Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 314 of 373
Found at i:106108556 original size:93 final size:93
Alignment explanation
Indices: 106108397--106108568 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
106108387 GGATGGTTGA
* *
106108397 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106108462 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
106108490 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
106108555 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
106108569 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:106118878 original size:40 final size:40
Alignment explanation
Indices: 106118841--106119026 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
106118831 GCTACTCGTT
*
106118841 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
106118881 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
106118921 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
106118961 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
106119002 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
106119027 CATCATTCAA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:106126974 original size:42 final size:42
Alignment explanation
Indices: 106126910--106126996 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
106126900 CTATCTACAC
106126910 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
1 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
* *
106126952 TGATCACAAAAGCTTCACATATCTCTTCACCCAGAAGAAAGT
1 TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
106126994 TGA
1 TGA
106126997 ATCTTAGGCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (42 bp):
TGATCACAAAAGCCTCAAATATCTCTTCACCCAGAAGAAAGT
Found at i:106148237 original size:40 final size:37
Alignment explanation
Indices: 106148136--106148301 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 37
106148126 CATGGCAAAG
*
106148136 TGTGAAATGTAGTTATGG--TATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
* *
106148171 TGTGAAATGTAGGTATGGTAT-T-ATCCATACTAAGC
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
106148206 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTA-TATC--ATCCATACTGAGT
** * * * *
106148246 TAAGAAATGTAGGTATAGCATTTC--CCATACCGAGT
1 TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
**
106148281 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
106148302 TTCAATGAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
35 75 0.69
36 2 0.02
37 2 0.02
39 3 0.03
40 27 0.25
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (37 bp):
TGTGAAATGTAGGTATGGTATATCATCCATACTGAGT
Found at i:106148259 original size:75 final size:75
Alignment explanation
Indices: 106148136--106148306 Score: 194
Period size: 75 Copynumber: 2.4 Consensus size: 75
106148126 CATGGCAAAG
* ** * *
106148136 TGTGAAATGTAGTTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATAGCATT-TC
*
106148195 CCATACTAAGC
65 CCATACCAAGC
106148206 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATAGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATAGCATTTCC
* *
106148271 CATACCGAGT
66 CATACCAAGC
**
106148281 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
106148307 TGAGGAAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
70 17 0.20
73 4 0.05
74 5 0.06
75 59 0.69
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATAGCATTTCC
CATACCAAGC
Found at i:106155640 original size:35 final size:35
Alignment explanation
Indices: 106155613--106155778 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
106155603 CATGGAAAAG
106155613 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
106155648 TGTGAAATGTAGGTATGGTATTATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
106155683 TGTGAAATGTAGGTATGGTATTATCAAATACATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** ** *
106155723 TAAGAAATGTAGGTATGACAT-TTCCCATA-TCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACT-GAGT
**
106155758 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
106155779 TTCAATGAGG
Statistics
Matches: 111, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
34 2 0.02
35 77 0.69
37 2 0.02
38 3 0.03
40 27 0.24
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:106155735 original size:75 final size:75
Alignment explanation
Indices: 106155613--106155783 Score: 205
Period size: 75 Copynumber: 2.4 Consensus size: 75
106155603 CATGGAAAAG
* ** **
106155613 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATACATACTGAGTTAAGAAATGTAGGTATGACATT-TC
106155672 CCATA-CTGAGT
65 CCATATC-GAGT
106155683 TGTGAAATGTAGGTATGGTATTATCAAATACATACTGAGTTAAGAAATGTAGGTATGACATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATACATACTGAGTTAAGAAATGTAGGTATGACATTTCC
106155748 CATATCGAGT
66 CATATCGAGT
**
106155758 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
106155784 TGAGGAAAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
70 18 0.21
73 4 0.05
74 5 0.06
75 59 0.68
76 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATACATACTGAGTTAAGAAATGTAGGTATGACATTTCC
CATATCGAGT
Found at i:106157190 original size:27 final size:27
Alignment explanation
Indices: 106157158--106157209 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
106157148 ACACTTATTA
*
106157158 TTTATTTTTA-CTTTTTTTAATATTTAT
1 TTTATTTTTATCTTTATTT-ATATTTAT
106157185 TTTATTTTTATCTTTATTTATATTT
1 TTTATTTTTATCTTTATTTATATTT
106157210 TGAAATTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTATTTTTATCTTTATTTATATTTAT
Found at i:106161963 original size:60 final size:59
Alignment explanation
Indices: 106161897--106162015 Score: 143
Period size: 60 Copynumber: 2.0 Consensus size: 59
106161887 TATGGCCAAG
* *
106161897 GCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTGATATGGGCTAC
1 GCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTGATATAGGCTAC
* * *
106161957 GCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTGATATAGGCTA
1 GCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTGATATAGGCTA
106162016 AGGCCCAGTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
59 1 0.02
60 42 0.82
61 8 0.16
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (59 bp):
GCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTGATATAGGCTAC
Found at i:106164111 original size:18 final size:18
Alignment explanation
Indices: 106164088--106164158 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
106164078 GGGACGTGTC
106164088 ATTCATTTTCAAAATGTT
1 ATTCATTTTCAAAATGTT
*
106164106 ATTCATTATCACAAA-GTT
1 ATTCATTTTCA-AAATGTT
* * *
106164124 ATAC-TCTTTCAAAACGCT
1 ATTCAT-TTTCAAAATGTT
*
106164142 ATTAATTTTCAAAATGT
1 ATTCATTTTCAAAATGT
106164159 CACTTATTGC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (18 bp):
ATTCATTTTCAAAATGTT
Found at i:106165226 original size:23 final size:23
Alignment explanation
Indices: 106165182--106165238 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
106165172 TATAAGTAAA
*
106165182 AAATTATAAAAATTAAATTATATT
1 AAATTAT-ACAATTAAATTATATT
106165206 AAATTATACAATTATAA-TATATT
1 AAATTATACAATTA-AATTATATT
*
106165229 AATTTA-ACAA
1 AAATTATACAA
106165239 AGAATGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 4 0.13
23 17 0.57
24 9 0.30
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
AAATTATACAATTAAATTATATT
Found at i:106169222 original size:50 final size:50
Alignment explanation
Indices: 106169108--106169207 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
106169098 GTGTTGGGAA
*
106169108 AGAGTAAAAAGTCTGAAACTGCCCGTTCAGTTGGAAAACGTCTTGGAACT
1 AGAGTAAAAAGTCTGAAACTGCCCGTTCAGTTGGAAAACGTCCTGGAACT
106169158 AGAGTAAAAAGTCTGAAACTGCCCGTTCAGTTGGAAAACGTCCTGGAACT
1 AGAGTAAAAAGTCTGAAACTGCCCGTTCAGTTGGAAAACGTCCTGGAACT
106169208 GCTAGTTCAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (50 bp):
AGAGTAAAAAGTCTGAAACTGCCCGTTCAGTTGGAAAACGTCCTGGAACT
Found at i:106175418 original size:49 final size:49
Alignment explanation
Indices: 106175346--106175498 Score: 236
Period size: 49 Copynumber: 3.1 Consensus size: 49
106175336 ATTACTTGTA
106175346 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
* * *
106175395 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAAAT-TCAAAGTA
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGT--ATG-G
*
106175446 AAACACAATTATACATTTGTAAATAATCTTGATTAAACTAGATGTATGG
1 AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
106175495 AAAC
1 AAAC
106175499 CTCATATCAT
Statistics
Matches: 93, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
48 1 0.01
49 46 0.49
50 4 0.04
51 41 0.44
52 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (49 bp):
AAACACAATTATACACTTGTAAATAATCTTGATTAAACTAGATGTATGG
Found at i:106177490 original size:27 final size:27
Alignment explanation
Indices: 106177452--106177505 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
106177442 GTCCAAAAAC
106177452 TTAGAATTTGGAAAAATTGCTCTCCAA
1 TTAGAATTTGGAAAAATTGCTCTCCAA
106177479 TTAGAATTTGGAAAAATTGCTCTCCAA
1 TTAGAATTTGGAAAAATTGCTCTCCAA
106177506 AACCTTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TTAGAATTTGGAAAAATTGCTCTCCAA
Found at i:106180216 original size:78 final size:78
Alignment explanation
Indices: 106180087--106180247 Score: 268
Period size: 78 Copynumber: 2.1 Consensus size: 78
106180077 CAAATAGCTA
* * *
106180087 GAGAACCAAAATTGGGGGTCTTTAAAGGGTAAATAGAGCTTTAAAATAGTGGTGGCCAGCCATAG
1 GAGAACCAAAATTGGGGGTCTTTAAAGGGCAAATAGACCCTTAAAATAGTGGTGGCCAGCCATAG
106180152 GGACAAAAGGGAT
66 GGACAAAAGGGAT
* * *
106180165 GAGAACCAATATTGGGGGTCTTTAAAGGGCAAATAGACCCTTAAAATAGTGGTGGCCGGGCATAG
1 GAGAACCAAAATTGGGGGTCTTTAAAGGGCAAATAGACCCTTAAAATAGTGGTGGCCAGCCATAG
106180230 GGACAAAAGGGAT
66 GGACAAAAGGGAT
106180243 GAGAA
1 GAGAA
106180248 AGTCAAAGTT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (78 bp):
GAGAACCAAAATTGGGGGTCTTTAAAGGGCAAATAGACCCTTAAAATAGTGGTGGCCAGCCATAG
GGACAAAAGGGAT
Found at i:106181329 original size:49 final size:48
Alignment explanation
Indices: 106181141--106181407 Score: 182
Period size: 47 Copynumber: 5.7 Consensus size: 48
106181131 TTTGTGTGCT
* ** * * * *
106181141 AGTGTAAGA-CATGTCTGGGACAT-GCACCGGCCACATTGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAATGGATGAGTC
* * * * *
106181187 AGTGTAAGACCATGTCTAGGACATGGCATCCGCATTG-A-GACAAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTGAATG-GATGAGTC
* * * * * *
106181234 TAGTGTAA-AACATGTGTGGGGCAT-GCATCAG-CT--ACGAGATGTGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAATG-GATGAGTC
* *
106181279 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-GA-ATGGATGAGTC
* *
106181328 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAATGGATGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAATGGATGAGTC
106181374 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGC
106181408 ATTATACCCT
Statistics
Matches: 174, Mismatches: 30, Indels: 32
0.74 0.13 0.14
Matches are distributed among these distances:
43 1 0.01
44 13 0.07
45 14 0.08
46 26 0.15
47 62 0.36
48 22 0.13
49 33 0.19
50 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTGAATGGATGAGTC
Found at i:106183914 original size:21 final size:20
Alignment explanation
Indices: 106183890--106183929 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
106183880 ATGCTCAAGT
*
106183890 TCCACACGGGTGTGTTGCCCA
1 TCCACACGGGCGTG-TGCCCA
106183911 TCCACACGGGCGTGTGCCC
1 TCCACACGGGCGTGTGCCC
106183930 TGTTTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.12, C:0.38, G:0.30, T:0.20
Consensus pattern (20 bp):
TCCACACGGGCGTGTGCCCA
Found at i:106190592 original size:16 final size:16
Alignment explanation
Indices: 106190571--106190606 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
106190561 ATAGAGTTTA
106190571 GAAAAGACTTACTCTC
1 GAAAAGACTTACTCTC
106190587 GAAAAGACTTACTCTC
1 GAAAAGACTTACTCTC
106190603 GAAA
1 GAAA
106190607 CTTAGGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (16 bp):
GAAAAGACTTACTCTC
Found at i:106192861 original size:43 final size:43
Alignment explanation
Indices: 106192800--106192927 Score: 138
Period size: 43 Copynumber: 3.0 Consensus size: 43
106192790 TAGGATTTTT
* *
106192800 GATATGTGTTCTCGTGTAAGACCACATCTGAGACGTTGGCATC
1 GATATGTGTTCACGTGTAAGACCACGTCTGAGACGTTGGCATC
*
106192843 GATATGTGTTCCCGTGTAAGACC-CTGTCT-AGGACAG-TGGCATC
1 GATATGTGTTCACGTGTAAGACCAC-GTCTGA-GAC-GTTGGCATC
** *
106192886 GATATGTGATT-ATATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTG-TTCACGTGTAAGACCACGTCTGAGACGTTGGCAT
106192928 TGTACGATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
42 3 0.04
43 65 0.90
44 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (43 bp):
GATATGTGTTCACGTGTAAGACCACGTCTGAGACGTTGGCATC
Found at i:106193332 original size:19 final size:20
Alignment explanation
Indices: 106193295--106193332 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
106193285 CCAAGATAAA
*
106193295 GTTTATATATGAAAGTATAT
1 GTTTATATATGAAACTATAT
*
106193315 GTTT-TATATGAACCTATA
1 GTTTATATATGAAACTATA
106193333 AGCTTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (20 bp):
GTTTATATATGAAACTATAT
Found at i:106211623 original size:17 final size:17
Alignment explanation
Indices: 106211598--106211635 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
106211588 ACAGCCTAGC
*
106211598 CACAAGGGCGTGTGTCA
1 CACAAGGGCATGTGTCA
*
106211615 CACATGGGCATGTGTCA
1 CACAAGGGCATGTGTCA
106211632 CACA
1 CACA
106211636 CAAGCAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.18
Consensus pattern (17 bp):
CACAAGGGCATGTGTCA
Found at i:106215553 original size:60 final size:60
Alignment explanation
Indices: 106215480--106215619 Score: 187
Period size: 60 Copynumber: 2.3 Consensus size: 60
106215470 TAGTGTTAAC
*
106215480 TGGGCCTTAGCCCATATCAATATTAATATGGGCCATAGCCC-CTTAC-AGTATC-AGAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAG--TCGAGA-TATAT
* *
106215541 TGGGCCTAGCCCATATCAGTATTAATATTGGCCATAGCCCTATTACAAGTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAGTCGAGATATAT
*
106215601 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
106215620 CACAGTTGGG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
60 56 0.79
61 13 0.18
62 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATATGGGCCATAGCCCTATTACAAGTCGAGATATAT
Found at i:106215570 original size:28 final size:29
Alignment explanation
Indices: 106215480--106215580 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 29
106215470 TAGTGTTAAC
* *
106215480 TGGGCCTTAGCCCATATCAATATTAATA-
1 TGGGCCATAGCCCATATCAGTATTAATAT
* *
106215508 TGGGCCATAGCCCCT-TACAGTATCAGAGTATAT
1 TGGGCCATAGCCCATAT-CAGTAT--TA--ATAT
106215541 TGGGCC-TAGCCCATATCAGTATTAATAT
1 TGGGCCATAGCCCATATCAGTATTAATAT
106215569 T-GGCCATAGCCC
1 TGGGCCATAGCCC
106215581 TATTACAAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
27 5 0.08
28 29 0.49
30 2 0.03
32 16 0.27
33 7 0.12
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (29 bp):
TGGGCCATAGCCCATATCAGTATTAATAT
Found at i:106215652 original size:19 final size:20
Alignment explanation
Indices: 106215609--106215654 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
106215599 ATTGGGCCTT
106215609 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
106215629 GCCCATCTCAATACAGTT-G
1 GCCCATATCAACACAGTTGG
106215648 GCCCATA
1 GCCCATA
106215655 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:106215982 original size:27 final size:26
Alignment explanation
Indices: 106215952--106216015 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
106215942 GTCAAAATTA
* *
106215952 ACCTTAGGGGTATAACAGTCATTTTGC
1 ACCTTAGGGGTAAAACAGTAATTTT-C
*
106215979 ACC-TAGGGGTAAAACGGTAATTTTC
1 ACCTTAGGGGTAAAACAGTAATTTTC
*
106216004 ATACTTAGGGGT
1 A-CCTTAGGGGT
106216016 GTTTTAGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 19 0.61
27 10 0.32
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (26 bp):
ACCTTAGGGGTAAAACAGTAATTTTC
Found at i:106216277 original size:8 final size:8
Alignment explanation
Indices: 106216264--106216295 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
106216254 TCACAAATGC
106216264 CGGCTTTT
1 CGGCTTTT
106216272 CGGCTTTT
1 CGGCTTTT
106216280 CGGCTTTT
1 CGGCTTTT
*
106216288 CGACTTTT
1 CGGCTTTT
106216296 GCCGATCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.03, C:0.25, G:0.22, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:106218172 original size:3 final size:3
Alignment explanation
Indices: 106218164--106218188 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
106218154 ATTTAATTAC
106218164 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
106218189 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:106218605 original size:42 final size:41
Alignment explanation
Indices: 106218503--106218605 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 41
106218493 GGGCGTTACA
* ** *
106218503 GATGATGCACTTACGTGTTAGTATATTTGATTCGATATATT
1 GATGATGCATTTACGTGCCAGTATATTTGATTCGATACATT
* * **
106218544 GATGATGCGTTTACATGCCAGTATATTTTCTTCGATACATCT
1 GATGATGCATTTACGTGCCAGTATATTTGATTCGATACAT-T
*
106218586 GATGATGCATTTAGGTGCCA
1 GATGATGCATTTACGTGCCA
106218606 ACATGATTGC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
41 32 0.64
42 18 0.36
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (41 bp):
GATGATGCATTTACGTGCCAGTATATTTGATTCGATACATT
Found at i:106222834 original size:30 final size:30
Alignment explanation
Indices: 106222735--106222850 Score: 88
Period size: 30 Copynumber: 3.7 Consensus size: 30
106222725 AAATATAGGA
*
106222735 TCTTCCCAAGCTCCTAAATGAGATATCAGGTCT
1 TCTTCCCAAGCTCCTAAATGAGATATC-GG--G
** * * *
106222768 TCTAAATCCCAAAATCCTAAATAAGATCTCGAG
1 TCT---TCCCAAGCTCCTAAATGAGATATCGGG
*
106222801 TCTTCCCAAGCTCCTGAATGAGATATCGGG
1 TCTTCCCAAGCTCCTAAATGAGATATCGGG
* * *
106222831 TCTTCTCAAGTTACTAAATG
1 TCTTCCCAAGCTCCTAAATG
106222851 TCCTCATAAG
Statistics
Matches: 64, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
30 37 0.58
33 6 0.09
35 1 0.02
36 20 0.31
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (30 bp):
TCTTCCCAAGCTCCTAAATGAGATATCGGG
Found at i:106227982 original size:43 final size:44
Alignment explanation
Indices: 106227934--106228101 Score: 175
Period size: 43 Copynumber: 3.9 Consensus size: 44
106227924 ATCAAGATGA
*
106227934 GATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT-TGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * *
106227977 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TATAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
* * ** *
106228020 GATTACGTGTAAAACCGCGTCTGGGACGTTGGCATTGATATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-TATATGT
* * * *
106228065 --TAACATGTAAGACCATATTTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
106228102 GAGCTCTACG
Statistics
Matches: 103, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 3 0.03
42 9 0.09
43 86 0.83
44 1 0.01
45 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGT
Found at i:106231058 original size:32 final size:32
Alignment explanation
Indices: 106231000--106231060 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
106230990 GGTTAGTAGG
** *
106231000 TTAATTAAACTTAATTCTTAAGTTAATCATGA
1 TTAATTAAACAAAATCCTTAAGTTAATCATGA
106231032 TTAATTAAACAAAATCCTTTAA-TTAATCA
1 TTAATTAAACAAAATCC-TTAAGTTAATCA
106231061 AATTAATGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (32 bp):
TTAATTAAACAAAATCCTTAAGTTAATCATGA
Found at i:106231879 original size:17 final size:18
Alignment explanation
Indices: 106231851--106231885 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
106231841 TTTCGTAGCT
106231851 CCTATAAAAAAAATAAAA
1 CCTATAAAAAAAATAAAA
106231869 CCTAT-AAAAAAATAAAA
1 CCTATAAAAAAAATAAAA
106231886 GAAAAAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.71, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
CCTATAAAAAAAATAAAA
Found at i:106232665 original size:17 final size:17
Alignment explanation
Indices: 106232633--106232665 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
106232623 GTGAATTGAG
106232633 TTTAGTTTTTGATGATT
1 TTTAGTTTTTGATGATT
106232650 TTTATGTTTTTG-TGAT
1 TTTA-GTTTTTGATGAT
106232666 CGTTGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (17 bp):
TTTAGTTTTTGATGATT
Found at i:106233412 original size:43 final size:43
Alignment explanation
Indices: 106233364--106233526 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
106233354 ATCGAGATAT
*
106233364 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
* * * *
106233407 GATTACGTGTAAGAGCATGTCTGGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATTGA
* * * *
106233450 GATTTCATGTAAGACCCTGTCTGGGACAATGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
* * * *
106233493 GATAATATGTAAGACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
106233527 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 88 0.89
44 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:106233516 original size:86 final size:84
Alignment explanation
Indices: 106233364--106233526 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 84
106233354 ATCGAGATAT
* * * * *
106233364 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGAGCATGTCT
1 GATTACATGTAAGACCATGTCTGGGACAATGGCATCGTATTGAGAATAC-TGTAAGACCATATCT
106233429 GGGACATTGGCATCGTTAATC
65 GGGACA-TGGCATCGTTAATC
* * *
106233450 GATTTCATGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATAATA-TGTAAGACCATATC
1 GATTACATGTAAGACCATGTCTGGGACAATGGCATCG-TAT-TGAGAATACTGTAAGACCATATC
*
106233514 TGGGATATGGCAT
64 TGGGACATGGCAT
106233527 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 6 0.09
86 51 0.77
87 3 0.05
88 6 0.09
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (84 bp):
GATTACATGTAAGACCATGTCTGGGACAATGGCATCGTATTGAGAATACTGTAAGACCATATCTG
GGACATGGCATCGTTAATC
Found at i:106246577 original size:31 final size:31
Alignment explanation
Indices: 106246542--106246604 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
106246532 TCTCCCAGAG
*
106246542 TACGCTCCTTGTTCTTTTTTTCTTTTTTCTT
1 TACGCTCCTTGTTCTTTTTTTCCTTTTTCTT
106246573 TACGCTCCTTGTTCTTTTTTTCCTTTTTCTT
1 TACGCTCCTTGTTCTTTTTTTCCTTTTTCTT
106246604 T
1 T
106246605 TTTTTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.03, C:0.24, G:0.06, T:0.67
Consensus pattern (31 bp):
TACGCTCCTTGTTCTTTTTTTCCTTTTTCTT
Found at i:106261782 original size:40 final size:40
Alignment explanation
Indices: 106261759--106261899 Score: 219
Period size: 40 Copynumber: 3.5 Consensus size: 40
106261749 CTTGCTCGAA
*
106261759 TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAT
*
106261799 TGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAT
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAT
* * ** *
106261839 TGCCTTCGGGACTTAGCCCGAATATAGTAACTAGTGCAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAT
106261879 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
106261900 TTATCATCCG
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.24, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAT
Found at i:106266463 original size:23 final size:23
Alignment explanation
Indices: 106266437--106266484 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
106266427 TTTTAATGAA
106266437 TTTCCCAATTAAAGACTAAATTG
1 TTTCCCAATTAAAGACTAAATTG
106266460 TTTCCCAATTAAAGACTAAATTG
1 TTTCCCAATTAAAGACTAAATTG
106266483 TT
1 TT
106266485 GAAATAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
TTTCCCAATTAAAGACTAAATTG
Found at i:106267089 original size:21 final size:21
Alignment explanation
Indices: 106267063--106267102 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
106267053 GTTGGGTGGA
106267063 TCAGCTCTTATAAGCTTCTGT
1 TCAGCTCTTATAAGCTTCTGT
*
106267084 TCAGCTCTTATGAGCTTCT
1 TCAGCTCTTATAAGCTTCT
106267103 ATTGGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATAAGCTTCTGT
Found at i:106277023 original size:15 final size:15
Alignment explanation
Indices: 106277003--106277034 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
106276993 AAATAAAAGT
106277003 GTAGCCCTAGTGAAA
1 GTAGCCCTAGTGAAA
106277018 GTAGCCCTAGTGAAA
1 GTAGCCCTAGTGAAA
106277033 GT
1 GT
106277035 TTTATGGCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (15 bp):
GTAGCCCTAGTGAAA
Found at i:106286542 original size:182 final size:181
Alignment explanation
Indices: 106286206--106286573 Score: 630
Period size: 182 Copynumber: 2.0 Consensus size: 181
106286196 TGTGTTCCAC
*
106286206 TATATCCGTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
1 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
* *
106286271 TCATAATAACTGAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGGACTG
66 TCATAATAACTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCACTG
*
106286336 AGGCACATTATTGTCTCCATTTTGT-TTTTGCTAAACTTATTTCTTTAACAT
131 AGACACATTATTGTCTCCATTTTGTATTTT-CTAAACTTATTTCTTTAACAT
* *
106286387 TATATCCCTTTTAGGCTACTTGGTTGTGCTGAAGAGCTGATATAGACTTTTCAACTTTGTGGTGT
1 TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
* *
106286452 TTATAATAATTTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCACT
66 TCATAATAA-CTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCACT
*
106286517 GAGACACATTATTGTCTCCATTTTGTATTTTCTAAACTTGTTTCTTTAACAT
130 GAGACACATTATTGTCTCCATTTTGTATTTTCTAAACTTATTTCTTTAACAT
106286569 TATAT
1 TATAT
106286574 GAGATATGTG
Statistics
Matches: 176, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
181 70 0.40
182 102 0.58
183 4 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (181 bp):
TATATCCCTTTTAGGCTACTTGGGTGTGCTGAAGAGCTGATATAGACTTTTCAACTCTGTGGTGT
TCATAATAACTAAATATCCAAGTTGTGGTATTCCTAAGTAAAGGTGTGGAAAACATGCTGCACTG
AGACACATTATTGTCTCCATTTTGTATTTTCTAAACTTATTTCTTTAACAT
Found at i:106288596 original size:34 final size:34
Alignment explanation
Indices: 106288549--106288615 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
106288539 ATGTTTGGTG
*
106288549 GAAGTATGTTTGAGTGTATGAGTTAGCAATAAAA
1 GAAGTATGATTGAGTGTATGAGTTAGCAATAAAA
106288583 GAAGTATGATTGAGTGTATGAGTTAGCAATAAA
1 GAAGTATGATTGAGTGTATGAGTTAGCAATAAA
106288616 TTAACATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (34 bp):
GAAGTATGATTGAGTGTATGAGTTAGCAATAAAA
Found at i:106289856 original size:24 final size:24
Alignment explanation
Indices: 106289829--106289878 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
106289819 TTTGCCGCCT
*
106289829 CCATGCTTTCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTGAATTTC
106289853 CCATGCTTCCCGTGCTTGAATTTC
1 CCATGCTTCCCGTGCTTGAATTTC
106289877 CC
1 CC
106289879 CCCATGATGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.34, G:0.16, T:0.38
Consensus pattern (24 bp):
CCATGCTTCCCGTGCTTGAATTTC
Found at i:106289898 original size:21 final size:22
Alignment explanation
Indices: 106289865--106289923 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
106289855 ATGCTTCCCG
*
106289865 TGCTTGAATTTCCCC-CCATGA
1 TGCTTGAACTTCCCCACCATGA
*
106289886 TGCTTAAACTTCCCACCACCATGA
1 TGCTTGAACTT-CC-CCACCATGA
*
106289910 TGTTTGAACTTCCC
1 TGCTTGAACTTCCC
106289924 ATGATGACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 4 0.13
24 15 0.48
ACGTcount: A:0.22, C:0.34, G:0.12, T:0.32
Consensus pattern (22 bp):
TGCTTGAACTTCCCCACCATGA
Found at i:106289955 original size:9 final size:9
Alignment explanation
Indices: 106289943--106289985 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
106289933 ATGACCAAAC
106289943 CCATGAGCA
1 CCATGAGCA
*
106289952 CCATAAGCA
1 CCATGAGCA
106289961 CCATGAGCA
1 CCATGAGCA
106289970 CCATGAGCA
1 CCATGAGCA
*
106289979 CCGTGAG
1 CCATGAG
106289986 ACACGTGGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.23, T:0.12
Consensus pattern (9 bp):
CCATGAGCA
Found at i:106290071 original size:2 final size:2
Alignment explanation
Indices: 106290064--106290091 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
106290054 CCGTGCCCTG
106290064 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
106290092 AAAAGGGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:106290285 original size:33 final size:30
Alignment explanation
Indices: 106290227--106290288 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
106290217 GGGGTATCCT
*
106290227 CCTTGAGGAGGGTAGCCAGCTGGTGGATAG
1 CCTTGAGGAGGGTAGCCAGCAGGTGGATAG
*
106290257 CCTTGAGGTGGGTAAGCTCCAGCAGGTGGATA
1 CCTTGAGGAGGGT-AG--CCAGCAGGTGGATA
106290289 TCCGCCAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 12 0.44
31 2 0.07
33 13 0.48
ACGTcount: A:0.21, C:0.18, G:0.40, T:0.21
Consensus pattern (30 bp):
CCTTGAGGAGGGTAGCCAGCAGGTGGATAG
Found at i:106292515 original size:36 final size:36
Alignment explanation
Indices: 106292468--106292537 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
106292458 TATAATTAAA
* *
106292468 AGCTGAATACAATTAGAACTCTAAGCTTACATAACC
1 AGCTGAATACAAATAGAACTCTAAGATTACATAACC
* *
106292504 AGCTGTATACAAATAGAACTCTAAGATTCCATAA
1 AGCTGAATACAAATAGAACTCTAAGATTACATAA
106292538 TTATATCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (36 bp):
AGCTGAATACAAATAGAACTCTAAGATTACATAACC
Found at i:106292626 original size:14 final size:14
Alignment explanation
Indices: 106292607--106292638 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
106292597 TCCAATCACC
106292607 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
106292621 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
106292635 GGGC
1 GGGC
106292639 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:106297640 original size:36 final size:36
Alignment explanation
Indices: 106297593--106297662 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
106297583 TATAATTAAA
* *
106297593 AGCTGAATACAATTAGAACTCTAAGCTTACATAACC
1 AGCTGAATACAAATAGAACTCTAAGATTACATAACC
* *
106297629 AGCTGTATACAAATAGAACTCTAAGATTCCATAA
1 AGCTGAATACAAATAGAACTCTAAGATTACATAA
106297663 TTATATCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (36 bp):
AGCTGAATACAAATAGAACTCTAAGATTACATAACC
Found at i:106297751 original size:14 final size:14
Alignment explanation
Indices: 106297732--106297777 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
106297722 TCCAATCACC
106297732 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
106297746 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
106297760 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
106297774 GGGC
1 GGGC
106297778 TAAATGACCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.07, C:0.15, G:0.46, T:0.33
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:106298493 original size:46 final size:44
Alignment explanation
Indices: 106298443--106298532 Score: 128
Period size: 44 Copynumber: 2.0 Consensus size: 44
106298433 AGAATAAAGC
*
106298443 TAATGGAATAGAGTTGTAATTAGTAATTCAAT-TGTTTGGTTGAATG
1 TAATGGAATAGAATTGTAA-TAGT-ATTC-ATGTGTTTGGTTGAATG
*
106298489 TAATGGAATAGAATTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 TAATGGAATAGAATTGTAATAGTATTCATGTGTTTGGTTGAATG
106298533 GAATAGATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.02
44 18 0.44
45 4 0.10
46 18 0.44
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.42
Consensus pattern (44 bp):
TAATGGAATAGAATTGTAATAGTATTCATGTGTTTGGTTGAATG
Found at i:106311508 original size:47 final size:47
Alignment explanation
Indices: 106311391--106311543 Score: 173
Period size: 47 Copynumber: 3.2 Consensus size: 47
106311381 TGCACATAGT
* * ** * * *
106311391 CACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTACAC-GGAT
1 CACATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
106311439 CACATATCACACTGATGCCATATTCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
106311486 CACATATCACACCGATGTCATATCCCGGATATGGTCTTATACAGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
106311533 CACATATCACA
1 CACATATCACA
106311544 TTTCTCCGAA
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
46 25 0.28
47 55 0.61
48 10 0.11
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:106318680 original size:47 final size:47
Alignment explanation
Indices: 106318611--106318755 Score: 182
Period size: 47 Copynumber: 3.0 Consensus size: 47
106318601 TTACACGGAT
* *
106318611 CACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* *
106318658 CACATATCACACCGATGTCATATCCCGGATATGGTCTTATACAGAAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
106318705 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACAGAA
1 CACATATCACA-----CCGATGCCATATCCCAGATATGGTCTTATACAGAA
106318756 ATCACATTTC
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
47 54 0.64
52 30 0.36
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:106318751 original size:52 final size:48
Alignment explanation
Indices: 106318563--106318769 Score: 177
Period size: 47 Copynumber: 4.2 Consensus size: 48
106318553 TGCACATAGT
* * ** * * * *
106318563 CACATATCACATACCGAGGCCATAGCCCAGCCATAGTCTTACAC-GGAT
1 CACATATCACAT-CCGAAGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
106318611 CACATATCACA-CTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
106318658 CACATATCACA-CCGATGTCATATCCCGGATATGGTCTTATACAGAAG
1 CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACAGAAG
* * *
106318705 CACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACATATCACA----TCCGAAGCCATATCCCAGATATGGTCTTATACAG-AAG
*
106318758 CACATTTCACAT
1 CACATATCACAT
106318770 GCATGGTCTT
Statistics
Matches: 132, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
46 24 0.18
47 56 0.42
48 11 0.08
49 1 0.01
52 28 0.21
53 12 0.09
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (48 bp):
CACATATCACATCCGAAGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:106323192 original size:45 final size:44
Alignment explanation
Indices: 106323132--106323429 Score: 244
Period size: 49 Copynumber: 6.6 Consensus size: 44
106323122 ACCATCCTAG
*
106323132 CTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTAT
* * * *
106323177 TTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAG----A-TACAAATCTTAT
* * * * *
106323226 CTCTCTGAAGTTGCAGTAGAGCAG-GTCGAAGTTACAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATACAAATCTTAT
* * *
106323270 CTCCTTGAAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-CAAATCTTAT
* * *
106323315 TTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAG----A-TACAAATCTTAT
* * * * *
106323364 CTCTCTGAAGTTGCAGTAGAGCAGA-TCAA-A-ACAGATCTTGT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTAT
* *
106323405 CTCCCTGAAGTTGTAGTGGAACAGA
1 CTCCCTGAAGTTGCAGTGGAGCAGA
106323430 TCGAAAACGG
Statistics
Matches: 206, Mismatches: 34, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
41 31 0.15
43 1 0.00
44 37 0.18
45 63 0.31
48 4 0.02
49 66 0.32
50 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAATCTTAT
Found at i:106323307 original size:138 final size:138
Alignment explanation
Indices: 106323139--106323387 Score: 471
Period size: 138 Copynumber: 1.8 Consensus size: 138
106323129 TAGCTCCCTA
* *
106323139 AAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
1 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
106323204 GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
66 GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
106323269 TCTCCTTG
131 TCTCCTTG
*
106323277 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATT
1 AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
106323342 GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
66 GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
106323388 ATCAAAACAG
Statistics
Matches: 108, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (138 bp):
AAGTTGCAGTAGAGCAGACTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTA
TCTCCTTG
Found at i:106323329 original size:89 final size:90
Alignment explanation
Indices: 106323132--106323434 Score: 239
Period size: 94 Copynumber: 3.3 Consensus size: 90
106323122 ACCATCCTAG
* * * * * *
106323132 CTCCCTAAAGTTGCAGTGGAGCAGA-CTGAAGA-TAGCAAATCTTATTTCCCTGAAGTTGCAGTG
1 CTCCCTGAAGTTGCAGTAGAGCAGATC-GAAGATTA-CAGATCTTATCTCTCTGAAGTTGCAGTA
* * *
106323195 GAACAGATTGAAGCTAAATTA-CAGATCTTAT
64 GAGCAGACTG-A---AAA-TAGCAAATCTTAT
* *
106323226 CTCTCTGAAGTTGCAGTAGAGCAGGTCGAAG-TTACA-AGTCTTATCTC-CTTGAAGTTGCAGTA
1 CTCCCTGAAGTTGCAGTAGAGCAGATCGAAGATTACAGA-TCTTATCTCTC-TGAAGTTGCAGTA
106323288 GAGCAGACTGAAAATAGCAAATCTTAT
64 GAGCAGACTGAAAATAGCAAATCTTAT
* * *
106323315 TTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAG
1 CTCCCTGAAGTTGCAGTAGAGCAGATCGAAG----ATTACAGATCTTATCTCTCTGAAGTTGCAG
* * *
106323380 TAGAGCAGA-T-CAAA-A-CAGATCTTGT
62 TAGAGCAGACTGAAAATAGCAAATCTTAT
* * *
106323405 CTCCCTGAAGTTGTAGTGGAACAGATCGAA
1 CTCCCTGAAGTTGCAGTAGAGCAGATCGAA
106323435 AACGGTAAAT
Statistics
Matches: 176, Mismatches: 21, Indels: 28
0.78 0.09 0.12
Matches are distributed among these distances:
88 2 0.01
89 38 0.22
90 34 0.19
91 1 0.01
92 6 0.03
93 31 0.18
94 61 0.35
95 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (90 bp):
CTCCCTGAAGTTGCAGTAGAGCAGATCGAAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGA
GCAGACTGAAAATAGCAAATCTTAT
Found at i:106323413 original size:41 final size:41
Alignment explanation
Indices: 106323353--106323475 Score: 122
Period size: 41 Copynumber: 2.9 Consensus size: 41
106323343 AAGCTAAATT
* *
106323353 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-AAA
1 ACAGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAA
* *
106323394 ACAGATCTTGTCTCCCTGAAGTTGTAGTGGAACAGATCGAAA
1 ACAGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAA
* * *
106323436 ACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGAT
1 AC---AGATCTTGTCTCCCTGAAGTTGCAGTG-AGCAGAT
106323476 TCAAGCCATC
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 33 0.49
42 5 0.07
44 1 0.01
45 28 0.42
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
ACAGATCTTGTCTCCCTGAAGTTGCAGTGAGCAGATCGAAA
Found at i:106323530 original size:224 final size:224
Alignment explanation
Indices: 106323295--106323793 Score: 820
Period size: 224 Copynumber: 2.2 Consensus size: 224
106323285 GTAGAGCAGA
*
106323295 CTGAAAATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
1 CTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
**
106323360 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTGTAGTGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTACAGTGGA
*
106323425 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCATCAAGC
131 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
* *
106323490 CTTAATCCCCAAAGCAGTAGGGTAATAGG
196 CTTAACCCCCAAAGCAATAGGGTAATAGG
* * *
106323519 TTGAAAATAGCAAATTTTATATCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
1 CTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
106323584 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTACAGTGGA
66 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTACAGTGGA
* *
106323649 ACAGATCGAAGACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGT
131 ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
*
106323714 CTTAACCCCCTAAGCAATAGGGTAATAGG
196 CTTAACCCCCAAAGCAATAGGGTAATAGG
* * * * * *
106323743 CCGAAAATCA-CTAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAG
1 CTGAAAAT-AGCAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAG
106323794 ACAACGGATC
Statistics
Matches: 253, Mismatches: 21, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
224 252 1.00
225 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (224 bp):
CTGAAAATAGCAAATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAAATTACAGATC
TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAGATCTTGTCTCCCTGAAGTTACAGTGGA
ACAGATCGAAAACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGATTCAAGCCACCAAGC
CTTAACCCCCAAAGCAATAGGGTAATAGG
Found at i:106323637 original size:41 final size:41
Alignment explanation
Indices: 106323577--106323699 Score: 113
Period size: 41 Copynumber: 2.9 Consensus size: 41
106323567 AAGCTAAATT
* *
106323577 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC-AAA
1 ACAGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAA
* * *
106323618 ACAGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAG
1 ACAGATCTTGTCTCCCTGAAGTTGCAGT-GAGCAGATCGAAA
* * *
106323660 ACGGTAAATCTTGCCTTCCTGAAGTTGCAGTGAAGCAGAT
1 AC---AGATCTTGTCTCCCTGAAGTTGCAGTG-AGCAGAT
106323700 TCAAGCCACC
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 33 0.50
42 4 0.06
44 1 0.02
45 28 0.42
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (41 bp):
ACAGATCTTGTCTCCCTGAAGTTGCAGTGAGCAGATCGAAA
Found at i:106325607 original size:2 final size:2
Alignment explanation
Indices: 106325596--106325682 Score: 51
Period size: 2 Copynumber: 46.0 Consensus size: 2
106325586 TCTAATGTGC
* * *
106325596 AT AT AT -T AT AT AT AT TT TT A- AT ACT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * * *
106325636 -T AT AT -T AT AT AT AT AC AT AT AT AT TT AT -T AT AT TT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
106325675 GT AT AT AT
1 AT AT AT AT
106325683 TTTTAATATC
Statistics
Matches: 66, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
1 6 0.09
2 58 0.88
3 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (2 bp):
AT
Found at i:106325623 original size:23 final size:22
Alignment explanation
Indices: 106325596--106325723 Score: 76
Period size: 23 Copynumber: 5.4 Consensus size: 22
106325586 TCTAATGTGC
106325596 ATATATTATATATATTTTTAAT
1 ATATATTATATATATTTTTAAT
* * *
106325618 ACTATATTATGTATATATTATATT
1 A-TATATTATATATAT-TTTTAAT
* * *
106325642 ATATATATACATATATATTTATT
1 ATATAT-TATATATATTTTTAAT
*
106325665 ATATTTTTATGTATATATTTTTAAT
1 ATA-TATTA--TATATATTTTTAAT
* * **
106325690 ATCACATTATTCATATGTTTTTTTT
1 AT-ATATTA-T-ATATATTTTTAAT
106325715 ATATATTAT
1 ATATATTAT
106325724 CCCATGTAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 15
0.71 0.16 0.13
Matches are distributed among these distances:
22 1 0.01
23 29 0.36
24 21 0.26
25 28 0.35
26 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATTATATATATTTTTAAT
Found at i:106325625 original size:14 final size:14
Alignment explanation
Indices: 106325602--106325691 Score: 62
Period size: 14 Copynumber: 6.4 Consensus size: 14
106325592 GTGCATATAT
106325602 TATATATATTTTTA
1 TATATATATTTTTA
*
106325616 -ATACTATATTATGTA
1 TATA-TATATT-TTTA
*
106325631 TATATTATATTATATA
1 TATA-TATATT-TTTA
* *
106325647 TATACATATATATT-
1 TATATATAT-TTTTA
106325661 TAT-TATATTTTTA
1 TATATATATTTTTA
*
106325674 TGTATATATTTTTA
1 TATATATATTTTTA
106325688 -ATAT
1 TATAT
106325692 CACATTATTC
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
12 3 0.05
13 12 0.20
14 19 0.32
15 8 0.13
16 18 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TATATATATTTTTA
Found at i:106326926 original size:26 final size:26
Alignment explanation
Indices: 106326882--106326975 Score: 143
Period size: 26 Copynumber: 3.6 Consensus size: 26
106326872 ACACGTCAAG
* * *
106326882 AAATGGAAGCTTTTGTGGTGTGTCTG
1 AAATGGAAACCTTTGTGGTGTGTCTA
* *
106326908 AAATGGAAACCTTTATGGTGTTTCTA
1 AAATGGAAACCTTTGTGGTGTGTCTA
106326934 AAATGGAAACCTTTGTGGTGTGTCTA
1 AAATGGAAACCTTTGTGGTGTGTCTA
106326960 AAATGGAAACCTTTGT
1 AAATGGAAACCTTTGT
106326976 AGCATAGTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 61 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.36
Consensus pattern (26 bp):
AAATGGAAACCTTTGTGGTGTGTCTA
Found at i:106330851 original size:36 final size:36
Alignment explanation
Indices: 106330794--106330873 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
106330784 AATAGCTTGT
*
106330794 TGATTTAATATCGCAGCTGATATCGTTAAGGTTCGC
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTCGC
* * * *
106330830 TGATTTAATATTGTAGTTGATATCATTAAGGTTCGT
1 TGATTTAATATCGCAGCTGATATCATTAAGGTTCGC
106330866 TGATTTAA
1 TGATTTAA
106330874 AACTATAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (36 bp):
TGATTTAATATCGCAGCTGATATCATTAAGGTTCGC
Found at i:106331019 original size:131 final size:131
Alignment explanation
Indices: 106330880--106331701 Score: 791
Period size: 131 Copynumber: 6.3 Consensus size: 131
106330870 TTAAAACTAT
* * * *
106330880 AACCTAAGTTCATTCAATCTAATATCATGAACAATCTTATCTGAGTTAGTTTATTTAATATCGCT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* * * * *
106330945 ACTCTAAATAGCTCGTTGATTTAATATCGTATCTAATATCGTTAAGGTTCGCTTATTTAAGATCA
66 ACTCTAAACAGCTCGTTGATTTAAGATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCG
106331010 C
131 C
*** * * * * * *
106331011 AGTATAAGTTCATTCGATTTAATATCATGAACAACCTTATTTGA-TTCTGCTGATTTAATCTCGC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTT-AGCTGATTTAATATCAC
* * * ** * * *
106331075 TACTCTAAACAACTTGTTGATTTAAGATTGCAGATGATATTGTTAAGGTTCGCTAATTTAATATC
65 TACTCTAAACAGCTCGTTGATTTAAGATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATC
106331140 GC
130 GC
* ** * * *
106331142 AACCTAAGTTCATTCGATTTAATATCACAAACAATCTTATCTAAGTTAGTTGATTTAATATTACT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* ** * * *
106331207 ACTTTAAACATTTCGCTGATTTAATATCGCAGT-TGATATCGTTAAGGTTTG-TTAATTTAAGAT
66 ACTCTAAACAGCTCGTTGATTTAAGATCGCA-TCTGATATCGTTAAGGTTCGCTT-ATTTAAGAT
106331270 CGC
129 CGC
** * * **
106331273 AACAGAAGTTCATTCGATTTAATATCATGAACAATCTTATTTGCA-TTAGCTGATTTAATATTGC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTG-AGTTAGCTGATTTAATATCAC
* * * *
106331337 TACTCTAAACAAG-TCATTGATTTAAGATTGCAACTGATATCG-TAAGG-TCTGCTAATTTAAGA
65 TACTCTAAAC-AGCTCGTTGATTTAAGATCGCATCTGATATCGTTAAGGTTC-GCTTATTTAAGA
*
106331399 TTGC
128 TCGC
* * * * * *
106331403 AATCTAAGTTCATTCAATTTAATATTATGAACAATCATATCTAAGTCAGCTGGTTTAATATCACT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
* * *** * * * * *
106331468 ACTCTAAACAACTTGCCAATTTAAGATCGCAACTGATATCGTTAAGGTTCACTGATTTAAAATTG
66 ACTCTAAACAGCTCGTTGATTTAAGATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCG
106331533 C
131 C
* * * * *
106331534 AACCTAAGTTTATTAAATTTAATATTATGAA-AAGTTTTATCTGACTTAGCTGATTTAATATCAC
1 AACCTAAGTTCATTCAATTTAATATCATGAACAA-TCTTATCTGAGTTAGCTGATTTAATATCAC
* * * * *
106331598 TACTATAAATAGCTCGTTGATTTAATATCCCAGT-TGATACCGTTAAGGTTCGC-TATTTTAAGA
65 TACTCTAAACAGCTCGTTGATTTAAGATCGCA-TCTGATATCGTTAAGGTTCGCTTA-TTTAAGA
*
106331661 TTGC
128 TCGC
* *
106331665 AACCTAATTTCATTCCATTTAATATCATGAACAATCT
1 AACCTAAGTTCATTCAATTTAATATCATGAACAATCT
106331702 CATTTTTGCT
Statistics
Matches: 556, Mismatches: 118, Indels: 34
0.79 0.17 0.05
Matches are distributed among these distances:
129 3 0.01
130 106 0.19
131 439 0.79
132 8 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (131 bp):
AACCTAAGTTCATTCAATTTAATATCATGAACAATCTTATCTGAGTTAGCTGATTTAATATCACT
ACTCTAAACAGCTCGTTGATTTAAGATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCG
C
Found at i:106331229 original size:262 final size:261
Alignment explanation
Indices: 106330830--106331701 Score: 950
Period size: 262 Copynumber: 3.3 Consensus size: 261
106330820 TAAGGTTCGC
* * * * * * * * **
106330830 TGATTTAATATTGTAGTTGATATCATTAAGGTTCGTTGATTTAAAACTATAACCTAAGTTCATTC
1 TGATTTAAGATTGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTC
* * * * *
106330895 AATCTAATATCATGAACAATCTTATCTGAGTTAGTTTATTTAATATCGCTACTCTAAATAGC-TC
66 AATTTAATATCATGAACAATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACA-CTTC
* * * * **
106330959 GTTGATTTAATATCGTATCTAATATCGTTAAGGTTCGCTTATTTAAGATCACAGTATAAGTTCAT
130 GCTGATTTAATATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCGCAACATAAGTTCAT
* * *
106331024 TCGATTTAATATCATGAACAACCTTATTTGATTCTGCTGATTTAATCTCGCTACTCTAAACAACT
195 TCGATTTAATATCATGAACAATCTTATTTGATT-AGCTGATTTAATATCGCTACTCTAAACAACT
*
106331089 TGT
259 CGT
* * *
106331092 TGATTTAAGATTGCAGATGATATTGTTAAGGTTCGCTAATTTAATATCGCAACCTAAGTTCATTC
1 TGATTTAAGATTGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTC
* ** * * *
106331157 GATTTAATATCACAAACAATCTTATCTAAGTTAGTTGATTTAATATTACTACTTTAAACATTTCG
66 AATTTAATATCATGAACAATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACACTTCG
* *
106331222 CTGATTTAATATCGCAGT-TGATATCGTTAAGGTTTG-TTAATTTAAGATCGCAACAGAAGTTCA
131 CTGATTTAATATCGCA-TCTGATATCGTTAAGGTTCGCTT-ATTTAAGATCGCAACATAAGTTCA
* *
106331285 TTCGATTTAATATCATGAACAATCTTATTTGCATTAGCTGATTTAATATTGCTACTCTAAACAAG
194 TTCGATTTAATATCATGAACAATCTTATTTG-ATTAGCTGATTTAATATCGCTACTCTAAACAAC
*
106331350 TCAT
258 TCGT
*
106331354 TGATTTAAGATTGCA-ACTGATATCG-TAAGG-TCTGCTAATTTAAGATTGCAATCTAAGTTCAT
1 TGATTTAAGATTGCAGA-TGATATCGTTAAGGTTC-GCTAATTTAAGATTGCAACCTAAGTTCAT
* * * * *
106331416 TCAATTTAATATTATGAACAATCATATCTAAGTCAGCTGGTTTAATATCACTACTCTAAACAACT
64 TCAATTTAATATCATGAACAATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAAC-ACT
** * * * * * * * *
106331481 T-GCCAATTTAAGATCGCAACTGATATCGTTAAGGTTCACTGATTTAAAATTGCAACCTAAGTTT
128 TCGCTGATTTAATATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCGCAACATAAGTTC
** * * * * * *
106331545 ATTAAATTTAATATTATGAA-AAGTTTTATCTGACTTAGCTGATTTAATATCACTACTATAAATA
193 ATTCGATTTAATATCATGAACAA-TCTTATTTGA-TTAGCTGATTTAATATCGCTACTCTAAACA
*
106331609 GCTCGT
256 ACTCGT
* ** * * * *
106331615 TGATTTAATATCCCAGTTGATACCGTTAAGGTTCGCTATTTTAAGATTGCAACCTAATTTCATTC
1 TGATTTAAGATTGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTC
*
106331680 CATTTAATATCATGAACAATCT
66 AATTTAATATCATGAACAATCT
106331702 CATTTTTGCT
Statistics
Matches: 508, Mismatches: 88, Indels: 28
0.81 0.14 0.04
Matches are distributed among these distances:
260 5 0.01
261 205 0.40
262 292 0.57
263 6 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (261 bp):
TGATTTAAGATTGCAGATGATATCGTTAAGGTTCGCTAATTTAAGATTGCAACCTAAGTTCATTC
AATTTAATATCATGAACAATCTTATCTAAGTTAGTTGATTTAATATCACTACTCTAAACACTTCG
CTGATTTAATATCGCATCTGATATCGTTAAGGTTCGCTTATTTAAGATCGCAACATAAGTTCATT
CGATTTAATATCATGAACAATCTTATTTGATTAGCTGATTTAATATCGCTACTCTAAACAACTCG
T
Found at i:106331590 original size:392 final size:393
Alignment explanation
Indices: 106330824--106331706 Score: 1015
Period size: 392 Copynumber: 2.2 Consensus size: 393
106330814 TATCGTTAAG
* * * * * **
106330824 GTTCGCTGATTTAATATTGTAGTTGATATCATTAAGGTTCGTTGATTTAA-AACTATAACCTAAG
1 GTTCGCTGATTTAATATCGCAGTTGATATCGTTAAGGTTCGTTAATTTAAGATC-GCAACCTAAG
* * * *
106330888 TTCATTCAATCTAATATCATGAACAATCTTATCTGAGTTAGTTTATTTAATATCGCTACTCTAAA
65 TTCATTCAATTTAATATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCTAAA
* * * * * * *
106330953 TAGCTCGTTGATTTAATATCGTATCTAATATCGTTAAGGTTCGCTTATTTAAGATCACAGTATAA
130 AAGCTCATTGATTTAAGATCGCAACTAATATCGTTAAGGTTCGCTAATTTAAGATCACAATATAA
* * * * * * * *
106331018 GTTCATTCGATTTAATATCATGAACAACCTTATTTGATTCTGCTGATTTAATCTCGCTACTCTAA
195 GTTCATTCAATTTAATATCATGAACAACCATATCTAAGTCAGCTGATTTAATATCACTACTCTAA
*** * * * *
106331083 ACAACTTGTTGATTTAAGATTGCAGATGATATTGTTAAGGTTCGCTAATTTAATATCGCAACCTA
260 ACAACTTGCCAATTTAAGATCGCAGATGATATCGTTAAGGTTCACTAATTTAAAATCGCAACCTA
** * * * *
106331148 AGTTCATTCGATTTAATATCACAAACAATCTTATCTAAGTTAGTTGATTTAATATTACTACTTTA
325 AGTTCATTAAATTTAATATCACAAACAATCTTATCTAACTTAGCTGATTTAATATCACTACTATA
106331213 AACA
390 AACA
* * **
106331217 TTTCGCTGATTTAATATCGCAGTTGATATCGTTAAGGTTTGTTAATTTAAGATCGCAACAGAAGT
1 GTTCGCTGATTTAATATCGCAGTTGATATCGTTAAGGTTCGTTAATTTAAGATCGCAACCTAAGT
* *
106331282 TCATTCGATTTAATATCATGAACAATCTTATTTGCA-TTAGCTGATTTAATATTGCTACTCTAAA
66 TCATTCAATTTAATATCATGAACAATCTTATTTG-AGTTAGCTGATTTAATATCGCTACTCTAAA
* * ** *
106331346 CAAG-TCATTGATTTAAGATTGCAACTGATATCG-TAAGG-TCTGCTAATTTAAGATTGCAATCT
130 -AAGCTCATTGATTTAAGATCGCAACTAATATCGTTAAGGTTC-GCTAATTTAAGATCACAATAT
* * *
106331408 AAGTTCATTCAATTTAATATTATGAACAATCATATCTAAGTCAGCTGGTTTAATATCACTACTCT
193 AAGTTCATTCAATTTAATATCATGAACAACCATATCTAAGTCAGCTGATTTAATATCACTACTCT
* *
106331473 AAACAACTTGCCAATTTAAGATCGCA-ACTGATATCGTTAAGGTTCACTGATTTAAAATTGCAAC
258 AAACAACTTGCCAATTTAAGATCGCAGA-TGATATCGTTAAGGTTCACTAATTTAAAATCGCAAC
* * * * * *
106331537 CTAAGTTTATTAAATTTAATATTATGAAA-AGTTTTATCTGACTTAGCTGATTTAATATCACTAC
322 CTAAGTTCATTAAATTTAATATCA-CAAACAATCTTATCTAACTTAGCTGATTTAATATCACTAC
*
106331601 TATAAATA
386 TATAAACA
* * * * * * * *
106331609 GCTCGTTGATTTAATATCCCAGTTGATACCGTTAAGGTTCGCTATTTTAAGATTGCAACCTAATT
1 GTTCGCTGATTTAATATCGCAGTTGATATCGTTAAGGTTCGTTAATTTAAGATCGCAACCTAAGT
* *
106331674 TCATTCCATTTAATATCATGAACAATCTCATTT
66 TCATTCAATTTAATATCATGAACAATCTTATTT
106331707 TTGCTAGCTT
Statistics
Matches: 408, Mismatches: 76, Indels: 13
0.82 0.15 0.03
Matches are distributed among these distances:
391 3 0.01
392 267 0.65
393 133 0.33
394 5 0.01
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (393 bp):
GTTCGCTGATTTAATATCGCAGTTGATATCGTTAAGGTTCGTTAATTTAAGATCGCAACCTAAGT
TCATTCAATTTAATATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCTAAAA
AGCTCATTGATTTAAGATCGCAACTAATATCGTTAAGGTTCGCTAATTTAAGATCACAATATAAG
TTCATTCAATTTAATATCATGAACAACCATATCTAAGTCAGCTGATTTAATATCACTACTCTAAA
CAACTTGCCAATTTAAGATCGCAGATGATATCGTTAAGGTTCACTAATTTAAAATCGCAACCTAA
GTTCATTAAATTTAATATCACAAACAATCTTATCTAACTTAGCTGATTTAATATCACTACTATAA
ACA
Found at i:106337684 original size:6 final size:6
Alignment explanation
Indices: 106337675--106337704 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
106337665 TTTTTTTATA
106337675 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
106337705 GTGATGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTAAT
Found at i:106339686 original size:6 final size:6
Alignment explanation
Indices: 106339677--106339703 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
106339667 GGCTAACGCT
106339677 AAGGCA AAGGCA AAGGCA AAGGCA AAG
1 AAGGCA AAGGCA AAGGCA AAGGCA AAG
106339704 TTTATTTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:106339687 original size:18 final size:18
Alignment explanation
Indices: 106339664--106339703 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
106339654 AGTTCCAACA
* *
106339664 AAAGGCTAACGCTAAGGC
1 AAAGGCAAACGCAAAGGC
*
106339682 AAAGGCAAAGGCAAAGGC
1 AAAGGCAAACGCAAAGGC
106339700 AAAG
1 AAAG
106339704 TTTATTTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.30, T:0.05
Consensus pattern (18 bp):
AAAGGCAAACGCAAAGGC
Found at i:106344267 original size:5 final size:5
Alignment explanation
Indices: 106344257--106344281 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
106344247 TCAGCAATAG
106344257 AAATC AAATC AAATC AAATC AAATC
1 AAATC AAATC AAATC AAATC AAATC
106344282 GAACTGTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATC
Found at i:106346340 original size:14 final size:14
Alignment explanation
Indices: 106346321--106346362 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
106346311 ATTTTTTGTG
*
106346321 ATTTTTAATAACTT
1 ATTTTTAATAAATT
*
106346335 ATTTTTAAAAAATT
1 ATTTTTAATAAATT
*
106346349 ATTTTTAATTAATT
1 ATTTTTAATAAATT
106346363 TCTAATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTTTTAATAAATT
Found at i:106354195 original size:13 final size:13
Alignment explanation
Indices: 106354177--106354208 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
106354167 AGGTTTAGCC
106354177 CTGTTGGAGGATG
1 CTGTTGGAGGATG
106354190 CTGTTGGAGGATG
1 CTGTTGGAGGATG
106354203 CTGTTG
1 CTGTTG
106354209 AAGTTCAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.44, T:0.34
Consensus pattern (13 bp):
CTGTTGGAGGATG
Found at i:106359062 original size:26 final size:27
Alignment explanation
Indices: 106359033--106359095 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
106359023 TATAGAATTT
* * *
106359033 ATTTATTATATTATTATAAAACCAA-A
1 ATTTATTATATTATAAAAAAAACAATA
*
106359059 ATTTA-TATCTTATAAAAAAAACAATA
1 ATTTATTATATTATAAAAAAAACAATA
*
106359085 AATTATTATAT
1 ATTTATTATAT
106359096 CCTTTATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 15 0.52
26 10 0.34
27 4 0.14
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.41
Consensus pattern (27 bp):
ATTTATTATATTATAAAAAAAACAATA
Found at i:106359351 original size:3 final size:3
Alignment explanation
Indices: 106359307--106359336 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
106359297 TTTTTTTTTA
106359307 ATT ACTT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT AT
106359337 AGATATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:106361536 original size:24 final size:22
Alignment explanation
Indices: 106361488--106361538 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
106361478 AGAATTTAAT
* **
106361488 TTTTATATTTTTATTTTTAGTA
1 TTTTAGATTTTTATTTTTAAAA
106361510 TTTTAGATTCTTTATTTTTTAAAA
1 TTTTAGATT-TTTA-TTTTTAAAA
106361534 TTTTA
1 TTTTA
106361539 AAATTTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 8 0.33
23 4 0.17
24 12 0.50
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTAGATTTTTATTTTTAAAA
Found at i:106366868 original size:31 final size:31
Alignment explanation
Indices: 106366809--106366868 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
106366799 TGATTTATAA
* **
106366809 GTTATTATTATAAGGGTAAATATGTAAAATG
1 GTTATTATTATAAGGATAAATAAATAAAATG
106366840 GTTATTATTATAA-GATAAATAAAATAAAA
1 GTTATTATTATAAGGATAAAT-AAATAAAA
106366869 CAAATAAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (31 bp):
GTTATTATTATAAGGATAAATAAATAAAATG
Found at i:106367800 original size:22 final size:22
Alignment explanation
Indices: 106367734--106367859 Score: 101
Period size: 22 Copynumber: 5.4 Consensus size: 22
106367724 ACAGCTCGTA
* *
106367734 AGAGCTTACTGTTTCAGCTTATT
1 AGAGCTTACTG-TTCAGCTCAAT
* * *
106367757 GGAGCTTAAC-GATTTAGCTCAAA
1 AGAGCTT-ACTG-TTCAGCTCAAT
106367780 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
*
106367802 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
*
106367826 AGAGCTTATTGTTCATTAGCTCAAT
1 AGAGCTTACTGTTC---AGCTCAAT
*
106367851 AAAGCTTAC
1 AGAGCTTAC
106367860 CGACCATGAC
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
22 23 0.28
23 22 0.27
24 22 0.27
25 15 0.18
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:106367822 original size:46 final size:45
Alignment explanation
Indices: 106367733--106367862 Score: 143
Period size: 46 Copynumber: 2.8 Consensus size: 45
106367723 CACAGCTCGT
* * * *
106367733 AAGAGCTTACTGTTTCAGCTTATTGGAGCTTAACGATTTAGCTCAA
1 AAGAGCTTACTG-TTCAGCTCAATAGAGCTTACCGATTTAGCTCAA
*
106367779 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGTTTTCAGCTCAA
1 AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGATTT-AGCTCAA
* * *
106367825 TAGAGCTTATTGTTCATTAGCTCAATAAAGCTTACCGA
1 AAGAGCTTACTGTTC---AGCTCAATAGAGCTTACCGA
106367863 CCATGACTCG
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
45 21 0.30
46 32 0.45
49 18 0.25
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (45 bp):
AAGAGCTTACTGTTCAGCTCAATAGAGCTTACCGATTTAGCTCAA
Found at i:106367823 original size:24 final size:24
Alignment explanation
Indices: 106367734--106367861 Score: 104
Period size: 24 Copynumber: 5.5 Consensus size: 24
106367724 ACAGCTCGTA
* * *
106367734 AGAGCTTACTG-TTTCAGCTTATT
1 AGAGCTTACCGTTTTCAGCTCAAT
* * * *
106367757 GGAGCTTAACGATTT-AGCTCAAA
1 AGAGCTTACCGTTTTCAGCTCAAT
*
106367780 AGAGCTTA-C-TGTTCAGCTCAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
106367802 AGAGCTTACCGTTTTCAGCTCAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
**
106367826 AGAGCTTATTGTTCATT-AGCTCAAT
1 AGAGCTTACCGTT--TTCAGCTCAAT
*
106367851 AAAGCTTACCG
1 AGAGCTTACCG
106367862 ACCATGACTC
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.02
22 16 0.19
23 21 0.25
24 26 0.31
25 16 0.19
26 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (24 bp):
AGAGCTTACCGTTTTCAGCTCAAT
Found at i:106372096 original size:20 final size:20
Alignment explanation
Indices: 106372063--106372107 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
106372053 ATAGAAACTG
* *
106372063 ATAAAATTGTTATTTTGGAA
1 ATAAAATTGTTATTTAGAAA
106372083 ATAAAATT-TATATTTAGAAA
1 ATAAAATTGT-TATTTAGAAA
106372103 ATAAA
1 ATAAA
106372108 TTCTCACTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (20 bp):
ATAAAATTGTTATTTAGAAA
Found at i:106376150 original size:23 final size:18
Alignment explanation
Indices: 106376135--106376177 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
106376125 AATACTTAAG
106376135 TATA-TAATATAATAATA
1 TATATTAATATAATAATA
106376152 TATATTAATATAATAATA
1 TATATTAATATAATAATA
106376170 TAATATTA
1 T-ATATTA
106376178 GAAAACATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATTAATATAATAATA
Found at i:106376151 original size:8 final size:8
Alignment explanation
Indices: 106376138--106376174 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
106376128 ACTTAAGTAT
106376138 ATAATATA
1 ATAATATA
106376146 ATAATATA
1 ATAATATA
106376154 TATTAATATA
1 -A-TAATATA
106376164 ATAATATA
1 ATAATATA
106376172 ATA
1 ATA
106376175 TTAGAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 18 0.67
9 2 0.07
10 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATAATATA
Found at i:106376229 original size:17 final size:18
Alignment explanation
Indices: 106376207--106376248 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
106376197 AAATAAAACA
*
106376207 AAAGAAT-AAGAACAGAG
1 AAAGAATGAAAAACAGAG
*
106376224 AAAGAAATGAAAAAGAGAG
1 AAAG-AATGAAAAACAGAG
106376243 AAAGAA
1 AAAGAA
106376249 AGAAGGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.05
Consensus pattern (18 bp):
AAAGAATGAAAAACAGAG
Found at i:106383716 original size:15 final size:15
Alignment explanation
Indices: 106383672--106383722 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
106383662 ATACTTAAGT
*
106383672 ATATAATATAATAAT
1 ATATAATATAATAAA
*
106383687 ATATATTA-ATATAAA
1 ATATAATATA-ATAAA
106383702 ATATAATATAATAAA
1 ATATAATATAATAAA
*
106383717 ACATAA
1 ATATAA
106383723 AAGAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 28 0.93
16 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
ATATAATATAATAAA
Found at i:106383756 original size:22 final size:23
Alignment explanation
Indices: 106383731--106383796 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
106383721 AAAAGAAATA
*
106383731 AAAGAAAAAAAAGAATAAGA-AC
1 AAAGAAAAAAAAGAAAAAGAGAC
* * *
106383753 AAAGAAAGAAACGAAAAAGAGAG
1 AAAGAAAAAAAAGAAAAAGAGAC
106383776 AAAGAAAGAAGGAAAGAAAAA
1 AAAGAAA-AA--AAAGAAAAA
106383797 AAGGGGAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 17 0.50
23 8 0.24
24 1 0.03
26 8 0.24
ACGTcount: A:0.74, C:0.03, G:0.21, T:0.02
Consensus pattern (23 bp):
AAAGAAAAAAAAGAAAAAGAGAC
Found at i:106383760 original size:17 final size:15
Alignment explanation
Indices: 106383721--106383795 Score: 73
Period size: 15 Copynumber: 4.9 Consensus size: 15
106383711 AATAAAACAT
*
106383721 AAAAGAAATAAAAGA
1 AAAAGAAAGAAAAGA
106383736 AAAA-AAAGAATAAGA
1 AAAAGAAAGAA-AAGA
*
106383751 ACAAAGAAAGAAACGA
1 A-AAAGAAAGAAAAGA
*
106383767 AAAAGAGAG-AAAGA
1 AAAAGAAAGAAAAGA
106383781 AAGAAGGAAAGAAAA
1 AA-AA-GAAAGAAAA
106383796 AAAGGGGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
14 11 0.22
15 18 0.37
16 11 0.22
17 9 0.18
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:106383760 original size:26 final size:29
Alignment explanation
Indices: 106383731--106383798 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
106383721 AAAAGAAATA
*
106383731 AAAGAAAAAAAAGA-A-TAAGAACA-AA-G
1 AAAGAAAAAAAAGAGAGAAAGAA-AGAAGG
106383757 AAAGAAACGAAAAAGAGAGAAAGAAAGAAGG
1 AAAGAAA--AAAAAGAGAGAAAGAAAGAAGG
106383788 AAAGAAAAAAA
1 AAAGAAAAAAA
106383799 GGGGAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
26 7 0.20
28 7 0.20
29 6 0.17
30 7 0.20
31 8 0.23
ACGTcount: A:0.75, C:0.03, G:0.21, T:0.01
Consensus pattern (29 bp):
AAAGAAAAAAAAGAGAGAAAGAAAGAAGG
Found at i:106384672 original size:43 final size:43
Alignment explanation
Indices: 106384595--106384679 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 43
106384585 ACAGGGATAA
106384595 TTCGACCTTGAGTCGATGAGGCACTAATATTGTCGTA-TGTTAC
1 TTCGACCTTGAGTCGATGAGGCACT-ATATTGTCGTACTGTTAC
* * *
106384638 TTCGACTTTGTGTCGATGAGGCACT-TCGTGTGTCGTACTGTT
1 TTCGACCTTGAGTCGATGAGGCACTAT-AT-TGTCGTACTGTT
106384680 TTCGATGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
41 1 0.03
42 1 0.03
43 30 0.83
44 4 0.11
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.38
Consensus pattern (43 bp):
TTCGACCTTGAGTCGATGAGGCACTATATTGTCGTACTGTTAC
Found at i:106391332 original size:21 final size:22
Alignment explanation
Indices: 106391306--106391352 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
106391296 AGGCTGAGAG
*
106391306 ACGGCCGTGTGACCTATC-CAC
1 ACGGCCATGTGACCTATCTCAC
*
106391327 ACGGCCATGTGGCCTATCTCAC
1 ACGGCCATGTGACCTATCTCAC
106391349 ACGG
1 ACGG
106391353 GCACGGCTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.19
Consensus pattern (22 bp):
ACGGCCATGTGACCTATCTCAC
Found at i:106409121 original size:22 final size:22
Alignment explanation
Indices: 106409093--106409134 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
106409083 TATTATTCAC
106409093 AAATTTGTAATTTAATTTTTCT
1 AAATTTGTAATTTAATTTTTCT
106409115 AAATTTGTAATTTAATTTTT
1 AAATTTGTAATTTAATTTTT
106409135 TTACTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (22 bp):
AAATTTGTAATTTAATTTTTCT
Found at i:106409546 original size:14 final size:14
Alignment explanation
Indices: 106409527--106409565 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
106409517 TTAGGAAAGT
106409527 AAATCATTTTCCAA
1 AAATCATTTTCCAA
* *
106409541 AAATCATTTTTCGA
1 AAATCATTTTCCAA
*
106409555 AAGTCATTTTC
1 AAATCATTTTC
106409566 AGTGAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:106410593 original size:14 final size:14
Alignment explanation
Indices: 106410562--106410595 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
106410552 TTGTCAAGTG
*
106410562 TTTTTTTTTTAATA
1 TTTTATTTTTAATA
106410576 -TTTATTTTTAATA
1 TTTTATTTTTAATA
106410589 TTTTATT
1 TTTTATT
106410596 GAGTTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTTTAATA
Found at i:106410617 original size:102 final size:103
Alignment explanation
Indices: 106410496--106410681 Score: 248
Period size: 102 Copynumber: 1.8 Consensus size: 103
106410486 AAAAAAAATG
* * * **
106410496 GTTAATATTTGGTACACTGATATTATATTTTTTTATTTCACAAGCAGTCCTAAAAATTGTCAAGT
1 GTTAATATTTGATACACTGAGAATATATTTTTTTATCCCACAAGCAGTCCTAAAAATTGTCAAGT
**
106410561 GT-TTTTTTTTTAATATTTATTTTTAATATTTTATTGA
66 GTGTCCTTTTTTAATATTTATTTTTAATATTTTATTGA
* * * * * *
106410598 GTTAGTATTTGATATACTGAGAATGTATTTTTTTATCCCGCAAGTAGTCCTAAAAATTGTCATGT
1 GTTAATATTTGATACACTGAGAATATATTTTTTTATCCCACAAGCAGTCCTAAAAATTGTCAAGT
106410663 GTGTCCTTTTTTAATATTT
66 GTGTCCTTTTTTAATATTT
106410682 TACTGAATTA
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
102 56 0.80
103 14 0.20
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (103 bp):
GTTAATATTTGATACACTGAGAATATATTTTTTTATCCCACAAGCAGTCCTAAAAATTGTCAAGT
GTGTCCTTTTTTAATATTTATTTTTAATATTTTATTGA
Found at i:106415672 original size:18 final size:18
Alignment explanation
Indices: 106415635--106415673 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
106415625 TTGGAAATCA
*
106415635 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
106415653 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
106415671 AAA
1 AAA
106415674 AATAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:106420993 original size:218 final size:219
Alignment explanation
Indices: 106420445--106421124 Score: 988
Period size: 218 Copynumber: 3.0 Consensus size: 219
106420435 CTTTTGCACA
* *
106420445 AAATTTCCTAGAACCACCACCCCTATAGAA-TGGTCTAGAACCTCGATTAAACTGCCTAGTGCTT
1 AAATTTTCTAGAACCACCACCCCTATA-AAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTT
* *
106420509 TTATCATTATTACCACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAGAAACAAAATCTTG
65 TTATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAAAAACAAAATCTTG
* *
106420574 TTGTCGAGCTTCACAATCAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAG
130 TTGTCGGGCTTAACAATCAGT----A----AGC------ATCAAGAGGGAGACACATTGCTGAAG
106420639 CTACAACTCAAATTGACTCATACTCCGCTGACAGACACG
181 CTACAACTCAAATTGACTCATACTCCGCTGACAGACACG
106420678 AAATTTTCTAGAACCACCACCCCTATAAAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTTT
1 AAATTTTCTAGAACCACCACCCCTATAAAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTTT
*
106420743 TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGCACATTAAAAACAAAATCTTGT
66 TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAAAAACAAAATCTTGT
*
106420808 TGTCGGGCTTAACAATCAGTAAGCA-CAAGAGGGAGACACATTGCTGAAGCTACAACTCAAATTT
131 TGTCGGGCTTAACAATCAGTAAGCATCAAGAGGGAGACACATTGCTGAAGCTACAACTCAAATTG
106420872 ACTCATACTCCGCTGACAGACACG
196 ACTCATACTCCGCTGACAGACACG
106420896 AAATTTTCTAGAACCACCACCCCTATAAAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTTT
1 AAATTTTCTAGAACCACCACCCCTATAAAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTTT
106420961 TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAAAAACAAAATCTTGT
66 TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAAAAACAAAATCTTGT
106421026 TGTCGGGCTTAACAA-CAGTAAGCATCTCAGCAAGAAGATCAAGAGGGAGACACATTGCTGAAGC
131 TGTCGGGCTTAACAATCAGT----A----AGC------ATCAAGAGGGAGACACATTGCTGAAGC
* *
106421090 TACAACTCGAATTGACTTATACTCCGCTGACAGAC
182 TACAACTCAAATTGACTCATACTCCGCTGACAGAC
106421125 CAGCAAGAAT
Statistics
Matches: 419, Mismatches: 12, Indels: 33
0.90 0.03 0.07
Matches are distributed among these distances:
217 4 0.01
218 206 0.49
219 1 0.00
221 1 0.00
225 6 0.01
229 1 0.00
231 1 0.00
232 59 0.14
233 140 0.33
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (219 bp):
AAATTTTCTAGAACCACCACCCCTATAAAGTGGTCTAGAACCTCGATTGAACTGCCTAGTGCTTT
TATCATTATTACAACTGTGTTGAGCAACATTAGCCTGTAAAGGTACATTAAAAACAAAATCTTGT
TGTCGGGCTTAACAATCAGTAAGCATCAAGAGGGAGACACATTGCTGAAGCTACAACTCAAATTG
ACTCATACTCCGCTGACAGACACG
Found at i:106421839 original size:40 final size:40
Alignment explanation
Indices: 106421786--106421891 Score: 142
Period size: 40 Copynumber: 2.6 Consensus size: 40
106421776 ACTAACAGAA
* * * *
106421786 AAACGCCGTAAAAGGTAAAGTATTAGCGGCATTTTT-GCAT
1 AAAC-CCGCAAAAGGTAAAGCAATAGCAGCATTTTTCGCAT
*
106421826 AAACACCGCAAAAGGTAAAGCAATAGCAGCATTTTTCTCAT
1 AAAC-CCGCAAAAGGTAAAGCAATAGCAGCATTTTTCGCAT
106421867 AAACCCGCAAAAGGTAAAGCAATAG
1 AAACCCGCAAAAGGTAAAGCAATAG
106421892 TGGAAACGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 52 0.88
41 7 0.12
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.21
Consensus pattern (40 bp):
AAACCCGCAAAAGGTAAAGCAATAGCAGCATTTTTCGCAT
Found at i:106425287 original size:13 final size:13
Alignment explanation
Indices: 106425269--106425294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106425259 TAACTAAAGG
106425269 GTTAAAATTTAAA
1 GTTAAAATTTAAA
106425282 GTTAAAATTTAAA
1 GTTAAAATTTAAA
106425295 TATGATAATT
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:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:106427544 original size:21 final size:21
Alignment explanation
Indices: 106427491--106427551 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
106427481 AGGTAAATAC
*
106427491 GGCTGGCACAAAGCCATAATCA
1 GGCTGGCACAGAGCCAT-ATCA
* * * *
106427513 AGATAGCACAGAGCCATATTA
1 GGCTGGCACAGAGCCATATCA
106427534 GGCTGGCACAGAGCCATA
1 GGCTGGCACAGAGCCATA
106427552 AATAGATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
21 18 0.58
22 13 0.42
ACGTcount: A:0.36, C:0.25, G:0.25, T:0.15
Consensus pattern (21 bp):
GGCTGGCACAGAGCCATATCA
Found at i:106435817 original size:23 final size:23
Alignment explanation
Indices: 106435780--106435910 Score: 79
Period size: 25 Copynumber: 5.6 Consensus size: 23
106435770 TCTTTTTTAT
*
106435780 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
106435803 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
106435825 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
106435848 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
106435873 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
* *
106435898 TATTTTTTATATT
1 TATTATATATATT
106435911 TTTTTTCTAC
Statistics
Matches: 82, Mismatches: 19, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 7 0.09
25 29 0.35
26 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.56
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:106435949 original size:22 final size:22
Alignment explanation
Indices: 106435924--106435990 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 22
106435914 TTTCTACATG
*
106435924 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
106435946 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
106435971 CTATATTATGTACATATTTT
1 TTATATTATGTATATATTTT
106435991 TAATATTATC
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
22 11 0.30
23 6 0.16
24 8 0.22
25 12 0.32
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:106435998 original size:20 final size:20
Alignment explanation
Indices: 106435973--106436030 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
106435963 TTTTTACACT
106435973 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
106435993 ATATTAT-CACTATTTATTTTTT
1 ATATTATGTAC-A--TATTTTTA
106436015 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
106436031 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
19 7 0.23
20 8 0.26
21 4 0.13
22 12 0.39
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:106436029 original size:23 final size:23
Alignment explanation
Indices: 106435987--106436032 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
106435977 TATGTACATA
106435987 TTTTTAATATTATCACTATTTAT
1 TTTTTAATATTATCACTATTTAT
106436010 TTTTTATATATGTA-CA-TATTTAT
1 TTTTTA-ATAT-TATCACTATTTAT
106436033 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.62
24 6 0.29
25 2 0.10
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTAATATTATCACTATTTAT
Found at i:106436167 original size:16 final size:15
Alignment explanation
Indices: 106436143--106436190 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
106436133 TAATTATTAT
*
106436143 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
106436159 TATTTTAATATTTTA
1 TATTTTAATATTTTA
*
106436174 TATTTTATATACTTTA
1 TATTTTA-ATATTTTA
106436190 T
1 T
106436191 TATTCACATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 8 0.28
16 21 0.72
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:106436178 original size:7 final size:8
Alignment explanation
Indices: 106436143--106436194 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
106436133 TAATTATTAT
*
106436143 TATTCTAA
1 TATTTTAA
*
106436151 TATTTTGA
1 TATTTTAA
106436159 TATTTTAA
1 TATTTTAA
106436167 TATTTT-A
1 TATTTTAA
106436174 TATTTTATA
1 TATTTTA-A
* *
106436183 TACTTTAT
1 TATTTTAA
106436191 TATT
1 TATT
106436195 CACATCACTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
7 7 0.19
8 22 0.61
9 7 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (8 bp):
TATTTTAA
Found at i:106442288 original size:12 final size:13
Alignment explanation
Indices: 106442270--106442303 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
106442260 GGCATCTTAA
106442270 AAAAAGAGAAAAG
1 AAAAAGAGAAAAG
*
106442283 -AAAAGAAAAAAG
1 AAAAAGAGAAAAG
106442295 AAAAAGAGA
1 AAAAAGAGA
106442304 GAGGGATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAAAAG
Found at i:106443364 original size:73 final size:73
Alignment explanation
Indices: 106443245--106443410 Score: 260
Period size: 73 Copynumber: 2.3 Consensus size: 73
106443235 ATTTCCGTTT
*
106443245 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGACACGC
106443310 TGAGGTAA
66 TGAGGTAA
* * *
106443318 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGTCTCGGGGCACGC
1 TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGACACGC
*
106443383 TGAGGTAT
66 TGAGGTAA
* * *
106443391 TTTTAATTTCTGTTTTTCAA
1 TTTCAATTTATGCTTTTCAA
106443411 TTTCTGCTTT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 85 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (73 bp):
TTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGCCTCAGGACACGC
TGAGGTAA
Found at i:106443434 original size:13 final size:13
Alignment explanation
Indices: 106443390--106443434 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
106443380 CGCTGAGGTA
106443390 TTTTTAATTTCTG
1 TTTTTAATTTCTG
106443403 TTTTTCAATTTCTG
1 TTTTT-AATTTCTG
*
106443417 CTTTTAATTTCTG
1 TTTTTAATTTCTG
106443430 TTTTT
1 TTTTT
106443435 CAAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:106443457 original size:100 final size:101
Alignment explanation
Indices: 106443321--106443606 Score: 420
Period size: 100 Copynumber: 2.9 Consensus size: 101
106443311 GAGGTAATTT
* * * *
106443321 CAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGTCTCGGGGCACGCTGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
* *
106443386 GGTATTTTTAATTTCTGTTTTTCAAT-TTCTG-CTTT
66 GGTATTTTCAATTTCTGTTTTTCAATCTT-TGCCTTA
* * *
106443421 TAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
106443486 GGTATTTTCAATTTCTGTTTTTCAATCTTTGCCTTA
66 GGTATTTTCAATTTCTGTTTTTCAATCTTTGCCTTA
* *
106443522 CAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
106443585 GGTATTTTCAATTT-TCGTTTTT
66 GGTATTTTCAATTTCT-GTTTTT
106443607 TTAATTTATG
Statistics
Matches: 169, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
98 1 0.01
99 66 0.39
100 85 0.50
101 17 0.10
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (101 bp):
CAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGA
GGTATTTTCAATTTCTGTTTTTCAATCTTTGCCTTA
Found at i:106443571 original size:99 final size:99
Alignment explanation
Indices: 106443328--106443699 Score: 412
Period size: 100 Copynumber: 3.8 Consensus size: 99
106443318 TTTCAATTTA
* * *
106443328 TGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGATGAGTCTCGGGGCACGCTGAGGTATTT
1 TGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
* ** *
106443393 TTAATTTCTGTTTTTCAATTTCTGCTTTTAATTTC
65 TCAATTTCTGTTTTTCAATTTCTGCTTACAAATTC
* *
106443428 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGTTGAGGTATTT
1 TGCTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTT
106443493 TCAATTTCTGTTTTTCAATCTT-TGCCTTACAAATTC
65 TCAATTTCTGTTTTTCAAT-TTCTG-CTTACAAATTC
*
106443529 TGCTTTTC-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
* * *
106443593 CAATTT-TCGTTTTTTTAATTTATG-TTTCTAAA---
66 CAATTTCT-G-TTTTTCAATTTCTGCTTAC-AAATTC
* * * *
106443625 -------AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
* *
106443683 CAATTTTTGTTTGTCAA
66 CAATTTCTGTTTTTCAA
106443700 AACTCAACTC
Statistics
Matches: 245, Mismatches: 19, Indels: 27
0.84 0.07 0.09
Matches are distributed among these distances:
89 6 0.02
90 61 0.25
91 1 0.00
98 4 0.02
99 66 0.27
100 90 0.37
101 17 0.07
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (99 bp):
TGCTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTT
CAATTTCTGTTTTTCAATTTCTGCTTACAAATTC
Found at i:106443730 original size:73 final size:74
Alignment explanation
Indices: 106443624--106444258 Score: 904
Period size: 73 Copynumber: 8.6 Consensus size: 74
106443614 ATGTTTCTAA
* * *
106443624 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
*
106443689 TTGTTTGTC
66 CTGTTTGTC
* * * *
106443698 -AAAACTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
106443762 CTGTTTGTC
66 CTGTTTGTC
* * * * *
106443771 AAAAAAGTCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCAATT
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
*
106443836 TTTGTTTGTC
65 TCTGTTTGTC
* *
106443846 -AAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
*
106443910 CTGTTTTTC
66 CTGTTTGTC
* * * * * *
106443919 AAAAAATCAACTTATATTGCGATAGGTAAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
*
106443984 TTGTTTGTC
66 CTGTTTGTC
*
106443993 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
106444057 CTGTCTT-TC
66 CTGT-TTGTC
* *
106444066 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATT
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATT
*
106444131 TTTGTTTGTC
65 TCTGTTTGTC
*
106444141 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
106444205 CTGTCTT-TC
66 CTGT-TTGTC
* *
106444214 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
106444259 GCTAAGGTGT
Statistics
Matches: 496, Mismatches: 55, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
73 253 0.51
74 77 0.16
75 166 0.33
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTT
CTGTTTGTC
Found at i:106444154 original size:295 final size:296
Alignment explanation
Indices: 106443623--106444254 Score: 1061
Period size: 295 Copynumber: 2.1 Consensus size: 296
106443613 TATGTTTCTA
*
106443623 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
106443688 TTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAT
* * * * *
106443753 TTTCAATTTCTGTTTGTCAAAAAAGTCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGAAAC
131 TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAAAC
*
106443818 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
196 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
106443883 CAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTC
261 CAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC
* * * *
106443919 -AAAAAATCAACTTATATTGCGATAGGTAAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* *
106443983 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAT
* *
106444048 TTTCAATTTCTGTCTT-TCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
131 TTTCAATTTCTGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAAA
*
106444112 CGTTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
195 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
106444177 TCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC
260 TCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC
* *
106444214 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
106444255 AGACGCTAAG
Statistics
Matches: 310, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
295 274 0.88
296 36 0.12
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (296 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAT
TTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAAAC
GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTC
Found at i:106444258 original size:148 final size:148
Alignment explanation
Indices: 106443623--106444254 Score: 1061
Period size: 148 Copynumber: 4.3 Consensus size: 148
106443613 TATGTTTCTA
*
106443623 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
* * *
106443688 TTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGACACATTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
106443753 TTTCAATTTCTGT-TTGTC
131 TTTCAATTTCTGTCTT-TC
* * * *
106443771 AAAAAAGTCAACTCATATTGTGATAGGTGAGTTGAGCCTCAGGAAACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
*
106443836 TTTGTTTGTCAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
*
106443901 TTTCAATTTCTGTTTTTC
131 TTTCAATTTCTGTCTTTC
* * * *
106443919 -AAAAAATCAACTTATATTGCGATAGGTAAGTTGAGCCTTAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
106443983 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
106444048 TTTCAATTTCTGTCTTTC
131 TTTCAATTTCTGTCTTTC
* * * *
106444066 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
106444131 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
66 TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
106444196 TTTCAATTTCTGTCTTTC
131 TTTCAATTTCTGTCTTTC
* *
106444214 AAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
106444255 AGACGCTAAG
Statistics
Matches: 459, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
147 139 0.30
148 318 0.69
149 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (148 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTCTTTC
Found at i:106444469 original size:92 final size:89
Alignment explanation
Indices: 106444195--106444736 Score: 408
Period size: 92 Copynumber: 6.0 Consensus size: 89
106444185 CGTTGAGGTA
* * * * *
106444195 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA---AG
1 TTTTCAATTTAT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
* * *
106444257 ACGCTAAGGTGTTTTCCATTTCTGT
65 ACGCTGAGGTATTTTCAATTTCTGT
* * * * * **
106444282 TCTTCAATTTCTATGTTTCAAAAAAAAT-AAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACT
1 TTTTCAATTTAT-TTTTTC-AAAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCC-TCAGG
* * *
106444346 CATAAGCTGAGGTATTTTCAAATTCTGT
62 CACACGCTGAGGTATTTTCAATTTCTGT
*
106444374 TTTTCAAATATT-TTTTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG-
1 TTTTC-AAT-TTATTTTTT-CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
* *
106444437 ACACGCTGAGATATTTTCAATTTCTTTTT
63 ACACGCTGAGGTATTTTCAATTTC--TGT
* * **
106444466 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTTTCAGGTCA
1 TTTTCAATTTAT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
* * ** *
106444531 CACACCGAGGTATTTTCAATTGATTT
64 CACGCTGAGGTATTTTCAATTTCTGT
* * * * *
106444557 TTTTTAATTTATGCTTTGC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTAT-TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CA
** * * **
106444620 CATACCGAGATATTTTCAAAATCTGT
64 CACGCTGAGGTATTTTCAATTTCTGT
* * * * *
106444646 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGGCTC
1 TTTTC-AATTTATTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCAC
* *
106444706 ACGTGCTGAGCTATTTTCAATTTCTAT
65 AC--GCTGAGGTATTTTCAATTTCTGT
106444733 TTTT
1 TTTT
106444737 AATGTCTAGT
Statistics
Matches: 369, Mismatches: 67, Indels: 38
0.78 0.14 0.08
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 72 0.20
88 36 0.10
89 64 0.17
90 27 0.07
91 64 0.17
92 73 0.20
93 26 0.07
94 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.38
Consensus pattern (89 bp):
TTTTCAATTTATTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACA
CGCTGAGGTATTTTCAATTTCTGT
Found at i:106444608 original size:89 final size:87
Alignment explanation
Indices: 106444396--106444699 Score: 330
Period size: 89 Copynumber: 3.4 Consensus size: 87
106444386 TTTTTTCCAA
* * *
106444396 AAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGATATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAA-T
*
106444459 TCTTTTTTTTTCAATTTATGTTTGTC
65 T-GTTTTTTTT-AATTTATGTTTG-C
* ** *
106444485 AAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGTTTCAGGTCACACACCGAGGTATTTTCAA
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAA
106444550 TTGATTTTTTTTAATTTATGCTTTGC
64 TTG-TTTTTTTTAATTTATG-TTTGC
* * *
106444576 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGATATTTTC--AA
*** *
106444641 TCTG-TTTTACAAATTT-TGTTT-T
64 T-TGTTTTTTTTAATTTATGTTTGC
*
106444663 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
106444700 TGGCTCACGT
Statistics
Matches: 185, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
87 35 0.19
88 3 0.02
89 56 0.30
90 9 0.05
91 49 0.26
92 16 0.09
93 17 0.09
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACACCGAGATATTTTCAATT
GTTTTTTTTAATTTATGTTTGC
Found at i:106444721 original size:87 final size:89
Alignment explanation
Indices: 106444303--106444725 Score: 321
Period size: 89 Copynumber: 4.7 Consensus size: 89
106444293 TATGTTTCAA
* * * * *
106444303 AAAAAAT-AAGCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCATAAGCTGAGGTATTTTCAA
1 AAAAAATCAA-CTCATATTGCGAGAGGTGAGTTGAGCCTTG-GTCACATGCTGAGATATTTTCAA
* * * **
106444367 ATTCTGTTTTTCAAATATTTTTTTTCCA
64 AATCTGTTTTTCAAAT-TTATGTTT-GT
* * * *
106444395 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGATATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACATGCTGAGATATTTTCAAA
* *
106444458 TTCTTTTTTTTTC-AATTTATGTTTGT
65 ATC--TGTTTTTCAAATTTATGTTTGT
* * ** * *
106444484 CAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG-TTTCAGGTCACACACCGAGGTATTTTC
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GGTCACATGCTGAGATATTTTC
**
106444548 --AAT-TGATTTTTTTTAATTTATGCTTTG-
62 AAAATCTG--TTTTTCAAATTTATG-TTTGT
* * * * *
106444575 CAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACATGCTGAGATATTTTCAAA
*
106444640 ATCTGTTTTACAAATTT-TGTTT-T
65 ATCTGTTTTTCAAATTTATGTTTGT
* * *
106444663 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATGCTGAGATATTTTCAA
106444726 TTTCTATTTT
Statistics
Matches: 269, Mismatches: 41, Indels: 47
0.75 0.11 0.13
Matches are distributed among these distances:
86 2 0.01
87 53 0.20
88 4 0.01
89 54 0.20
90 42 0.16
91 50 0.19
92 46 0.17
93 18 0.07
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (89 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATGCTGAGATATTTTCAAAA
TCTGTTTTTCAAATTTATGTTTGT
Found at i:106444749 original size:87 final size:86
Alignment explanation
Indices: 106444396--106444773 Score: 304
Period size: 87 Copynumber: 4.3 Consensus size: 86
106444386 TTTTTTCCAA
* * ** *
106444396 AAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG--ACACGCTGAGATATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACATACCGAGATATTTTCAATT
106444459 TCTTTTTTTTTCAATTTATGTTTGT
65 TC--TTTTTTT-AATTTATGTTTGT
* * * *
106444484 CAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAG-TTTCAGGTCACACACCGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GGTCACATACCGAGATATTTTC
*
106444548 AATTGAT-TTTTTTTAATTTATGCTTTGC
61 AATT--TCTTTTTTTAATTTATG-TTTGT
* * **
106444576 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGATATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGTCACATACCGAGATATTTTCAATT
**
106444641 TCTGTTTTACAAATTT-TGTTT-T
65 TCT-TTTT-TTAATTTATGTTTGT
* * * * *
106444663 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-TCACATACCGAGATATTTTCAATT
*
106444728 TCTATTTTTAATGTCTA-GTTT-T
65 TCTTTTTTTAAT-T-TATGTTTGT
* * *
106444750 AAAGAGTCAATTCATATTACGAGA
1 AAA-AATCAACTCATATTGCGAGA
106444774 AATGAGTTAA
Statistics
Matches: 236, Mismatches: 34, Indels: 37
0.77 0.11 0.12
Matches are distributed among these distances:
85 3 0.01
86 6 0.03
87 66 0.28
88 21 0.09
89 60 0.25
90 7 0.03
91 42 0.18
92 11 0.05
93 19 0.08
95 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (86 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGTCACATACCGAGATATTTTCAATTT
CTTTTTTTAATTTATGTTTGT
Found at i:106445450 original size:18 final size:18
Alignment explanation
Indices: 106445427--106445482 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
106445417 CCACCACCAA
106445427 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
106445445 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
106445457 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
106445475 CCCCACTA
1 CTCCACTA
106445483 CCTACTCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 12
0.66 0.07 0.27
Matches are distributed among these distances:
12 7 0.24
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 14 0.48
ACGTcount: A:0.25, C:0.50, G:0.07, T:0.18
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Done.