCAGAGCATGATGCTAGTGACTCTGACATATCACTAGTTGCTTCATCATCAGCATTCCATTCAGA
*
26700 TGAGTGGATATTAGATTCGGGTTGCACCTATCATATGTCCCCTAATCGGGAGTGGTTGTCCGATT
196 TGAGTGGATATTAGATTCGGGTTGCACCTATCATATGTCCCCTAATCGGGAGTGGTTCTCCGATT
26765 TAGTAGAACTAAATGGAGGAGTTGTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATA
261 TAGTAGAACTAAATGGAGGAGTTGTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATA
**
26830 GGTTCAATCCGATT-ATAGAATCAAGATGGATAAACTACAGTTCTGAATAATGTCTGTTACGTGC
326 GGTTCAATCCGATTGA-AGAATCAAGATGGATAAACTACAGTTCTGAATAATGTCCATTACGTGC
**
26894 CTAGTTTGAAGAAAAATCTCATCTCGTTGGGAGCCTTAGAATCCAAAGGCTCAGTCATCACTTTA
390 CTAGTTTGAAGAAAAATCTCATCTCGTTAAGAGCCTTAGAATCCAAAGGCTCAGTCATCACTTTA
*
26959 AGAGATGGAGTTTTAAAAGTCACATCTGGCGCACTCGTGATAATGAAGGGCATCAAAAAAAATAA
455 AGAGATGGAGTTTTAAAAGTCACATCTGGCGCACTCGTGATAATGAAAGGCATCAAAAAAAATAA
* *
27024 CTTGTATTACTATCAGGATAGTACAGTTATTGGAGTAGTAGCAGCAGCTTCCGGTGGTGATAATT
520 CTTGTATTACTATCAGGATAGTACAGTTATTGGAGCAGTAGCAGCAGCTTCCGGTGGTGACAATT
* *
27089 TGGATTCAACCCAATTGTGGCATATGCGGTTGGGACACACTGGTGAGAAATCCTTACAAATTCTG
585 TGGATTCAACCCAATTGTGGCATATGCGATTGGGACACACTAGTGAGAAATCCTTACAAATTCTG
* *
27154 GCAAAACAAGGATTGTTGAAAGGTGCAAAGGCTTGCAAGCTAAAATTTTGCGAGCATTGTGTTCT
650 GCAAAACAAGGATTGTTGAAAGGTGCAAAGGCTTACAAGCTAAAATTTTGCGAGCATTATGTTCT
* *
27219 GGGAAAGCAGAAGAGATTGAAGTTTGGCACTGCTATCCATAATACGAAAGGTATTTTGG
715 GGGAAAGCAAAAGAGATTGAAGTTTGGCACTGCTATCCATAATACAAAAGGTATTTTGG
27278 ATTATATTCA
Statistics
Matches: 741, Mismatches: 30, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
773 1 0.00
774 697 0.94
775 43 0.06
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.27
Consensus pattern (775 bp):
AGAGAGAGATCAAAGTCGAAACCCAGACTAGGAAAAGATGAATGCGTCCTTTTGCCATGAGAAAG
ACCATTGGAAGAAAGATTGTCCAAAGCTGAAGAAGAAAGGAAAAGCTGCCCCAGATGTATGTGTT
GCAGAGCATGATGCTAGTGACTCTGACATATCACTAGTTGCTTCATCATCAGCATTCCATTCAGA
TGAGTGGATATTAGATTCGGGTTGCACCTATCATATGTCCCCTAATCGGGAGTGGTTCTCCGATT
TAGTAGAACTAAATGGAGGAGTTGTTTATATGGGTAATGACAACACCTGTAAAACTGTTGGGATA
GGTTCAATCCGATTGAAGAATCAAGATGGATAAACTACAGTTCTGAATAATGTCCATTACGTGCC
TAGTTTGAAGAAAAATCTCATCTCGTTAAGAGCCTTAGAATCCAAAGGCTCAGTCATCACTTTAA
GAGATGGAGTTTTAAAAGTCACATCTGGCGCACTCGTGATAATGAAAGGCATCAAAAAAAATAAC
TTGTATTACTATCAGGATAGTACAGTTATTGGAGCAGTAGCAGCAGCTTCCGGTGGTGACAATTT
GGATTCAACCCAATTGTGGCATATGCGATTGGGACACACTAGTGAGAAATCCTTACAAATTCTGG
CAAAACAAGGATTGTTGAAAGGTGCAAAGGCTTACAAGCTAAAATTTTGCGAGCATTATGTTCTG
GGAAAGCAAAAGAGATTGAAGTTTGGCACTGCTATCCATAATACAAAAGGTATTTTGGGA
Found at i:35217 original size:13 final size:13
Alignment explanation
Indices: 35199--35251 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
35189 AGTGTCATCA
35199 TAAATTTAAATTT
1 TAAATTTAAATTT
*
35212 TAAATTTAAATTA
1 TAAATTTAAATTT
*
35225 T-AATTT-TATTT
1 TAAATTTAAATTT
35236 TCAAATTTTAAATTT
1 T-AAA-TTTAAATTT
35251 T
1 T
35252 GATATGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 4 0.12
12 5 0.16
13 15 0.47
14 3 0.09
15 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
TAAATTTAAATTT
Found at i:35223 original size:19 final size:18
Alignment explanation
Indices: 35199--35251 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
35189 AGTGTCATCA
35199 TAAATTTAAATTTTAAATT
1 TAAATTTAAATTTT-AATT
*
35218 TAAA-TTATAATTTTATTT
1 TAAATTTA-AATTTTAATT
35236 TCAAATTTTAAATTTT
1 T-AAA-TTTAAATTTT
35252 GATATGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 13 0.45
20 6 0.21
21 3 0.10
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
TAAATTTAAATTTTAATT
Found at i:35243 original size:8 final size:7
Alignment explanation
Indices: 35199--35251 Score: 53
Period size: 6 Copynumber: 8.1 Consensus size: 7
35189 AGTGTCATCA
35199 TAAA-TT
1 TAAATTT
35205 TAAATTT
1 TAAATTT
35212 TAAA-TT
1 TAAATTT
*
35218 TAAATTA
1 TAAATTT
35225 T-AATTT
1 TAAATTT
35231 T--ATTT
1 TAAATTT
35236 TCAAATTT
1 T-AAATTT
35244 TAAATTT
1 TAAATTT
35251 T
1 T
35252 GATATGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
5 5 0.12
6 15 0.38
7 15 0.38
8 5 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:39157 original size:34 final size:34
Alignment explanation
Indices: 39118--39192 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
39108 AAAGTAAGAA
* *
39118 ATAAAACACTTGTTTATAATAGATATTAATAAAT
1 ATAAAACACTTATTTATAATAGATACTAATAAAT
*
39152 ATAAAACACTTATTTATAATATATACTAATAAAT
1 ATAAAACACTTATTTATAATAGATACTAATAAAT
*
39186 GTAAAAC
1 ATAAAAC
39193 TTAAAATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (34 bp):
ATAAAACACTTATTTATAATAGATACTAATAAAT
Found at i:45368 original size:2 final size:2
Alignment explanation
Indices: 45361--45398 Score: 51
Period size: 2 Copynumber: 18.5 Consensus size: 2
45351 TATACAAAGA
45361 AT AT AT AT A- AT AT CAGT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT -A-T AT AT AT AT AT AT AT AT AT AT A
45399 CTAAAAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
1 1 0.03
2 29 0.88
3 2 0.06
4 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:46356 original size:20 final size:20
Alignment explanation
Indices: 46331--46371 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
46321 TACGAAATCA
* *
46331 TTAGAAAGTTGTGTAGTCAT
1 TTAGAAAATTGTGAAGTCAT
46351 TTAGAAAATTGTGAAGTCAT
1 TTAGAAAATTGTGAAGTCAT
46371 T
1 T
46372 ATTGTTCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (20 bp):
TTAGAAAATTGTGAAGTCAT
Found at i:52445 original size:20 final size:20
Alignment explanation
Indices: 52420--52482 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
52410 TTACGGGTCT
* *
52420 TTTAAAAAATTATGAAGTCA
1 TTTAAAAAGTTGTGAAGTCA
* *
52440 TTTAAAAAGTTGCGCAGTCA
1 TTTAAAAAGTTGTGAAGTCA
*
52460 TTTAAAAAGTTGTAAAGTCA
1 TTTAAAAAGTTGTGAAGTCA
52480 TTT
1 TTT
52483 TGAGTGACTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (20 bp):
TTTAAAAAGTTGTGAAGTCA
Found at i:56957 original size:20 final size:20
Alignment explanation
Indices: 56932--56986 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
56922 AAAACCCTTA
56932 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
56952 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
56972 AATGTATCGATACAT
1 AAAGTATCGATACAT
56987 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:57076 original size:13 final size:13
Alignment explanation
Indices: 57058--57083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57048 ACACCAAAGT
57058 ATGTATCGATACA
1 ATGTATCGATACA
57071 ATGTATCGATACA
1 ATGTATCGATACA
57084 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:57098 original size:33 final size:33
Alignment explanation
Indices: 57039--57102 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
57029 TAGCCAAACT
* * *
57039 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATATATCGATACAA
57072 TGTATCGATACACAAAAA-ATTATATCGATAC
1 TGTATCGATACACAAAAATA-TATATCGATAC
57103 GTTGGCTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATATATCGATACAA
Found at i:62984 original size:13 final size:13
Alignment explanation
Indices: 62966--63004 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
62956 ACATTTTTCT
62966 TTGTATCGATACA
1 TTGTATCGATACA
62979 TTGTATCGATACA
1 TTGTATCGATACA
* *
62992 CTGTATCAATACA
1 TTGTATCGATACA
63005 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:63168 original size:20 final size:20
Alignment explanation
Indices: 63125--63170 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
63115 AAATCTTTTG
63125 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
63146 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
63166 CAAAA
1 CAAAA
63171 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:65488 original size:20 final size:20
Alignment explanation
Indices: 65463--65517 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
65453 AAAACCCTTA
65463 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
65483 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
65503 AATGTATCGATACAT
1 AAAGTATCGATACAT
65518 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:65607 original size:13 final size:13
Alignment explanation
Indices: 65589--65614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65579 ACACCAAAGT
65589 ATGTATCGATACA
1 ATGTATCGATACA
65602 ATGTATCGATACA
1 ATGTATCGATACA
65615 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:65629 original size:33 final size:33
Alignment explanation
Indices: 65570--65634 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
65560 TAGCCAAACT
* * *
65570 TGTATCGATACACCAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATATATCGATACAA
65603 TGTATCGATACACAAAAA-ATTATATCGATACA
1 TGTATCGATACACAAAAATA-TATATCGATACA
65635 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATATATCGATACAA
Found at i:67177 original size:117 final size:115
Alignment explanation
Indices: 66783--67212 Score: 384
Period size: 117 Copynumber: 3.7 Consensus size: 115
66773 AGTATTAGAG
* * ** * * * *
66783 TTTGATCT-TTTTCTTTTAGGTTAAGAACTT-ATCTCCCTAGTAAAAAATTAAGAATCATTCA-T
1 TTTGATCTCTTTTTTTTTAGGTTAA-AA-TTCATCTCCCTAATATGAAATTGAGTATAACT-ATT
* * *
66845 TGGCTACAACTTTATTGCTCATTCTTTGGCCATAACTTTATATAAATATTAAA
63 TGGCTACAACTTTATTACTCATTCTTTGGCCACAACTTTATATACATATTAAA
* * * * *
66898 GTTTGATCTCTTTTTTTCTAGGTTGAAAACTCATCTCCCTAATATGAAATTGAATAGAACTACTT
1 -TTTGATCTCTTTTTTTTTAGGTT-AAAATTCATCTCCCTAATATGAAATTGAGTATAACTATTT
* ** * * * *
66963 GACTGTATCTATATCACCCATTCTTTGGCCACAACTTTATATACATATTAAA
64 GGCTACAACTTTATTACTCATTCTTTGGCCACAACTTTATATACATATTAAA
* * *
67015 TTTGA-CTCTTTCTTTTTAGGTTAAAAATTCATCTCCTTAATATGAAATTGAGTATCACT-TTTG
1 TTTGATCTCTTTTTTTTTAGGTT-AAAATTCATCTCCCTAATATGAAATTGAGTATAACTATTTG
* * * *
67078 GCTATAACTTTATTACTCTTTCTTAGGCAACAACTTTATATACATATTGAAA
65 GCTACAACTTTATTACTCATTCTTTGGCCACAACTTTATATACATATT-AAA
* * * * * * * *
67130 ATTGATATATATTTTTTTTGGGTTAAGAGTTCATCTCCCTAATATGAAATTAAGCATAACTCTTT
1 TTTGATCTCT-TTTTTTTTAGGTTAA-AATTCATCTCCCTAATATGAAATTGAGTATAACTATTT
* *
67195 AGCTGCAACTTTATTACT
64 GGCTACAACTTTATTACT
67213 AAATGTTTAG
Statistics
Matches: 252, Mismatches: 53, Indels: 16
0.79 0.17 0.05
Matches are distributed among these distances:
114 42 0.17
115 53 0.21
116 19 0.08
117 118 0.47
118 20 0.08
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.42
Consensus pattern (115 bp):
TTTGATCTCTTTTTTTTTAGGTTAAAATTCATCTCCCTAATATGAAATTGAGTATAACTATTTGG
CTACAACTTTATTACTCATTCTTTGGCCACAACTTTATATACATATTAAA
Found at i:69949 original size:21 final size:21
Alignment explanation
Indices: 69898--69949 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
69888 ATCACATTTT
*
69898 GGTCCAAATGTATCGATACAT
1 GGTCCAAATGTATCGATACAA
* *
69919 TGT-TATAATGTATCGATACAA
1 GGTCCA-AATGTATCGATACAA
*
69940 GGTCCCAATG
1 GGTCCAAATG
69950 GTCAAAAATT
Statistics
Matches: 23, Mismatches: 6, Indels: 4
0.70 0.18 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (21 bp):
GGTCCAAATGTATCGATACAA
Found at i:70014 original size:13 final size:13
Alignment explanation
Indices: 69996--70020 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69986 CATAAAGTGT
69996 TGTATCGATACAA
1 TGTATCGATACAA
70009 TGTATCGATACA
1 TGTATCGATACA
70021 TATTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:70100 original size:13 final size:13
Alignment explanation
Indices: 70082--70106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70072 ATTACTCGAA
70082 TGTATCGATACAT
1 TGTATCGATACAT
70095 TGTATCGATACA
1 TGTATCGATACA
70107 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70171 original size:52 final size:52
Alignment explanation
Indices: 70115--70239 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
70105 CACTGATCTT
*
70115 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
70167 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
70219 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
70240 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:79673 original size:23 final size:22
Alignment explanation
Indices: 79612--79673 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 22
79602 TTGTTGCCCT
*
79612 TCGTGGAGTTGCTGCCGGTTGC
1 TCGTGGAGTTGCTGCTGGTTGC
* *
79634 TCGTGGAAGCTGTTGCTGGTTGC
1 TCGTGG-AGTTGCTGCTGGTTGC
*
79657 TCGTGGTGTTGGCTGCT
1 TCGTGGAGTT-GCTGCT
79674 TTCACGTTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 8 0.25
23 24 0.75
ACGTcount: A:0.05, C:0.19, G:0.40, T:0.35
Consensus pattern (22 bp):
TCGTGGAGTTGCTGCTGGTTGC
Found at i:82231 original size:29 final size:29
Alignment explanation
Indices: 82157--82231 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
82147 TTTATCTCGG
** * *
82157 GGATACTTTAACCTCGTTATTTCTGAAGA
1 GGATACTCCAACCTCGTTACTTCTAAAGA
82186 -GATACTCCAATCC-CGTTACTTCTAAAGA
1 GGATACTCCAA-CCTCGTTACTTCTAAAGA
82214 GGATACTCCAACCTCGTT
1 GGATACTCCAACCTCGTT
82232 TTTATTTTAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (29 bp):
GGATACTCCAACCTCGTTACTTCTAAAGA
Found at i:82391 original size:79 final size:78
Alignment explanation
Indices: 82230--82516 Score: 251
Period size: 78 Copynumber: 3.6 Consensus size: 78
82220 TCCAACCTCG
* * * * * *
82230 TTTTTATTTTAAAAATATTAAAATTTTCATCTAGTAGATACTCCAACCCCATCA-ATTCTGAGGG
1 TTTTTATTTT-AAAATATTAAATTTTTCATCTTGGA-ATACTCCAACCCCGTCATTTTC-AAGGG
*
82294 GATACTC-AAACCCTA
63 GATACTCTAACCCCTA
* * *
82309 TTTTTATTTTCAAAATATTAAATTTTTCATCTTGGAATACTCCCACCCTGTGATTTTCAAGGGGA
1 TTTTTATTTT-AAAATATTAAATTTTTCATCTTGGAATACTCCAACCCCGTCATTTTCAAGGGGA
*
82374 TACTCTAACCCCCA
65 TACTCTAACCCCTA
* * * * * * * *
82388 TTTTT-TTTTTAAGTATT-GATTTTTCACTATTAGGGATACTTCAACCCCGTTATTTTCAAGAGG
1 TTTTTATTTTAAAATATTAAATTTTTCA-TCTT-GGAATACTCCAACCCCGTCATTTTCAAGGGG
*
82451 ATACTCTAACCCTTA
64 ATACTCTAACCCCTA
* * * *
82466 TTTTTATTTTTAAAATATCAAA-TTTTCACCATCGGGATACTCCAACCCCGT
1 TTTTTA-TTTTAAAATATTAAATTTTTCATC-TTGGAATACTCCAACCCCGT
82517 TTTCACTCTC
Statistics
Matches: 168, Mismatches: 32, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
76 8 0.05
77 9 0.05
78 71 0.42
79 63 0.38
80 16 0.10
81 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.40
Consensus pattern (78 bp):
TTTTTATTTTAAAATATTAAATTTTTCATCTTGGAATACTCCAACCCCGTCATTTTCAAGGGGAT
ACTCTAACCCCTA
Found at i:82906 original size:22 final size:24
Alignment explanation
Indices: 82859--82908 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
82849 CATCCATCAT
**
82859 TTTTATGTATTTTTGTATGCGTTA
1 TTTTATGTAAATTTGTATGCGTTA
82883 TTTTATGTAAATTTGT-T-CGTTA
1 TTTTATGTAAATTTGTATGCGTTA
82905 TTTT
1 TTTT
82909 CTTTTTCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 1 0.04
24 14 0.58
ACGTcount: A:0.18, C:0.04, G:0.14, T:0.64
Consensus pattern (24 bp):
TTTTATGTAAATTTGTATGCGTTA
Found at i:93127 original size:32 final size:33
Alignment explanation
Indices: 93072--93162 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 33
93062 GAAACTGACC
* *
93072 GATCCGAATCC-GAAAATAACCTGAACCCGAAAT
1 GATCCGAACCCTG-AAATGACCTGAACCCGAAAT
* * *
93105 GA-CTCTAACCC-GAAATGACCTGAATCTGAAAT
1 GATC-CGAACCCTGAAATGACCTGAACCCGAAAT
*
93137 GATCCGAACCCTGAAATGACCCGAAC
1 GATCCGAACCCTGAAATGACCTGAAC
93163 TTAAATTAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 26 0.55
33 21 0.45
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.16
Consensus pattern (33 bp):
GATCCGAACCCTGAAATGACCTGAACCCGAAAT
Found at i:93135 original size:16 final size:16
Alignment explanation
Indices: 93085--93162 Score: 79
Period size: 16 Copynumber: 4.8 Consensus size: 16
93075 CCGAATCCGA
*
93085 AAATAACCTGAACCCG
1 AAATGACCTGAACCCG
93101 AAATGACTCT-AACCCG
1 AAATGAC-CTGAACCCG
* *
93117 AAATGACCTGAATCTG
1 AAATGACCTGAACCCG
93133 AAATGATCC-GAACCCTG
1 AAATGA-CCTGAACCC-G
*
93150 AAATGACCCGAAC
1 AAATGACCTGAAC
93163 TTAAATTAAG
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
15 2 0.04
16 35 0.67
17 15 0.29
ACGTcount: A:0.40, C:0.28, G:0.15, T:0.17
Consensus pattern (16 bp):
AAATGACCTGAACCCG
Found at i:94055 original size:15 final size:15
Alignment explanation
Indices: 94033--94071 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
94023 AAAATTTTCA
*
94033 AACCCGAAATAATCC
1 AACCCGAAATAACCC
* *
94048 AACTCGAAATGACCC
1 AACCCGAAATAACCC
94063 AACCCGAAA
1 AACCCGAAA
94072 CCAACCTGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.33, G:0.10, T:0.10
Consensus pattern (15 bp):
AACCCGAAATAACCC
Found at i:98635 original size:5 final size:5
Alignment explanation
Indices: 98599--98661 Score: 54
Period size: 5 Copynumber: 11.6 Consensus size: 5
98589 AGCAAGATAA
* *
98599 ATTTAT ATTTT ATTGATT ATTGT ATTAATT ATTTT ATTTT ATTTA ATTTT
1 ATTT-T ATTTT ATT--TT ATTTT ATT--TT ATTTT ATTTT ATTTT ATTTT
*
98649 ATATT ATTTT ATT
1 ATTTT ATTTT ATT
98662 CAAGATTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
5 34 0.72
6 4 0.09
7 9 0.19
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (5 bp):
ATTTT
Found at i:100879 original size:36 final size:36
Alignment explanation
Indices: 100823--100896 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 36
100813 CATCTTAATC
100823 AATAAAACTTGCATCATAGTATCATAAATGAAAATA
1 AATAAAACTTGCATCATAGTATCATAAATGAAAATA
* * *
100859 AATAAAATTTTCATCTTAGTATCATAAATGAAAATA
1 AATAAAACTTGCATCATAGTATCATAAATGAAAATA
100895 AA
1 AA
100897 AATGCCAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.53, C:0.09, G:0.07, T:0.31
Consensus pattern (36 bp):
AATAAAACTTGCATCATAGTATCATAAATGAAAATA
Found at i:102191 original size:16 final size:16
Alignment explanation
Indices: 102166--102199 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
102156 GAGGGTCTAA
102166 AATGGAAACACATGAT
1 AATGGAAACACATGAT
*
102182 AATGGCAACACATGAT
1 AATGGAAACACATGAT
102198 AA
1 AA
102200 CACTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AATGGAAACACATGAT
Found at i:103727 original size:20 final size:20
Alignment explanation
Indices: 103687--103760 Score: 85
Period size: 21 Copynumber: 3.6 Consensus size: 20
103677 TTCTAAGATT
*
103687 TGTATCGATACAATTAGTGAA
1 TGTATCGATAC-ATAAGTGAA
*
103708 TGTGTCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
** *
103728 TGTATCGATACATATCTTAAA
1 TGTATCGATACATA-AGTGAA
103749 TGTATCGATACA
1 TGTATCGATACA
103761 AAACTATGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 21 0.46
21 25 0.54
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:103925 original size:21 final size:21
Alignment explanation
Indices: 103899--103942 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
103889 TACATTCTTC
103899 AATGTATCGATACATGCAGGT
1 AATGTATCGATACATGCAGGT
103920 AATGTATCGATACATGCAGGT
1 AATGTATCGATACATGCAGGT
103941 AA
1 AA
103943 ATTTTCACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (21 bp):
AATGTATCGATACATGCAGGT
Found at i:105322 original size:13 final size:13
Alignment explanation
Indices: 105304--105329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105294 TACAGCAAGT
105304 ATGTATCGATACA
1 ATGTATCGATACA
105317 ATGTATCGATACA
1 ATGTATCGATACA
105330 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:107579 original size:21 final size:21
Alignment explanation
Indices: 107546--107590 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
107536 TTGCAAGTTG
*
107546 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
107568 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
107588 AAA
1 AAA
107591 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:109413 original size:15 final size:15
Alignment explanation
Indices: 109393--109423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
109383 TAAAAATGTC
*
109393 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
109408 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
109423 C
1 C
109424 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:111511 original size:13 final size:13
Alignment explanation
Indices: 111493--111531 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
111483 ACATTTTTCT
111493 TTGTATCGATACA
1 TTGTATCGATACA
111506 TTGTATCGATACA
1 TTGTATCGATACA
111519 TTGTATCGATACA
1 TTGTATCGATACA
111532 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:114096 original size:13 final size:13
Alignment explanation
Indices: 114078--114103 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
114068 TACAGCAAGT
114078 ATGTATCGATACA
1 ATGTATCGATACA
114091 ATGTATCGATACA
1 ATGTATCGATACA
114104 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:120650 original size:54 final size:50
Alignment explanation
Indices: 120536--120674 Score: 174
Period size: 54 Copynumber: 2.7 Consensus size: 50
120526 TTTCATAATT
*
120536 TGTATCGATACATTCTTCATTGTATTGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTATTCATTGTATTGATACATTCTGGGTTTTACCCAGA
* *
120586 TGTATCGATACATTATTCATTGTAATGTATCGATACATTTTGGG-TTTACCTAGA
1 TGTATCGATACATTATTCATTGT-A--T-T-GATACATTCTGGGTTTTACCCAGA
*
120640 TGTATCGATACATT-TCTCAATGTATTGATACATTC
1 TGTATCGATACATTAT-TCATTGTATTGATACATTC
120675 AGGCATTTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
49 8 0.10
50 23 0.29
51 2 0.03
53 3 0.04
54 30 0.38
55 12 0.15
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTGTATTGATACATTCTGGGTTTTACCCAGA
Found at i:120652 original size:29 final size:29
Alignment explanation
Indices: 120556--120654 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
120546 CATTCTTCAT
* * *
120556 TGTATTGATACATTCTGGGTTTTACCCAGA
1 TGTATCGATACATTTTGGG-TTTACCTAGA
** *
120586 TGTATCGATACATTATT--CATT--GTA-A
1 TGTATCGATACATT-TTGGGTTTACCTAGA
120611 TGTATCGATACATTTTGGGTTTACCTAGA
1 TGTATCGATACATTTTGGGTTTACCTAGA
120640 TGTATCGATACATTT
1 TGTATCGATACATTT
120655 CTCAATGTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
24 2 0.04
25 15 0.28
26 3 0.06
28 4 0.07
29 16 0.30
30 13 0.24
31 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (29 bp):
TGTATCGATACATTTTGGGTTTACCTAGA
Found at i:123250 original size:79 final size:79
Alignment explanation
Indices: 122976--123260 Score: 265
Period size: 79 Copynumber: 3.6 Consensus size: 79
122966 TCATCGATGT
* * * * *
122976 TTTTATTTCTAAAATAT-AA-TTTTCCACCATCGGGGACACTTCAACCCCACTA-TTTCTGAGGG
1 TTTTATTCCTAAAACATCAATTTTTCCACCATCGGGGATACTCCAA-CCCATTATTTTC-GAGGG
*
123038 GATACTCTAACCCTAA
64 GATACTCTAACCCTGA
** * * * * * * *
123054 TTTTATTTATAAAACACCGATTTTT-CACCATCGGGGAAACTCTAACCTCGTTATTTTCGAGAGA
1 TTTTATTCCTAAAACATCAATTTTTCCACCATCGGGGATACTCCAACC-CATTATTTTCGAGGGG
*
123118 ATACTCTAACCCTGG
65 ATACTCTAACCCTGA
* * * ** **
123133 TTTTATTCCTAAAACATCGATTTTTTCGCTGTTAGGGATACTCCAACCCATTATTTTCGAGGGGA
1 TTTTATTCCTAAAACATCAATTTTTCCACCATCGGGGATACTCCAACCCATTATTTTCGAGGGGA
123198 TACTCTAA-CCTCGA
66 TACTCTAACCCT-GA
* **
123212 TTTTATTCCTAAAACATTAATTTTTCCATTATCGGGGATACTCCAACCC
1 TTTTATTCCTAAAACATCAATTTTTCCACCATCGGGGATACTCCAACCC
123261 CTGTTTTATT
Statistics
Matches: 166, Mismatches: 35, Indels: 11
0.78 0.17 0.05
Matches are distributed among these distances:
78 19 0.11
79 124 0.75
80 23 0.14
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTCCTAAAACATCAATTTTTCCACCATCGGGGATACTCCAACCCATTATTTTCGAGGGGA
TACTCTAACCCTGA
Found at i:123268 original size:52 final size:51
Alignment explanation
Indices: 123193--123310 Score: 148
Period size: 52 Copynumber: 2.3 Consensus size: 51
123183 TTATTTTCGA
* * ** *
123193 GGGGATACTCTAACCTCGATTTTATTCCTAAAACATTAATTTTTCCATTATC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAA-TTTTCCACTATC
*
123245 GGGGATACTCCAACCCCTG-TTTTATTTCTAAAACACCAATTTTCCACTATC
1 GGGGATACTCCAACCCC-GATTTTATTCCTAAAACACCAATTTTCCACTATC
*
123296 GAGGATACTCCAACC
1 GGGGATACTCCAACC
123311 TCGTTATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 25 0.43
52 32 0.55
53 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAATTTTCCACTATC
Found at i:123270 original size:131 final size:131
Alignment explanation
Indices: 123118--123358 Score: 303
Period size: 131 Copynumber: 1.8 Consensus size: 131
123108 TTTCGAGAGA
* * * * * *
123118 ATACTCTAACCCTGGTTTTATTCCTAAAACATCGATTTTTTCGCTGTTAG-GGATACTCCAACC-
1 ATACTCCAACCCTGGTTTTATTCCTAAAACA-CCAATTTTCCACT-ATAGAGGATACTCCAACCT
123181 CATTATTTTCGAGGGGATAC-TCTAACCTCGA-TTTTATTCCTAAAACATTAATTTTTCCATTAT
64 CATTATTTTCGAGGGGATACTTC-AACC-CGAGTTTTATTCCTAAAACATTAATTTTTCCATTAT
123244 CGGGG
127 CGGGG
* *
123249 ATACTCCAACCCCT-GTTTTATTTCTAAAACACCAATTTTCCACTATCGAGGATACTCCAACCTC
1 ATACTCCAA-CCCTGGTTTTATTCCTAAAACACCAATTTTCCACTATAGAGGATACTCCAACCTC
* * *
123313 GTTATTTTCGAGGGGATACTTCAACCCTAGTTTTATTTCTAAAACA
65 ATTATTTTCGAGGGGATACTTCAACCCGAGTTTTATTCCTAAAACA
123359 CCGATCTTCC
Statistics
Matches: 94, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
129 2 0.02
130 24 0.26
131 62 0.66
132 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (131 bp):
ATACTCCAACCCTGGTTTTATTCCTAAAACACCAATTTTCCACTATAGAGGATACTCCAACCTCA
TTATTTTCGAGGGGATACTTCAACCCGAGTTTTATTCCTAAAACATTAATTTTTCCATTATCGGG
G
Found at i:123328 original size:79 final size:80
Alignment explanation
Indices: 123245--123436 Score: 273
Period size: 79 Copynumber: 2.4 Consensus size: 80
123235 TTCCATTATC
* *
123245 GGGGATACTCCAACCCCT-GTTTTATTTCTAAAACACCAATTTTCCACTATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCTAGTTTTATTTCTAAAACACCAATCTTCCACCATCGAGGATACTCCAA
123309 -CCTCGTTATTTTCGA
66 CCCT-GTTATTTTCGA
* * * *
123324 GGGGATACTTCAA-CCCTAGTTTTATTTCTAAAACACCGATCTTCCACCATCGGGGGTACTCCAA
1 GGGGATACTCCAACCCCTAGTTTTATTTCTAAAACACCAATCTTCCACCATCGAGGATACTCCAA
*
123388 CCCTTTTATTTTCGA
66 CCCTGTTATTTTCGA
* *
123403 GGGGATACTCCAACCCCTATTTTTATCTCTAAAA
1 GGGGATACTCCAACCCCTAGTTTTATTTCTAAAA
123437 TATTAAATTT
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 4 0.04
79 75 0.75
80 21 0.21
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.33
Consensus pattern (80 bp):
GGGGATACTCCAACCCCTAGTTTTATTTCTAAAACACCAATCTTCCACCATCGAGGATACTCCAA
CCCTGTTATTTTCGA
Found at i:123399 original size:210 final size:211
Alignment explanation
Indices: 123035--123453 Score: 508
Period size: 210 Copynumber: 2.0 Consensus size: 211
123025 CTATTTCTGA
* * * * *
123035 GGGGATACTCTAACCCTAATTTTATTTATAAAACACCGATTTTTCACCATCGGGGAAACTCTAAC
1 GGGGATACTCCAACCCTAATTTTATTTATAAAACACCAATTTTCCACCATCGAGGAAACTCCAAC
* * * * * **
123100 CTCGTTATTTTCGAGAGAATACTCTAACCCTGGTTTTATTCCTAAAACATCGATTTTTTCGCTGT
66 CTCGTTATTTTCGAGAGAATACTCTAACCCTAGTTTTATTCCTAAAACACCGATTCTTCCACCAT
* * *
123165 TAGGGATACTCCAACCCATTATTTTCGAGGGGATACTCTAACCTCGA-TTTTAT-TCCTAAAACA
131 CAGGGATACTCCAACCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTTATCT-CTAAAACA
123228 TT-AATTTTTCCATTATC
195 TTAAATTTTT-CATTATC
* * * *
123245 GGGGATACTCCAACCCCT-GTTTTATTTCTAAAACACCAATTTTCCACTATCGAGGATACTCCAA
1 GGGGATACTCCAA-CCCTAATTTTATTTATAAAACACCAATTTTCCACCATCGAGGAAACTCCAA
* * *
123309 CCTCGTTATTTTCGAGGGGATACT-TCAACCCTAGTTTTATTTCTAAAACACCGA-TCTTCCACC
65 CCTCGTTATTTTCGAGAGAATACTCT-AACCCTAGTTTTATTCCTAAAACACCGATTCTTCCACC
* * * *
123372 ATCGGGGGTACTCCAACCCTTTTATTTTCGAGGGGATACTCCAACCCCTATTTTTATCTCTAAAA
129 ATCAGGGATACTCCAACCC-ATTATTTTCGAGGGGATACTCCAACCCCGATTTTTATCTCTAAAA
*
123437 TATTAAATTTTTCATTA
193 CATTAAATTTTTCATTA
123454 AGAAATGTAC
Statistics
Matches: 176, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
209 21 0.12
210 123 0.70
211 24 0.14
212 8 0.05
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (211 bp):
GGGGATACTCCAACCCTAATTTTATTTATAAAACACCAATTTTCCACCATCGAGGAAACTCCAAC
CTCGTTATTTTCGAGAGAATACTCTAACCCTAGTTTTATTCCTAAAACACCGATTCTTCCACCAT
CAGGGATACTCCAACCCATTATTTTCGAGGGGATACTCCAACCCCGATTTTTATCTCTAAAACAT
TAAATTTTTCATTATC
Found at i:128507 original size:19 final size:21
Alignment explanation
Indices: 128464--128515 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
128454 TTCAATAATT
*
128464 TGTATCGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
*
128485 TGTATTGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
128504 TGTATCGATACA
1 TGTATCGATACA
128516 GTGTATCCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 11 0.39
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:131073 original size:51 final size:51
Alignment explanation
Indices: 130973--131081 Score: 148
Period size: 51 Copynumber: 2.1 Consensus size: 51
130963 CAATTTTTCT
*
130973 TAATCGGGGATACTCAAACTCCGATTTTATTTCGAAAACACCCATTTTCCA
1 TAATCGGGGATACTCAAACTCCGATTTTATTTCGAAAACACCCACTTTCCA
* ***
131024 TAATCGGGGATACTCAAACTCTGATTTTATTTTC-AAAACATTGACTTTCCA
1 TAATCGGGGATACTCAAACTCCGATTTTA-TTTCGAAAACACCCACTTTCCA
*
131075 CAATCGG
1 TAATCGG
131082 AGATGCTCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
51 47 0.92
52 4 0.08
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (51 bp):
TAATCGGGGATACTCAAACTCCGATTTTATTTCGAAAACACCCACTTTCCA
Found at i:131429 original size:28 final size:28
Alignment explanation
Indices: 131389--131461 Score: 114
Period size: 27 Copynumber: 2.6 Consensus size: 28
131379 GATTTCTCCA
131389 ATCGGGGATACTCCAATCCCGTTATTT-C
1 ATCGGGGATACTCCAA-CCCGTTATTTCC
131417 ATCGGGGATACTCCAACCCGTTATTTCC
1 ATCGGGGATACTCCAACCCGTTATTTCC
*
131445 A-AGGGGATACTCCAACC
1 ATCGGGGATACTCCAACC
131462 TCGACTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
27 25 0.58
28 18 0.42
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCGTTATTTCC
Found at i:131522 original size:50 final size:51
Alignment explanation
Indices: 131447--131565 Score: 195
Period size: 50 Copynumber: 2.4 Consensus size: 51
131437 TTATTTCCAA
* *
131447 GGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
* *
131498 GGGGATACT-CAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
131548 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
131566 TTATTTCTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 46 0.73
51 17 0.27
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:131581 original size:129 final size:129
Alignment explanation
Indices: 131417--131861 Score: 741
Period size: 129 Copynumber: 3.4 Consensus size: 129
131407 CCGTTATTTC
* *
131417 ATCGGGGATACTCCAA-CCCGTTATTTCCAAGGGGATACTCCAACCTCGACTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
131481 ATTGATTTCTCACAATCGGGGATACTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
66 ATTGATTTCTCACAATCGGGGATACTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
*
131545 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTGTTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
*
131610 ATTGATTTCTCACAATCGGGGATACTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACA
66 ATTGATTTCTCACAATCGGGGATACTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
* *
131674 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGGCTTTGTTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
**
131739 ATTGATTTCTCACAATCGGGGATACTTCAACCCTAGCCTTATTTCTAAAATATTGATTTCTCACA
66 ATTGATTTCTCACAATCGGGGATAC-TCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
* * * * *
131804 ATCGGGGATACTCCAACACCATTATTT-TCACGGGGATACTCCAATCCCGATTTTATTT
1 ATCGGGGATACTCCAACCCCGTTATTTCT-AAGGGGATACTCCAACCCCGACTTTATTT
131862 TCAGAACACA
Statistics
Matches: 299, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
128 16 0.05
129 198 0.66
130 85 0.28
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (129 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
ATTGATTTCTCACAATCGGGGATACTCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACA
Found at i:131609 original size:79 final size:79
Alignment explanation
Indices: 131029--131643 Score: 399
Period size: 79 Copynumber: 7.9 Consensus size: 79
131019 TTCCATAATC
* * * * * * * *
131029 GGGGATACTCAAACTCTGATTTTATTTTCAAAACATTGACTTTC-CACAATCGGAGATGCTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGA-TTTCTCACAATCGGGGATACTCCAA
** *
131093 CCTTGTTATTTCTGA
65 CCCCGTTATTTCTAA
* * ** * * ** * * * *
131108 GGGGACACTCCAACCCTGGTTTTATTTCTAAAACATCAATTT-T-TC-ATTGGGGATACTCTAGC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
**
131170 CCCGTTATTTCCGA
66 CCCGTTATTTCTAA
* * * *
131184 GGGGATACTCCAACCCC-AGCTTTATTTCCAAAATATTAATTTCTCATAATCAGGGATATTCCAA
1 GGGGATACTCCAACCCCGA-CTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAA
* *
131248 TCCCGTTATTT-TCGA
65 CCCCGTTATTTCT-AA
** * * * * **
131263 GGGGATACTCCAACCCCGGTTTTA-TTCCTAAAACATTAATTTTTCATAATCGGAAATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTCTCACAATCGGGGATACTCCAA
*
131327 TCCCGTTATTTCTAA
65 CCCCGTTATTTCTAA
* * * *
131342 GGGGATAGTCCAACCCCGATTTTATTTCTAAAATATTGATTTCTC-CAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
*
131406 CCCGTTATTTC-ATC
66 CCCGTTATTTCTA-A
*** * **** *
131420 GGGGATACTCCAA-CCCG---TTATTTCC--AA-GGGGA-TACTC-CAACCTCGACTTTATTTCC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAA--TCGGGGATA-CTCC
****
131476 AA-AATATTGATTTCTCACAA
63 AACCCCGTT-ATTTCT---AA
* * *
131496 TCGGGGATACT-CAACCCCGGCCTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCA
1 --GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCA
131560 ACCCCGTTATTTCTAA
64 ACCCCGTTATTTCTAA
*
131576 GGGGATACTCCAACCCCGACTTTGTTTCCAAAATATTGATTTCTCACAATCGGGGATACT-CAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
131640 CCCG
66 CCCG
131644 ACCTTATTTC
Statistics
Matches: 418, Mismatches: 86, Indels: 65
0.73 0.15 0.11
Matches are distributed among these distances:
70 7 0.02
71 2 0.00
72 9 0.02
73 10 0.02
74 7 0.02
76 57 0.14
77 11 0.03
78 76 0.18
79 197 0.47
80 6 0.01
81 7 0.02
83 13 0.03
84 9 0.02
85 4 0.01
86 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTCTAA
Found at i:131659 original size:50 final size:51
Alignment explanation
Indices: 131576--131694 Score: 204
Period size: 50 Copynumber: 2.4 Consensus size: 51
131566 TTATTTCTAA
* *
131576 GGGGATACTCCAACCCCGACTTTGTTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
*
131627 GGGGATACT-CAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
131677 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
131695 TTATTTCTAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 47 0.73
51 17 0.27
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:131738 original size:79 final size:78
Alignment explanation
Indices: 131627--131771 Score: 236
Period size: 79 Copynumber: 1.8 Consensus size: 78
131617 TCTCACAATC
*
131627 GGGGATACTCAACCCCGACCTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
1 GGGGATACTCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
131692 CCGTTATTTCTAA
66 CCGTTATTTCTAA
* * * *
131705 GGGGATACTCCAACCCCGGCTTTGTTTCCAAAATATTGATTTCTCACAATCGGGGATACTTCAAC
1 GGGGATACT-CAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAAC
131770 CC
65 CC
131772 TAGCCTTATT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
78 9 0.15
79 52 0.85
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (78 bp):
GGGGATACTCAACCCCGACCTTATTTCCAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
CCGTTATTTCTAA
Found at i:131770 original size:51 final size:51
Alignment explanation
Indices: 131705--131820 Score: 178
Period size: 51 Copynumber: 2.3 Consensus size: 51
131695 TTATTTCTAA
* * *
131705 GGGGATACTCCAACCCCGGCTTTGTTTCCAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
* * *
131756 GGGGATACTTCAACCCTAGCCTTATTTCTAAAATATTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
131807 GGGGATACTCCAAC
1 GGGGATACTCCAAC
131821 ACCATTATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAGCCTTATTTCCAAAATATTGATTTCTCACAATC
Found at i:144622 original size:52 final size:51
Alignment explanation
Indices: 144544--144692 Score: 226
Period size: 52 Copynumber: 2.9 Consensus size: 51
144534 CGAAATATGA
144544 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
144596 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
* **
144648 AAATTTTCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
144693 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 84 0.95
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:144699 original size:13 final size:13
Alignment explanation
Indices: 144681--144705 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144671 CAAAGATCAG
144681 TGTATCGATACAA
1 TGTATCGATACAA
144694 TGTATCGATACA
1 TGTATCGATACA
144706 TTTAAGTGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:144783 original size:33 final size:33
Alignment explanation
Indices: 144746--144812 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
144736 AGTAGCTTAA
144746 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
144779 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
144812 A
1 A
144813 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:144786 original size:13 final size:13
Alignment explanation
Indices: 144768--144792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144758 CAAAAAAATA
144768 TGTATCGATACAT
1 TGTATCGATACAT
144781 TGTATCGATACA
1 TGTATCGATACA
144793 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:145755 original size:52 final size:52
Alignment explanation
Indices: 145623--145834 Score: 199
Period size: 52 Copynumber: 4.2 Consensus size: 52
145613 GAAAAGTAAT
* * * * * * * *
145623 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGCTGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-G-A
* * *
145677 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
*
145730 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
* * *
145773 AAAGGTGCCAATGTGCTGATTCAAGGTCAGATACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
145825 AAAGGTGCCA
1 AAAGGTGCCA
145835 CCGACTTGTG
Statistics
Matches: 129, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 37 0.29
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 42 0.33
53 6 0.05
54 5 0.04
55 35 0.27
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGGA
Found at i:145791 original size:43 final size:43
Alignment explanation
Indices: 145730--145819 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
145720 TAAAGATGGA
* *
145730 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGATACATTGGACTT
* *
145773 AAAGGTGCCAATGTGCTGATTCAAGGTCAGATACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGATACATTGGACTT
145816 AAAG
1 AAAG
145820 ATGGAAAAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGATACATTGGACTT
Found at i:145986 original size:58 final size:59
Alignment explanation
Indices: 145830--146278 Score: 319
Period size: 57 Copynumber: 7.5 Consensus size: 59
145820 ATGGAAAAGG
* * * **
145830 TGCCACCGACTTGTGGGC-TTCGAAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTG--AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
***
145887 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
*
145947 TGCCACTGACTTGTGGGCTTTT-AAAGGTTGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
* *** *
146005 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTGAAAAAGAAAAAGA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGCT---TTTGAAAAATA
* * * * ** * * * * *
146068 GTGCTA-TAAAGTTGTGAGCTTACAAAAGAAAAAGAGTGCCACGGAGTTGTGGAC-TTTGGAAAA
1 -TGCCACT-GACTTGTGGGCTT----TTG--AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAA
*
146131 GA
58 TA
* ** * **
146133 TGCCACCGACTTGTGGGCTTCAGAAAAGGGTGCCACTGATTTGTGGGC-TTTG-AAGGT-
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
*** *
146190 TGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
* *
146249 TGCTACTGACTTGTGGACTTTTG-AAGGGTG
1 TGCCACTGACTTGTGGGCTTTTGAAAGGGTG
146279 ATGAATGTCT
Statistics
Matches: 313, Mismatches: 60, Indels: 38
0.76 0.15 0.09
Matches are distributed among these distances:
57 87 0.28
58 66 0.21
59 49 0.16
60 47 0.15
63 8 0.03
64 28 0.09
65 7 0.02
68 1 0.00
69 20 0.06
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (59 bp):
TGCCACTGACTTGTGGGCTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTTGAAAAATA
Found at i:146000 original size:88 final size:88
Alignment explanation
Indices: 145830--146273 Score: 371
Period size: 88 Copynumber: 4.9 Consensus size: 88
145820 ATGGAAAAGG
* * * * * *
145830 TGCCACCGACTTGTGGGC-TTCGAAAAAGGGTGCCACTGATTTGTGGGCTTT-GAAGGTTGCCAC
1 TGCCACTGACTTGTGGGCTTTTGAAAAA-GATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCAC
145893 TGACTTGTGGGCTTTTGAAAAATA
65 TGACTTGTGGGCTTTTGAAAAATA
* * *
145917 TGCCACTGACTTGTGGGCTTTTGAAAAATATGCCACTGACTTGTGGGCTTTTAAAGGTTGCCACT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACT
145982 GACTTGTGGGCTTTTGAAAAATA
66 GACTTGTGGGCTTTTGAAAAATA
* * * **
146005 TGCCACTGACTTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTGAAAAAGAAAAAGAGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTAAAAG-----G-GT
* * * * ** *
146070 GCTA-TAAAGTTGTGAGCTTACAAAAGAAAAAGA
60 GCCACT-GACTTGTGGGCTT----TTGAAAAATA
* * * * * *
146103 GTGCCACGGAGTTGTGGAC-TTTGGAAAAGATGCCACCGACTTGTGGGCTTCAGAAAAGGGTGCC
1 -TGCCACTGACTTGTGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTT--TAAAAGGGTGCC
* **
146167 ACTGATTTGTGGGC-TTTG-AAGGT-
63 ACTGACTTGTGGGCTTTTGAAAAATA
* *** *
146190 TGCCACTGACTTGTGGGCTTTTGAAAAAAATGCCACTGACTTGTGGGCTTTGAAAAAAATGCTAC
1 TGCCACTGACTTGTGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCAC
*
146255 TGACTTGTGGACTTTTGAA
65 TGACTTGTGGGCTTTTGAA
146274 GGGTGATGAA
Statistics
Matches: 283, Mismatches: 53, Indels: 41
0.75 0.14 0.11
Matches are distributed among these distances:
86 34 0.12
87 69 0.24
88 95 0.34
89 1 0.00
93 3 0.01
94 27 0.10
95 2 0.01
98 32 0.11
99 15 0.05
100 5 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (88 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAGATGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACT
GACTTGTGGGCTTTTGAAAAATA
Found at i:146196 original size:27 final size:27
Alignment explanation
Indices: 146104--146275 Score: 110
Period size: 29 Copynumber: 6.0 Consensus size: 27
146094 AGAAAAAGAG
* * * *
146104 TGCCACGGAGTTGTGGACTTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTT-G-AAGGA
* * *
146133 TGCCACCGACTTGTGGGCTTCAGAAAAGGG
1 TGCCACTGACTTGTGGGCTT-TG--AAGGA
* *
146163 TGCCACTGATTTGTGGGCTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAGGA
**
146190 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
1 TGCCACTGACTTGTGGGC-TTTG--AAGGA
**
146220 TGCCACTGACTTGTGGGCTTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTG--AAGGA
* *
146249 TGCTACTGACTTGTGGACTTTTGAAGG
1 TGCCACTGACTTGTGGGC-TTTGAAGG
146276 GTGATGAATG
Statistics
Matches: 119, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
27 21 0.18
28 6 0.05
29 46 0.39
30 46 0.39
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (27 bp):
TGCCACTGACTTGTGGGCTTTGAAGGA
Found at i:146272 original size:30 final size:30
Alignment explanation
Indices: 145830--146273 Score: 291
Period size: 30 Copynumber: 14.8 Consensus size: 30
145820 ATGGAAAAGG
* * **
145830 TGCCACCGACTTGTGGGC-TTCGAAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAA-AA
* ***
145860 TGCCACTGATTTGTGGGC-TTTG--AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
145887 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
145917 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
***
145947 TGCCACTGACTTGTGGGCTTTT--AAAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
*
145975 TGCCACTGACTTGTGGGCTTTTGAAAAATA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
***
146005 TGCCACTGACTTGTGGGCTTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
* *** *
146035 TGCCACTAACTTGTGGGCTGAAAAAGAAAAAGAG
1 TGCCACTGACTTGTGGGCT---TTTGAAAAA-AA
* * * * ** *
146069 TGCTA-TAAAGTTGTGAGCTTACAAAAGAAAAAGAG
1 TGCCACT-GACTTGTGGGCTT----TTGAAAAA-AA
* * * * *
146104 TGCCACGGAGTTGTGGAC-TTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
* ** ***
146133 TGCCACCGACTTGTGGGCTTCAGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
* ***
146163 TGCCACTGATTTGTGGGC-TTTG--AAGGT
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
146190 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
146220 TGCCACTGACTTGTGGGC-TTTGAAAAAAA
1 TGCCACTGACTTGTGGGCTTTTGAAAAAAA
* *
146249 TGCTACTGACTTGTGGACTTTTGAA
1 TGCCACTGACTTGTGGGCTTTTGAA
146274 GGGTGATGAA
Statistics
Matches: 337, Mismatches: 57, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
27 39 0.12
28 35 0.10
29 44 0.13
30 174 0.52
33 6 0.02
34 16 0.05
35 23 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (30 bp):
TGCCACTGACTTGTGGGCTTTTGAAAAAAA
Found at i:147714 original size:1 final size:1
Alignment explanation
Indices: 147710--147815 Score: 77
Period size: 1 Copynumber: 106.0 Consensus size: 1
147700 CCGGACCCCC
* * * * * * * * *
147710 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTTTGTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** ** * *
147775 TTTTCATTTTTTTCGTTTTTTTTGTTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
147816 GGAGGACGCC
Statistics
Matches: 77, Mismatches: 28, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:147730 original size:17 final size:16
Alignment explanation
Indices: 147710--147814 Score: 92
Period size: 17 Copynumber: 6.4 Consensus size: 16
147700 CCGGACCCCC
147710 TTTTTTGTTTTTGTTTG
1 TTTTTTGTTTTT-TTTG
147727 TTTTTT-TATTGTTTTTG
1 TTTTTTGT-TT-TTTTTG
*
147744 -TTTTT-TTTTTGTT-
1 TTTTTTGTTTTTTTTG
147757 TTTTTTGTTTTTTTTG
1 TTTTTTGTTTTTTTTG
* *
147773 TTTTTTCATTTTTTTCGTT
1 TTTTTT-GTTTTTTT--TG
147792 TTTTTTGTTTTTTTTTG
1 TTTTTTG-TTTTTTTTG
147809 TTTTTT
1 TTTTTT
147815 TGGAGGACGC
Statistics
Matches: 73, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
14 9 0.12
15 9 0.12
16 13 0.18
17 26 0.36
18 2 0.03
19 14 0.19
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (16 bp):
TTTTTTGTTTTTTTTG
Found at i:147741 original size:9 final size:9
Alignment explanation
Indices: 147710--147815 Score: 126
Period size: 9 Copynumber: 11.6 Consensus size: 9
147700 CCGGACCCCC
147710 TTTTTTGTT
1 TTTTTTGTT
147719 TTTGTTTGTTT
1 TTT-TTTG-TT
147730 TTTTATTGTT
1 TTTT-TTGTT
*
147740 TTTGTT-TT
1 TTTTTTGTT
147748 TTTTTTGTT
1 TTTTTTGTT
147757 TTTTTTGTT
1 TTTTTTGTT
147766 TTTTTTG-T
1 TTTTTTGTT
**
147774 TTTTTCATT
1 TTTTTTGTT
*
147783 TTTTTCGTT
1 TTTTTTGTT
147792 TTTTTTGTTT
1 TTTTTTG-TT
147802 TTTTTTGTT
1 TTTTTTGTT
147811 TTTTT
1 TTTTT
147816 GGAGGACGCC
Statistics
Matches: 85, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
8 13 0.15
9 45 0.53
10 19 0.22
11 8 0.09
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:147768 original size:35 final size:36
Alignment explanation
Indices: 147710--147814 Score: 151
Period size: 35 Copynumber: 2.9 Consensus size: 36
147700 CCGGACCCCC
*
147710 TTTTTTGTTTTTGTTTGTTTTTTTATTGTTTTTGT-TTT
1 TTTTTTGTTTTT-TTTGTTTTTTT-TTGTTTTT-TCATT
147748 TTTTTTGTTTTTTTTG-TTTTTTTTGTTTTTTCATT
1 TTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTCATT
*
147783 TTTTTCGTTTTTTTTGTTTTTTTTTGTTTTTT
1 TTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTT
147815 TGGAGGACGC
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
34 1 0.02
35 25 0.40
36 21 0.33
37 4 0.06
38 12 0.19
ACGTcount: A:0.02, C:0.02, G:0.10, T:0.86
Consensus pattern (36 bp):
TTTTTTGTTTTTTTTGTTTTTTTTTGTTTTTTCATT
Found at i:154483 original size:33 final size:33
Alignment explanation
Indices: 154441--154506 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
154431 TCTAGAAGAT
*
154441 AGTCGAGAAGATGGCCAAGACATACAAGGATTG
1 AGTCAAGAAGATGGCCAAGACATACAAGGATTG
*
154474 AGTCAAGAAGATGGCCGAGACATACAAGGATTG
1 AGTCAAGAAGATGGCCAAGACATACAAGGATTG
154507 GCATGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (33 bp):
AGTCAAGAAGATGGCCAAGACATACAAGGATTG
Found at i:155095 original size:19 final size:19
Alignment explanation
Indices: 155073--155112 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
155063 AAACAACACA
155073 AAAAAAGA-AAGAAAAAAAG
1 AAAAAAGAGAA-AAAAAAAG
*
155092 AAAAAAGAGAAAAGAAAAG
1 AAAAAAGAGAAAAAAAAAG
155111 AA
1 AA
155113 CTTGCCTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 17 0.89
20 2 0.11
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (19 bp):
AAAAAAGAGAAAAAAAAAG
Found at i:155102 original size:9 final size:8
Alignment explanation
Indices: 155047--155104 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
155037 TCTTTTTTTC
155047 AAAAA-AA
1 AAAAAGAA
155054 AAAAA-AA
1 AAAAAGAA
*
155061 AAAAACAA
1 AAAAAGAA
155069 CACAAAA-AA
1 -A-AAAAGAA
*
155078 AGAAAGAA
1 AAAAAGAA
155086 AAAAAGAA
1 AAAAAGAA
155094 AAAAGAGAA
1 AAAA-AGAA
155103 AA
1 AA
155105 GAAAAGAACT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
7 15 0.34
8 16 0.36
9 9 0.20
10 4 0.09
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:156175 original size:61 final size:61
Alignment explanation
Indices: 156079--156598 Score: 521
Period size: 61 Copynumber: 8.4 Consensus size: 61
156069 AACCTTTTAT
* * * * * * *
156079 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTATCCTTTTAAAGCCTATAGAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
156140 CCTTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTCAAAGCCTACACAAATTAGTAGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
156201 -CTTTCTAGTCCTCAAATAGCAAGACGCATTTTCCTTTTAAAGCCCACACAGGTTGGTGGCA
1 CCTTT-TAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
156262 -CTAGTCT-GTCCTCAAAGAGCATGATGCATTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCT--TTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
156323 -CTTTCCAGTCCTTAAAGAGCAAGACG-TCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCT
1 CCTTT-TAGTCCTCAAAGAGCAGGACGCT-TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
156384 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
1 CCTTTTAGTCCTCAAAGAGCAGGA---C----GCTTTTTCCTTTTAAAGCCCACACAAGTTGGTG
156449 GCA
59 GCA
* * * *
156452 CCTTTCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
156513 CCTTCTAGTCCTCAAAGAGCAGGACGCTTTCT-CTTTGCAAAGCCTATACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* * *
156574 CCTTCTATTCCCCAAAGAGCAGGAC
1 CCTTTTAGTCCTCAAAGAGCAGGAC
156599 ACATTTAATT
Statistics
Matches: 389, Mismatches: 54, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
59 1 0.00
60 8 0.02
61 317 0.81
62 5 0.01
63 1 0.00
64 1 0.00
68 55 0.14
69 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (61 bp):
CCTTTTAGTCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:156488 original size:190 final size:184
Alignment explanation
Indices: 156079--156597 Score: 611
Period size: 190 Copynumber: 2.8 Consensus size: 184
156069 AACCTTTTAT
* * * *
156079 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTATCCTTTTAAAGCCTATAGAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
* * * * *
156144 T-TAGTCCTCAAAGAGCAGGACACTTTTTCCTTTCAAAGCCTACACAAATTAGTAGCACTTTCTA
65 TCTAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTCAAAGCCTACACAAGTTGGTGGCCCTTTCTA
* * *
156208 GTCCTCAAATAGCA--AGACGCATTTTCCTTTTAAAGCCCACACAGGTTGGTGGCA
129 GTCCTCAAAGAGCAGGAGACCCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
156262 -CTAGTCTGTCCTCAAAGAGCATGATGCATTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACTT
1 CCT-TTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTT
* * * * *
156326 TCCAGTCCTTAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCTCCTTTC-
65 TCTAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTCAAAGCCTACACAAGTTGGTGGC-CCTTTCT
* *
156390 AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
128 AGTCCTCAAAGAGCAGGA-GAC----CCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
156452 CCTTTCAGTCCTTAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
1 CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
*
156517 CTAGTCCTCAAAGAGCAGGACGC-TTTCTCTTTGCAAAGCCTATACAAGTTGGTGGCACC-TTCT
66 CTAGTCCTCAAAGAGCAGGACGCTTTTC-CTTT-CAAAGCCTACACAAGTTGGTGGC-CCTTTCT
* *
156580 ATTCCCCAAAGAGCAGGA
128 AGTCCTCAAAGAGCAGGA
156598 CACATTTAAT
Statistics
Matches: 282, Mismatches: 39, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
182 6 0.02
183 108 0.38
184 6 0.02
185 1 0.00
186 2 0.01
188 4 0.01
189 8 0.03
190 145 0.51
191 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (184 bp):
CCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT
CTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCCCTTTCTAGT
CCTCAAAGAGCAGGAGACCCATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:156693 original size:42 final size:41
Alignment explanation
Indices: 156586--156695 Score: 143
Period size: 42 Copynumber: 2.7 Consensus size: 41
156576 TTCTATTCCC
*
156586 CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTGTCCT
1 CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTATCCT
* *
156627 CAAAGAGCGGGATGCAC-TTT-ATTTCCTTTTCTCTTTTATCCT
1 CAAAGAGCAGGA--CACATTTAATTTCCTTTTC-CCTTTATCCT
*
156669 CAAAGAGTAGGACACATTTAATTTCCT
1 CAAAGAGCAGGACACATTTAATTTCCT
156696 CATTTTCCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
40 3 0.05
41 25 0.42
42 28 0.47
43 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (41 bp):
CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTATCCT
Found at i:156757 original size:82 final size:81
Alignment explanation
Indices: 156586--156762 Score: 212
Period size: 82 Copynumber: 2.1 Consensus size: 81
156576 TTCTATTCCC
* *
156586 CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTGTCCTCAAAGAGCGGGATGCACTTTATTT
1 CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTG--CTCAAAAAGCAGGATGCACTTTATTT
*
156651 CCTTTTCTCTTTTATCCT
64 CCTTTTCTCCTTTATCCT
* * * *
156669 CAAAGAGTAGGACACATTTAATTTCCTCATTTTCCTTTG-TCAAAAAGTAGGATGCATTTTATTT
1 CAAAGAGCAGGACACATTTAATTTCCT--TTTCCCTTTGCTCAAAAAGCAGGATGCACTTTATTT
* * *
156733 CTTTTTTTCCTTTGTCCT
64 CCTTTTCTCCTTTATCCT
*
156751 CGAAGAGCAGGA
1 CAAAGAGCAGGA
156763 TGTACTCCTT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
82 45 0.56
83 26 0.32
85 9 0.11
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (81 bp):
CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTGCTCAAAAAGCAGGATGCACTTTATTTCC
TTTTCTCCTTTATCCT
Found at i:156818 original size:40 final size:40
Alignment explanation
Indices: 156586--156832 Score: 154
Period size: 40 Copynumber: 6.2 Consensus size: 40
156576 TTCTATTCCC
* *
156586 CAAAGAGCAGGACACATTTAATTTCCTTTTCCCTTTGTCCT
1 CAAAGAGCAGGACACATTT-ATTTCTTTTTTCCTTTGTCCT
* * * *
156627 CAAAGAGCGGGATGCAC-TTTATTTCCTTTTCTCTTTTATCCT
1 CAAAGAGCAGGA--CACATTTATTT-CTTTTTTCCTTTGTCCT
* *
156669 CAAAGAGTAGGACACATTTAATTTCCTCATTTTCCTTTG---T
1 CAAAGAGCAGGACACATTT-ATTT-CT-TTTTTCCTTTGTCCT
* * **
156709 CAAAAAGTAGGATGCATTTTATTTCTTTTTTTCCTTTGTCCT
1 CAAAGAGCAGGACACA-TTTATTTC-TTTTTTCCTTTGTCCT
* * * * *
156751 CGAAGAGCAGG----ATGTA-CTCCTTTTTCTTTTGTCCT
1 CAAAGAGCAGGACACATTTATTTCTTTTTTCCTTTGTCCT
* * *
156786 CAAAGAGCAGGACCCATTTCA-TTCTTTTTTCTTTTGTACT
1 CAAAGAGCAGGACACATTT-ATTTCTTTTTTCCTTTGTCCT
156826 CAAAGAG
1 CAAAGAG
156833 TAAGACATAC
Statistics
Matches: 162, Mismatches: 28, Indels: 33
0.73 0.13 0.15
Matches are distributed among these distances:
35 24 0.15
36 2 0.01
37 3 0.02
38 1 0.01
39 14 0.09
40 46 0.28
41 21 0.13
42 41 0.25
43 10 0.06
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (40 bp):
CAAAGAGCAGGACACATTTATTTCTTTTTTCCTTTGTCCT
Found at i:157577 original size:50 final size:49
Alignment explanation
Indices: 157433--157598 Score: 215
Period size: 50 Copynumber: 3.3 Consensus size: 49
157423 TTTCACAATT
* * * *
157433 TGTATCGATACATTGTTCATTATATTGATATATTCTGGGTTTTACACAAA
1 TGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTAC-CAGA
* * * *
157483 TGTATCAATACATTATTCAATTGTATCGATACATTTTGGGTTTTACTCAGA
1 TGTATCGATACATTTTTC-ATTGTATCGATATATTCTGGGTTTTAC-CAGA
157534 TGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTACC-AGA
*
157584 TATATCGATACATTT
1 TGTATCGATACATTT
157599 CGCAATGTAT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 58 0.57
51 42 0.42
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (49 bp):
TGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTACCAGA
Found at i:157608 original size:50 final size:49
Alignment explanation
Indices: 157433--157618 Score: 187
Period size: 50 Copynumber: 3.7 Consensus size: 49
157423 TTTCACAATT
* * * * *
157433 TGTATCGATACATTGTTCATTATATTGATATATTCTGGGTTTTACAC-AAA
1 TGTATCGATACATT-TTCAATGTATCGATACATTCTGGGTTTTAC-CTAGA
* *
157483 TGTATCAATACATTATTCAATTGTATCGATACATTTTGGGTTTTA-CTCAGA
1 TGTATCGATACATT-TTCAA-TGTATCGATACATTCTGGGTTTTACCT-AGA
* *
157534 TGTATCGATACATTTTTCATTGTATCGATATATTCTGGGTTTTACCTAGA
1 TGTATCGATACA-TTTTCAATGTATCGATACATTCTGGGTTTTACCTAGA
* * *
157584 TATATCGATACATTTCGCAATGTATCAATACATTC
1 TGTATCGATACATTT-TCAATGTATCGATACATTC
157619 AGGCATTTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
49 4 0.04
50 68 0.60
51 39 0.35
52 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (49 bp):
TGTATCGATACATTTTCAATGTATCGATACATTCTGGGTTTTACCTAGA
Found at i:160375 original size:78 final size:79
Alignment explanation
Indices: 160146--160407 Score: 330
Period size: 78 Copynumber: 3.3 Consensus size: 79
160136 GTTAACCCTG
* * * * *
160146 TTATTTTTGAGGGGATACTCTAACCCCGATTTTA-TTCTTAAAACATTAATTATTCCACTATCGG
1 TTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTC-TAAAACACTGATT-TTTCACTATCGG
*
160210 GGATACTCTAACCCCA
64 GGATACTCCAACCCCA
* * * * * * *
160226 CTATTTTCGAGGGGATACTCTAATCTCGGTTTTATTTCCAAAACACTGATTTTTCAATGTCAGGG
1 TTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTCTAAAACACTGATTTTTCACTATCGGGG
160291 ATACTCCAACCCCA
66 ATACTCCAACCCCA
* *
160305 TTATTTTCGAGGAGATACTC-AACCTCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGG
1 TTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTCTAAAACACTGATTTTTCACTATCGGGG
* *
160369 GTACTCCAACCCCC
66 ATACTCCAACCCCA
*
160383 TTATTTTCGAGGGGATACTCCAACC
1 TTATTTTCGAGGGGATACTCTAACC
160408 CTGTTTTTAT
Statistics
Matches: 155, Mismatches: 25, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
78 68 0.44
79 45 0.29
80 39 0.25
81 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
TTATTTTCGAGGGGATACTCTAACCTCGATTTTATTTCTAAAACACTGATTTTTCACTATCGGGG
ATACTCCAACCCCA
Found at i:161670 original size:31 final size:30
Alignment explanation
Indices: 161614--161675 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 30
161604 CAACCAAGCC
* *
161614 TAAATAAATTATTAAATATTATATATAATT
1 TAAATAAATGATTAAATAATATATATAATT
*
161644 TAAATATATGATTATAATAATATATATAATT
1 TAAATAAATGATTA-AATAATATATATAATT
161675 T
1 T
161676 CATAAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TAAATAAATGATTAAATAATATATATAATT
Found at i:162859 original size:19 final size:18
Alignment explanation
Indices: 162819--162867 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 18
162809 ATCACCCTCC
*
162819 TTAAAAAACTTCTTCCTC
1 TTAAAAAACTTCTTCCTA
162837 TTAAAAAACTATCGTTCC-A
1 TTAAAAAACT-TC-TTCCTA
162856 TTAAAAGAACTT
1 TTAAAA-AACTT
162868 ATATATACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.37
19 9 0.33
20 8 0.30
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (18 bp):
TTAAAAAACTTCTTCCTA
Found at i:166535 original size:17 final size:17
Alignment explanation
Indices: 166505--166538 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
166495 TACTTTTTGG
**
166505 ATTTTTTTTCTTTTTTT
1 ATTTTTTTGATTTTTTT
166522 ATTTTTTTGATTTTTTT
1 ATTTTTTTGATTTTTTT
166539 GTTTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (17 bp):
ATTTTTTTGATTTTTTT
Found at i:166539 original size:9 final size:9
Alignment explanation
Indices: 166498--166539 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
166488 CATTTCTTAC
*
166498 TTTTTGGAT
1 TTTTTTGAT
**
166507 TTTTTTTCT
1 TTTTTTGAT
166516 TTTTTT-AT
1 TTTTTTGAT
166524 TTTTTTGAT
1 TTTTTTGAT
166533 TTTTTTG
1 TTTTTTG
166540 TTTGATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.07, C:0.02, G:0.10, T:0.81
Consensus pattern (9 bp):
TTTTTTGAT
Found at i:166543 original size:13 final size:12
Alignment explanation
Indices: 166498--166549 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
166488 CATTTCTTAC
*
166498 TTTTTGGATTTT
1 TTTTTTGATTTT
**
166510 TTTTCTTTTTTTAT
1 TTTT-TTGATTT-T
166524 TTTTTTGATTTT
1 TTTTTTGATTTT
166536 TTTGTTTGATTTT
1 TTT-TTTGATTTT
166549 T
1 T
166550 ATTATTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.25
13 19 0.59
14 5 0.16
ACGTcount: A:0.08, C:0.02, G:0.10, T:0.81
Consensus pattern (12 bp):
TTTTTTGATTTT
Found at i:167439 original size:13 final size:13
Alignment explanation
Indices: 167421--167446 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
167411 CAATTTTTTG
167421 TGTATCGATACAT
1 TGTATCGATACAT
167434 TGTATCGATACAT
1 TGTATCGATACAT
167447 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:167511 original size:21 final size:21
Alignment explanation
Indices: 167485--167560 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
167475 CTGCCAAGAA
*
167485 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
167506 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
167526 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
167547 ATGTATCGATACAT
1 ATGTATCGATACAT
167561 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:167531 original size:20 final size:20
Alignment explanation
Indices: 167506--167578 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
167496 CATCTTTTTT
167506 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
167526 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
167547 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
167567 ATGTATCGATAC
1 ATGTATCGATAC
167579 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:167542 original size:41 final size:41
Alignment explanation
Indices: 167485--167578 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
167475 CTGCCAAGAA
*
167485 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167526 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
167567 ATGTATCGATAC
1 ATGTATCGATAC
167579 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:168239 original size:34 final size:34
Alignment explanation
Indices: 168199--168264 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
168189 CCCGTTTATT
168199 AAAAAATCTCCCCCTTAATCAAGTAATTCATAAA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCATAAA
168233 AAAAAATCTCCCCCTTAATCAAGTAATTCATA
1 AAAAAATCTCCCCCTTAATCAAGTAATTCATA
168265 TCAAAATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.27
Consensus pattern (34 bp):
AAAAAATCTCCCCCTTAATCAAGTAATTCATAAA
Found at i:170076 original size:13 final size:13
Alignment explanation
Indices: 170058--170096 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
170048 ATAATCACCC
*
170058 TGTATCGATACAG
1 TGTATCGATACAA
170071 TGTATCGATACAA
1 TGTATCGATACAA
170084 TGTATCGATACAA
1 TGTATCGATACAA
170097 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:170107 original size:20 final size:20
Alignment explanation
Indices: 170082--170160 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
170072 GTATCGATAC
170082 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
170102 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
170127 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
170147 CATGTATCGATACA
1 AATGTATCGATACA
170161 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:176344 original size:21 final size:21
Alignment explanation
Indices: 176318--176393 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
176308 CTGCCAAGAA
*
176318 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
176339 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
176359 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
176380 ATGTATCGATACAT
1 ATGTATCGATACAT
176394 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:176364 original size:20 final size:20
Alignment explanation
Indices: 176339--176411 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
176329 CATCTTTTTT
176339 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
176359 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
176380 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
176400 ATGTATCGATAC
1 ATGTATCGATAC
176412 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:176375 original size:41 final size:41
Alignment explanation
Indices: 176318--176411 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
176308 CTGCCAAGAA
*
176318 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
176359 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
176400 ATGTATCGATAC
1 ATGTATCGATAC
176412 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:176899 original size:13 final size:13
Alignment explanation
Indices: 176881--176907 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
176871 TAAACATCCT
176881 TTGTATCGATACA
1 TTGTATCGATACA
176894 TTGTATCGATACA
1 TTGTATCGATACA
176907 T
1 T
176908 GAAACTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:183106 original size:20 final size:20
Alignment explanation
Indices: 183081--183132 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
183071 AAAACCTAGA
*
183081 TGTATCAATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
183101 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
183121 TGTATCGATACA
1 TGTATCGATACA
183133 TGTATCGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATGTTCTT
Found at i:183150 original size:13 final size:12
Alignment explanation
Indices: 183121--183159 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
183111 CAATGTTCTT
183121 TGTATCGATACA
1 TGTATCGATACA
183133 TGTATCGATACAA
1 TGTATCGATAC-A
*
183146 TGTATCGAAACA
1 TGTATCGATACA
183158 TG
1 TG
183160 GGTTACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 14 0.56
13 11 0.44
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:184037 original size:33 final size:33
Alignment explanation
Indices: 183993--184055 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
183983 AGTTGATCAC
*
183993 TTCACTTTCGCAGCACATGAACGAGCACTTCAT
1 TTCACTCTCGCAGCACATGAACGAGCACTTCAT
* * *
184026 TTCACTCTCGCAGCGCATGGATGAGCACTT
1 TTCACTCTCGCAGCACATGAACGAGCACTT
184056 TAGTGCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (33 bp):
TTCACTCTCGCAGCACATGAACGAGCACTTCAT
Found at i:185000 original size:19 final size:20
Alignment explanation
Indices: 184976--185030 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
184966 GTATTGATAT
**
184976 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCACA
184995 ATTGTATCGATACATGCACA
1 ATTGTATCGATACATGCACA
185015 ATTGTATCGATACATG
1 ATTGTATCGATACATG
185031 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGCACA
Found at i:186833 original size:18 final size:19
Alignment explanation
Indices: 186797--186839 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
186787 TTTCTTAAAT
*
186797 TTTACATAAAAACTCAAAAA
1 TTTA-ATAAAAACTAAAAAA
186817 TTTAATAAAAA-TAAAAAA
1 TTTAATAAAAACTAAAAAA
186835 TTTAA
1 TTTAA
186840 CCATGATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 7 0.32
20 4 0.18
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTAATAAAAACTAAAAAA
Found at i:186990 original size:30 final size:29
Alignment explanation
Indices: 186950--187009 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
186940 CTTTAAAACG
*
186950 ACACTTTTTTATTATGTGCACATGTGACT
1 ACACTTTTTTATTATGTGCACATCTGACT
186979 ACACTTTTTTTATTATGTGCACATCTGACT
1 ACAC-TTTTTTATTATGTGCACATCTGACT
187009 A
1 A
187010 TTTAGGCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (29 bp):
ACACTTTTTTATTATGTGCACATCTGACT
Found at i:188840 original size:34 final size:34
Alignment explanation
Indices: 188802--188925 Score: 232
Period size: 34 Copynumber: 3.7 Consensus size: 34
188792 CTTTGTTAAG
188802 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
188836 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
188870 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
1 TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
*
188904 TGTGTTTGGTGAGAATG-TAGGT
1 TGTATTTGGTGAGAATGTTAGGT
188926 TTAGGTGAGA
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
33 5 0.06
34 84 0.94
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (34 bp):
TGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGA
Found at i:188934 original size:18 final size:18
Alignment explanation
Indices: 188907--188944 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
188897 TAGGTGATGT
188907 GTTTGGTGAGAATG-TAG
1 GTTTGGTGAGAATGTTAG
188924 GTTTAGGTGAGAATGTTAG
1 GTTT-GGTGAGAATGTTAG
188943 GT
1 GT
188945 GTGTTAGGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (18 bp):
GTTTGGTGAGAATGTTAG
Found at i:188939 original size:52 final size:53
Alignment explanation
Indices: 188877--188978 Score: 188
Period size: 52 Copynumber: 1.9 Consensus size: 53
188867 TGATGTATTT
*
188877 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATG-TAGGTTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTTTA
188929 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGT
188979 GTGTTAGGTG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 43 0.90
53 5 0.10
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (53 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTTTA
Found at i:188945 original size:86 final size:90
Alignment explanation
Indices: 188843--189074 Score: 427
Period size: 86 Copynumber: 2.6 Consensus size: 90
188833 TGATGTATTT
188843 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
188908 TTTGGTGAGAATG-TA-G-GT-TTA
66 TTTGGTGAGAATGTTAGGTGTGTTA
188929 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
188994 TTTGGTGAGAATGTTAGGTGTGTTA
66 TTTGGTGAGAATGTTAGGTGTGTTA
*
189019 GGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
189075 ACATGTATAT
Statistics
Matches: 141, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
86 78 0.55
87 2 0.01
88 1 0.01
89 2 0.01
90 58 0.41
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (90 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTG
TTTGGTGAGAATGTTAGGTGTGTTA
Found at i:188952 original size:22 final size:22
Alignment explanation
Indices: 188904--189045 Score: 106
Period size: 22 Copynumber: 6.5 Consensus size: 22
188894 TGTTAGGTGA
*
188904 TGTGTTTGGTGAGAATG-TA-G
1 TGTGTTAGGTGAGAATGTTAGG
188924 -GT-TTAGGTGAGAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
*
188944 TGTGTTAGGTGATGTAT-TT-GG
1 TGTGTTAGGTGA-GAATGTTAGG
188965 TGAGAATGTTAGGT--G--TGTTAGGTG
1 T--G--TGTTAGGTGAGAATGTTA-G-G
*
188989 ATGTGTTTGGTGAGAATGTTAGG
1 -TGTGTTAGGTGAGAATGTTAGG
*
189012 TGTGTTAGGTGACAATGTTAGG
1 TGTGTTAGGTGAGAATGTTAGG
189034 TGTGTTAGGTGA
1 TGTGTTAGGTGA
189046 TGTATTTGGT
Statistics
Matches: 99, Mismatches: 5, Indels: 34
0.72 0.04 0.25
Matches are distributed among these distances:
18 12 0.12
19 4 0.04
20 2 0.02
21 14 0.14
22 43 0.43
23 8 0.08
24 2 0.02
25 14 0.14
ACGTcount: A:0.20, C:0.01, G:0.39, T:0.39
Consensus pattern (22 bp):
TGTGTTAGGTGAGAATGTTAGG
Found at i:188967 original size:34 final size:34
Alignment explanation
Indices: 188929--189023 Score: 181
Period size: 34 Copynumber: 2.8 Consensus size: 34
188919 TGTAGGTTTA
188929 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
*
188963 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTT
1 GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
188997 GGTGAGAATGTTAGGTGTGTTAGGTGA
1 GGTGAGAATGTTAGGTGTGTTAGGTGA
189024 CAATGTTAGG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 60 1.00
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.39
Consensus pattern (34 bp):
GGTGAGAATGTTAGGTGTGTTAGGTGATGTATTT
Found at i:189029 original size:56 final size:56
Alignment explanation
Indices: 188963--189074 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
188953 TGATGTATTT
* *
188963 GGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
189019 GGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
1 GGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
189075 ACATGTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.21, C:0.01, G:0.39, T:0.39
Consensus pattern (56 bp):
GGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTA
Found at i:189057 original size:68 final size:68
Alignment explanation
Indices: 188795--189057 Score: 231
Period size: 68 Copynumber: 3.8 Consensus size: 68
188785 TTAATTTCTT
* * * *
188795 TGTTAAGTGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGA-GAATGTTAGGT
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGATG--TGTTTGGT
188859 --G--
64 GAGAA
* *
188860 TGTTAGGTGATGTATTTGGTGAGAATGTTAGGTGTGTTAGGTGATGTGTTTGGTGAGAATGTAGG
1 TGTTAGGTG-TG--TTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGT--G-ATGT--G
188925 TTTAGGTGAGAA
58 TTT-GGTGAGAA
* *
188937 TGTTAGGTGTGTTAGGTGATGTAT-TT-GGTGAGAATGTTAGGTG-TG--TTAGGTGATGTGTTT
1 TGTTAGGTGTGTTAGGTGA-GAATGTTAGGT--G--TGTTAGGTGATGTATTTGGTGATGTGTTT
188997 GGTGAGAA
61 GGTGAGAA
*
189005 TGTTAGGTGTGTTAGGTGACAATGTTAGGTGTGTTAGGTGATGTATTTGGTGA
1 TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGA
189058 GAATGTTAGG
Statistics
Matches: 164, Mismatches: 10, Indels: 45
0.75 0.05 0.21
Matches are distributed among these distances:
65 17 0.10
66 3 0.02
67 3 0.02
68 75 0.46
69 7 0.04
70 2 0.01
71 5 0.03
72 5 0.03
73 6 0.04
74 14 0.09
75 5 0.03
76 4 0.02
77 18 0.11
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (68 bp):
TGTTAGGTGTGTTAGGTGAGAATGTTAGGTGTGTTAGGTGATGTATTTGGTGATGTGTTTGGTGA
GAA
Done.