Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 42 of 106
Found at i:15952780 original size:234 final size:235
Alignment explanation
Indices: 15952305--15952748 Score: 509
Period size: 234 Copynumber: 1.9 Consensus size: 235
15952295 TGTGACATGA
* * * *
15952305 CATGGTGGGAATGTGTGACACGACAAGGTTTAGAGTTTGTGACACGCCATGGAGGGAATTTGTGA
1 CATGGAGGGAATGTGTGACACGACAAGGTTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTGA
* * ** ** *
15952370 CACGACAGCGTTCAGAGTTTCTAACACGCTGTGGAGGGAATCTGTGACACGACAGTGTTCAAAGA
66 CACGACAGCGTTAAAAGTTTCTAACACGCCATGGAAAGAATCTGTGACACGACAGCGTTCAAAGA
* * * **
15952435 TTGTGACACAGCATGGAGGGAATCTATGACACACTAACGTTCAAAGTTTGTGACATGCCATGGAA
131 TTGTGACACACCATGAAGGGAATCTATGACACACCAACGTTCAAAGTTTGTGACACCCCATGGAA
* *
15952500 AGAATCTATGACACGACAGCATTCAGAATTTGTGACACGC
196 AGAATCTATAACACGACAGCATTCAGAATTTGTCACACGC
* * *
15952540 CATGGAGGGAATTTGTGACA-GTC-AGTGTTCAGAGTTTGTGACATGCCATGGAGAGAATCTGTG
1 CATGGAGGGAATGTGTGACACGACAAG-GTTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTG
* * * * * * ** *
15952603 ATATGACAAG-GTTAAAAGTTTGTGACATGCCATGGAAAGAATCTGTGATACGGTAGCGTTCAGA
65 ACACGAC-AGCGTTAAAAGTTTCTAACACGCCATGGAAAGAATCTGTGACACGACAGCGTTCAAA
* * * *
15952667 GTTTGTGACACACCATGAAGGGAATCTATGACACGCCAGA-GTTCAGAGTTTGTGACACCCCATT
129 GATTGTGACACACCATGAAGGGAATCTATGACACACCA-ACGTTCAAAGTTTGTGACACCCCATG
* *
15952731 GAAGGAATCTGTAACACG
193 GAAAGAATCTATAACACG
15952749 GTAGGGTTTA
Statistics
Matches: 171, Mismatches: 35, Indels: 7
0.80 0.16 0.03
Matches are distributed among these distances:
233 2 0.01
234 148 0.87
235 21 0.12
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (235 bp):
CATGGAGGGAATGTGTGACACGACAAGGTTCAGAGTTTGTGACACGCCATGGAGAGAATCTGTGA
CACGACAGCGTTAAAAGTTTCTAACACGCCATGGAAAGAATCTGTGACACGACAGCGTTCAAAGA
TTGTGACACACCATGAAGGGAATCTATGACACACCAACGTTCAAAGTTTGTGACACCCCATGGAA
AGAATCTATAACACGACAGCATTCAGAATTTGTCACACGC
Found at i:15952819 original size:24 final size:24
Alignment explanation
Indices: 15952786--15952841 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
15952776 TGGAGATCTA
15952786 TGACACGGAAAGGTTTAGAGTGTG
1 TGACACGGAAAGGTTTAGAGTGTG
* *
15952810 TGACAGGGAAGGGTTTAGAGTGTG
1 TGACACGGAAAGGTTTAGAGTGTG
15952834 TGACACGG
1 TGACACGG
15952842 CATGACTTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.41, T:0.23
Consensus pattern (24 bp):
TGACACGGAAAGGTTTAGAGTGTG
Found at i:15953560 original size:31 final size:31
Alignment explanation
Indices: 15953515--15953627 Score: 163
Period size: 31 Copynumber: 3.6 Consensus size: 31
15953505 GACTTGATAC
* *
15953515 GCATGGCGTGTTACAAGATTTTACGTTATAT
1 GCATGGCGTGTTACAACATTTTACGTTACAT
* * * *
15953546 GTATGGGGTGTTACAATATTTTATGTTACAT
1 GCATGGCGTGTTACAACATTTTACGTTACAT
15953577 GCATGGCGTGTTACAACATTTTACGTTACAT
1 GCATGGCGTGTTACAACATTTTACGTTACAT
*
15953608 GCATGGCTTGTTACAACATT
1 GCATGGCGTGTTACAACATT
15953628 ATGGGTTAAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 72 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (31 bp):
GCATGGCGTGTTACAACATTTTACGTTACAT
Found at i:15955324 original size:145 final size:145
Alignment explanation
Indices: 15955017--15955328 Score: 403
Period size: 145 Copynumber: 2.2 Consensus size: 145
15955007 GTAAGGACAA
* * * *
15955017 TTCTAACGGTTTGTGTTCAACAATTCCATATGTGATTATCAAATAACATATCTGTGTTTGTAGTT
1 TTCTAACGATTTGTGTTCAACAATTCCATATGTGATTATCAAATAACATATCTATGTTTGCAATT
* * * * ** *
15955082 GGACCATGCAACGATAGCTCCACAACCACTAAGAGGTCTTCCTCCAACTCACAGTGCTAACGACC
66 GGACCATGCAACGACAGCTCCACAACCACGAAGAAGTCTTCCTCAAAAGCACAGTGCTAACGACA
15955147 CGTCGGTAAGATCGG
131 CGTCGGTAAGATCGG
* * *
15955162 TTATAA-TAGTTTGTGTTCAACAATTCCATATGTGATTTTCAAATAACATATCTATGTTTGCAAT
1 TTCTAACGA-TTTGTGTTCAACAATTCCATATGTGATTATCAAATAACATATCTATGTTTGCAAT
* * * ** *
15955226 TGGACCATGCGATGACAGTTCCTTAACCATCGAA-AAGTTTTCCTCAAAAGCACAGTGCTAACGA
65 TGGACCATGCAACGACAGCTCCACAACCA-CGAAGAAGTCTTCCTCAAAAGCACAGTGCTAACGA
15955290 CACGTCGGTAAGATCGG
129 CACGTCGGTAAGATCGG
*
15955307 TTCTAACGATTTTTGTTCAACA
1 TTCTAACGATTTGTGTTCAACA
15955329 TTTTCACATA
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
145 137 0.97
146 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.31
Consensus pattern (145 bp):
TTCTAACGATTTGTGTTCAACAATTCCATATGTGATTATCAAATAACATATCTATGTTTGCAATT
GGACCATGCAACGACAGCTCCACAACCACGAAGAAGTCTTCCTCAAAAGCACAGTGCTAACGACA
CGTCGGTAAGATCGG
Found at i:15957649 original size:62 final size:62
Alignment explanation
Indices: 15957488--15957667 Score: 243
Period size: 62 Copynumber: 2.9 Consensus size: 62
15957478 GTCACCCTTG
* * * **
15957488 AATACTGCAACAAGTCAGTGTGTCATACCATGTATCTACTTCCACTCAGCGTGTCACCCCAC
1 AATACTGCAACAAGTCAGCGTGTCATGCCATGTATCTGCTTCCACTCAGCGTGTCACCAAAC
* *
15957550 AATACTGTAACAAGTCAGCGTGTCATGCCATGTATCTGCTTCCACTCAACGTGTCACCAAAC
1 AATACTGCAACAAGTCAGCGTGTCATGCCATGTATCTGCTTCCACTCAGCGTGTCACCAAAC
* * * ** *
15957612 AATACTGCAACAAGTCAACGTGTCACGTCATAAATCTGCTTCCACTTAGCGTGTCA
1 AATACTGCAACAAGTCAGCGTGTCATGCCATGTATCTGCTTCCACTCAGCGTGTCA
15957668 ACATAATTGG
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
62 103 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (62 bp):
AATACTGCAACAAGTCAGCGTGTCATGCCATGTATCTGCTTCCACTCAGCGTGTCACCAAAC
Found at i:15957710 original size:87 final size:85
Alignment explanation
Indices: 15957600--15957933 Score: 416
Period size: 87 Copynumber: 3.9 Consensus size: 85
15957590 TCCACTCAAC
** * *
15957600 GTGTCACCAAACAATACTGCAACAAGTCAACGTGTCACGTCATAAATCTGCTTCCACTTAGCGTG
1 GTGTCACCCCACAATACTGCAACAAGTCAACGTGTCACGCCATAAATCTGCTTCCACTCAGCGTG
*
15957665 TCAACATAATTGGTATTGGG
66 TCAACACAATTGGTATTGGG
* * * *
15957685 GCATGTCACCCCGCAATACTTCAACAAGTCAACGTGTCACACCATAAATCTGCTTCCACTCAGCA
1 G--TGTCACCCCACAATACTGCAACAAGTCAACGTGTCACGCCATAAATCTGCTTCCACTCAGCG
15957750 TGTCAACACAATTGGTATTGGGG
64 TGTCAACACAATTGGTATT-GGG
** * * * *
15957773 TGTGTCACTACATAATACTGCAACAAGTCAGCGTGTCATGCCATAAATCTACTTCCACTCAGCGT
1 -GTGTCACCCCACAATACTGCAACAAGTCAACGTGTCACGCCATAAATCTGCTTCCACTCAGCGT
* * *
15957838 GTCAACACAATTGGGGAGTGGT
65 GTCAACACAATT-GGTATTGGG
* * * *
15957860 GTGTCACCCCACAATACTGCAACCAGTCAGCATGTCACGCCATAAATCTGCTTCCATTCAGCGTG
1 GTGTCACCCCACAATACTGCAACAAGTCAACGTGTCACGCCATAAATCTGCTTCCACTCAGCGTG
*
15957925 TCACCACAA
66 TCAACACAA
15957934 GATGTCATTG
Statistics
Matches: 213, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
85 1 0.00
86 65 0.31
87 139 0.65
88 7 0.03
89 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (85 bp):
GTGTCACCCCACAATACTGCAACAAGTCAACGTGTCACGCCATAAATCTGCTTCCACTCAGCGTG
TCAACACAATTGGTATTGGG
Found at i:15958237 original size:23 final size:23
Alignment explanation
Indices: 15958211--15958260 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
15958201 ATTTTATATT
*
15958211 ATTTTTCTAAAAATGATAAATTA
1 ATTTTTATAAAAATGATAAATTA
15958234 ATTTTTATAAAAATGATAAATTA
1 ATTTTTATAAAAATGATAAATTA
15958257 ATTT
1 ATTT
15958261 ATTAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (23 bp):
ATTTTTATAAAAATGATAAATTA
Found at i:15961822 original size:31 final size:31
Alignment explanation
Indices: 15961699--15961807 Score: 148
Period size: 31 Copynumber: 3.5 Consensus size: 31
15961689 TTTGTCACTC
* * *
15961699 ATGTTGTTACATGCCATGCATAT-AACGTAAA
1 ATGTTGTAACACGCCATGCATATCAA-GTCAA
*
15961730 ATGTTGTAACACGCCATGCGTATCAAGTCAA
1 ATGTTGTAACACGCCATGCATATCAAGTCAA
15961761 ATGTTGTAACACGCCATGCATATCAAGTCAA
1 ATGTTGTAACACGCCATGCATATCAAGTCAA
* *
15961792 ATGTTGTTATACGCCA
1 ATGTTGTAACACGCCA
15961808 ATGCTAACAC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
31 68 0.97
32 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (31 bp):
ATGTTGTAACACGCCATGCATATCAAGTCAA
Found at i:15961822 original size:62 final size:62
Alignment explanation
Indices: 15961699--15961822 Score: 153
Period size: 62 Copynumber: 2.0 Consensus size: 62
15961689 TTTGTCACTC
* * *
15961699 ATGTTGTTACATGCCATGCATATAACGTAAAATGTTGTAACACGCCATGCGTATCAAGTCAA
1 ATGTTGTAACACGCCATGCATATAACGTAAAATGTTGTAACACGCCATGCGTAACAAGTCAA
* * * *
15961761 ATGTTGTAACACGCCATGCATATCAA-GTCAAATGTTGTTATACGCCAATGC-TAACACGTCAA
1 ATGTTGTAACACGCCATGCATAT-AACGTAAAATGTTGTAACACGCC-ATGCGTAACAAGTCAA
15961823 TCACTATAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 47 0.89
63 6 0.11
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (62 bp):
ATGTTGTAACACGCCATGCATATAACGTAAAATGTTGTAACACGCCATGCGTAACAAGTCAA
Found at i:15962259 original size:54 final size:54
Alignment explanation
Indices: 15962153--15962259 Score: 151
Period size: 54 Copynumber: 2.0 Consensus size: 54
15962143 ACCACAGCCC
* * *
15962153 GATGACGATGGTACTCAATAGAGAGTTGACAAAGCTCATATAGTTCATAGAGCT
1 GATGACGATGGTACTCAATAGAGAGTTGACAAAGCTCAGACAGTTCAGAGAGCT
* * * *
15962207 GATGACGATGGTGCTCAATAGAGAGTTGACAAAGTTGAGACAGTTTAGAGAGC
1 GATGACGATGGTACTCAATAGAGAGTTGACAAAGCTCAGACAGTTCAGAGAGC
15962260 CTGAGAGAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (54 bp):
GATGACGATGGTACTCAATAGAGAGTTGACAAAGCTCAGACAGTTCAGAGAGCT
Found at i:15968181 original size:2 final size:2
Alignment explanation
Indices: 15968176--15968201 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15968166 GAGAATCCTT
15968176 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
15968202 CTAATCNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15990911 original size:17 final size:18
Alignment explanation
Indices: 15990879--15990912 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15990869 AACGATTATT
15990879 TAACTAATAGTTTAAAGC
1 TAACTAATAGTTTAAAGC
*
15990897 TAACTAA-ATTTTAAAG
1 TAACTAATAGTTTAAAG
15990913 GTTGAACAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
TAACTAATAGTTTAAAGC
Found at i:16003052 original size:36 final size:36
Alignment explanation
Indices: 16002982--16003105 Score: 123
Period size: 36 Copynumber: 3.6 Consensus size: 36
16002972 CACTATGAAA
* * *
16002982 AATGCTTTTTAAGGCTCAAGCATAA-CT-T--ATAC
1 AATGCCTTTTAAGGATCAAGCACAACCTCTCAATAC
*
16003014 AATGCCTTTCAAGGATCAAGCACAACCTCTCAATAC
1 AATGCCTTTTAAGGATCAAGCACAACCTCTCAATAC
* * * *
16003050 AATGCCTTTTATA-TATCAAACACAACCTTTCAACAC
1 AATGCCTTTTA-AGGATCAAGCACAACCTCTCAATAC
*
16003086 AATGCCTTTTATGGATCAAG
1 AATGCCTTTTAAGGATCAAG
16003106 TATAACCCTC
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
32 21 0.28
33 2 0.03
34 1 0.01
36 49 0.66
37 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.30
Consensus pattern (36 bp):
AATGCCTTTTAAGGATCAAGCACAACCTCTCAATAC
Found at i:16003966 original size:21 final size:21
Alignment explanation
Indices: 16003868--16003968 Score: 89
Period size: 21 Copynumber: 4.8 Consensus size: 21
16003858 ACTTAAGATC
* * *
16003868 TTCAAAACTTATTTAAACAAG
1 TTCAAAAATCATTCAAACAAG
* *
16003889 TT-TAAAATCTATTCAAATAAG
1 TTCAAAAATC-ATTCAAACAAG
*
16003910 TTCAAAAACTCATTCAAACAAC
1 TTCAAAAA-TCATTCAAACAAG
*
16003932 TTCAAAAATAATTCAAACAAG
1 TTCAAAAATCATTCAAACAAG
*
16003953 ATT-AAAGATCATTCAA
1 -TTCAAAAATCATTCAA
16003969 GCAATCTTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
20 4 0.06
21 35 0.55
22 23 0.36
23 2 0.03
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (21 bp):
TTCAAAAATCATTCAAACAAG
Found at i:16010512 original size:50 final size:50
Alignment explanation
Indices: 16010428--16010554 Score: 143
Period size: 50 Copynumber: 2.6 Consensus size: 50
16010418 GCTTTTTATC
* * * *
16010428 AAAAAGAAAGAATC-CTTTGTGGATTGTGTAGGTTATTGCTTGGTC-CAAT
1 AAAAAGAAAGAATCTCTTTGTGGATTGTATAGGTTATCGCTAGATCTC-AT
*
16010477 AAAAAGAAAGAATCTCTTTGTGGATTGTCAT-GGTTATCGCTAGATCTCGT
1 AAAAAGAAAGAATCTCTTTGTGGATTGT-ATAGGTTATCGCTAGATCTCAT
* * *
16010527 GAAAAGCAAGAATCTCGTTGTGGATTGT
1 AAAAAGAAAGAATCTCTTTGTGGATTGT
16010555 GTAAGGGTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 14 0.21
50 51 0.76
51 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (50 bp):
AAAAAGAAAGAATCTCTTTGTGGATTGTATAGGTTATCGCTAGATCTCAT
Found at i:16014794 original size:358 final size:358
Alignment explanation
Indices: 16014339--16015056 Score: 1373
Period size: 358 Copynumber: 2.0 Consensus size: 358
16014329 AGTCATCGAT
16014339 AATTTCCATCGGTAAAGTCATCAATCGAAAGTTTCGCTATCGGTAAATTCGTTGGTAATATACAG
1 AATTTCCATCGGTAAAGTCATCAATCGAAAGTTTCGCTATCGGTAAATTCGTTGGTAATATACAG
* *
16014404 ACGGATCTCATGGTTGGCAAAGTCGTCGATAATTTACTTATGGAATTCCCGACAGAATTAGCAAC
66 ACGAATCTCATGGTTGGCAAAGTCGTCGATAATTTACCTATGGAATTCCCGACAGAATTAGCAAC
* * *
16014469 TAAAATTTTTTACTTGTTTTTTCAGTAATGTGTATTATTCAATCAGTAATGAAGCAAATTTTGTC
131 TAAAATTTTTTACTTGTTTCTTCAGTAATGTGTATTATTCAATCAATAATGAAGCAAATTTTATC
16014534 AATAAAAAACAATACATCAGTATTAAAAGAATTTCGTTAGTAATAATTAACTTTCTACAATTTTT
196 AATAAAAAACAATACATCAGTATTAAAAGAATTTCGTTAGTAATAATTAACTTTCTACAATTTTT
16014599 TTATATTTTGTGTTTCTTGCATTGAATAATAATATTAATATATTAAAAGTAATAATTTTGTTTGA
261 TTATATTTTGTGTTTCTTGCATTGAATAATAATATTAATATATTAAAAGTAATAATTTTGTTTGA
16014664 AAAATTACTTCAAATGTATTATATAATGGAAAA
326 AAAATTACTTCAAATGTATTATATAATGGAAAA
16014697 AATTTCCATCGGTAAAGTCATCAATCGAAAGTTTCGCTATCGGTAAATTCGTTGGTAATATACAG
1 AATTTCCATCGGTAAAGTCATCAATCGAAAGTTTCGCTATCGGTAAATTCGTTGGTAATATACAG
* *
16014762 ACGAATCTCATGGTTGGCAAAGTCGTCGATAATTTACCTATGGAATTCCTGACAGAATTAGTAAC
66 ACGAATCTCATGGTTGGCAAAGTCGTCGATAATTTACCTATGGAATTCCCGACAGAATTAGCAAC
16014827 TAAAATTTTTTACTTGTTTCTTCAGTAATGTGTATTATTCAATCAATAATGAAGCAAATTTTATC
131 TAAAATTTTTTACTTGTTTCTTCAGTAATGTGTATTATTCAATCAATAATGAAGCAAATTTTATC
16014892 AATAAAAAACAATACATCAGTATTAAAAGAATTTCGTTAGTAATAATTAACTTTCTACAATTTTT
196 AATAAAAAACAATACATCAGTATTAAAAGAATTTCGTTAGTAATAATTAACTTTCTACAATTTTT
16014957 TTATATTTTGTGTTTCTTGCATTGAATAATAATATTAATATATTAAAAGTAATAATTTTGTTTGA
261 TTATATTTTGTGTTTCTTGCATTGAATAATAATATTAATATATTAAAAGTAATAATTTTGTTTGA
16015022 AAAATTACTTCAAATGTATTATATAATGGAAAA
326 AAAATTACTTCAAATGTATTATATAATGGAAAA
16015055 AA
1 AA
16015057 ATACCACATA
Statistics
Matches: 353, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
358 353 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (358 bp):
AATTTCCATCGGTAAAGTCATCAATCGAAAGTTTCGCTATCGGTAAATTCGTTGGTAATATACAG
ACGAATCTCATGGTTGGCAAAGTCGTCGATAATTTACCTATGGAATTCCCGACAGAATTAGCAAC
TAAAATTTTTTACTTGTTTCTTCAGTAATGTGTATTATTCAATCAATAATGAAGCAAATTTTATC
AATAAAAAACAATACATCAGTATTAAAAGAATTTCGTTAGTAATAATTAACTTTCTACAATTTTT
TTATATTTTGTGTTTCTTGCATTGAATAATAATATTAATATATTAAAAGTAATAATTTTGTTTGA
AAAATTACTTCAAATGTATTATATAATGGAAAA
Found at i:16022187 original size:23 final size:23
Alignment explanation
Indices: 16022159--16022261 Score: 125
Period size: 23 Copynumber: 4.5 Consensus size: 23
16022149 AGTGATTGGA
* *
16022159 GTGTCACGAGAGTGATGCATGGT
1 GTGTCACGACAGTGATGCATGGC
* *
16022182 GTGTCACAACAATGATGCATGGC
1 GTGTCACGACAGTGATGCATGGC
*
16022205 GTGACACGACAGTGATGCATGGC
1 GTGTCACGACAGTGATGCATGGC
* *
16022228 GTGTCACGATACTGATGCATGGC
1 GTGTCACGACAGTGATGCATGGC
* *
16022251 ATGTCAAGACA
1 GTGTCACGACA
16022262 TTTGACTTGA
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.22
Consensus pattern (23 bp):
GTGTCACGACAGTGATGCATGGC
Found at i:16022294 original size:31 final size:31
Alignment explanation
Indices: 16022242--16022323 Score: 78
Period size: 31 Copynumber: 2.6 Consensus size: 31
16022232 CACGATACTG
* *
16022242 ATGCATGGCATGTCAA-GACATTTGACT-TGAT
1 ATGCATGGCGTGT-AACAACATTTGA-TGTGAT
* * * *
16022273 ATGCATGGTGTGTTACAACATTTTATGTTAT
1 ATGCATGGCGTGTAACAACATTTGATGTGAT
16022304 ATGCATGGCGTGTAACAACA
1 ATGCATGGCGTGTAACAACA
16022324 CAACTGACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (31 bp):
ATGCATGGCGTGTAACAACATTTGATGTGAT
Found at i:16032093 original size:31 final size:31
Alignment explanation
Indices: 16031895--16032096 Score: 201
Period size: 31 Copynumber: 6.5 Consensus size: 31
16031885 AAATAAGGAA
* * *
16031895 TAAATG-TGAGACACACCATGCAAAACAAGT
1 TAAATGTTGTGACACGCCATGCATAACAAGT
* * *
16031925 TAAATGTTGTGACATGCCGTGCATATCAAGT
1 TAAATGTTGTGACACGCCATGCATAACAAGT
* * * *
16031956 AAAATATTGTGACACGGCATGCATAACAAGC
1 TAAATGTTGTGACACGCCATGCATAACAAGT
* * * * *
16031987 AAAATATTATGGCACGCCATGCATAAGAAGT
1 TAAATGTTGTGACACGCCATGCATAACAAGT
*
16032018 TAAATGTTATGACACGCCATGCATAACAAG-
1 TAAATGTTGTGACACGCCATGCATAACAAGT
* * *
16032048 TATATTGTTCTGACACGCCATGCATAAGAAGT
1 TA-AATGTTGTGACACGCCATGCATAACAAGT
*
16032080 TAAACGTTGTGACACGC
1 TAAATGTTGTGACACGC
16032097 AACGGTTACC
Statistics
Matches: 141, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
30 8 0.06
31 131 0.93
32 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (31 bp):
TAAATGTTGTGACACGCCATGCATAACAAGT
Found at i:16032343 original size:31 final size:31
Alignment explanation
Indices: 16032288--16032430 Score: 94
Period size: 31 Copynumber: 4.6 Consensus size: 31
16032278 GACTGGAACC
* * * *
16032288 AGATTAATGGCGTCACATGCTGAGTATCTAG
1 AGATTTATGGCGTGACACGTTGAGTATCTAG
* **** *
16032319 AGATTTATGGTGTGACACGTTGAGTGGAAAC
1 AGATTTATGGCGTGACACGTTGAGTATCTAG
*
16032350 AGATTTATTGAC-TGACACGTTGAG--TCTGAG
1 AGATTTA-TGGCGTGACACGTTGAGTATCT-AG
* * * *
16032380 TGGATTTTTGGCGTCACACGCTGAGTATCTAG
1 -AGATTTATGGCGTGACACGTTGAGTATCTAG
*
16032412 AGATTAATGGCGTGACACG
1 AGATTTATGGCGTGACACG
16032431 GCACTGCCCA
Statistics
Matches: 81, Mismatches: 25, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
30 4 0.05
31 70 0.86
32 4 0.05
33 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (31 bp):
AGATTTATGGCGTGACACGTTGAGTATCTAG
Found at i:16032486 original size:31 final size:31
Alignment explanation
Indices: 16032447--16032523 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
16032437 CCCAATTGTT
**
16032447 CTGACACGCTGAGTGGAAGCAGATTTATGGG
1 CTGACACGCTGAGTGGAAGCAGATTTATCAG
*
16032478 TTGACACGCTGAGTGGAAGCAGATTTATCAG
1 CTGACACGCTGAGTGGAAGCAGATTTATCAG
*
16032509 CTGACACACTGAGTG
1 CTGACACGCTGAGTG
16032524 TTAGTGGATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (31 bp):
CTGACACGCTGAGTGGAAGCAGATTTATCAG
Found at i:16032593 original size:31 final size:31
Alignment explanation
Indices: 16032558--16032616 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
16032548 TCGACTTCTT
* *
16032558 GCAGATTTATG-GGGTGACATGCTGAGTGCAA
1 GCAGATGTATGTGGG-GACACGCTGAGTGCAA
*
16032589 GCAGATGTATGTGGGGATACGCTGAGTG
1 GCAGATGTATGTGGGGACACGCTGAGTG
16032617 GTAGTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.25
Consensus pattern (31 bp):
GCAGATGTATGTGGGGACACGCTGAGTGCAA
Found at i:16032614 original size:93 final size:93
Alignment explanation
Indices: 16032465--16032652 Score: 225
Period size: 93 Copynumber: 2.0 Consensus size: 93
16032455 CTGAGTGGAA
* * * * * *
16032465 GCAGATTTATGGGTTGACACGCTGAGTGGAAGCAGATTTATCAGCTGACACACTGAGTGTTAGTG
1 GCAGATTTATGGGGTGACACGCTGAGTGCAAGCAGATGTATCAGCGGACACACTGAGTGGTAGTA
16032530 GATTTACGGCATCACACG-TCGACTTCTT
66 GATTTACGGCATCACACGCT-GACTTCTT
* ** * * *
16032558 GCAGATTTATGGGGTGACATGCTGAGTGCAAGCAGATGTATGTGGGGATACGCTGAGTGGTAGTA
1 GCAGATTTATGGGGTGACACGCTGAGTGCAAGCAGATGTATCAGCGGACACACTGAGTGGTAGTA
* * *
16032623 TATTTATGGCGTCACACGCTGACTTCTT
66 GATTTACGGCATCACACGCTGACTTCTT
16032651 GC
1 GC
16032653 GACTGTGTAT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
93 78 0.99
94 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (93 bp):
GCAGATTTATGGGGTGACACGCTGAGTGCAAGCAGATGTATCAGCGGACACACTGAGTGGTAGTA
GATTTACGGCATCACACGCTGACTTCTT
Found at i:16032828 original size:16 final size:16
Alignment explanation
Indices: 16032809--16032885 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
16032799 TACAATGAAT
*
16032809 TGTATAAAATAAATTA
1 TGTATAAAAAAAATTA
* *
16032825 TGTATACAAAAAA-TG
1 TGTATAAAAAAAATTA
**
16032840 TGTATAAAATTAA-T-
1 TGTATAAAAAAAATTA
16032854 TGTATAAAAAAAATTA
1 TGTATAAAAAAAATTA
16032870 TGTATACAAAAAAATT
1 TGTATA-AAAAAAATT
16032886 GTGCAGACAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
14 11 0.22
15 13 0.26
16 17 0.34
17 9 0.18
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (16 bp):
TGTATAAAAAAAATTA
Found at i:16032866 original size:29 final size:31
Alignment explanation
Indices: 16032809--16032885 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
16032799 TACAATGAAT
*
16032809 TGTATAAAATAAATTATGTATACAAAAAATG
1 TGTATAAAATAAATTATGTATAAAAAAAATG
* *
16032840 TGTATAAAATTAA-T-TGTATAAAAAAAATTA
1 TGTATAAAATAAATTATGTATAAAAAAAA-TG
*
16032870 TGTATACAAAAAAATT
1 TGTATA-AAATAAATT
16032886 GTGCAGACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 12 0.32
30 8 0.21
31 17 0.45
32 1 0.03
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.34
Consensus pattern (31 bp):
TGTATAAAATAAATTATGTATAAAAAAAATG
Found at i:16032868 original size:18 final size:17
Alignment explanation
Indices: 16032854--16032885 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16032844 TAAAATTAAT
16032854 TGTATA-AAAAAAATTA
1 TGTATACAAAAAAATTA
16032870 TGTATACAAAAAAATT
1 TGTATACAAAAAAATT
16032886 GTGCAGACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TGTATACAAAAAAATTA
Found at i:16034468 original size:31 final size:31
Alignment explanation
Indices: 16034430--16034790 Score: 317
Period size: 31 Copynumber: 11.6 Consensus size: 31
16034420 AACCATAAAC
* ***
16034430 AGTAAAATGTTATGACACGCCGCACATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
*
16034461 AGTAAAATGTTATGACACGCCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * *
16034492 AGTAAAATTTTGTGACACGTCATGCATATGA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * *
16034523 AGTAAAATGCTGTCACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * * *
16034554 AGCAAAATGATGTGACACGCCATCCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* *
16034585 AGTAAATTGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* ** * * * *
16034616 AGTTAACGGTTCTGACACGTCATCCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * * * * *
16034647 AGCAAATTGTTGTGACACACCAAGGATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
** * * *
16034678 ACCAAAATGTTCTGACATGCCAGGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * * * *
16034709 AATCAAATGTTCTGACACGCCATGAATAACA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* * *
16034740 AGTTAAATGTTCTGACATGCCATGCATATCA
1 AGTAAAATGTTGTGACACGCCATGCATATCA
* *
16034771 AGTCAAATGTTGTCACACGC
1 AGTAAAATGTTGTGACACGC
16034791 TAAGGCTGAC
Statistics
Matches: 269, Mismatches: 61, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 269 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (31 bp):
AGTAAAATGTTGTGACACGCCATGCATATCA
Found at i:16034527 original size:62 final size:62
Alignment explanation
Indices: 16034430--16034790 Score: 353
Period size: 62 Copynumber: 5.8 Consensus size: 62
16034420 AACCATAAAC
* *** * *
16034430 AGTAAAATGTTATGACACGCCGCACATATCAAGTAAAATGTTATGACACGCCATGCATATCA
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
* * * * * *
16034492 AGTAAAATTTTGTGACACGTCATGCATATGAAGTAAAATGCTGTCACACGCCATGCATAACA
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
* * * * * *
16034554 AGCAAAATGATGTGACACGCCATCCATAACAAGTAAATTGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
* ** * * * * * * * *
16034616 AGTTAACGGTTCTGACACGTCATCCATAACAAGCAAATTGTTGTGACACACCAAGGATAACA
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
** * * * * * *
16034678 ACCAAAATGTTCTGACATGCCAGGCATATCAAATCAAATGTTCTGACACGCCATGAATAACA
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
* * * *
16034740 AGTTAAATGTTCTGACATGCCATGCATATCAAGTCAAATGTTGTCACACGC
1 AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGC
16034791 TAAGGCTGAC
Statistics
Matches: 242, Mismatches: 57, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
62 242 1.00
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (62 bp):
AGTAAAATGTTCTGACACGCCATGCATATCAAGTAAAATGTTGTGACACGCCATGCATAACA
Found at i:16035447 original size:156 final size:156
Alignment explanation
Indices: 16035145--16035440 Score: 389
Period size: 156 Copynumber: 1.9 Consensus size: 156
16035135 CGACTGGGTC
16035145 AACTGCAATAAAATATACAACTATGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCG
1 AACTGCAATAAAATATACAACTATGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCG
** * *
16035210 TTACAACTTTAATATCCTAACCGGTGGCTCGTTAGCAGTCTACGGTGGAGCTGGACCGCTCAGTG
66 TTACAACTTTAATATCCTAACCGCCGGCTCGTTAGCAGTCTACGGTGAAGCTGGACCGATCAGTG
* *
16035275 CTTGAGGACCAGTCGTCACTTTCGCA
131 CTTCAGAACCAGTCGTCACTTTCGCA
* * * * * *
16035301 AACTGCAATTACATATATAACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCG
1 AACTGCAATAAAATATACAACTATGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCG
* * * * * * *
16035366 TTATAACTTTAATATCCTTACCGCCGGCTCGTTAG-ATGTTTGCAGTTGAATC-GGACCGATCGG
66 TTACAACTTTAATATCCTAACCGCCGGCTCGTTAGCA-GTCTAC-GGTGAAGCTGGACCGATCAG
16035429 TGCTTCAGAACC
129 TGCTTCAGAACC
16035441 TATCGTCCCT
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
155 1 0.01
156 113 0.95
157 5 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (156 bp):
AACTGCAATAAAATATACAACTATGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCG
TTACAACTTTAATATCCTAACCGCCGGCTCGTTAGCAGTCTACGGTGAAGCTGGACCGATCAGTG
CTTCAGAACCAGTCGTCACTTTCGCA
Found at i:16035484 original size:156 final size:156
Alignment explanation
Indices: 16035163--16035502 Score: 355
Period size: 156 Copynumber: 2.2 Consensus size: 156
16035153 TAAAATATAC
* *
16035163 AACTATGTTATTCAATAATCATATATGAAATTGTTGAACATTAACCGTTACAACTTTAATATCCT
1 AACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAATATCCT
** * * * *
16035228 AACCGGTGGCTCGTTAGCAGTCTACGGTGGAGCTGGACCGCTCAGTGCTTGAGGACCAGTCGTCA
66 AACCGCCGGCTCGTTAGCAGTCTACGGTGAAGCTGGACCGATCAGTGCTTCAGAACCAGTCGTCA
** * * * *
16035293 CTTTCGCAAACTGCAATTACATATAT
131 CTCCCACAAACTACAATTACAAAAAT
* *
16035319 AACTGTGTTATTCAATAATCATGTATGGAATTGTTGAACATTAACCGTTATAACTTTAATATCCT
1 AACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAATATCCT
* * * * * *
16035384 TACCGCCGGCTCGTTAG-ATGTTTGCAGTTGAATC-GGACCGATCGGTGCTTCAGAACCTA-TCG
66 AACCGCCGGCTCGTTAGCA-GTCTAC-GGTGAAGCTGGACCGATCAGTGCTTCAGAACC-AGTCG
* * *
16035446 TCCCTCCCATAAACTATAATTACAAAAA-
128 TCACTCCCACAAACTACAATTACAAAAAT
* * * *
16035474 ATACTTTGTTACTCGATAAACATATATGG
1 A-ACTGTGTTATTCAATAATCATATATGG
16035503 GAATGTAGAA
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
155 2 0.01
156 142 0.95
157 6 0.04
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (156 bp):
AACTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAATATCCT
AACCGCCGGCTCGTTAGCAGTCTACGGTGAAGCTGGACCGATCAGTGCTTCAGAACCAGTCGTCA
CTCCCACAAACTACAATTACAAAAAT
Found at i:16037168 original size:31 final size:31
Alignment explanation
Indices: 16037130--16037197 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
16037120 AATAAGGAAT
*
16037130 AAATGTTGTGACACGCCATGCATAGCAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
* *
16037161 AAATGTTGTGACATGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGCA
16037192 AAATGT
1 AAATGT
16037198 AAGTTAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.24
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGCA
Found at i:16037236 original size:31 final size:31
Alignment explanation
Indices: 16037198--16037410 Score: 214
Period size: 31 Copynumber: 6.9 Consensus size: 31
16037188 AGTAAAATGT
* * *
16037198 AAGTTAAACGTTGTGACACGTCATGCATAAC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
* * * *
16037229 AAGTTAAACGTTTTGACATGCCATGCATAAC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
* ** *
16037260 AAGTTAAACATTGGGACACGCCATGCATAAC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
*
16037291 AAGTAAAATGTTGTG--ACGCCATGCATATC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
* * * *
16037320 AAGTAAAATGCTATCACACGCCATGCATATC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
* * * *
16037351 AAGTAAAATGTTCTCACATGCCATGCATATC
1 AAGTAAAATGTTGTGACACGCCATGCATAAC
* *
16037382 AAGTAAAATGTTCTCACACGCCATGCATA
1 AAGTAAAATGTTGTGACACGCCATGCATA
16037411 TCAAATCAAA
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
29 25 0.16
31 136 0.84
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
AAGTAAAATGTTGTGACACGCCATGCATAAC
Found at i:16037414 original size:62 final size:62
Alignment explanation
Indices: 16037213--16037410 Score: 238
Period size: 62 Copynumber: 3.2 Consensus size: 62
16037203 AAACGTTGTG
* * * * * * ** ***
16037213 ACACGTCATGCATAACAAGTTAAACGTTTTGACATGCCATGCATAACAAGTTAAACATTGGG
1 ACACGCCATGCATAACAAGTAAAATGTTCTGACATGCCATGCATATCAAGTAAAATGTTATC
* *
16037275 ACACGCCATGCATAACAAGTAAAATGTTGTGAC--GCCATGCATATCAAGTAAAATGCTATC
1 ACACGCCATGCATAACAAGTAAAATGTTCTGACATGCCATGCATATCAAGTAAAATGTTATC
* * *
16037335 ACACGCCATGCATATCAAGTAAAATGTTCTCACATGCCATGCATATCAAGTAAAATGTTCTC
1 ACACGCCATGCATAACAAGTAAAATGTTCTGACATGCCATGCATATCAAGTAAAATGTTATC
16037397 ACACGCCATGCATA
1 ACACGCCATGCATA
16037411 TCAAATCAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
60 49 0.42
62 68 0.58
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.25
Consensus pattern (62 bp):
ACACGCCATGCATAACAAGTAAAATGTTCTGACATGCCATGCATATCAAGTAAAATGTTATC
Found at i:16038040 original size:47 final size:47
Alignment explanation
Indices: 16037971--16038227 Score: 304
Period size: 47 Copynumber: 5.5 Consensus size: 47
16037961 TAAACCATGA
* *
16037971 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGCTTCTCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * *
16038018 CCATGGCATGTCACCAAGTCTGAACTCTTGCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* *
16038065 CCATGGCGTCTCACCAACTCTGAACGT-T-GTTGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAAC-TCTAG-CGTGTCACAGATTCCCT
* * * * * * * *
16038112 CAATGCCATGTCACTAACTCTTAACTCTATCATGTCACAGATTCCTT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * *
16038159 CCATGGCGTGTCGCCAACTCTTAACTC-AGCGTCTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
*
16038205 CCATGGCGTCTCACCAACTCTGA
1 CCATGGCGTGTCACCAACTCTGA
16038228 GCGGTGCCGT
Statistics
Matches: 175, Mismatches: 31, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
46 37 0.21
47 137 0.78
48 1 0.01
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.28
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
Found at i:16038240 original size:140 final size:141
Alignment explanation
Indices: 16037979--16038250 Score: 377
Period size: 140 Copynumber: 1.9 Consensus size: 141
16037969 GACCATGGCG
* * *
16037979 TGTCACCAACTCTGAACTCTAGCGTGTCACAGCTTCTCTCCATGGCATGTCACCAAGTCTGAACT
1 TGTCACCAACTCTGAACTCTAGCATGTCACAGATTCTCTCCATGGCATGTCACCAACTCTGAACT
* * * ** *
16038044 CTTGCGTGTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGTTGTTGTGTCACAGATTC
66 CTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGGTGCCGTGTCACACATTC
16038109 CCTCAATGCCA
131 CCTCAATGCCA
* * * * * *
16038120 TGTCACTAACTCTTAACTCTATCATGTCACAGATTC-CTTCCATGGCGTGTCGCCAACTCTTAAC
1 TGTCACCAACTCTGAACTCTAGCATGTCACAGATTCTC-TCCATGGCATGTCACCAACTCTGAAC
*
16038184 TC-AGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAGCGGTGCCGTGTCACACATT
65 TCTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGGTGCCGTGTCACACATT
16038248 CCC
130 CCC
16038251 AACATGACGT
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
140 59 0.52
141 55 0.48
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.28
Consensus pattern (141 bp):
TGTCACCAACTCTGAACTCTAGCATGTCACAGATTCTCTCCATGGCATGTCACCAACTCTGAACT
CTAGCGTCTCACAGATTCCCTCCATGGCGTCTCACCAACTCTGAACGGTGCCGTGTCACACATTC
CCTCAATGCCA
Found at i:16043824 original size:71 final size:71
Alignment explanation
Indices: 16043708--16043873 Score: 210
Period size: 71 Copynumber: 2.3 Consensus size: 71
16043698 TTAGTCAACA
* * *
16043708 ACAAAAGAAGCATAGTCCACCCTATTCCAAAAAGATCAAGAAAATCAAGTTCAA-AATAGCTAAA
1 ACAAAAGAAGTATAGTCCACCCTATTCCAAAAAGATCAAGAAAATCAAGTTAAAGAACAGC-AAA
16043772 GTCGACT
65 GTCGACT
* * *
16043779 ACAAAAGAAGTATAGTCGACCTTATTCCAAAAAGA-CTAAGAAAATCAAGTTAAAGAACAGCCAA
1 ACAAAAGAAGTATAGTCCACCCTATTCCAAAAAGATC-AAGAAAATCAAGTTAAAGAACAGCAAA
16043843 GTCGACT
65 GTCGACT
* * * *
16043850 ATAGAAGAGGTATAGTCAACCCTA
1 ACAAAAGAAGTATAGTCCACCCTA
16043874 ACAAGTCAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
70 1 0.01
71 76 0.93
72 5 0.06
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (71 bp):
ACAAAAGAAGTATAGTCCACCCTATTCCAAAAAGATCAAGAAAATCAAGTTAAAGAACAGCAAAG
TCGACT
Found at i:16044535 original size:50 final size:49
Alignment explanation
Indices: 16044452--16044579 Score: 130
Period size: 50 Copynumber: 2.6 Consensus size: 49
16044442 GTTTCATATC
* **
16044452 AAAAAGCAAGAATCCTTTGTGGATTGTGTGGGTTACCACTTGATCCCAT
1 AAAAAGCAAGAATCCTTTGTGGATTATAAGGGTTACCACTTGATCCCAT
* * * ***
16044501 AAAAGGCAAGAATTCCTTTGTGGATTATAAGGGTTATCGCTTGATCTTGT
1 AAAAAGCAAGAA-TCCTTTGTGGATTATAAGGGTTACCACTTGATCCCAT
* *
16044551 GAAAAAGCAAAAATCTCATTGTGGATTAT
1 -AAAAAGCAAGAATC-CTTTGTGGATTAT
16044580 GTAAAGGTTA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
49 11 0.17
50 31 0.48
51 22 0.34
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (49 bp):
AAAAAGCAAGAATCCTTTGTGGATTATAAGGGTTACCACTTGATCCCAT
Found at i:16047441 original size:19 final size:20
Alignment explanation
Indices: 16047414--16047459 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
16047404 AGGAAACAAG
*
16047414 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
16047433 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
16047452 ATAATATT
1 ATAATATT
16047460 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:16047863 original size:20 final size:20
Alignment explanation
Indices: 16047838--16047883 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
16047828 TTTTGGTCCC
16047838 ATTTGACTCATTGGAGTATA
1 ATTTGACTCATTGGAGTATA
* *
16047858 ATTTGACTTATTGGAGTATG
1 ATTTGACTCATTGGAGTATA
16047878 ATTTGA
1 ATTTGA
16047884 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (20 bp):
ATTTGACTCATTGGAGTATA
Found at i:16059092 original size:29 final size:28
Alignment explanation
Indices: 16058983--16059147 Score: 231
Period size: 28 Copynumber: 5.8 Consensus size: 28
16058973 TTAAGATAAC
* * *
16058983 TCTTATCTAAATTGAGACAAATATATTT
1 TCTTGTCTAAATTAAGACAAACATATTT
*
16059011 TCTTGTCTATATTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGAC-AAACATA-TTT
16059041 TCTTGTCTTAAATTAAGACAAACATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
16059070 TCTTATCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGAC-AAACATATTT
*
16059099 TCTTGTCTAAATTAAGACAAACATGTTT
1 TCTTGTCTAAATTAAGACAAACATATTT
16059127 TCTTGTCTAAATTAAGACAAA
1 TCTTGTCTAAATTAAGACAAA
16059148 ACATGTTAAA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
28 57 0.46
29 41 0.33
30 17 0.14
31 10 0.08
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:16059136 original size:57 final size:57
Alignment explanation
Indices: 16058983--16059154 Score: 263
Period size: 57 Copynumber: 3.0 Consensus size: 57
16058973 TTAAGATAAC
* * * * *
16058983 TCTTATCTAAATTGAGACAAATATATTTTCTTGTCTATATTAAGACAAAACATATTTT
1 TCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAAACAT-GTTT
*
16059041 TCTTGTCTTAAATTAAGACAAACATATTTTCTTATCTAAATTAAGACAAAACATGTTT
1 TCTTGTC-TAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAAACATGTTT
*
16059099 TCTTGTCTAAATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTT
1 TCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAAACATGTT
16059155 AAAACTTTCA
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
57 47 0.45
58 16 0.15
59 42 0.40
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (57 bp):
TCTTGTCTAAATTAAGACAAACATATTTTCTTGTCTAAATTAAGACAAAACATGTTT
Found at i:16064141 original size:43 final size:43
Alignment explanation
Indices: 16064093--16064187 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
16064083 TGTTGTGTGA
*
16064093 CGATGATGACCTGGCTATGTGCGAGTAGGGAGTACGCATAAGC
1 CGATGATGACCTGGCTATGTGCGAGTACGGAGTACGCATAAGC
* * * *
16064136 CGATGATGACCTGGCTATGTGTGAGTTCGGAGTGCGCATAAGT
1 CGATGATGACCTGGCTATGTGCGAGTACGGAGTACGCATAAGC
16064179 CGATGATGA
1 CGATGATGA
16064188 TGACTCGGCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (43 bp):
CGATGATGACCTGGCTATGTGCGAGTACGGAGTACGCATAAGC
Found at i:16067666 original size:11 final size:11
Alignment explanation
Indices: 16067650--16067674 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16067640 CGCAACAAGA
16067650 TATTATTATTT
1 TATTATTATTT
16067661 TATTATTATTT
1 TATTATTATTT
16067672 TAT
1 TAT
16067675 CTCATCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTATTATTT
Found at i:16070128 original size:28 final size:29
Alignment explanation
Indices: 16070086--16070151 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
16070076 TGCATTTTGG
* *
16070086 TAATTTTTCAATTTT-TGGGGTAAAAATA
1 TAATTTTTCAATTTTAGGGGGCAAAAATA
* *
16070114 TAATTTTTCACTTTTACGGGGGCAAAAGTA
1 TAATTTTTCAATTTTA-GGGGGCAAAAATA
16070144 TAATTTTT
1 TAATTTTT
16070152 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 14 0.44
30 18 0.56
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (29 bp):
TAATTTTTCAATTTTAGGGGGCAAAAATA
Found at i:16071323 original size:13 final size:13
Alignment explanation
Indices: 16071305--16071329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16071295 GGAAAATGAG
16071305 ATTTTATAAAATA
1 ATTTTATAAAATA
16071318 ATTTTATAAAAT
1 ATTTTATAAAAT
16071330 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:16072259 original size:20 final size:19
Alignment explanation
Indices: 16072234--16072284 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
16072224 AAAAATATAT
*
16072234 ATATATTGTTTTACATTAAA
1 ATATATTATTTTA-ATTAAA
*
16072254 ATATATTATTTTAATTAAT
1 ATATATTATTTTAATTAAA
*
16072273 AT-TTTTATTTTA
1 ATATATTATTTTA
16072285 TTTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 9 0.32
19 7 0.25
20 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (19 bp):
ATATATTATTTTAATTAAA
Found at i:16080030 original size:8 final size:8
Alignment explanation
Indices: 16080019--16080046 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
16080009 GATCAAGGTA
16080019 AAAGTGCC
1 AAAGTGCC
16080027 AAAGTGCC
1 AAAGTGCC
16080035 AAAGTGCC
1 AAAGTGCC
16080043 AAAG
1 AAAG
16080047 CTCAACCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (8 bp):
AAAGTGCC
Found at i:16089605 original size:35 final size:35
Alignment explanation
Indices: 16089563--16089662 Score: 125
Period size: 32 Copynumber: 2.9 Consensus size: 35
16089553 ACCATAATGT
* *
16089563 AGAATGATTAACTATATTCCTAGTAGGTTTTATGA
1 AGAATGATTAATTATATTACTAGTAGGTTTTATGA
* * * *
16089598 AGGATGATT--TTATATTACTAATAAG-TTTATGT
1 AGAATGATTAATTATATTACTAGTAGGTTTTATGA
16089630 AGAATGATTAATTATATTACTAGTAGGTTTTAT
1 AGAATGATTAATTATATTACTAGTAGGTTTTAT
16089663 TATTTTGGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
32 14 0.26
33 12 0.23
34 14 0.26
35 13 0.25
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (35 bp):
AGAATGATTAATTATATTACTAGTAGGTTTTATGA
Found at i:16089821 original size:25 final size:23
Alignment explanation
Indices: 16089779--16089826 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
16089769 ATGTAGAATG
*
16089779 TTTTTATTATGCAAGATTATTAA
1 TTTTGATTATGCAAGATTATTAA
*
16089802 TTTTGATTGATGCATAGATTTTTAA
1 TTTTGATT-ATGCA-AGATTATTAA
16089827 GTATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (23 bp):
TTTTGATTATGCAAGATTATTAA
Found at i:16090037 original size:32 final size:33
Alignment explanation
Indices: 16089969--16090041 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
16089959 GTGATGGAGA
*
16089969 AAAATATTTTTCAAAAGATGATCCAAACAACGG
1 AAAATATTTTTCAAAAGATGATCCAAACAACAG
* * * * *
16090002 AAAATGTTTTT-AACAGATTATCCAAATAATAG
1 AAAATATTTTTCAAAAGATGATCCAAACAACAG
16090034 AAAATATT
1 AAAATATT
16090042 AAATTTTCTT
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
32 23 0.70
33 10 0.30
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (33 bp):
AAAATATTTTTCAAAAGATGATCCAAACAACAG
Found at i:16091485 original size:24 final size:25
Alignment explanation
Indices: 16091455--16091504 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
16091445 AATATTTTAA
*
16091455 AATATTAATGAT-TATATTAT-AATT
1 AATATTAAT-ATATAAATTATCAATT
16091479 AATATTAATATATAAATTATCAATT
1 AATATTAATATATAAATTATCAATT
16091504 A
1 A
16091505 TTAATATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 2 0.09
24 16 0.70
25 5 0.22
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
AATATTAATATATAAATTATCAATT
Found at i:16091770 original size:190 final size:188
Alignment explanation
Indices: 16091348--16091882 Score: 486
Period size: 190 Copynumber: 2.9 Consensus size: 188
16091338 TCTCTAATTT
* * * * * *
16091348 TTAATTGTATATTGT-AAAAATGATATTTTAATGTTAAAAAATAATTAAAATTATTAATATTTAA
1 TTAATTATATATTATAAAAAATAATA-GTTAAT-TTAAAAATTAACTAAAATTATTAATATTTAA
* * * *
16091412 TTATAACATCATTTAAATTATAAATATAATATTAATATTTTAAAATATTAATGATTATATTATAA
64 TCATAACAACATTTAAATTATAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTATAA
* *
16091477 TTAATATTAATATATAAATTATCAATTATTAATATTTAAAAAATAAAATAAAATCAAATA
129 TGAATATTAATATATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAATCAAATA
*
16091537 TTAATTATATATTATAAAAAATAATAGTTTAAATTTAAAAATTAACTAAAATTATTAATGTTTTA
1 TTAATTATATATTATAAAAAATAATAG-TT-AATTTAAAAATTAACTAAAATTATTAAT-ATTTA
* * * *
16091602 ATCATAATAACATTTAAA-TATAAATAAAATATTAATATTTTAAAATTTTATTTATTAAATTATA
63 ATCATAACAACATTTAAATTATAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTAT-
* * *
16091666 AATGAAGTATTAATATTTTAAGTTAAA-TATAAATTGTTAATATTT-AAAAATAAAATAAAGTTA
127 AATGAA-TATTAATA---T-A--TAAATTATAAATTATTAATATTTAAAAAATAAAATAAAATCA
*
16091729 AATT
185 AATA
* *
16091733 TTAATTATATA-T-T-ACAAA-AAT-G--AAATT----ATT---TAAAATTATTAATATTTTAAT
1 TTAATTATATATTATAAAAAATAATAGTTAATTTAAAAATTAACTAAAATTATTAATA-TTTAAT
* ***
16091784 CATAATAA-ATTTAAATTATAAAT-AAATATTAATACCCT-AAAT-TTAAATGATTAAATTATGA
65 CATAACAACATTTAAATTATAAATAAAATATTAATATTTTAAAATATT-AATGATTAAATTAT-A
* * *
16091845 ATAAATACTAATACT-TAAATTATCAATTATTAATATTT
128 ATGAATATTAATA-TATAAATTATAAATTATTAATATTT
16091883 TAAATTAATT
Statistics
Matches: 295, Mismatches: 35, Indels: 49
0.78 0.09 0.13
Matches are distributed among these distances:
171 4 0.01
172 16 0.05
175 1 0.00
177 9 0.03
178 21 0.07
179 19 0.06
180 34 0.12
183 3 0.01
187 4 0.01
189 13 0.04
190 74 0.25
191 28 0.09
192 11 0.04
193 4 0.01
194 1 0.00
195 2 0.01
196 31 0.11
197 16 0.05
198 4 0.01
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (188 bp):
TTAATTATATATTATAAAAAATAATAGTTAATTTAAAAATTAACTAAAATTATTAATATTTAATC
ATAACAACATTTAAATTATAAATAAAATATTAATATTTTAAAATATTAATGATTAAATTATAATG
AATATTAATATATAAATTATAAATTATTAATATTTAAAAAATAAAATAAAATCAAATA
Found at i:16091923 original size:27 final size:27
Alignment explanation
Indices: 16091869--16091924 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
16091859 TTAAATTATC
* * *
16091869 AATTATTAATATTTTAAATTAATTATA
1 AATTATTAATATTTAAAAATAATAATA
16091896 AATTATTAATATTTAAAAAATAA-AATA
1 AATTATTAATATTT-AAAAATAATAATA
16091923 AA
1 AA
16091925 GTAAAAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (27 bp):
AATTATTAATATTTAAAAATAATAATA
Found at i:16092474 original size:22 final size:21
Alignment explanation
Indices: 16092446--16092486 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16092436 AAAATTCATA
*
16092446 TAAAAATTATTTAAATAAATTC
1 TAAAAATCATTTAAA-AAATTC
16092468 TAAAAATCATTTAAAAAAT
1 TAAAAATCATTTAAAAAAT
16092487 CAATCTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATCATTTAAAAAATTC
Found at i:16092967 original size:15 final size:16
Alignment explanation
Indices: 16092943--16092982 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
16092933 AGAAATTCTT
*
16092943 AAATAAAAAAAATATAA
1 AAATAAAAAATAT-TAA
16092960 AAAT-AAAAATATTAA
1 AAATAAAAAATATTAA
16092975 AAATAAAA
1 AAATAAAA
16092983 TAAGTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 7 0.33
16 10 0.48
17 4 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAAAATATTAA
Found at i:16092969 original size:14 final size:15
Alignment explanation
Indices: 16092950--16092982 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16092940 CTTAAATAAA
16092950 AAAAATA-TAAAAAT
1 AAAAATATTAAAAAT
16092964 AAAAATATTAAAAAT
1 AAAAATATTAAAAAT
16092979 AAAA
1 AAAA
16092983 TAAGTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATATTAAAAAT
Found at i:16092983 original size:14 final size:13
Alignment explanation
Indices: 16092947--16092984 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
16092937 ATTCTTAAAT
16092947 AAAA-AAAATATA
1 AAAATAAAATATA
16092959 AAAATAAAAATATTA
1 AAAAT-AAAATA-TA
16092974 AAAATAAAATA
1 AAAATAAAATA
16092985 AGTAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 4 0.17
14 12 0.52
15 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAATATA
Found at i:16098835 original size:25 final size:25
Alignment explanation
Indices: 16098806--16098854 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
16098796 AACGTAAGCT
16098806 TAGATTAGAGCTTAACTTCCTTTAA
1 TAGATTAGAGCTTAACTTCCTTTAA
*
16098831 TAGATTAGAGCTTCACTTCCTTTA
1 TAGATTAGAGCTTAACTTCCTTTA
16098855 GCTTAACCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (25 bp):
TAGATTAGAGCTTAACTTCCTTTAA
Found at i:16100064 original size:12 final size:12
Alignment explanation
Indices: 16100047--16100071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16100037 CTTTAAAGAA
16100047 AATGATCAAAAT
1 AATGATCAAAAT
16100059 AATGATCAAAAT
1 AATGATCAAAAT
16100071 A
1 A
16100072 GTGTATGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AATGATCAAAAT
Found at i:16102113 original size:73 final size:73
Alignment explanation
Indices: 16101980--16102160 Score: 179
Period size: 73 Copynumber: 2.5 Consensus size: 73
16101970 CAAAGAGCTT
* * * ***
16101980 TTAGTCGACTAACTGCCTTCTTAGTCGATTAAGTTGGTTCTGTCTTTTGGCCTCAGTTTCTGGCA
1 TTAGTCGACTAACTGACTTCTTAGTCGACTAAGTTGGTTATGTCTTGAAGCCTCAGTTTCTGGCA
16102045 AAGAACAC
66 AAGAACAC
* * * *
16102053 TTAGTCGACTAACTTATTTCTTGGTCGACTAAGTTGGTTATGTCTTGAAGTC-CAGATTTCTGGC
1 TTAGTCGACTAACTGACTTCTTAGTCGACTAAGTTGGTTATGTCTTGAAGCCTCAG-TTTCTGGC
* **
16102117 --AGTAGCTTT
65 AAAG-AAC-AC
* *
16102126 TTAGTCAACTAACTCACTTCTTAGTCGACTAAGTT
1 TTAGTCGACTAACTGACTTCTTAGTCGACTAAGTT
16102161 AGTTCTATTT
Statistics
Matches: 88, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
71 2 0.02
72 5 0.06
73 81 0.92
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (73 bp):
TTAGTCGACTAACTGACTTCTTAGTCGACTAAGTTGGTTATGTCTTGAAGCCTCAGTTTCTGGCA
AAGAACAC
Found at i:16103097 original size:12 final size:12
Alignment explanation
Indices: 16103063--16103108 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
16103053 CCTATCTCCT
16103063 CTAATCTTT-CC
1 CTAATCTTTCCC
*
16103074 ATAAT-TTCTCCC
1 CTAATCTT-TCCC
16103086 CTAATCTTTCCC
1 CTAATCTTTCCC
*
16103098 TTAATCTTTCC
1 CTAATCTTTCC
16103109 ATAATTTCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
10 2 0.07
11 5 0.17
12 20 0.69
13 2 0.07
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.46
Consensus pattern (12 bp):
CTAATCTTTCCC
Found at i:16108722 original size:42 final size:42
Alignment explanation
Indices: 16108675--16108758 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
16108665 GTTTTTTTAG
*
16108675 GGTACCTATACCTTGATGGGTCCTTGATACTTTTTCTTTATA
1 GGTACCCATACCTTGATGGGTCCTTGATACTTTTTCTTTATA
16108717 GGTACCCATACCTTGATGGGTCCTTGATACTTTTTCTTTATA
1 GGTACCCATACCTTGATGGGTCCTTGATACTTTTTCTTTATA
16108759 AGTTGCAATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.19, C:0.20, G:0.17, T:0.44
Consensus pattern (42 bp):
GGTACCCATACCTTGATGGGTCCTTGATACTTTTTCTTTATA
Found at i:16113356 original size:116 final size:111
Alignment explanation
Indices: 16113157--16113378 Score: 390
Period size: 116 Copynumber: 2.0 Consensus size: 111
16113147 TGGTGGCAAG
*
16113157 TGGTGTCAATTTATGTAAGGTTATGCAAGTGAAAGATGATGCAATGATGGTAGGTGGAAGAAATA
1 TGGTGTCAATTTATGTAAGGTTATGCAAGTGAAAGATGATGCAACGATGGTAGGTGGAAGAAATA
16113222 AAGTGATATTGAAGAATGATCCATTAATGCTACACAAAGAGCCAAA
66 AAGTGATATTGAAGAATGATCCATTAATGCTACACAAAGAGCCAAA
16113268 TGGTGTCAATTTATGTAAGGTTATGCAATAAAAGTGAAAGATGATGCAACGATGGTAGGTGGAAG
1 TGGTGTCAATTTATGTAAGGTTATGC-----AAGTGAAAGATGATGCAACGATGGTAGGTGGAAG
16113333 AAATAAAGTGATATTGAAGAATGATCCATTAATGCTACACAAAGAG
61 AAATAAAGTGATATTGAAGAATGATCCATTAATGCTACACAAAGAG
16113379 AAATACCTTT
Statistics
Matches: 105, Mismatches: 1, Indels: 5
0.95 0.01 0.05
Matches are distributed among these distances:
111 26 0.25
116 79 0.75
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (111 bp):
TGGTGTCAATTTATGTAAGGTTATGCAAGTGAAAGATGATGCAACGATGGTAGGTGGAAGAAATA
AAGTGATATTGAAGAATGATCCATTAATGCTACACAAAGAGCCAAA
Found at i:16127006 original size:38 final size:38
Alignment explanation
Indices: 16126962--16127039 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
16126952 TTAAAATGAT
16126962 AAACTACTTGATCAATTACAATAATTCTATATAAAAAG
1 AAACTACTTGATCAATTACAATAATTCTATATAAAAAG
16127000 AAACTACTTGATCAATTACAATAATTCTATATAAAAAG
1 AAACTACTTGATCAATTACAATAATTCTATATAAAAAG
16127038 AA
1 AA
16127040 TACAATTACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (38 bp):
AAACTACTTGATCAATTACAATAATTCTATATAAAAAG
Found at i:16127916 original size:18 final size:17
Alignment explanation
Indices: 16127885--16127937 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 17
16127875 ACTGATCCAG
*
16127885 ATATTATTATAATAATAA
1 ATATTTTTA-AATAATAA
16127903 ATATTCTTTAAATAATTAAA
1 ATATT-TTTAAATAA-T-AA
16127923 ATATTTTTAAA-AATA
1 ATATTTTTAAATAATA
16127938 TTTTATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
16 1 0.03
17 1 0.03
18 12 0.39
19 10 0.32
20 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTTTTAAATAATAA
Found at i:16128532 original size:46 final size:45
Alignment explanation
Indices: 16128477--16128573 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
16128467 CTTATATAAG
* * * *
16128477 TTTTAATTTTGATTAAAATTATTAAATATTTAATAAATGATGATAT
1 TTTTTATTTTGATTAAAATTACT-AATATTTAATAAATGAAGACAT
* * *
16128523 TTTTTATTTTGGTTTAAATTACTGATATTTAATAAATGAAGACAT
1 TTTTTATTTTGATTAAAATTACTAATATTTAATAAATGAAGACAT
16128568 TTTTTA
1 TTTTTA
16128574 GAGGATAATG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 25 0.57
46 19 0.43
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (45 bp):
TTTTTATTTTGATTAAAATTACTAATATTTAATAAATGAAGACAT
Found at i:16130619 original size:6 final size:6
Alignment explanation
Indices: 16130608--16130632 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16130598 TCCGACCATT
16130608 CACCGG CACCGG CACCGG CACCGG C
1 CACCGG CACCGG CACCGG CACCGG C
16130633 GAGGAGGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.52, G:0.32, T:0.00
Consensus pattern (6 bp):
CACCGG
Found at i:16132552 original size:10 final size:10
Alignment explanation
Indices: 16132539--16132563 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16132529 CCCCATTCTT
16132539 TCTTTCTCTC
1 TCTTTCTCTC
16132549 TCTTTCTCTC
1 TCTTTCTCTC
16132559 TCTTT
1 TCTTT
16132564 GATGGTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (10 bp):
TCTTTCTCTC
Found at i:16145644 original size:35 final size:35
Alignment explanation
Indices: 16145576--16145669 Score: 118
Period size: 35 Copynumber: 2.7 Consensus size: 35
16145566 ACGTTAGTTA
* *
16145576 CTTTGGCACTGTGCATGATCTGTTCCCCACCCGTCG
1 CTTTGGCAC-ATGCGTGATCTGTTCCCCACCCGTCG
* * *
16145612 TTTTGGCACATGCGTGATCTGTT-CTCAGCCCGTTG
1 CTTTGGCACATGCGTGATCTGTTCCCCA-CCCGTCG
16145647 CTTTGGCACATGCGTGATCTGTT
1 CTTTGGCACATGCGTGATCTGTT
16145670 TCTCCATCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
34 3 0.06
35 40 0.78
36 8 0.16
ACGTcount: A:0.12, C:0.29, G:0.24, T:0.35
Consensus pattern (35 bp):
CTTTGGCACATGCGTGATCTGTTCCCCACCCGTCG
Found at i:16147456 original size:49 final size:49
Alignment explanation
Indices: 16147400--16147497 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
16147390 AAGTCAAAAA
16147400 GAAGTAAAAACTTGACTTATTCTTCAATTATCCTCGTCTACTAGGTAGT
1 GAAGTAAAAACTTGACTTATTCTTCAATTATCCTCGTCTACTAGGTAGT
16147449 GAAGTAAAAACTTGACTTATTCTTCAATTATCCTCGTCTACTAGGTAGT
1 GAAGTAAAAACTTGACTTATTCTTCAATTATCCTCGTCTACTAGGTAGT
16147498 TTTATCATTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (49 bp):
GAAGTAAAAACTTGACTTATTCTTCAATTATCCTCGTCTACTAGGTAGT
Found at i:16148575 original size:39 final size:39
Alignment explanation
Indices: 16148521--16148600 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
16148511 CTGTTTGAAC
16148521 ATGGTATTGATGCAACATTTAAGCATTTACTTTACCTCG
1 ATGGTATTGATGCAACATTTAAGCATTTACTTTACCTCG
*
16148560 ATGGTATTGATGCAACATTTAAGCATTTGCTTTACCTCG
1 ATGGTATTGATGCAACATTTAAGCATTTACTTTACCTCG
16148599 AT
1 AT
16148601 AATGACCTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (39 bp):
ATGGTATTGATGCAACATTTAAGCATTTACTTTACCTCG
Found at i:16152726 original size:26 final size:26
Alignment explanation
Indices: 16152649--16152729 Score: 98
Period size: 26 Copynumber: 3.3 Consensus size: 26
16152639 CTAAATATTA
* *
16152649 CGTGACTGAATATTTGTTGAACATTG
1 CGTGACTGAATATTTATTGAGCATTG
* *
16152675 CGTGACT---TATTTATAG-GCATTA
1 CGTGACTGAATATTTATTGAGCATTG
16152697 CGTGACTGAATATTTATTGAGCATTG
1 CGTGACTGAATATTTATTGAGCATTG
16152723 CGTGACT
1 CGTGACT
16152730 TTATCTACCT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
22 11 0.24
23 7 0.16
25 8 0.18
26 19 0.42
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (26 bp):
CGTGACTGAATATTTATTGAGCATTG
Found at i:16157646 original size:78 final size:78
Alignment explanation
Indices: 16157510--16157885 Score: 391
Period size: 78 Copynumber: 4.9 Consensus size: 78
16157500 GATAATACTC
* * * * * *
16157510 TGACGAGTACAAAGAA-AAAAATTGAGTGGTGTGATTAGAGGAGAAGCAAATCTAAAACACAAGA
1 TGACCAGTACAATGAAGCAAAA-TGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGA
* * *
16157574 AGTTGCAACAACTA
65 TGTTGCAGCAACTG
* *
16157588 TGACCAATACAATGAAGCAAAATGACTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
1 TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
*
16157653 GTTGTAGCAACTG
66 GTTGCAGCAACTG
* * * * * *
16157666 TAACCAGTACAGTGAAGCAAAATGAGTAGTGTGACTGGGGGATAAGTAAATCTAAAACACAAGAT
1 TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
* *
16157731 GTTGCAGTAGCTG
66 GTTGCAGCAACTG
* * *
16157744 TGACCAGTATAATGAAGCAAACTGAGTGGGGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
1 TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
* ** * *
16157809 ATTATAGCAGCTA
66 GTTGCAGCAACTG
* ** * * * * *
16157822 TGACTAGTA-AAACAA--AAACTGAGTGGGGTGATTAGGGGAAAAGCAAATCTAAAACACAATAT
1 TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
16157884 GT
66 GT
16157886 CTCTTTAAAA
Statistics
Matches: 253, Mismatches: 44, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
75 45 0.18
77 4 0.02
78 200 0.79
79 4 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (78 bp):
TGACCAGTACAATGAAGCAAAATGAGTGGTGTGATTGGGGGACAAGCAAATCTAAAACACAAGAT
GTTGCAGCAACTG
Found at i:16160873 original size:121 final size:120
Alignment explanation
Indices: 16160667--16161288 Score: 586
Period size: 121 Copynumber: 5.1 Consensus size: 120
16160657 AGCGAAATAT
* * * * * * ** * *
16160667 CTATCAATAGATATCAAATATATTGATAGATGTCGTTTCATCTTCCAAGCATACG-AAATATCTA
1 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCC-AGCATACGCCTACAACTA
* * * *
16160731 TCGATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAGCATACGAAATAT
65 -CGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGAAACAA
* * * * *
16160788 CTATCGATAGATTTTACATATATCAATAGATGCCTTTTCATCTTCCTGCAAACGCCTACAACTAC
1 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTAC
* * * * * *
16160853 AGATAGATTTTAAATGTATCGATAGATGCCCTTTCATCATCCAACATACAAAATAT
66 -GATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGAAACAA
* * * *
16160909 CTATTGATAGATTTTAAATATATCGATAGATGCCCTTTCATTTTCCTGCATATGCCTACAACTAC
1 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTA-
* ** * *
16160974 CGATAGATTTTAAATATATCAATAGATGCCCTTTCATCTTCTTGCAAAC-ACCTACAA
65 CGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGA--AACAA
* ** * ** * *
16161031 CTATCGATAGATTTTAAATGTATCGATAGATGCCCTTGAATCATT-CAGCATATG-AAATATCTA
1 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATC-TTCCAGCATACGCCTACAACTA
* * * **
16161094 TCGATAAATTTTAAATATATCGATATATGCCCTTTCATCTTCCTGCATACGCCTACAA
65 -CGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACG-AAACAA
* * *
16161152 CTACCGATTGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACACCTACAACTAC
1 CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTAC
* * * * * * **
16161217 TGGTTGATTTCAAATATATCGATAGATGTCGTTTCATCTTCCACCATACGCCTACAA
66 -GATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACG-AAACAA
*
16161274 CTACCGATAGATTTT
1 CTATCGATAGATTTT
16161289 GTTCTGGATT
Statistics
Matches: 417, Mismatches: 73, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
120 10 0.02
121 291 0.70
122 114 0.27
123 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (120 bp):
CTATCGATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTAC
GATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGAAACAA
Found at i:16161011 original size:182 final size:181
Alignment explanation
Indices: 16160673--16161266 Score: 767
Period size: 182 Copynumber: 3.3 Consensus size: 181
16160663 ATATCTATCA
* * * * *
16160673 ATAGATATCAAATATATTGATAGATGTCGTTTCATCTTCCAAGCATACGAAATATCTATCGATAG
1 ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAA-CATACGAAATATCTATCGATAG
* * * ** * * *
16160738 ATTTCAAATATATCGATAGATGCCCTTTCATCATCCAGCATACG-AAATATCTATCGATAGATTT
65 ATTTTAAATATATCGATAGATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCGATAGATTT
* * *
16160802 TACATATATCAATAGATGCCTTTTCATCTTCCTGCAAACGCCTACAACTACAG
130 TAAATATATCAATAGATGCCCTTTCATCTTCCTGCAAACACCTACAACTAC-G
* * * *
16160855 ATAGATTTTAAATGTATCGATAGATGCCCTTTCATCATCCAACATACAAAATATCTATTGATAGA
1 ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAACATACGAAATATCTATCGATAGA
* *
16160920 TTTTAAATATATCGATAGATGCCCTTTCATTTTCCTGCATATGCCTACAACTACCGATAGATTTT
66 TTTTAAATATATCGATAGATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCGATAGATTTT
*
16160985 AAATATATCAATAGATGCCCTTTCATCTTCTTGCAAACACCTACAACTATCG
131 AAATATATCAATAGATGCCCTTTCATCTTCCTGCAAACACCTACAACTA-CG
* * ** * * * *
16161037 ATAGATTTTAAATGTATCGATAGATGCCCTTGAATCATTCAGCATATGAAATATCTATCGATAAA
1 ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAACATACGAAATATCTATCGATAGA
* *
16161102 TTTTAAATATATCGATATATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCGATTGATTTT
66 TTTTAAATATATCGATAGATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCGATAGATTTT
* * *
16161167 AAATATATCGATAGATGCCCTTTCATCTTCCAGCATACACCTACAACTACTG
131 AAATATATCAATAGATGCCCTTTCATCTTCCTGCAAACACCTACAACTAC-G
* * * * * *
16161219 GTTGATTTCAAATATATCGATAGATGTCGTTTCATCTTCCACCATACG
1 ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAACATACG
16161267 CCTACAACTA
Statistics
Matches: 358, Mismatches: 51, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
181 60 0.17
182 297 0.83
183 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (181 bp):
ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAACATACGAAATATCTATCGATAGA
TTTTAAATATATCGATAGATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCGATAGATTTT
AAATATATCAATAGATGCCCTTTCATCTTCCTGCAAACACCTACAACTACG
Found at i:16161271 original size:61 final size:61
Alignment explanation
Indices: 16160673--16161288 Score: 575
Period size: 61 Copynumber: 10.1 Consensus size: 61
16160663 ATATCTATCA
* * * * * ** * *
16160673 ATAGATATCAAATATATTGATAGATGTCGTTTCATCTTCCAAGCATACG-AAATATCTA-TCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCC-AGCATACGCCTACAACTACT-G
* * ** * *
16160734 ATAGATTTCAAATATATCGATAGATGCCCTTTCATCATCCAGCATACG-AAATATCTA-TCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACT-G
* * * * * *
16160794 ATAGATTTTACATATATCAATAGATGCCTTTTCATCTTCCTGCAAACGCCTACAACTACAG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
* * * *** * * *
16160855 ATAGATTTTAAATGTATCGATAGATGCCCTTTCATCATCCAACATAC-AAAATATCTATTG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
* * * *
16160915 ATAGATTTTAAATATATCGATAGATGCCCTTTCATTTTCCTGCATATGCCTACAACTACCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
* ** * *
16160976 ATAGATTTTAAATATATCAATAGATGCCCTTTCATCTTCTTGCAAACACCTACAACTA-TCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACT-G
* ** * ** * *
16161037 ATAGATTTTAAATGTATCGATAGATGCCCTTGAATCATT-CAGCATATG-AAATATCTA-TCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATC-TTCCAGCATACGCCTACAACTACT-G
* * * *
16161097 ATAAATTTTAAATATATCGATATATGCCCTTTCATCTTCCTGCATACGCCTACAACTACCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
* *
16161158 ATTGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACACCTACAACTACTG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
* * * * * * *
16161219 GTTGATTTCAAATATATCGATAGATGTCGTTTCATCTTCCACCATACGCCTACAACTACCG
1 ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
16161280 ATAGATTTT
1 ATAGATTTT
16161289 GTTCTGGATT
Statistics
Matches: 454, Mismatches: 93, Indels: 16
0.81 0.17 0.03
Matches are distributed among these distances:
59 2 0.00
60 154 0.34
61 296 0.65
62 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.34
Consensus pattern (61 bp):
ATAGATTTTAAATATATCGATAGATGCCCTTTCATCTTCCAGCATACGCCTACAACTACTG
Found at i:16163683 original size:46 final size:45
Alignment explanation
Indices: 16163613--16163746 Score: 108
Period size: 46 Copynumber: 2.9 Consensus size: 45
16163603 ACGCCATCCC
* * * *
16163613 ATAATAAGTGGTAACACCATTCCATAGATACTACTCACGCGACTCA
1 ATAATAACTGCTAACGCCACTCCATA-ATACTACTCACGCGACTCA
* * * * * * *
16163659 ATATTAACTAG-TAATGCGACTCCATAATAACTAGTCACGTGATTCC
1 ATAATAACT-GCTAACGCCACTCCATAAT-ACTACTCACGCGACTCA
* *
16163705 ATAATAACTGCTAACGCCACTCCATATTTACTACTCATGCGA
1 ATAATAACTGCTAACGCCACTCCATA-ATACTACTCACGCGA
16163747 GTTAATATCA
Statistics
Matches: 67, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
45 3 0.04
46 62 0.93
47 2 0.03
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.28
Consensus pattern (45 bp):
ATAATAACTGCTAACGCCACTCCATAATACTACTCACGCGACTCA
Found at i:16167995 original size:23 final size:23
Alignment explanation
Indices: 16167969--16168027 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
16167959 ACCTAGAAAC
* * *
16167969 CAGTCATGCAAAGACTTATTAAT
1 CAGTCACGCAAAGACCTATCAAT
16167992 CAGTCACGCAAAGACCTATCAAT
1 CAGTCACGCAAAGACCTATCAAT
* *
16168015 TAGTCACACAAAG
1 CAGTCACGCAAAG
16168028 TTTAACGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.22
Consensus pattern (23 bp):
CAGTCACGCAAAGACCTATCAAT
Found at i:16169160 original size:30 final size:30
Alignment explanation
Indices: 16169124--16169183 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
16169114 TTTCAACTTG
*
16169124 GTTCTTAAACTTTTATTTTGAACCAAATAA
1 GTTCTTAAACTTTTATTTTAAACCAAATAA
* *
16169154 GTTCTTATATTTTTATTTTAAACCAAATAA
1 GTTCTTAAACTTTTATTTTAAACCAAATAA
16169184 ACCCTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.47
Consensus pattern (30 bp):
GTTCTTAAACTTTTATTTTAAACCAAATAA
Found at i:16169191 original size:30 final size:30
Alignment explanation
Indices: 16169134--16169192 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
16169124 GTTCTTAAAC
* ***
16169134 TTTTATTTTGAACCAAATAAGTTCTTATAT
1 TTTTATTTTAAACCAAATAAACCCTTATAT
16169164 TTTTATTTTAAACCAAATAAACCCTTATA
1 TTTTATTTTAAACCAAATAAACCCTTATA
16169193 ACTAATGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (30 bp):
TTTTATTTTAAACCAAATAAACCCTTATAT
Found at i:16175255 original size:14 final size:14
Alignment explanation
Indices: 16175228--16175265 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
16175218 AAATGCACAA
16175228 CTTCTTTGTTTCTAT
1 CTTCTTT-TTTCTAT
16175243 -TCTCTTTTTTCTAT
1 CT-TCTTTTTTCTAT
16175257 CTTCTTTTT
1 CTTCTTTTT
16175266 CTTGAGTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (14 bp):
CTTCTTTTTTCTAT
Found at i:16184628 original size:153 final size:153
Alignment explanation
Indices: 16184343--16184711 Score: 465
Period size: 153 Copynumber: 2.4 Consensus size: 153
16184333 GGTCGTGACA
* * * * * * *
16184343 TCAATAGTCCAATTTCAAGCTCGTTCATCCATAAGTTGCTTGTAAAGTATTGAACTACCTAAAGA
1 TCAATAGTCCAATTTCAAGCTCATTCATCTACAAGTTGCTTATAGAGTCTTGAAGTACCTAAAGA
* * * * * *
16184408 ATGCACTTAGACAACTGATTCATCTACAAGTTACCTATAGAGTCTTGCAGTACCTAAAGAAGGCA
66 AAGCACTTAGACAACTCATTCATCTACAAGCTACCTACAGAGTCTTGAAGTACCTAAAAAAGGCA
*
16184473 CTTGAACAAGGAATACTTATGTCT
131 CTTGAACAAGGAATACATATGT-T
*
16184497 T-AATAGTCCAATTTCAAGCTCATTCATCTACAAGTTGC-T-TAGAGTCTTAAAGTACCTAAAGA
1 TCAATAGTCCAATTTCAAGCTCATTCATCTACAAGTTGCTTATAGAGTCTTGAAGTACCTAAAGA
* *
16184559 AAGCACTTAGACTAACATCATTCATCTACAAGCTACTTACAGAGTCTTGAAGTACCTAAAAAAGT
66 AAGCACTTAGAC-AAC-TCATTCATCTACAAGCTACCTACAGAGTCTTGAAGTACCTAAAAAAGG
* *
16184624 CACTTGGACAGGGAATACATATGTT
129 CACTTGAACAAGGAATACATATGTT
* * * * *
16184649 TCAATACTCCAATTTCAAGCGCATTCATCTTACAAGCTACTTATAGAGTCTTGAAGAACCTAA
1 TCAATAGTCCAATTTCAAGCTCATTCATC-TACAAGTTGCTTATAGAGTCTTGAAGTACCTAA
16184712 TGTCTTAATA
Statistics
Matches: 185, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
151 30 0.16
152 6 0.03
153 121 0.65
154 9 0.05
155 1 0.01
156 18 0.10
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (153 bp):
TCAATAGTCCAATTTCAAGCTCATTCATCTACAAGTTGCTTATAGAGTCTTGAAGTACCTAAAGA
AAGCACTTAGACAACTCATTCATCTACAAGCTACCTACAGAGTCTTGAAGTACCTAAAAAAGGCA
CTTGAACAAGGAATACATATGTT
Found at i:16184754 original size:30 final size:30
Alignment explanation
Indices: 16184718--16184776 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
16184708 CTAATGTCTT
* *
16184718 AATAGTCCAATTTCTAGCTCATTCATCTAC
1 AATAGTCCAAATTCAAGCTCATTCATCTAC
* *
16184748 AATAGTCCAAATTCAAGCTTATTTATCTA
1 AATAGTCCAAATTCAAGCTCATTCATCTA
16184777 TAAAATGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (30 bp):
AATAGTCCAAATTCAAGCTCATTCATCTAC
Found at i:16187992 original size:23 final size:23
Alignment explanation
Indices: 16187948--16187992 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16187938 CTTAACTAAC
* *
16187948 TATTAAAATATTTTTCCGTTAAT
1 TATTAAAATATTTTACAGTTAAT
*
16187971 TATTAAAATATTTTACATTTAA
1 TATTAAAATATTTTACAGTTAA
16187993 AATAAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTAAAATATTTTACAGTTAAT
Found at i:16189522 original size:19 final size:21
Alignment explanation
Indices: 16189500--16189543 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
16189490 TTGATTTAAA
16189500 ATTTAAATAATAAA-A-TTTT
1 ATTTAAATAATAAATATTTTT
*
16189519 ATTT-AATTATAAATATTTTT
1 ATTTAAATAATAAATATTTTT
16189539 ATTTA
1 ATTTA
16189544 GTCGTGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 5 0.24
20 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAATAATAAATATTTTT
Found at i:16189622 original size:10 final size:11
Alignment explanation
Indices: 16189607--16189652 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
16189597 AAACGTGTTA
16189607 ATTATATA-AT
1 ATTATATATAT
16189617 ATTATATA-ATT
1 ATTATATATA-T
*
16189628 ATTAAATATAT
1 ATTATATATAT
16189639 ATATATATATAT
1 AT-TATATATAT
16189651 AT
1 AT
16189653 ATTTTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 9 0.29
11 11 0.35
12 11 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
ATTATATATAT
Found at i:16189639 original size:27 final size:27
Alignment explanation
Indices: 16189604--16189661 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
16189594 AATAAACGTG
*
16189604 TTAATTATATA-ATAT-TATATA-ATT
1 TTAAATATATATATATATATATATATT
16189628 ATTAAATATATATATATATATATATATT
1 -TTAAATATATATATATATATATATATT
16189656 TTAAAT
1 TTAAAT
16189662 TTAAGATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 10 0.34
26 4 0.14
27 12 0.41
28 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTAAATATATATATATATATATATATT
Found at i:16201497 original size:14 final size:14
Alignment explanation
Indices: 16201461--16201497 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16201451 CATCTGCTTC
*
16201461 TTTTGTTTTCTTTT
1 TTTTTTTTTCTTTT
*
16201475 TTTCTTTTTCTTTT
1 TTTTTTTTTCTTTT
16201489 TTTTTTTTT
1 TTTTTTTTT
16201498 GGTTTTTGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:16201546 original size:2 final size:2
Alignment explanation
Indices: 16201539--16201566 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16201529 AAATCACGCA
16201539 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
16201567 CAGGGACAGG
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:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:16201969 original size:37 final size:37
Alignment explanation
Indices: 16201928--16201998 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
16201918 AAACTTATGA
*
16201928 ATTATA-TCAAATTAATTAATTAAGTTTTTATTTTTTT
1 ATTATATTCAAATTAATT-ATTAAATTTTTATTTTTTT
* * *
16201965 ATTATATTTAATTTAATTTTTAAATTTTTATTTT
1 ATTATATTCAAATTAATTATTAAATTTTTATTTT
16201999 AAATCTAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 20 0.69
38 9 0.31
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (37 bp):
ATTATATTCAAATTAATTATTAAATTTTTATTTTTTT
Found at i:16202461 original size:25 final size:25
Alignment explanation
Indices: 16202403--16202463 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
16202393 ATCGATAATT
16202403 TTTTTTTAAAAAATTAATTTTAATTA
1 TTTTTTTAAAAAATTAATTTT-ATTA
* * *
16202429 -ATTATTAAAAATTTTAATTTT-TTA
1 TTTTTTTAAAAA-ATTAATTTTATTA
16202453 TTTTTTTAAAA
1 TTTTTTTAAAA
16202464 TTGAAACATG
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 3 0.11
25 17 0.61
26 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTTTTTAAAAAATTAATTTTATTA
Found at i:16202463 original size:24 final size:25
Alignment explanation
Indices: 16202403--16202465 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 25
16202393 ATCGATAATT
**
16202403 TTTTTTTAAAAAATTAATTTTAATTA
1 TTTTTTTAAAATTTTAATTTT-ATTA
* * *
16202429 ATTATTAAAAATTTTAATTTT-TTA
1 TTTTTTTAAAATTTTAATTTTATTA
16202453 TTTTTTTAAAATT
1 TTTTTTTAAAATT
16202466 GAAACATGAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
24 13 0.45
26 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTTTTAAAATTTTAATTTTATTA
Found at i:16203650 original size:19 final size:20
Alignment explanation
Indices: 16203622--16203664 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
16203612 TTTAAAAAAA
16203622 TTTAAATAAGTTTTTAT-TT
1 TTTAAATAAGTTTTTATATT
*
16203641 TTTAATTAAGTTTTTATATT
1 TTTAAATAAGTTTTTATATT
16203661 TTTA
1 TTTA
16203665 TTTTATTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTAAATAAGTTTTTATATT
Found at i:16203666 original size:27 final size:29
Alignment explanation
Indices: 16203632--16203686 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
16203622 TTTAAATAAG
*
16203632 TTTTTATTTT-TTAAT-TAAGTTTTTATA
1 TTTTTATTTTATTAATATAAGCTTTTATA
*
16203659 TTTTTATTTTATTCATATAAGCTTTTAT
1 TTTTTATTTTATTAATATAAGCTTTTAT
16203687 GATTACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 4 0.17
29 10 0.42
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTTATTTTATTAATATAAGCTTTTATA
Found at i:16231208 original size:16 final size:17
Alignment explanation
Indices: 16231184--16231216 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16231174 AAAATAAAAA
16231184 AATAAAATAAAA-ATGT
1 AATAAAATAAAATATGT
*
16231200 AATAGAATAAAATATGT
1 AATAAAATAAAATATGT
16231217 GGATATCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
AATAAAATAAAATATGT
Found at i:16244404 original size:38 final size:38
Alignment explanation
Indices: 16244110--16244402 Score: 326
Period size: 37 Copynumber: 7.7 Consensus size: 38
16244100 AAAAAAGGAA
*
16244110 AAAAGCTTTCGTTGCCTCAGTTTTGAGGAATTCATTTTT
1 AAAAG-TTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * ** *
16244149 -AAAGGTACGTTGCCTCAACTTTGAAGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * * *
16244186 AAAAAATTTTAGTTGTCTCAATTTTGAGGAGTTCATTTTT
1 --AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* *
16244226 -AAAGTCTCGCTGCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * *
16244263 -AAAGTCTCGTTGCCTCAGTTTTAAAGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
**
16244299 AAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
* * *
16244337 AAAAGTCAT-ATTGCCTCAGTTTTGAGGAATTCATTTTT
1 AAAAGT-TTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
*
16244375 AAAAGTTTCGTTGCCTCAGCTTTGAGGA
1 AAAAGTTTCGTTGCCTCAGTTTTGAGGA
16244403 ATCTCATTAA
Statistics
Matches: 212, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
36 4 0.02
37 115 0.54
38 62 0.29
39 1 0.00
40 30 0.14
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.41
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAGTTTTGAGGAGTTCATTTTT
Found at i:16244410 original size:151 final size:151
Alignment explanation
Indices: 16244118--16244410 Score: 401
Period size: 151 Copynumber: 1.9 Consensus size: 151
16244108 AAAAAAGCTT
* * *
16244118 TCGTTGCCTCAGTTTTGAGGAATTCATTTTTAAAGGTACGTTGCCTCAACTTTGAAGAGTTCATT
1 TCGTTGCCTCAGTTTTAAAGAATTCATTTTAAAAGGTACGTTGCCTCAACTTTGAAGAGTTCATT
** * * *
16244183 TTTAAAAAATTTTAGTTGTCTCAATTTTGAGGAGTTCATTTTTAAAGTCTCGCTGCCTCAGTTTT
66 TTTAAAAAATCATAGTTGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTCGCTGCCTCAGCTTT
*
16244248 GAGGAGTTCATTTTTAAAGTC
131 GAGGAATTCATTTTTAAAGTC
* * * *
16244269 TCGTTGCCTCAGTTTTAAAGAGTTCATTTTAAAAGTTTCGTTGCCTCAACTTTGAGGAGTTCATT
1 TCGTTGCCTCAGTTTTAAAGAATTCATTTTAAAAGGTACGTTGCCTCAACTTTGAAGAGTTCATT
* * * *
16244334 TTT-AAAAGTCATA-TTGCCTCAGTTTTGAGGAATTCATTTTTAAAAGTTTCGTTGCCTCAGCTT
66 TTTAAAAAATCATAGTTGCCTCAATTTTGAGGAATTCATTTTT-AAAGTCTCGCTGCCTCAGCTT
16244397 TGAGGAATCTCATT
130 TGAGGAAT-TCATT
16244411 AAAAACAAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
149 25 0.20
150 32 0.26
151 66 0.54
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (151 bp):
TCGTTGCCTCAGTTTTAAAGAATTCATTTTAAAAGGTACGTTGCCTCAACTTTGAAGAGTTCATT
TTTAAAAAATCATAGTTGCCTCAATTTTGAGGAATTCATTTTTAAAGTCTCGCTGCCTCAGCTTT
GAGGAATTCATTTTTAAAGTC
Found at i:16248253 original size:2 final size:2
Alignment explanation
Indices: 16248246--16248285 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
16248236 TTAAATGACA
16248246 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16248286 CTTGACCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16250878 original size:2 final size:2
Alignment explanation
Indices: 16250871--16250903 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16250861 TAATGTATTG
16250871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16250904 NCTTTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16255110 original size:17 final size:17
Alignment explanation
Indices: 16255071--16255110 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
16255061 CTTCTTAAAT
*
16255071 TTTGGGCACGGAGATGA
1 TTTGGGCACAGAGATGA
16255088 ---GGGCACAGAGATGA
1 TTTGGGCACAGAGATGA
16255102 TTTGGGCAC
1 TTTGGGCAC
16255111 CAATATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 13 0.68
17 6 0.32
ACGTcount: A:0.25, C:0.15, G:0.40, T:0.20
Consensus pattern (17 bp):
TTTGGGCACAGAGATGA
Found at i:16258817 original size:62 final size:62
Alignment explanation
Indices: 16258720--16258841 Score: 208
Period size: 62 Copynumber: 2.0 Consensus size: 62
16258710 TCAAAGTAAA
*
16258720 GTAAAGTAAATGCACAAGTATAAATAGTGAAGAGCAAAGAGAAAATGCACAAGGAGTTTAAT
1 GTAAAGCAAATGCACAAGTATAAATAGTGAAGAGCAAAGAGAAAATGCACAAGGAGTTTAAT
** *
16258782 GTAAAGCAAATGCGTAAGTATAAATAGTGAAGAGCAAAGAGAAAATGCACATGGAGTTTA
1 GTAAAGCAAATGCACAAGTATAAATAGTGAAGAGCAAAGAGAAAATGCACAAGGAGTTTA
16258842 TAGAAGTTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (62 bp):
GTAAAGCAAATGCACAAGTATAAATAGTGAAGAGCAAAGAGAAAATGCACAAGGAGTTTAAT
Found at i:16258975 original size:28 final size:28
Alignment explanation
Indices: 16258928--16258981 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
16258918 TTCAATATAA
*
16258928 TGCCTTTTAAAGGTTCAAGCATAACCAT
1 TGCCTTTTAAAGGTTCAAGCACAACCAT
*
16258956 TGCCTTTTTAAA-GTTTAAGCACAACC
1 TGCC-TTTTAAAGGTTCAAGCACAACC
16258982 TTTAAACACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (28 bp):
TGCCTTTTAAAGGTTCAAGCACAACCAT
Found at i:16259715 original size:22 final size:21
Alignment explanation
Indices: 16259688--16259763 Score: 75
Period size: 21 Copynumber: 3.6 Consensus size: 21
16259678 AGAGAGGCTT
*
16259688 AAAACTAATTTAAACAAGTTTA
1 AAAACT-ATTCAAACAAGTTTA
16259710 AAAACTATTCAAACAAG-TTA
1 AAAACTATTCAAACAAGTTTA
* * *
16259730 AACACTCATTCAAGCAA-TTTC
1 AAAACT-ATTCAAACAAGTTTA
16259751 AAAACTCATTCAA
1 AAAACT-ATTCAA
16259764 GTAATTTTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.17
21 33 0.70
22 6 0.13
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.28
Consensus pattern (21 bp):
AAAACTATTCAAACAAGTTTA
Found at i:16259764 original size:21 final size:20
Alignment explanation
Indices: 16259686--16259770 Score: 73
Period size: 21 Copynumber: 4.1 Consensus size: 20
16259676 CAAGAGAGGC
* * *
16259686 TTAAAACTAATTTAAACAAGT
1 TTAAAACTCATTCAAGCAA-T
* *
16259707 TTAAAAACT-ATTCAAACAAG
1 TT-AAAACTCATTCAAGCAAT
16259727 TTAAACACTCATTCAAGCAAT
1 TTAAA-ACTCATTCAAGCAAT
*
16259748 TTCAAAACTCATTCAAGTAAT
1 TT-AAAACTCATTCAAGCAAT
16259769 TT
1 TT
16259771 TGAAATTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 3 0.05
20 5 0.09
21 38 0.69
22 9 0.16
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (20 bp):
TTAAAACTCATTCAAGCAAT
Found at i:16261222 original size:14 final size:14
Alignment explanation
Indices: 16261203--16261262 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
16261193 GTCGGTTAGT
16261203 GAAGAAGAAAAAGA
1 GAAGAAGAAAAAGA
*
16261217 GAAGAAAAATAAAG-
1 GAAGAAGAA-AAAGA
*
16261231 GAAGAA-AAAAA-T
1 GAAGAAGAAAAAGA
16261243 GAAG-AGAAAAAGA
1 GAAGAAGAAAAAGA
16261256 GAGAGAA
1 GA-AGAA
16261263 AGAACCGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
11 1 0.03
12 12 0.32
13 4 0.11
14 16 0.42
15 5 0.13
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (14 bp):
GAAGAAGAAAAAGA
Found at i:16261578 original size:34 final size:34
Alignment explanation
Indices: 16261535--16261633 Score: 153
Period size: 34 Copynumber: 2.9 Consensus size: 34
16261525 CAAAGTGTTG
* * *
16261535 CCAATTTGTGTAAAAAAATTGGAACTGTTTGCTA
1 CCAATTTGTGCAAAAAAATTAGAGCTGTTTGCTA
*
16261569 CCAATTTGTGCAAAAAAATTAGAGCTGTTTACTA
1 CCAATTTGTGCAAAAAAATTAGAGCTGTTTGCTA
*
16261603 CCAATTTGTGCAGAAAAATTAGAGCTGTTTG
1 CCAATTTGTGCAAAAAAATTAGAGCTGTTTG
16261634 TGCAAAAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.33
Consensus pattern (34 bp):
CCAATTTGTGCAAAAAAATTAGAGCTGTTTGCTA
Found at i:16261637 original size:23 final size:23
Alignment explanation
Indices: 16261607--16261657 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
16261597 TTACTACCAA
*
16261607 TTTGTGCAGAAAAATTAGAGCTG
1 TTTGTGCAAAAAAATTAGAGCTG
*
16261630 TTTGTGCAAAAAAATTAGAGTTG
1 TTTGTGCAAAAAAATTAGAGCTG
16261653 TTTGT
1 TTTGT
16261658 TGCCAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (23 bp):
TTTGTGCAAAAAAATTAGAGCTG
Found at i:16261664 original size:57 final size:57
Alignment explanation
Indices: 16261573--16261738 Score: 235
Period size: 57 Copynumber: 2.9 Consensus size: 57
16261563 TTGCTACCAA
* *
16261573 TTTGTGCAAAAAAATTAGAGCTGTTTACTACCAATTTGTGCAGAAAAATTAGAGCTG
1 TTTGTGCAAAAAAATTAGAGCTGTTTGCTGCCAATTTGTGCAGAAAAATTAGAGCTG
* * * * * *
16261630 TTTGTGCAAAAAAATTAGAGTTGTTTGTTGCCAATTTGTACAAAAAAATTGGAGTTG
1 TTTGTGCAAAAAAATTAGAGCTGTTTGCTGCCAATTTGTGCAGAAAAATTAGAGCTG
* *
16261687 TTTGTGCAGAAAAATTAGAGCTGTTTGCTGTCAATTTGTGCAG-AAAATTAGA
1 TTTGTGCAAAAAAATTAGAGCTGTTTGCTGCCAATTTGTGCAGAAAAATTAGA
16261739 CAGCTTTGTG
Statistics
Matches: 94, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 8 0.09
57 86 0.91
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (57 bp):
TTTGTGCAAAAAAATTAGAGCTGTTTGCTGCCAATTTGTGCAGAAAAATTAGAGCTG
Found at i:16261699 original size:23 final size:23
Alignment explanation
Indices: 16261664--16261713 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
16261654 TTGTTGCCAA
* *
16261664 TTTGTACAAAAAAATTGGAGTTG
1 TTTGTACAAAAAAATTAGAGCTG
* *
16261687 TTTGTGCAGAAAAATTAGAGCTG
1 TTTGTACAAAAAAATTAGAGCTG
16261710 TTTG
1 TTTG
16261714 CTGTCAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (23 bp):
TTTGTACAAAAAAATTAGAGCTG
Found at i:16261887 original size:22 final size:22
Alignment explanation
Indices: 16261862--16261939 Score: 99
Period size: 22 Copynumber: 3.7 Consensus size: 22
16261852 GACCGATTTT
16261862 GAGAGGAAGCCACGGTGGTGAA
1 GAGAGGAAGCCACGGTGGTGAA
*
16261884 GAGAGGAAGCCATGGTGGTGAA
1 GAGAGGAAGCCACGGTGGTGAA
* **
16261906 CAGAGGAAGCCATAGTGGTG-A
1 GAGAGGAAGCCACGGTGGTGAA
16261927 -AG-GGAAGCCACGG
1 GAGAGGAAGCCACGG
16261940 GATGGAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
19 9 0.18
20 2 0.04
21 1 0.02
22 39 0.76
ACGTcount: A:0.32, C:0.14, G:0.44, T:0.10
Consensus pattern (22 bp):
GAGAGGAAGCCACGGTGGTGAA
Found at i:16261924 original size:25 final size:22
Alignment explanation
Indices: 16261863--16261927 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
16261853 ACCGATTTTG
* *
16261863 AGAGGAAGCCACGGTGGTGAAG
1 AGAGGAAGCCATGGTGGTGAAC
16261885 AGAGGAAGCCATGGTGGTGAAC
1 AGAGGAAGCCATGGTGGTGAAC
*
16261907 AGAGGAAGCCATAGTGGTGAA
1 AGAGGAAGCCATGGTGGTGAA
16261928 GGGAAGCCAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.42, T:0.12
Consensus pattern (22 bp):
AGAGGAAGCCATGGTGGTGAAC
Found at i:16262328 original size:18 final size:19
Alignment explanation
Indices: 16262287--16262328 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16262277 TCTACGCTCT
*
16262287 ACTCACTGAGTCGATGATT
1 ACTCACTGAGTCGATGATG
*
16262306 A-TCACTGAGTTGATGA-G
1 ACTCACTGAGTCGATGATG
16262323 ACTCAC
1 ACTCAC
16262329 ACTCCTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.90
19 1 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (19 bp):
ACTCACTGAGTCGATGATG
Found at i:16266341 original size:16 final size:15
Alignment explanation
Indices: 16266320--16266354 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16266310 TGTTTTGAAG
16266320 AAATAAAATAAAATAA
1 AAATAAAATAAAA-AA
*
16266336 AAATAAAATGAAAAA
1 AAATAAAATAAAAAA
16266351 AAAT
1 AAAT
16266355 TGGATGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAAAAA
Found at i:16267024 original size:34 final size:34
Alignment explanation
Indices: 16266979--16267159 Score: 177
Period size: 34 Copynumber: 5.6 Consensus size: 34
16266969 GATAGCAAAG
* *
16266979 TGCTGCTAATTTATGCAAAAAAATTGGAGCTATT
1 TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
* *
16267013 TGCTGCCAATTTGTGCAAAAAAATTGGAGTTGTT
1 TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
* *
16267047 TGCTGCCAATTTATACAGAAAAATTGGAGCTGTT
1 TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
* * * *
16267081 TGCTGCCAATTTGTACAGAAAAATT--AG-AG-T
1 TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
*
16267111 TG-T-----TT-GTGCAAAAAAATTGGAGCTGTT
1 TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
*
16267138 TGCTGCCAATTTGTGCAAAAAA
1 TGCTGCCAATTTATGCAAAAAA
16267160 TTAGATAGCT
Statistics
Matches: 123, Mismatches: 13, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
23 11 0.09
24 2 0.02
25 2 0.02
26 1 0.01
27 3 0.02
28 1 0.01
29 1 0.01
30 3 0.02
31 1 0.01
32 2 0.02
33 2 0.02
34 94 0.76
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (34 bp):
TGCTGCCAATTTATGCAAAAAAATTGGAGCTGTT
Found at i:16267088 original size:68 final size:67
Alignment explanation
Indices: 16266979--16267164 Score: 223
Period size: 68 Copynumber: 2.9 Consensus size: 67
16266969 GATAGCAAAG
* * * *
16266979 TGCTGCTAATTTATGCAAAAAAATTGGAGCTATTTGCTGCCAATTTGTGCAAAAAAATTGGAGTT
1 TGCTGCCAATTTATAC-AAAAAATTGGAGCTGTTTGCTGCCAATTTGTGCAAAAAAATTAGAGTT
16267044 GTT
65 GTT
* *
16267047 TGCTGCCAATTTATACAGAAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAAATTAGAGTT
1 TGCTGCCAATTTATACA-AAAAATTGGAGCTGTTTGCTGCCAATTTGTGCAAAAAAATTAGAGTT
16267112 GTT
65 GTT
16267115 TG-TG-C-------A-AAAAAATTGGAGCTGTTTGCTGCCAATTTGTGC-AAAAAATTAGA
1 TGCTGCCAATTTATACAAAAAATTGGAGCTGTTTGCTGCCAATTTGTGCAAAAAAATTAGA
16267165 TAGCTTTGTG
Statistics
Matches: 109, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
56 10 0.09
57 31 0.28
58 1 0.01
59 1 0.01
66 1 0.01
67 3 0.03
68 62 0.57
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (67 bp):
TGCTGCCAATTTATACAAAAAATTGGAGCTGTTTGCTGCCAATTTGTGCAAAAAAATTAGAGTTG
TT
Found at i:16267125 original size:23 final size:23
Alignment explanation
Indices: 16267090--16267139 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
16267080 TTGCTGCCAA
* *
16267090 TTTGTACAGAAAAATTAGAGTTG
1 TTTGTACAAAAAAATTAGAGCTG
* *
16267113 TTTGTGCAAAAAAATTGGAGCTG
1 TTTGTACAAAAAAATTAGAGCTG
16267136 TTTG
1 TTTG
16267140 CTGCCAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (23 bp):
TTTGTACAAAAAAATTAGAGCTG
Found at i:16267185 original size:57 final size:57
Alignment explanation
Indices: 16267065--16267175 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
16267055 ATTTATACAG
*
16267065 AAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAAATTAGAGTTGTTTGTGCAA
1 AAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAAATTAGAGTAGTTTGTGCAA
*
16267122 AAAAATTGGAGCTGTTTGCTGCCAATTTGTGCA-AAAAATTAGA-TAGCTTTGTGC
1 AAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAAATTAGAGTAG-TTTGTGC
16267176 TACCAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
55 2 0.04
56 17 0.33
57 32 0.63
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (57 bp):
AAAAATTGGAGCTGTTTGCTGCCAATTTGTACAGAAAAATTAGAGTAGTTTGTGCAA
Found at i:16267313 original size:22 final size:22
Alignment explanation
Indices: 16267288--16267365 Score: 108
Period size: 22 Copynumber: 3.7 Consensus size: 22
16267278 GATCGATTTT
16267288 GAGAGGAAGCCACGGTGGTGAA
1 GAGAGGAAGCCACGGTGGTGAA
*
16267310 GAGAGGAAGCCATGGTGGTGAA
1 GAGAGGAAGCCACGGTGGTGAA
* *
16267332 CAGAGGAAGCCACAGTGGTG-A
1 GAGAGGAAGCCACGGTGGTGAA
16267353 -AG-GGAAGCCACGG
1 GAGAGGAAGCCACGG
16267366 GCTGGAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
19 10 0.20
20 2 0.04
21 1 0.02
22 38 0.75
ACGTcount: A:0.32, C:0.15, G:0.44, T:0.09
Consensus pattern (22 bp):
GAGAGGAAGCCACGGTGGTGAA
Found at i:16269265 original size:36 final size:36
Alignment explanation
Indices: 16269199--16269267 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
16269189 TTGTGGATTG
*
16269199 TGTAAGGCTTATCGCTTATTCCAGTGAAAAAGCCGT
1 TGTAAGGCTTATCGCTTATGCCAGTGAAAAAGCCGT
* *
16269235 TGTAAGGGTTATCGCTTGATGCC-GTTAAAAAGC
1 TGTAAGGCTTATCGCTT-ATGCCAGTGAAAAAGC
16269268 AAGAATCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.86
37 4 0.14
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (36 bp):
TGTAAGGCTTATCGCTTATGCCAGTGAAAAAGCCGT
Found at i:16275423 original size:17 final size:19
Alignment explanation
Indices: 16275382--16275423 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
16275372 ATGTATATAT
16275382 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
16275403 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
16275420 ATGA
1 ATGA
16275424 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Done.