Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 45 of 297
Found at i:16054426 original size:80 final size:80
Alignment explanation
Indices: 16054293--16054612 Score: 613
Period size: 80 Copynumber: 4.0 Consensus size: 80
16054283 TTTCTATATA
*
16054293 CAAATATCATCATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
1 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
16054358 ATGGATATGTATAAT
66 ATGGATATGTATAAT
16054373 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
1 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
16054438 ATGGATATGTATAAT
66 ATGGATATGTATAAT
16054453 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
1 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
16054518 ATGGATATGTATAAT
66 ATGGATATGTATAAT
* *
16054533 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTATTTTAG
1 CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
16054598 ATGGATATGTATAAT
66 ATGGATATGTATAAT
16054613 AACTCATTTT
Statistics
Matches: 237, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 237 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (80 bp):
CAAATATCATTATCTCATACTTTCATATATCACTTGTCATGTATCATCATTTTCTTGTACTTCAG
ATGGATATGTATAAT
Found at i:16060760 original size:44 final size:43
Alignment explanation
Indices: 16060617--16060775 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
16060607 AGCTTGTATA
* * *
16060617 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* * * *
16060660 ATGCC-ACTGTCCTAGACAGGGTCTTACACG-AATTTAAACA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAAATCAAA-ATCG
* *
16060702 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCA-AAATCG
*
16060746 ATGCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
16060776 AAAACACATA
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 28 0.30
43 34 0.36
44 32 0.34
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCAAAATCG
Found at i:16063866 original size:25 final size:25
Alignment explanation
Indices: 16063833--16063889 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
16063823 GGGGGGATTT
16063833 TTAT-TTTATTTAATATTAATATAA
1 TTATATTTATTTAATATTAATATAA
16063857 TTATATTTATTTAATATTAATATAA
1 TTATATTTATTTAATATTAATATAA
16063882 --ATATTTAT
1 TTATATTTAT
16063890 ATAAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 8 0.25
24 4 0.12
25 20 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATATTTATTTAATATTAATATAA
Found at i:16063898 original size:13 final size:12
Alignment explanation
Indices: 16063844--16063894 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
16063834 TATTTTATTT
16063844 AATATTAATATA
1 AATATTAATATA
* *
16063856 ATTATATTTAT-TT
1 A--ATATTAATATA
16063869 AATATTAATATA
1 AATATTAATATA
*
16063881 AATATTTATATA
1 AATATTAATATA
16063893 AA
1 AA
16063895 ATATAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 7 0.23
12 15 0.48
13 2 0.06
14 7 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATATTAATATA
Found at i:16069570 original size:118 final size:118
Alignment explanation
Indices: 16069362--16069603 Score: 439
Period size: 118 Copynumber: 2.1 Consensus size: 118
16069352 AAGGGTGGCC
*
16069362 ATAAAAACCAAGGGGTTAAATCCATGGTTCATTCTTTTTTGTTTTTGGTATCTTTTTACCATTTT
1 ATAAATACCAAGGGGTTAAATCCATGGTTCATTCTTTTTTGTTTTTGGTATCTTTTTACCATTTT
* * * *
16069427 ACCTTTCCTTTGAATGTTAGCAATATGCACAGGTCATATTTTGCACACGGGAA
66 ACATTTCCTTTGAATGTTACCAATATGCAAAGGTCATATTTTGCACACAGGAA
16069480 ATAAATACCAAGGGGTTAAATCCATGGTTCATTCTTTTTTGTTTTTGGTATCTTTTTACCATTTT
1 ATAAATACCAAGGGGTTAAATCCATGGTTCATTCTTTTTTGTTTTTGGTATCTTTTTACCATTTT
16069545 ACATTTCCTTTGAATGTTACCAATATGCAAAGGTCATATTTTGCACACAGGAA
66 ACATTTCCTTTGAATGTTACCAATATGCAAAGGTCATATTTTGCACACAGGAA
16069598 ATAAAT
1 ATAAAT
16069604 CAAGAAGCAG
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (118 bp):
ATAAATACCAAGGGGTTAAATCCATGGTTCATTCTTTTTTGTTTTTGGTATCTTTTTACCATTTT
ACATTTCCTTTGAATGTTACCAATATGCAAAGGTCATATTTTGCACACAGGAA
Found at i:16071019 original size:41 final size:41
Alignment explanation
Indices: 16070974--16071055 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
16070964 AGCCTATTTG
*
16070974 GGAAAATAATTAT-CTTATTCTAATCAACTACTAAAAGATAA
1 GGAAAATAATT-TGCTTATTCTAATAAACTACTAAAAGATAA
*
16071015 GGAAAATAATTTGCTTATTCTAATAAACTCCTAAAAGATAA
1 GGAAAATAATTTGCTTATTCTAATAAACTACTAAAAGATAA
16071056 AGTAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.32
Consensus pattern (41 bp):
GGAAAATAATTTGCTTATTCTAATAAACTACTAAAAGATAA
Found at i:16073705 original size:38 final size:38
Alignment explanation
Indices: 16073649--16073722 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
16073639 GTTGTGGTCT
*
16073649 TGCATATGTTGCGAACACA-CTACAGCTCGAAAGAGTCC
1 TGCATATGTTGCGAACACATC-ACAGATCGAAAGAGTCC
* *
16073687 TGCATATGTTGCGGACACATCATAGATCGAAAGAGT
1 TGCATATGTTGCGAACACATCACAGATCGAAAGAGT
16073723 GTCCCGTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 31 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (38 bp):
TGCATATGTTGCGAACACATCACAGATCGAAAGAGTCC
Found at i:16074098 original size:25 final size:25
Alignment explanation
Indices: 16074070--16074117 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16074060 TACAACCCGG
16074070 ATGAGCTTCCCGTTACATGGCTCAC
1 ATGAGCTTCCCGTTACATGGCTCAC
* ** *
16074095 ATGAGTTTCTTGTTATATGGCTC
1 ATGAGCTTCCCGTTACATGGCTC
16074118 GAAAGAGAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.38
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACATGGCTCAC
Found at i:16080930 original size:38 final size:38
Alignment explanation
Indices: 16080875--16081601 Score: 932
Period size: 38 Copynumber: 19.1 Consensus size: 38
16080865 TTAAGCTTGA
*
16080875 ATATAATACCAGCACTAAGCCTGCGGGATTTAACACGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
** *
16080913 ATATAATACCAATACTAAGCCTGCGGGATTTAACTCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * ** *
16080951 ATATAATACCAGCACGAAGCTTGCGGGATAAAACCTGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * ** *
16080989 ATATAATACCAGCACGAAGCCTGCGAGATAAAACCTGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
16081027 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* *
16081065 GTATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * ** *
16081103 ATATAATACCAGCACGAAGCTTGCGGGATAAAACCCAG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * * **
16081141 ATATAATACCAGCCCGAAGCCTGTGGGATAAAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
16081179 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
** *
16081217 GGATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
** *
16081255 GGATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
** *
16081293 GGATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
** *
16081331 GGATAATACCAGGACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * ** *
16081369 ATATAATACCAGCACGAAGCTTGCGGGATAAAACCCAG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * * **
16081407 ATATAATACCAGCCCGAAGCCTGTGGGATAAAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
16081445 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * ** *
16081483 ATATAATACCAGCACGAAGCTTGCGGGATAAAACCCAG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
* * * **
16081521 ATATAATACCAGCCCGAAGCCTGTGGGATAAAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
16081559 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
16081597 ATATA
1 ATATA
16081602 CATCAAATAT
Statistics
Matches: 619, Mismatches: 70, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 619 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
Found at i:16087120 original size:38 final size:38
Alignment explanation
Indices: 16087075--16087383 Score: 374
Period size: 38 Copynumber: 8.1 Consensus size: 38
16087065 TTAAGCTCGA
* ** *
16087075 ATATAATACCAGCACTAAGCCTTCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTTCGGGATAAAACCCGG
* * ** *
16087113 ATATAATACCAACACTAAGCCTAT-GGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCT-TCGGGATAAAACCCGG
16087151 ATATAATACCAGCACGAAG-CTTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTT-CGGGATAAAACCCGG
*
16087189 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCTTCGGGATAAAACCCGG
* * **
16087227 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTTCGGGATAAAACCCGG
16087265 ATATAATACCAGCACGAAGCCTGT-GGGATAAAACCCGG
1 ATATAATACCAGCACGAAGCCT-TCGGGATAAAACCCGG
*
16087303 ATATAATACCAGCACGAAGCCTGT-GGGATAAAACCTGG
1 ATATAATACCAGCACGAAGCCT-TCGGGATAAAACCCGG
* * * **
16087341 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTTCGGGATAAAACCCGG
16087379 ATATA
1 ATATA
16087384 CATCAAATAT
Statistics
Matches: 244, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
36 1 0.00
37 2 0.01
38 238 0.98
39 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTTCGGGATAAAACCCGG
Found at i:16087216 original size:114 final size:114
Alignment explanation
Indices: 16087075--16087383 Score: 492
Period size: 114 Copynumber: 2.7 Consensus size: 114
16087065 TTAAGCTCGA
* * ** * * **
16087075 ATATAATACCAGCACTAAGCCTTCGGGATTTAACCCAGATATAATACCAACACTAAGCCTATGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAATACCAGCACTAAGCCTGCGGG
* *
16087140 ATTTAACCCAGATATAATACCAGCACGAAGCTTGCGGGATAAAACCCGG
66 ATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
16087189 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAATACCAGCACTAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAATACCAGCACTAAGCCTGCGGG
*
16087254 ATTTAACCCGGATATAATACCAGCACGAAGCCTGTGGGATAAAACCCGG
66 ATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
* * *
16087303 ATATAATACCAGCACGAAGCCTGTGGGATAAAACCTGGATATAGTACCAGCACTAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAATACCAGCACTAAGCCTGCGGG
16087368 ATTTAACCCGGATATA
66 ATTTAACCCGGATATA
16087384 CATCAAATAT
Statistics
Matches: 181, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 181 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (114 bp):
ATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGGATATAATACCAGCACTAAGCCTGCGGG
ATTTAACCCGGATATAATACCAGCACGAAGCCTGCGGGATAAAACCCGG
Found at i:16090751 original size:26 final size:26
Alignment explanation
Indices: 16090716--16090774 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
16090706 TGATATATGA
*
16090716 CTCTTCGTGAGCTTCACGATTAAAGG
1 CTCTTTGTGAGCTTCACGATTAAAGG
* ** *
16090742 CTTTTTGTGAGCTTCTTGATTAATGG
1 CTCTTTGTGAGCTTCACGATTAAAGG
16090768 CTCTTTG
1 CTCTTTG
16090775 CAGTTTCCCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (26 bp):
CTCTTTGTGAGCTTCACGATTAAAGG
Found at i:16090853 original size:25 final size:24
Alignment explanation
Indices: 16090822--16090886 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
16090812 TATGACTATC
16090822 CAGAGCTTCCTGATTAATGGCTCTT
1 CAGAGCTTCCTGATTAATGGCTC-T
* * *
16090847 C-GAAGCTACCCG-TTATTGGCTCT
1 CAG-AGCTTCCTGATTAATGGCTCT
16090870 CATGAGCTTCCTGATTA
1 CA-GAGCTTCCTGATTA
16090887 CGGTTCTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 12 0.39
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.34
Consensus pattern (24 bp):
CAGAGCTTCCTGATTAATGGCTCT
Found at i:16104721 original size:17 final size:17
Alignment explanation
Indices: 16104699--16104733 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16104689 ATGTATCATG
16104699 TATAAATTTATCAACTT
1 TATAAATTTATCAACTT
16104716 TATAAATTTATCAACTT
1 TATAAATTTATCAACTT
16104733 T
1 T
16104734 CACTTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TATAAATTTATCAACTT
Found at i:16114198 original size:15 final size:15
Alignment explanation
Indices: 16114149--16114217 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
16114139 AAAGTCGACT
*
16114149 AGAAAACCAAAAT-A
1 AGAAATCCAAAATAA
* *
16114163 AGAAATCCAAGACAGA
1 AGAAATCCAAAATA-A
*
16114179 A-AAATCCATAATAA
1 AGAAATCCAAAATAA
*
16114193 AGAAATCCAAAATAC
1 AGAAATCCAAAATAA
*
16114208 AGAAACCCAA
1 AGAAATCCAA
16114218 TATCCATTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
14 12 0.28
15 29 0.67
16 2 0.05
ACGTcount: A:0.62, C:0.19, G:0.09, T:0.10
Consensus pattern (15 bp):
AGAAATCCAAAATAA
Found at i:16118017 original size:9 final size:9
Alignment explanation
Indices: 16118003--16118070 Score: 109
Period size: 9 Copynumber: 7.6 Consensus size: 9
16117993 TTTGGTTAAA
16118003 AATTACCCG
1 AATTACCCG
*
16118012 AATTACCTG
1 AATTACCCG
16118021 AATTACCCG
1 AATTACCCG
16118030 AATTACCCG
1 AATTACCCG
16118039 AATTACCCG
1 AATTACCCG
*
16118048 AATTAACCG
1 AATTACCCG
*
16118057 AATTAACCG
1 AATTACCCG
16118066 AATTA
1 AATTA
16118071 ATCGAAAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:16122110 original size:28 final size:28
Alignment explanation
Indices: 16122068--16122124 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
16122058 GGGATGGAGG
*
16122068 TTGTTGAGCAGCCGAATTTGTTTAAACA
1 TTGTTGAGCACCCGAATTTGTTTAAACA
*
16122096 TTGTTGAGTACCCGAATTTGTTTAAACA
1 TTGTTGAGCACCCGAATTTGTTTAAACA
16122124 T
1 T
16122125 ACTCCGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (28 bp):
TTGTTGAGCACCCGAATTTGTTTAAACA
Found at i:16124779 original size:21 final size:21
Alignment explanation
Indices: 16124733--16124785 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
16124723 AAAAATCACT
*
16124733 TAATAAAAC-TTGTATAACTA
1 TAATCAAACATTGTATAACTA
*
16124753 TCATCAAACATTG-ATAATCTA
1 TAATCAAACATTGTATAA-CTA
*
16124774 TAATCAATCATT
1 TAATCAAACATT
16124786 AAAATACATG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (21 bp):
TAATCAAACATTGTATAACTA
Found at i:16127688 original size:7 final size:7
Alignment explanation
Indices: 16127678--16127704 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16127668 GATAATACCC
16127678 GATAAAT
1 GATAAAT
16127685 GATAAAT
1 GATAAAT
16127692 GATAAAT
1 GATAAAT
16127699 GATAAA
1 GATAAA
16127705 AATGTTGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:16129732 original size:15 final size:15
Alignment explanation
Indices: 16129714--16129746 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16129704 TTTATGAAAG
16129714 TTAAATTTTGAGGCT
1 TTAAATTTTGAGGCT
16129729 TTAAATTTTGAGGCT
1 TTAAATTTTGAGGCT
16129744 TTA
1 TTA
16129747 CGACCTCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.18, T:0.48
Consensus pattern (15 bp):
TTAAATTTTGAGGCT
Found at i:16133653 original size:7 final size:7
Alignment explanation
Indices: 16133643--16133667 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16133633 AGATAATGTC
16133643 TGATAAA
1 TGATAAA
16133650 TGATAAA
1 TGATAAA
16133657 TGATAAA
1 TGATAAA
16133664 TGAT
1 TGAT
16133668 GAAAATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (7 bp):
TGATAAA
Found at i:16136424 original size:38 final size:38
Alignment explanation
Indices: 16136382--16136458 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 38
16136372 GGAAGCCATG
*
16136382 ACGGTAGCAAGATCTGCGGTCGAGCTTG-GTCTAGGGAA
1 ACGGTAGCAAGATCTGCGGTCAAGCTTGAG-CTAGGGAA
16136420 ACGGTAGCAAGATCTGCGGTCAAGCTTGAGCTAGGGAA
1 ACGGTAGCAAGATCTGCGGTCAAGCTTGAGCTAGGGAA
16136458 A
1 A
16136459 GACAAGCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.19
Consensus pattern (38 bp):
ACGGTAGCAAGATCTGCGGTCAAGCTTGAGCTAGGGAA
Found at i:16141893 original size:15 final size:15
Alignment explanation
Indices: 16141873--16141903 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16141863 GGCTTTTTGT
16141873 TTTTTAGGGTTAAGG
1 TTTTTAGGGTTAAGG
*
16141888 TTTTTAGGGTTTAGG
1 TTTTTAGGGTTAAGG
16141903 T
1 T
16141904 GAGAGAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (15 bp):
TTTTTAGGGTTAAGG
Found at i:16151293 original size:279 final size:279
Alignment explanation
Indices: 16150793--16151351 Score: 1118
Period size: 279 Copynumber: 2.0 Consensus size: 279
16150783 CATTGTTAGC
16150793 AAGTAAGAAGGATGCGATTTGGGTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCG
1 AAGTAAGAAGGATGCGATTTGGGTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCG
16150858 TGCGTACGGATTTTTCATTGGATAAACTTGTAACACCCCGAACCCGAGACCGACACCGGAGTCGG
66 TGCGTACGGATTTTTCATTGGATAAACTTGTAACACCCCGAACCCGAGACCGACACCGGAGTCGG
16150923 ACACGAGATGTTAACAAACTTTGAAAAAATTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCT
131 ACACGAGATGTTAACAAACTTTGAAAAAATTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCT
16150988 TCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTTCCTGAAACTAGA
196 TCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTTCCTGAAACTAGA
16151053 CTCATGTCCCCACCTATGT
261 CTCATGTCCCCACCTATGT
16151072 AAGTAAGAAGGATGCGATTTGGGTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCG
1 AAGTAAGAAGGATGCGATTTGGGTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCG
16151137 TGCGTACGGATTTTTCATTGGATAAACTTGTAACACCCCGAACCCGAGACCGACACCGGAGTCGG
66 TGCGTACGGATTTTTCATTGGATAAACTTGTAACACCCCGAACCCGAGACCGACACCGGAGTCGG
16151202 ACACGAGATGTTAACAAACTTTGAAAAAATTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCT
131 ACACGAGATGTTAACAAACTTTGAAAAAATTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCT
16151267 TCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTTCCTGAAACTAGA
196 TCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTTCCTGAAACTAGA
16151332 CTCATGTCCCCACCTATGT
261 CTCATGTCCCCACCTATGT
16151351 A
1 A
16151352 TTTTTTTCTA
Statistics
Matches: 280, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
279 280 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (279 bp):
AAGTAAGAAGGATGCGATTTGGGTTGTTGTTGATAGACTGACTAAGTCGGCTCACTTTATCCCCG
TGCGTACGGATTTTTCATTGGATAAACTTGTAACACCCCGAACCCGAGACCGACACCGGAGTCGG
ACACGAGATGTTAACAAACTTTGAAAAAATTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCT
TCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTTCCTGAAACTAGA
CTCATGTCCCCACCTATGT
Found at i:16152648 original size:40 final size:40
Alignment explanation
Indices: 16152548--16152719 Score: 204
Period size: 40 Copynumber: 4.3 Consensus size: 40
16152538 GCTCCTCGTT
* * * *
16152548 CAAATGCCTTTGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
16152588 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
16152627 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
16152667 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
16152707 CAAATGCCTTCGG
1 CAAATGCCTTCGG
16152720 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.28
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:16152732 original size:80 final size:79
Alignment explanation
Indices: 16152548--16152772 Score: 213
Period size: 80 Copynumber: 2.8 Consensus size: 79
16152538 GCTCCTCGTT
* * * * * * *
16152548 CAAATGCCTTTGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
16152612 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* *
16152627 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
** *
16152692 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
** * * * *
16152707 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
16152771 GA
63 GA
16152773 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.32
80 68 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAACAACTCGCA
Found at i:16152781 original size:41 final size:41
Alignment explanation
Indices: 16152704--16152781 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
16152694 TTTGTATCTC
* * *
16152704 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
16152745 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
16152782 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:16155650 original size:56 final size:56
Alignment explanation
Indices: 16155564--16155683 Score: 240
Period size: 56 Copynumber: 2.1 Consensus size: 56
16155554 ACAAGGGATG
16155564 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
16155620 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
16155676 ATGGGCAA
1 ATGGGCAA
16155684 TAAACTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:16156954 original size:39 final size:40
Alignment explanation
Indices: 16156855--16156998 Score: 145
Period size: 40 Copynumber: 3.6 Consensus size: 40
16156845 CGAATGATGT
* * *
16156855 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAA
* * *
16156895 CCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-A
*
16156935 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
*
16156974 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
16156999 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
Found at i:16157012 original size:40 final size:39
Alignment explanation
Indices: 16156907--16157005 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
16156897 AGACTAAGAT
** * *
16156907 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAGC
1 CCGAAGGCATTTGAACGAGTTACTATA-ACCGGGCTAAGC
** *
16156946 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAG-C
16156986 CCGAAGGCATTTGAACGAGT
1 CCGAAGGCATTTGAACGAGT
16157006 AGCTATATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 33 0.62
40 20 0.38
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGTTACTATAACCGGGCTAAGC
Found at i:16157017 original size:79 final size:80
Alignment explanation
Indices: 16156854--16157004 Score: 182
Period size: 79 Copynumber: 1.9 Consensus size: 80
16156844 TCGAATGATG
*
16156854 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCAGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
**
16156919 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * * *
16156934 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCAGACTAAGAT-CCGAAGGCAT
16156996 TTGAACGAG
64 TTGAACGAG
16157005 TAGCTATATC
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.02
79 41 0.68
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCAGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:16161328 original size:32 final size:30
Alignment explanation
Indices: 16161292--16161360 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
16161282 TTTTATTTGT
*
16161292 TTTTTTGAAATTGTTTATTATT-TGTTTTATAA
1 TTTTTT-AAA-TGTATATT-TTATGTTTTATAA
16161324 TTTTTTAAATGTATATTTTAAATGTTTTATAA
1 TTTTTTAAATGTATATTTT--ATGTTTTATAA
16161356 TTTTT
1 TTTTT
16161361 GTTTATTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
29 2 0.06
30 7 0.21
31 3 0.09
32 21 0.64
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (30 bp):
TTTTTTAAATGTATATTTTATGTTTTATAA
Found at i:16161439 original size:100 final size:99
Alignment explanation
Indices: 16161286--16161478 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 99
16161276 TTTATTTTTT
* * * * * *
16161286 ATTTGTTTTTTTGAAATTGTTTATTATTTGTTTTATAATTTTTTAAATGTATATTTTAAATGTTT
1 ATTTGTTTTCTTAAAATTATTTATTATTTGTTTTATAATATATTAAATATATATTTTAAATGTTT
* *
16161351 TATAATTTTTGTTTA-TTCAAACTTTTTTTTTGAAA
66 TATAATATTT-TTTACTT-AAACGTTTTTTTTGAAA
16161386 ATTTGTTTTCTTAAAATTATTTATTATTTGTTTTATAATATATTAAATATATATTTTAAATGTTT
1 ATTTGTTTTCTTAAAATTATTTATTATTTGTTTTATAATATATTAAATATATATTTTAAATGTTT
16161451 TATAATATTTTTTACTTAAACGTTTTTT
66 TATAATATTTTTTACTTAAACGTTTTTT
16161479 AAAAATTATA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
99 14 0.17
100 70 0.83
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.62
Consensus pattern (99 bp):
ATTTGTTTTCTTAAAATTATTTATTATTTGTTTTATAATATATTAAATATATATTTTAAATGTTT
TATAATATTTTTTACTTAAACGTTTTTTTTGAAA
Found at i:16163098 original size:27 final size:27
Alignment explanation
Indices: 16163057--16163110 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
16163047 TGTCATGTGA
* *
16163057 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
16163084 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
16163111 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:16163443 original size:49 final size:50
Alignment explanation
Indices: 16163359--16163604 Score: 253
Period size: 49 Copynumber: 4.9 Consensus size: 50
16163349 ATATATTGTG
* * *
16163359 AGGTCACTTGTGTAGTATTAAGTGCAAGCTACTATGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * * *
16163409 -GGTCGCATGTGTAGTACTAAGTGCAAGCTGCTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * * ***
16163459 CGATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGACGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * **
16163509 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
16163559 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
16163605 GCCTTGGCTA
Statistics
Matches: 158, Mismatches: 36, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
49 80 0.51
50 44 0.28
51 34 0.22
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:16163496 original size:28 final size:27
Alignment explanation
Indices: 16163464--16163547 Score: 72
Period size: 28 Copynumber: 3.2 Consensus size: 27
16163454 AACTTCGATC
16163464 ACGTGTGTAGTACTAAGTGTAGGCTACT
1 ACGTGTGTAGTACTAAGT-TAGGCTACT
* *
16163492 ACGTGTATCAG-AC--GGTTAGG-T-C-
1 ACGTGTGT-AGTACTAAGTTAGGCTACT
*
16163514 ACGTGTGTAGTACTAAGTACAGGCTACT
1 ACGTGTGTAGTACTAAGT-TAGGCTACT
16163542 ACGTGT
1 ACGTGT
16163548 ACTGGATAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 16
0.67 0.08 0.25
Matches are distributed among these distances:
21 2 0.05
22 9 0.21
23 1 0.02
24 3 0.07
25 7 0.16
26 3 0.07
27 1 0.02
28 15 0.35
29 2 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (27 bp):
ACGTGTGTAGTACTAAGTTAGGCTACT
Found at i:16166756 original size:15 final size:15
Alignment explanation
Indices: 16166733--16166790 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
16166723 GTATCGTATC
*
16166733 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
16166748 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
16166763 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
16166778 TTGGATTTCTTTA
1 TTGGATTTCTTTA
16166791 CTCGATTTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:16166770 original size:30 final size:30
Alignment explanation
Indices: 16166734--16166790 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
16166724 TATCGTATCT
* *
16166734 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
16166764 TGGGTTTCTCTATCTTGGATTTCTTTA
1 TGGGTTTCTCTATCTTGGATTTCTTTA
16166791 CTCGATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.11, C:0.12, G:0.18, T:0.60
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:16169314 original size:27 final size:27
Alignment explanation
Indices: 16169273--16169335 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
16169263 TGTCATGTGA
* *
16169273 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
16169300 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
16169327 GGTTGAATG
1 AATTGAATG
16169336 AATTGCTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:16181484 original size:49 final size:49
Alignment explanation
Indices: 16181424--16181652 Score: 217
Period size: 49 Copynumber: 4.6 Consensus size: 49
16181414 GGGTGTTACA
* * *
16181424 AGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTATTCGCATGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGT
* * * * * * *
16181473 AGTGCTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACGTGTGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAG-TCGCATGTGT
* *** * *
16181524 AGTACTAAGTGCAGGCTACTACGTGTATCAGACGGTTAGGTCAG-GTGAGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTA-GTC-GCATGTGT
* * *
16181574 AGTACTAAGTGCAGGATACTACGTGTACCAGATAATTGGTCGCATATGT
1 AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGT
* * *
16181623 AGTACTAAGTGCAGGTTACTATGCGTACCA
1 AGTACTAAGTGCAGGCTACTACGTGTACCA
16181653 AATAGCCTTG
Statistics
Matches: 143, Mismatches: 32, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 63 0.44
50 43 0.30
51 36 0.25
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
AGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGTCGCATGTGT
Found at i:16189035 original size:21 final size:22
Alignment explanation
Indices: 16189009--16189054 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
16188999 TCAATTCAAC
*
16189009 TTTCACTTTTTTTTTCTCA-TT
1 TTTCACTTTTTTTTCCTCAGTT
16189030 TTTCACTTTTTTTTCCTCAGTT
1 TTTCACTTTTTTTTCCTCAGTT
16189052 TTT
1 TTT
16189055 TATTTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.09, C:0.20, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCACTTTTTTTTCCTCAGTT
Found at i:16189187 original size:15 final size:16
Alignment explanation
Indices: 16189157--16189189 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
16189147 TTACATTATT
16189157 CAAAATATATATTTTA
1 CAAAATATATATTTTA
16189173 CAAAATATA-ATTTTA
1 CAAAATATATATTTTA
16189188 CA
1 CA
16189190 TTTCAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
CAAAATATATATTTTA
Found at i:16190027 original size:20 final size:20
Alignment explanation
Indices: 16189980--16190029 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
16189970 ATAAAATATT
* *
16189980 ATAAAACAAATAATAAACGA
1 ATAAAAAAAATAATAAACAA
* **
16190000 TTTTAAAAAATAATAAACAA
1 ATAAAAAAAATAATAAACAA
16190020 ATAAAAAAAA
1 ATAAAAAAAA
16190030 CAAGAAAAAA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.72, C:0.06, G:0.02, T:0.20
Consensus pattern (20 bp):
ATAAAAAAAATAATAAACAA
Found at i:16193178 original size:47 final size:47
Alignment explanation
Indices: 16193109--16193271 Score: 181
Period size: 47 Copynumber: 3.5 Consensus size: 47
16193099 GCCCATAAGT
* *
16193109 GAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTC
1 GAACTCGAACTAAACTCAACGAGCTCGGATTCCTAGTTACATCTCTC
* * * ***
16193156 GAACTCGAACTAAACTCAACGAGTTCGAACATTCGC-A--TCCATAAGT-
1 GAACTCGAACTAAACTCAACGAGCTCG--GATTC-CTAGTTACATCTCTC
* *
16193202 GAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTC
1 GAACTCGAACTAAACTCAACGAGCTCGGATTCCTAGTTACATCTCTC
16193249 GAACTCGAACTAAACTCAACGAG
1 GAACTCGAACTAAACTCAACGAG
16193272 TTCGAACATT
Statistics
Matches: 91, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 29 0.32
47 50 0.55
49 5 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (47 bp):
GAACTCGAACTAAACTCAACGAGCTCGGATTCCTAGTTACATCTCTC
Found at i:16193218 original size:46 final size:46
Alignment explanation
Indices: 16193156--16193321 Score: 185
Period size: 46 Copynumber: 3.6 Consensus size: 46
16193146 TACATCTCTC
16193156 GAACTCGAACTAAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCGAACTAAACTCAACGAGTTCGAACATTCGCATCCATAAGT
* * * * * ***
16193202 GAACTCGGACTCAACTCAACGAGCTCG--GATTC-CTAGTTACATCTCT
1 GAACTCGAACTAAACTCAACGAGTTCGAACATTCGC-A--TCCATAAGT
16193248 CGAACTCGAACTAAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 -GAACTCGAACTAAACTCAACGAGTTCGAACATTCGCATCCATAAGT
* *
16193295 GAACTCGGACTCAACTCAACGAGTTCG
1 GAACTCGAACTAAACTCAACGAGTTCG
16193322 GATGCTCAAC
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 5 0.05
46 54 0.57
47 29 0.31
49 5 0.05
50 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (46 bp):
GAACTCGAACTAAACTCAACGAGTTCGAACATTCGCATCCATAAGT
Found at i:16193260 original size:93 final size:93
Alignment explanation
Indices: 16193101--16193324 Score: 439
Period size: 93 Copynumber: 2.4 Consensus size: 93
16193091 TGTAACCCGC
16193101 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTCGAACTCGAAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTCGAACTCGAAC
16193166 TAAACTCAACGAGTTCGAACATTCGCAT
66 TAAACTCAACGAGTTCGAACATTCGCAT
16193194 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTCGAACTCGAAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTCGAACTCGAAC
16193259 TAAACTCAACGAGTTCGAACATTCGCAT
66 TAAACTCAACGAGTTCGAACATTCGCAT
*
16193287 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAT
16193325 GCTCAACCAT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 130 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCCTAGTTACATCTCTCGAACTCGAAC
TAAACTCAACGAGTTCGAACATTCGCAT
Found at i:16195781 original size:10 final size:12
Alignment explanation
Indices: 16195750--16195774 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16195740 AATATGCTAC
16195750 GGATATGTACAG
1 GGATATGTACAG
16195762 GGATATGTACAG
1 GGATATGTACAG
16195774 G
1 G
16195775 TATGTACGTT
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:0.32, C:0.08, G:0.36, T:0.24
Consensus pattern (12 bp):
GGATATGTACAG
Found at i:16196592 original size:16 final size:16
Alignment explanation
Indices: 16196571--16196608 Score: 67
Period size: 16 Copynumber: 2.3 Consensus size: 16
16196561 GAGTGTCTAA
16196571 GTATGTCATGTTGCAT
1 GTATGTCATGTTGCAT
16196587 GTATGTCATGTTGCAT
1 GTATGTCATGTTGCAT
16196603 GCTATG
1 G-TATG
16196609 AAATATGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.42
Consensus pattern (16 bp):
GTATGTCATGTTGCAT
Found at i:16199858 original size:18 final size:16
Alignment explanation
Indices: 16199829--16199873 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 16
16199819 AATATAATCA
*
16199829 ATATTTTGAAAATTTT
1 ATATTTTTAAAATTTT
16199845 GATACTTTTTAAAATTTT
1 -ATA-TTTTTAAAATTTT
16199863 ATATTTTTAAA
1 ATATTTTTAAA
16199874 GTTGTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.31
17 6 0.23
18 12 0.46
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
ATATTTTTAAAATTTT
Found at i:16200089 original size:31 final size:30
Alignment explanation
Indices: 16200045--16200119 Score: 116
Period size: 31 Copynumber: 2.5 Consensus size: 30
16200035 AGGGTTTATA
16200045 TTTTTTATAATTTTAATAAAATTTTAATAT
1 TTTTTTATAATTTTAATAAAATTTTAATAT
* *
16200075 TTTTTTCTATATTTTTATAAAATTTTAATA-
1 TTTTTTATA-ATTTTAATAAAATTTTAATAT
16200105 TTTTTTATAATTTTA
1 TTTTTTATAATTTTA
16200120 TTCATTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 5 0.12
30 16 0.40
31 19 0.47
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (30 bp):
TTTTTTATAATTTTAATAAAATTTTAATAT
Found at i:16200107 original size:19 final size:18
Alignment explanation
Indices: 16200083--16200119 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16200073 ATTTTTTTCT
16200083 ATATTTTTATAAAATTTTA
1 ATATTTTT-TAAAATTTTA
*
16200102 ATATTTTTTATAATTTTA
1 ATATTTTTTAAAATTTTA
16200120 TTCATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATTTTTTAAAATTTTA
Found at i:16206597 original size:29 final size:29
Alignment explanation
Indices: 16206511--16206611 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
16206501 AAAAATAAAA
* * *
16206511 AAATTGCATTTTGACCCCTAAACTTTTCTTT
1 AAATTACATTTT-AACCCTAAA-TTTTCCTT
* * *
16206542 AAATTTCA-CTTAGACCCCTAAAATTTCCTT
1 AAATTACATTTTA-A-CCCTAAATTTTCCTT
*
16206572 AAATTACATTTTAACCCTAAATTTT-CTAA
1 AAATTACATTTTAACCCTAAATTTTCCT-T
16206601 AAATTACATTT
1 AAATTACATTT
16206612 AGCCCCAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
28 2 0.04
29 22 0.39
30 16 0.28
31 17 0.30
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTACATTTTAACCCTAAATTTTCCTT
Found at i:16206852 original size:15 final size:16
Alignment explanation
Indices: 16206825--16206867 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
16206815 GAAAAAAGAG
16206825 CAGCAAAAAAAA-TTC
1 CAGCAAAAAAAATTTC
16206840 CAGCAAAAAAAATTTC
1 CAGCAAAAAAAATTTC
*
16206856 TAGCAAAAAAAA
1 CAGCAAAAAAAA
16206868 AACCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 12 0.46
16 14 0.54
ACGTcount: A:0.63, C:0.16, G:0.07, T:0.14
Consensus pattern (16 bp):
CAGCAAAAAAAATTTC
Found at i:16207427 original size:16 final size:16
Alignment explanation
Indices: 16207406--16207440 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16207396 TTTTATTTGT
16207406 AATTGGTC-TAAACAAA
1 AATTGGTCTTAAA-AAA
16207422 AATTGGTCTTAAAAAA
1 AATTGGTCTTAAAAAA
16207438 AAT
1 AAT
16207441 AAAACAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (16 bp):
AATTGGTCTTAAAAAA
Found at i:16208886 original size:296 final size:296
Alignment explanation
Indices: 16208345--16208935 Score: 1092
Period size: 296 Copynumber: 2.0 Consensus size: 296
16208335 TTAATAGAAA
*
16208345 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTTGACATTAAAACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAAACACTAACTAATCAATTC
* *
16208410 GGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCTCACGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
* *
16208475 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAACCAA
131 ATTCTCTCAAGTTTCGGAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
*
16208540 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGCCTCCCATTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
16208605 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAT
261 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAT
*
16208641 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAAACACTAACTAATCAATTC
* *
16208706 AGTACTAATTTTTGGGCGTGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
66 AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
16208771 ATTCTCTCAAGTTTCGGAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGGAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
*
16208836 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
16208901 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGA
261 AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGA
16208936 CAGCTTGGCG
Statistics
Matches: 285, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
296 285 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (296 bp):
AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAAACACTAACTAATCAATTC
AGTACCAATTTTTGGGCATGTCGAGGGTGCTAATCCTTCCTCGCACGTAACTGACTCCCGAACTC
ATTCTCTCAAGTTTCGGAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
AAAGTCGATCCCCGTTTTCAAAAGAATGGTTTCGAT
Found at i:16213348 original size:20 final size:20
Alignment explanation
Indices: 16213323--16213364 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
16213313 TGGTACGAGT
16213323 CAAACACTAGTTGTGCATAC
1 CAAACACTAGTTGTGCATAC
16213343 CAAACACTAGTTGTGCATAC
1 CAAACACTAGTTGTGCATAC
16213363 CA
1 CA
16213365 CGCCGAGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (20 bp):
CAAACACTAGTTGTGCATAC
Found at i:16220168 original size:75 final size:74
Alignment explanation
Indices: 16220022--16221060 Score: 1134
Period size: 75 Copynumber: 13.5 Consensus size: 74
16220012 TTTATTTCTA
* * *
16220022 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
16220087 AATTTCTGTT
65 AATTTCTGTT
** ** *
16220097 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTT
*
16220161 CAATTTCTATT
64 CAATTTCTGTT
*
16220172 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
16220237 AATTTCTGTTCAATTTATGT
65 AATTTCTG---------T-T
**
16220257 CTTTCAAAACAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
1 -TTTCAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
16220322 CAATTTCTGCCTT
64 CAATTTCTG--TT
** * **
16220335 TTAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
16220400 ATTTCTGCCTT
66 ATTTCTG--TT
** * **
16220411 TTAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
16220476 ATTTCTGCCTT
66 ATTTCTG--TT
** * **
16220487 TTAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
* *
16220552 ATTTCTATC
66 ATTTCTGTT
* *
16220561 TTTCAAAAAAATCCACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
16220626 AATTTCTGTC
65 AATTTCTGTT
16220636 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
16220701 AATTT-TTTT
65 AATTTCTGTT
** *
16220710 CTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTT
1 -TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
*
16220775 CAATTTCTGTC
64 CAATTTCTGTT
* * * *
16220786 TTTCAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTATT
* **
16220850 TTTAATTTCTACT
62 TTCAATTTCTGTT
* * * ** *
16220863 TTTCAAAAAAATCAATCAACTCATATTGAGAGAGGTGAGTTGAACCTCAACTCACACCCTGAGAT
1 TTTC---AAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA--GACACGTTGAGGT
16220928 ATTTTCAATTTCTGTT
59 ATTTTCAATTTCTGTT
* * *
16220944 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTAT
1 TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTAT
*
16221009 TTTCAATTTTTTGGCTT
61 TTTCAA-TTTCT-G-TT
*
16221026 TTT-TAAAAATCAACTCATAATT-CGAGAGGTGAGTT
1 TTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTT
16221061 AAACTTCAGA
Statistics
Matches: 859, Mismatches: 70, Indels: 67
0.86 0.07 0.07
Matches are distributed among these distances:
73 40 0.05
74 6 0.01
75 294 0.34
76 216 0.25
77 69 0.08
78 28 0.03
79 60 0.07
80 4 0.00
81 66 0.08
82 5 0.01
84 1 0.00
85 5 0.01
86 65 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (74 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGTT
Found at i:16221600 original size:15 final size:16
Alignment explanation
Indices: 16221582--16221623 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
16221572 AAAAAAGAGT
16221582 AGCAAAAAAAA-TTCC
1 AGCAAAAAAAATTTCC
16221597 AGCAAAAAAAATTTCC
1 AGCAAAAAAAATTTCC
16221613 AGCAAAAAAAA
1 AGCAAAAAAAA
16221624 CCAAAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.64, C:0.17, G:0.07, T:0.12
Consensus pattern (16 bp):
AGCAAAAAAAATTTCC
Found at i:16222183 original size:16 final size:16
Alignment explanation
Indices: 16222162--16222196 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16222152 TTTTATTTGT
16222162 AATTGGTC-TAAACAAA
1 AATTGGTCTTAAA-AAA
16222178 AATTGGTCTTAAAAAA
1 AATTGGTCTTAAAAAA
16222194 AAT
1 AAT
16222197 AAAACAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (16 bp):
AATTGGTCTTAAAAAA
Found at i:16222455 original size:17 final size:17
Alignment explanation
Indices: 16222396--16222457 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
16222386 TTCGAATTTA
*
16222396 ATATATATATTTT-T-T
1 ATATATATATTTTGTAC
* *
16222411 ATA-ACTATATTATATAC
1 ATATA-TATATTTTGTAC
16222428 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
16222445 ATATCAT-TATTTT
1 ATAT-ATATATTTT
16222458 ATATTATTGT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
14 1 0.03
15 10 0.26
16 1 0.03
17 23 0.61
18 3 0.08
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:16222460 original size:28 final size:28
Alignment explanation
Indices: 16222429--16222528 Score: 82
Period size: 28 Copynumber: 3.5 Consensus size: 28
16222419 ATTATATACA
16222429 TATATATATT-TTGTACATATCATTATTT
1 TATAT-TATTGTTGTACATATCATTATTT
* **
16222457 TATATTATTGTTGTA-AAAAAATT-TTAT
1 TATATTATTGTTGTACATATCATTATT-T
*
16222484 GTATA-TATTTNTTTGTACATATCATTATTT
1 -TATATTA-TT-GTTGTACATATCATTATTT
*
16222514 TTTATTATTGTTGTA
1 TATATTATTGTTGTA
16222529 AAAAAATTTT
Statistics
Matches: 55, Mismatches: 9, Indels: 16
0.69 0.11 0.20
Matches are distributed among these distances:
26 2 0.04
27 12 0.22
28 21 0.38
29 10 0.18
30 8 0.15
31 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.07, T:0.57
Consensus pattern (28 bp):
TATATTATTGTTGTACATATCATTATTT
Found at i:16222507 original size:57 final size:56
Alignment explanation
Indices: 16222429--16222553 Score: 223
Period size: 57 Copynumber: 2.2 Consensus size: 56
16222419 ATTATATACA
*
16222429 TATATATATTTTGTACATATCATTATTTTATATTATTGTTGTAAAAAAATTTTATG
1 TATATATTTTTTGTACATATCATTATTTTATATTATTGTTGTAAAAAAATTTTATG
*
16222485 TATATATTTNTTTGTACATATCATTATTTTTTATTATTGTTGTAAAAAAATTTTATG
1 TATATATTT-TTTGTACATATCATTATTTTATATTATTGTTGTAAAAAAATTTTATG
16222542 TATATATTTTTT
1 TATATATTTTTT
16222554 ATGTACGTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 11 0.17
57 55 0.83
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (56 bp):
TATATATTTTTTGTACATATCATTATTTTATATTATTGTTGTAAAAAAATTTTATG
Found at i:16222585 original size:57 final size:57
Alignment explanation
Indices: 16222428--16222585 Score: 176
Period size: 57 Copynumber: 2.8 Consensus size: 57
16222418 TATTATATAC
* * *
16222428 ATATATATATTTTGTACATATCATTAT-TTTATATTATTGTTGTAAAAAAATTTTATGT
1 ATATAT-TTTTTTGTACATATCATAATATTT-TATTATTATTGTAAAAAAATTTTATGT
* * * *
16222486 ATATATTTNTTTGTACATATCATTATTTTTTATTATTGTTGTAAAAAAATTTTATGT
1 ATATATTTTTTTGTACATATCATAATATTTTATTATTATTGTAAAAAAATTTTATGT
* * * *
16222543 ATATATTTTTTATGTACGTTTCCTAATATTTTCTT-TTATTGTA
1 ATATATTTTTT-TGTACATATCATAATATTTTATTATTATTGTA
16222586 GATATTATTA
Statistics
Matches: 88, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 62 0.70
58 26 0.30
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.56
Consensus pattern (57 bp):
ATATATTTTTTTGTACATATCATAATATTTTATTATTATTGTAAAAAAATTTTATGT
Found at i:16223691 original size:296 final size:296
Alignment explanation
Indices: 16223150--16223745 Score: 1120
Period size: 296 Copynumber: 2.0 Consensus size: 296
16223140 ATTAATAAAA
16223150 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
*
16223215 GGTACCAATTTTTGCGTGTGTCGAGGGTGCTAATCCTTCATCGCATGTAACTGACTCCCGAACTC
66 GGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCATCGCATGTAACTGACTCCCGAACTC
16223280 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
*
16223345 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCGTTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
* *
16223410 AAAGTCGATCCTCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTCAATCCCCGTTTTCAAAAGAATGGTTTCGAC
*
16223446 AGATCGTATTTCAAGTCCCTTCCTGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
1 AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
* *
16223511 GGTACCAATTTTTGGGCGTGTCGAGGGTGCTAATCCTTCCTCGCATGTAACTGACTCCCGAACTC
66 GGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCATCGCATGTAACTGACTCCCGAACTC
16223576 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
131 ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
*
16223641 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGTGACTCCCATTTTAATTTTCACTTTCAAAC
196 AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
16223706 AAAGTCAATCCCCGTTTTCAAAAGAATGGTTTCGAC
261 AAAGTCAATCCCCGTTTTCAAAAGAATGGTTTCGAC
16223742 AGAT
1 AGAT
16223746 GAAATTGAAA
Statistics
Matches: 292, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
296 292 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.33
Consensus pattern (296 bp):
AGATCGTATTTCAAGTCCCTTCCCGATTTTTAATTTTCGACATTAAGACACTAACTAATCAATTC
GGTACCAATTTTTGCGCGTGTCGAGGGTGCTAATCCTTCATCGCATGTAACTGACTCCCGAACTC
ATTCTCTCAAGTTTCGTAGACCAAAGGCCCTGTTTTAGTAAACTAAAATTGATTTATTAAAACAA
AGGTGATCCGATCACACCTAATAAAAGATTGGTGGCGACTCCCATTTTAATTTTCACTTTCAAAC
AAAGTCAATCCCCGTTTTCAAAAGAATGGTTTCGAC
Found at i:16225584 original size:50 final size:50
Alignment explanation
Indices: 16225509--16226331 Score: 1404
Period size: 50 Copynumber: 16.7 Consensus size: 50
16225499 GTATAATTCC
16225509 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225559 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225609 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225659 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225709 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225759 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225809 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225859 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225909 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16225959 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16226009 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16226059 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
16226109 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
** * *
16226159 GATGCCATGTCCCAGACATGGTCTT--A-TA-CTGACACAT-TTTGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGT-GCT
* * * * *
16226205 GATG-CATGTCCTAGACAT-GTCTTACACTGGCT-T-ACATCTC-GAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTG-TGCT
* ** *
16226251 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CATCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
*
16226297 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
16226332 ACAAATGACC
Statistics
Matches: 748, Mismatches: 14, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
44 5 0.01
45 17 0.02
46 65 0.09
47 19 0.03
48 17 0.02
50 625 0.84
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCTGTGCT
Found at i:16230246 original size:28 final size:30
Alignment explanation
Indices: 16230205--16230269 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
16230195 TATAAAAATA
*
16230205 TTTTATGTAAAAAA-ACTATAAATT-TTTAT
1 TTTTATGTAAAAAATA-TAAAAATTATTTAT
*
16230234 TTTTAT-TATAAAATATAAAAATTAATTTAT
1 TTTTATGTAAAAAATATAAAAATT-ATTTAT
16230264 TTTTAT
1 TTTTAT
16230270 AAAAACATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 13 0.42
29 7 0.23
30 11 0.35
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTTATGTAAAAAATATAAAAATTATTTAT
Found at i:16230364 original size:18 final size:18
Alignment explanation
Indices: 16230341--16230390 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 18
16230331 ACCTTATAAA
16230341 AATATTTTTCATTTTT-AT
1 AATATTTTT-ATTTTTCAT
16230359 AATATTTTATATTTTTCAT
1 AATATTTT-TATTTTTCAT
16230378 ATATAATTTTTAT
1 A-AT-ATTTTTAT
16230391 AATTTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 14 0.50
19 4 0.14
20 5 0.18
21 5 0.18
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (18 bp):
AATATTTTTATTTTTCAT
Found at i:16230470 original size:20 final size:21
Alignment explanation
Indices: 16230431--16230470 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16230421 ATTATCATCA
*
16230431 CATGTCAAATACTAGTTTCAC
1 CATGTCAAATACTAGATTCAC
*
16230452 CATGTCAAATATTA-ATTCA
1 CATGTCAAATACTAGATTCA
16230471 AAATTATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (21 bp):
CATGTCAAATACTAGATTCAC
Found at i:16237966 original size:22 final size:22
Alignment explanation
Indices: 16237938--16237982 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
16237928 GAGTCAGAAT
16237938 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
16237960 AGGGGAACCCGAAATCATTCTG
1 AGGGGAACCCGAAATCATTCTG
16237982 A
1 A
16237983 CCTTGTCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (22 bp):
AGGGGAACCCGAAATCATTCTG
Found at i:16241147 original size:15 final size:17
Alignment explanation
Indices: 16241127--16241158 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16241117 TAAAGGGTTC
16241127 TCGATGA-TA-GCTACT
1 TCGATGACTAGGCTACT
16241142 TCGATGACTAGGCTACT
1 TCGATGACTAGGCTACT
16241159 ACAAAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (17 bp):
TCGATGACTAGGCTACT
Found at i:16243118 original size:26 final size:26
Alignment explanation
Indices: 16243089--16243170 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
16243079 TGATACAAAT
*
16243089 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
16243115 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16243141 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16243167 TGAT
1 TGAT
16243171 TGGAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16247198 original size:48 final size:47
Alignment explanation
Indices: 16247051--16247213 Score: 170
Period size: 46 Copynumber: 3.5 Consensus size: 47
16247041 ATGTGTGCTT
* * *
16247051 GTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AGAGCTA
* * * * **
16247097 GTGTAAGACAAGTCTGGGATATGCATCGGCATTGAGA-CGAGAGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAGAGCTA
* * *
16247143 ATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATACAAGCTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-GAGCTA
*
16247191 GTGTAAGACCTGTCTGGGACATG
1 GTGTAAGACATGTCTGGGACATG
16247214 GCGTCAGTTT
Statistics
Matches: 92, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 65 0.71
47 2 0.02
48 25 0.27
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (47 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAGAGCTA
Found at i:16251726 original size:15 final size:17
Alignment explanation
Indices: 16251706--16251737 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
16251696 TAAAGGGTTC
16251706 TCGATGA-TA-GCTACT
1 TCGATGACTAGGCTACT
16251721 TCGATGACTAGGCTACT
1 TCGATGACTAGGCTACT
16251738 ACAAAAAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (17 bp):
TCGATGACTAGGCTACT
Found at i:16255066 original size:48 final size:47
Alignment explanation
Indices: 16254962--16255172 Score: 185
Period size: 46 Copynumber: 4.5 Consensus size: 47
16254952 TATGTGTGCT
* * * *
16254962 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATAT-AAAGCC
* * *
16255008 TGTGTAAGACATGACTGGGACATACATCAGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATA-AAGCC
* * * * * *** * *
16255056 AGTGTAAGACATGTCTGGGACATGCATTGACATTGAG-CCGAGAGCT
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATAAAGCC
* * *
16255102 AATGTAAGACATGTCTGGGACATACATCGGCCTTGAGATATACAAGCT
1 AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATA-AAGCC
*
16255150 AGTGTAAGACCTGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
16255173 GGCGTCAGCT
Statistics
Matches: 129, Mismatches: 31, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
46 64 0.50
47 4 0.03
48 61 0.47
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATAAAGCC
Found at i:16255111 original size:94 final size:93
Alignment explanation
Indices: 16254962--16255173 Score: 286
Period size: 94 Copynumber: 2.3 Consensus size: 93
16254952 TATGTGTGCT
* *
16254962 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCTGTGTAAGACATGACTGGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACATTACGAGAGCCTATGTAAGACATGACTGGG
16255027 ACATACATCAGCCTCGAGATATACAAGCC
65 ACATACATCAGCCTCGAGATATACAAGCC
* *
16255056 AGTGTAAGACATGTCTGGGACATGCAT-TG-ACATTGAGCCGAGAG-CTAATGTAAGACATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACATT-A--CGAGAGCCT-ATGTAAGACATGACT
* * *
16255118 GGGACATACATCGGCCTTGAGATATACAAGCT
62 GGGACATACATCAGCCTCGAGATATACAAGCC
*
16255150 AGTGTAAGACCTGTCTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
16255174 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
91 5 0.05
92 1 0.01
93 3 0.03
94 97 0.92
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACATTACGAGAGCCTATGTAAGACATGACTGGGA
CATACATCAGCCTCGAGATATACAAGCC
Found at i:16255262 original size:49 final size:49
Alignment explanation
Indices: 16255209--16255322 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
16255199 AAGACCTACT
* * *
16255209 TGGGACATGGCATCGACAC-CGATAGATGAGAGCCAGTACAAGACCTGTC
1 TGGGACATGGCATCGAC-CTCAATAGATAAAAGCCAGTACAAGACCTGTC
* * * * **
16255258 TGGGACACGGCATCGGCCTCAATATATAAAAGTCAGTGTAAGACCTGTC
1 TGGGACATGGCATCGACCTCAATAGATAAAAGCCAGTACAAGACCTGTC
*
16255307 AGGGACATGGCATCGA
1 TGGGACATGGCATCGA
16255323 ATTTGACGTG
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
48 1 0.02
49 51 0.98
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (49 bp):
TGGGACATGGCATCGACCTCAATAGATAAAAGCCAGTACAAGACCTGTC
Found at i:16261037 original size:9 final size:9
Alignment explanation
Indices: 16261023--16261090 Score: 57
Period size: 9 Copynumber: 7.2 Consensus size: 9
16261013 TCCTTCTCTG
*
16261023 TTCTTTTGT
1 TTCTTTTAT
*
16261032 TTCTTTTCCT
1 TTCTTTT-AT
16261042 TTCTTTTAT
1 TTCTTTTAT
* *
16261051 TTATTTGTTT
1 TTCTTT-TAT
16261061 ATTCTTTTAT
1 -TTCTTTTAT
16261071 TTCTTTTAT
1 TTCTTTTAT
16261080 TTAC-TTTAT
1 TT-CTTTTAT
16261089 TT
1 TT
16261091 ATTATAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 31 0.63
10 13 0.27
11 5 0.10
ACGTcount: A:0.10, C:0.12, G:0.03, T:0.75
Consensus pattern (9 bp):
TTCTTTTAT
Found at i:16261068 original size:30 final size:30
Alignment explanation
Indices: 16261032--16261093 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
16261022 GTTCTTTTGT
* *
16261032 TTCTTTTCCTTTCTTTTATTTA-TTTGTTTA
1 TTCTTTT-ATTTCTTTTATTTACTTTATTTA
16261062 TTCTTTTATTTCTTTTATTTACTTTATTTA
1 TTCTTTTATTTCTTTTATTTACTTTATTTA
16261092 TT
1 TT
16261094 ATAATAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (30 bp):
TTCTTTTATTTCTTTTATTTACTTTATTTA
Found at i:16267486 original size:26 final size:25
Alignment explanation
Indices: 16267441--16267512 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
16267431 TATTTTCTTG
* *
16267441 AAATTTTACCAATGGCAAAATCGTC
1 AAATTTTACCAAGGGTAAAATCGTC
*
16267466 AAGATTTTACCAAGGGTAAAATTGTC
1 AA-ATTTTACCAAGGGTAAAATCGTC
* * *
16267492 AAATTTTGCTAGGGGTAAAAT
1 AAATTTTACCAAGGGTAAAAT
16267513 AAGGATTAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 18 0.45
26 22 0.55
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (25 bp):
AAATTTTACCAAGGGTAAAATCGTC
Found at i:16267880 original size:21 final size:22
Alignment explanation
Indices: 16267854--16267899 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
16267844 GCCTCTACTA
* *
16267854 TTTTGCTGTTGTTTTTCCA-TG
1 TTTTGCTATTGTTTTCCCACTG
16267875 TTTTGCTATTGTTTTCCCACTG
1 TTTTGCTATTGTTTTCCCACTG
16267897 TTT
1 TTT
16267900 GCTCTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.07, C:0.17, G:0.15, T:0.61
Consensus pattern (22 bp):
TTTTGCTATTGTTTTCCCACTG
Found at i:16273364 original size:20 final size:19
Alignment explanation
Indices: 16273317--16273365 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
16273307 AATATTTTTA
*
16273317 TAAAATTTGTTTATAATTTT
1 TAAAATTT-TTTATAAATTT
**
16273337 TATGATTTTTTATATAATTT
1 TAAAATTTTTTATA-AATTT
16273357 TAAAATTTT
1 TAAAATTTT
16273366 AAAAATGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
TAAAATTTTTTATAAATTT
Found at i:16279687 original size:3 final size:3
Alignment explanation
Indices: 16279674--16279815 Score: 277
Period size: 3 Copynumber: 47.7 Consensus size: 3
16279664 ATTCTATGTT
16279674 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16279721 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16279769 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16279816 TGTGAATGAG
Statistics
Matches: 138, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 136 0.99
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:16281453 original size:24 final size:24
Alignment explanation
Indices: 16281387--16281458 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 24
16281377 GACTCACCAC
* * *
16281387 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACCG-T-TTTT
*
16281413 AGCTCGTAAGAGCTTACTGTTTTT
1 AGCTCGTAAGAGCTTACCGTTTTT
*
16281437 AGCTCGTCAA-AGTTTACCGTTT
1 AGCTCGT-AAGAGCTTACCGTTT
16281459 CAGCTCAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 19 0.49
25 3 0.08
26 17 0.44
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (24 bp):
AGCTCGTAAGAGCTTACCGTTTTT
Found at i:16281681 original size:20 final size:19
Alignment explanation
Indices: 16281652--16281715 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 19
16281642 AGTTATGTGT
*
16281652 TTATACGGATGAATTACTG
1 TTATATGGATGAATTACTG
* *
16281671 CTTATATGGATGTAAGTATTG
1 -TTATATGGATG-AATTACTG
* *
16281692 TTTATATAGATGAGTTACTG
1 -TTATATGGATGAATTACTG
16281712 TTAT
1 TTAT
16281716 CAAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
19 4 0.11
20 15 0.43
21 16 0.46
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (19 bp):
TTATATGGATGAATTACTG
Found at i:16281697 original size:21 final size:20
Alignment explanation
Indices: 16281649--16281713 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
16281639 AAAAGTTATG
* *
16281649 TGTTTATACGGATGAATTAC
1 TGTTTATATGGATGAAGTAC
* *
16281669 TGCTTATATGGATGTAAGTAT
1 TGTTTATATGGATG-AAGTAC
*
16281690 TGTTTATATAGATG-AGTTAC
1 TGTTTATATGGATGAAG-TAC
16281710 TGTT
1 TGTT
16281714 ATCAAATGAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
19 2 0.06
20 18 0.50
21 16 0.44
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.45
Consensus pattern (20 bp):
TGTTTATATGGATGAAGTAC
Found at i:16284745 original size:20 final size:20
Alignment explanation
Indices: 16284706--16284760 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
16284696 AGTCATAATA
*
16284706 AAATGATAAAAAATGT-AAAG
1 AAAT-ATAAAAATTGTAAAAG
*
16284726 AAATATAAAATTTGTAAAAG
1 AAATATAAAAATTGTAAAAG
*
16284746 AATTATAAAAATTGT
1 AAATATAAAAATTGT
16284761 CATACCAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 9 0.30
20 21 0.70
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (20 bp):
AAATATAAAAATTGTAAAAG
Found at i:16284949 original size:20 final size:20
Alignment explanation
Indices: 16284920--16284958 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16284910 TTAAAGGGCC
16284920 TTTTTGATGAGTTTTATAAT
1 TTTTTGATGAGTTTTATAAT
* *
16284940 TTTTTTATGATTTTTATAA
1 TTTTTGATGAGTTTTATAA
16284959 AAATTTACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (20 bp):
TTTTTGATGAGTTTTATAAT
Found at i:16285003 original size:28 final size:27
Alignment explanation
Indices: 16284972--16285044 Score: 67
Period size: 28 Copynumber: 2.5 Consensus size: 27
16284962 TTTACAATTA
16284972 TTTATATTTTTACTACTTTTTAGTAAA-T
1 TTTATATTTTTA-TA-TTTTTAGTAAAGT
*
16285000 TTTAAATATTTTTTATATTTTTATTAAAGT
1 TTT--ATA-TTTTTATATTTTTAGTAAAGT
*
16285030 TTAATAATTTTTATA
1 TTTAT-ATTTTTATA
16285045 ACTTGTATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 13 0.34
29 11 0.29
30 8 0.21
31 6 0.16
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTATATTTTTATATTTTTAGTAAAGT
Found at i:16285021 original size:29 final size:29
Alignment explanation
Indices: 16284977--16285044 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
16284967 AATTATTTAT
*
16284977 ATTTTTACTACTTTTTAGTAAATTTTAAATA
1 ATTTTTA-TACTTTTTAGTAAAGTTT-AATA
* *
16285008 TTTTTTATA-TTTTTATTAAAGTTTAATA
1 ATTTTTATACTTTTTAGTAAAGTTTAATA
16285036 ATTTTTATA
1 ATTTTTATA
16285045 ACTTGTATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.36
29 13 0.39
30 2 0.06
31 6 0.18
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (29 bp):
ATTTTTATACTTTTTAGTAAAGTTTAATA
Found at i:16285053 original size:29 final size:29
Alignment explanation
Indices: 16284977--16285053 Score: 66
Period size: 29 Copynumber: 2.6 Consensus size: 29
16284967 AATTATTTAT
* * *
16284977 ATTTTTACTACTTTTTAGTAAATTTTAAATA
1 ATTTTTA-TAC-TTGTATTAAAGTTTAAATA
* * *
16285008 TTTTTTATATTTTTATTAAAGTTT-AATA
1 ATTTTTATACTTGTATTAAAGTTTAAATA
16285036 ATTTTTATAACTTGTATT
1 ATTTTTAT-ACTTGTATT
16285054 GATTTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
28 11 0.29
29 19 0.50
30 2 0.05
31 6 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (29 bp):
ATTTTTATACTTGTATTAAAGTTTAAATA
Found at i:16288270 original size:84 final size:83
Alignment explanation
Indices: 16288117--16288302 Score: 309
Period size: 84 Copynumber: 2.2 Consensus size: 83
16288107 TCGATTTGTG
* *
16288117 AGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGAC
1 AGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCGAC
16288182 TTGTTCCTTGTAAGCACA
66 TTGTTCCTTGTAAGCACA
* *
16288200 AGGATGTCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTATGCAAGGTCCTCGA
1 AGGATGTC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCGA
*
16288265 TTTGTTCCTTGTAAGCACA
65 CTTGTTCCTTGTAAGCACA
*
16288284 AGGATGCCAAACCATCTTG
1 AGGATGTCAAACCATCTTG
16288303 GATTTGTAAG
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
83 19 0.20
84 77 0.80
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (83 bp):
AGGATGTCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCGAC
TTGTTCCTTGTAAGCACA
Found at i:16288347 original size:110 final size:112
Alignment explanation
Indices: 16288199--16288413 Score: 362
Period size: 110 Copynumber: 1.9 Consensus size: 112
16288189 TTGTAAGCAC
* *
16288199 AAGGATGTCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTATGCAAGGTCCTCG
1 AAGGATGTCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCG
* *
16288264 ATTTGTTCCTTGTAAGCACAAGGATGCC-AAACCATCTTGGATTTGT
66 ACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGGATTTGT
* *
16288310 AAGGATGTC-AAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCG
1 AAGGATGTCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCG
16288374 ACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTG
66 ACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTG
16288414 AGTCTGTTTG
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
110 77 0.79
111 20 0.21
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (112 bp):
AAGGATGTCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATATGCAAGGTCCTCG
ACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGGATTTGT
Found at i:16288440 original size:194 final size:194
Alignment explanation
Indices: 16288104--16288496 Score: 732
Period size: 194 Copynumber: 2.0 Consensus size: 194
16288094 TGAGTCTGCT
* *
16288104 TCTTCGATTTGTGAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTG
1 TCTTGGATTTGTAAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTG
* *
16288169 CAAGGTCCTCGACTTGTTCCTTGTAAGCACAAGGATGTCTAAACCATCTTGAGTCTGTTTGAGAA
66 CAAGGTCCTCGACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAA
16288234 CATTTGAGAGTCATGTATGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
131 CATTTGAGAGTCATGTATGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
16288298 TCTTGGATTTGTAAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTG
1 TCTTGGATTTGTAAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTG
16288363 CAAGGTCCTCGACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAA
66 CAAGGTCCTCGACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAA
* *
16288428 CATTTTAGAGTCATGTCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
131 CATTTGAGAGTCATGTATGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
16288492 TCTTG
1 TCTTG
16288497 AGTCTGTTTG
Statistics
Matches: 193, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
194 193 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (194 bp):
TCTTGGATTTGTAAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTG
CAAGGTCCTCGACTTGTTCCTTGTAAGAACAAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAA
CATTTGAGAGTCATGTATGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCA
Found at i:16288526 original size:83 final size:83
Alignment explanation
Indices: 16288310--16288662 Score: 634
Period size: 83 Copynumber: 4.2 Consensus size: 83
16288300 TTGGATTTGT
* * * * *
16288310 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
* *
16288375 CTTGTTCCTTGTAAGAAC
66 TTTGTTCCTTGTAAGCAC
16288393 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCG
16288458 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
16288477 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
16288542 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
16288560 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
16288625 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
16288643 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
16288663 GATCTGCTTC
Statistics
Matches: 262, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
83 185 0.71
84 77 0.29
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTTAGAGTCATGTCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:16288797 original size:119 final size:119
Alignment explanation
Indices: 16288617--16289066 Score: 774
Period size: 119 Copynumber: 3.8 Consensus size: 119
16288607 TGTCTGCAAG
* * * *
16288617 GTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAAAC
1 GTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
16288682 ATCTAAAGGTTAGATCTGCTATATTTGAGAACGTATGAGAGTCAAATCTGCTAT
66 ATCTAAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
* *
16288736 TTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
1 GTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
16288801 ATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
66 ATCTAAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
*
16288855 GTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
1 GTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
16288920 ATCTGAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
66 ATCTAAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
* * *
16288974 GTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTCGGATCTGCTTCAATATAAAC
1 GTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
*
16289039 ATCTAAAGGTTAGATCTGCTATCTTTGA
66 ATCTAAAGGTTAGATCTGCTATATTTGA
16289067 TCTGTTCCCT
Statistics
Matches: 316, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 316 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
GTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTGGATCTGCTTCAGTATAAAC
ATCTAAAGGTTAGATCTGCTATATTTGAGAACGTCTGAGAGTCAAATCTGCTAT
Found at i:16289100 original size:44 final size:44
Alignment explanation
Indices: 16289052--16289231 Score: 156
Period size: 44 Copynumber: 4.1 Consensus size: 44
16289042 TAAAGGTTAG
*
16289052 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAAGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAA
* *
16289096 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAAGGATGCCAA
** * * * *
16289138 ATGCTGAAATCTTCAATCTGCTTCGC-A-AAGAGCAC-AGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAA-A-CACAAGG-ATGCCAA
* * *
16289184 ATCTACTATCTTCGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAA
16289228 ATCT
1 ATCT
16289232 TGTTTATTTG
Statistics
Matches: 106, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
42 4 0.04
43 17 0.16
44 64 0.60
45 17 0.16
46 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAAGGATGCCAA
Found at i:16290134 original size:22 final size:21
Alignment explanation
Indices: 16290107--16290166 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
16290097 TTGGCCTCTC
16290107 CATTTTTTTCTTTTTTCTCTTT
1 CATTTTTTTCTTTTTTCT-TTT
16290129 -ATTTTTTTCTCTTTTTCTTTT
1 CATTTTTTTCT-TTTTTCTTTT
*
16290150 CCTTTTTTCTCTTTTTT
1 CATTTTTT-TCTTTTTT
16290167 TTGAAATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 13 0.38
22 18 0.53
23 3 0.09
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (21 bp):
CATTTTTTTCTTTTTTCTTTT
Found at i:16290136 original size:14 final size:13
Alignment explanation
Indices: 16290112--16290157 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
16290102 CTCTCCATTT
16290112 TTTTCTTTTTTCTC
1 TTTT-TTTTTTCTC
16290126 TTTATTTTTTTCTC
1 TTT-TTTTTTTCTC
*
16290140 TTTTTCTTTTC-C
1 TTTTTTTTTTCTC
16290152 TTTTTT
1 TTTTTT
16290158 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 6 0.21
13 7 0.24
14 15 0.52
15 1 0.03
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTTTTCTC
Found at i:16299544 original size:615 final size:615
Alignment explanation
Indices: 16298374--16299602 Score: 2458
Period size: 615 Copynumber: 2.0 Consensus size: 615
16298364 GTTTCCAACA
16298374 CTGGCAACTGAAATGGCTCGTGTACTCACAGGGGGTCGATCGTGGTCTCGTCTTGAAAAACCCAA
1 CTGGCAACTGAAATGGCTCGTGTACTCACAGGGGGTCGATCGTGGTCTCGTCTTGAAAAACCCAA
16298439 AGTATTCTTTGATTGGCCTGAATCATCTCGAAATTTCTTCGATGATTGCTGAAAAGACTTTCCTG
66 AGTATTCTTTGATTGGCCTGAATCATCTCGAAATTTCTTCGATGATTGCTGAAAAGACTTTCCTG
16298504 AAGATCTTTTACGAAATTCTCCAGCTTCGACATCAGCTTTCTTTTCTCTTTACTAAGTTCTTCGG
131 AAGATCTTTTACGAAATTCTCCAGCTTCGACATCAGCTTTCTTTTCTCTTTACTAAGTTCTTCGG
16298569 CTTTGCAAGCTCGTTCGACAAGTACTACGAACTCTCGTATTTCAAGCATGCTAACAAACATCTTT
196 CTTTGCAAGCTCGTTCGACAAGTACTACGAACTCTCGTATTTCAAGCATGCTAACAAACATCTTT
16298634 ATATCTTCATTCAGCCCATCTTCAAAACGTTTACACATAATAGCCTTAGACGATACACATTCCCG
261 ATATCTTCATTCAGCCCATCTTCAAAACGTTTACACATAATAGCCTTAGACGATACACATTCCCG
16298699 AGCATATCTACTGAGTCTGACAAACTTCCATTCATAATTAGTAACTGACATGGAACCCTGTTTAA
326 AGCATATCTACTGAGTCTGACAAACTTCCATTCATAATTAGTAACTGACATGGAACCCTGTTTAA
16298764 GCTCAAGAAATTCTTTTCGTTTTTGATCAATGAACCTCTGACTGATATATTTTTTTCAAAATTCA
391 GCTCAAGAAATTCTTTTCGTTTTTGATCAATGAACCTCTGACTGATATATTTTTTTCAAAATTCA
16298829 ATTTGGAAGAATTCTCACGTCACCCGTTCTTTGGGCACAACAGAAACCAATGTATTCCACCAATA
456 ATTTGGAAGAATTCTCACGTCACCCGTTCTTTGGGCACAACAGAAACCAATGTATTCCACCAATA
16298894 ATAGGCAGAATCACGTAGCAAAGATATGGCACATTTCAGCCATTCATCAGGTGTGCAAGATAGTT
521 ATAGGCAGAATCACGTAGCAAAGATATGGCACATTTCAGCCATTCATCAGGTGTGCAAGATAGTT
16298959 CATCGAATACTCAGATAGTATTGTCCAGCG
586 CATCGAATACTCAGATAGTATTGTCCAGCG
16298989 CTGGCAACTGAAATGGCTCGTGTACTCACAGGGGGTCGATCGTGGTCTCGTCTTGAAAAACCCAA
1 CTGGCAACTGAAATGGCTCGTGTACTCACAGGGGGTCGATCGTGGTCTCGTCTTGAAAAACCCAA
16299054 AGTATTCTTTGATTGGCCTGAATCATCTCGAAATTTCTTCGATGATTGCTGAAAAGACTTTCCTG
66 AGTATTCTTTGATTGGCCTGAATCATCTCGAAATTTCTTCGATGATTGCTGAAAAGACTTTCCTG
16299119 AAGATCTTTTACGAAATTCTCCAGCTTCGACATCAGCTTTCTTTTCTCTTTACTAAGTTCTTCGG
131 AAGATCTTTTACGAAATTCTCCAGCTTCGACATCAGCTTTCTTTTCTCTTTACTAAGTTCTTCGG
16299184 CTTTGCAAGCTCGTTCGACAAGTACTACGAACTCTCGTATTTCAAGCATGCTAACAAACATCTTT
196 CTTTGCAAGCTCGTTCGACAAGTACTACGAACTCTCGTATTTCAAGCATGCTAACAAACATCTTT
16299249 ATATCTTCATTCAGCCCATCTTCAAAACGTTTACACATAATAGCCTTAGACGATACACATTCCCG
261 ATATCTTCATTCAGCCCATCTTCAAAACGTTTACACATAATAGCCTTAGACGATACACATTCCCG
16299314 AGCATATCTACTGAGTCTGACAAACTTCCATTCATAATTAGTAACTGACATGGAACCCTGTTTAA
326 AGCATATCTACTGAGTCTGACAAACTTCCATTCATAATTAGTAACTGACATGGAACCCTGTTTAA
16299379 GCTCAAGAAATTCTTTTCGTTTTTGATCAATGAACCTCTGACTGATATATTTTTTTCAAAATTCA
391 GCTCAAGAAATTCTTTTCGTTTTTGATCAATGAACCTCTGACTGATATATTTTTTTCAAAATTCA
16299444 ATTTGGAAGAATTCTCACGTCACCCGTTCTTTGGGCACAACAGAAACCAATGTATTCCACCAATA
456 ATTTGGAAGAATTCTCACGTCACCCGTTCTTTGGGCACAACAGAAACCAATGTATTCCACCAATA
16299509 ATAGGCAGAATCACGTAGCAAAGATATGGCACATTTCAGCCATTCATCAGGTGTGCAAGATAGTT
521 ATAGGCAGAATCACGTAGCAAAGATATGGCACATTTCAGCCATTCATCAGGTGTGCAAGATAGTT
16299574 CATCGAATACTCAGATAGTATTGTCCAGC
586 CATCGAATACTCAGATAGTATTGTCCAGC
16299603 CAAAATTCAG
Statistics
Matches: 614, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
615 614 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (615 bp):
CTGGCAACTGAAATGGCTCGTGTACTCACAGGGGGTCGATCGTGGTCTCGTCTTGAAAAACCCAA
AGTATTCTTTGATTGGCCTGAATCATCTCGAAATTTCTTCGATGATTGCTGAAAAGACTTTCCTG
AAGATCTTTTACGAAATTCTCCAGCTTCGACATCAGCTTTCTTTTCTCTTTACTAAGTTCTTCGG
CTTTGCAAGCTCGTTCGACAAGTACTACGAACTCTCGTATTTCAAGCATGCTAACAAACATCTTT
ATATCTTCATTCAGCCCATCTTCAAAACGTTTACACATAATAGCCTTAGACGATACACATTCCCG
AGCATATCTACTGAGTCTGACAAACTTCCATTCATAATTAGTAACTGACATGGAACCCTGTTTAA
GCTCAAGAAATTCTTTTCGTTTTTGATCAATGAACCTCTGACTGATATATTTTTTTCAAAATTCA
ATTTGGAAGAATTCTCACGTCACCCGTTCTTTGGGCACAACAGAAACCAATGTATTCCACCAATA
ATAGGCAGAATCACGTAGCAAAGATATGGCACATTTCAGCCATTCATCAGGTGTGCAAGATAGTT
CATCGAATACTCAGATAGTATTGTCCAGCG
Found at i:16300603 original size:267 final size:266
Alignment explanation
Indices: 16300129--16300660 Score: 1019
Period size: 267 Copynumber: 2.0 Consensus size: 266
16300119 TTAAGGCTAA
*
16300129 GAGGTATTACCGAACTAAACATTTAATTATCTCATTCATAGTGTCAATAACATAAACAGAGATCG
1 GAGGTATTACCGAACTAAACATTTAATTATCTCATTCACAGTGTCAATAACATAAACAGAGATCG
16300194 AGCTGAAATACATACTGATATTTAAGTTATACGCCATTTTCGTATGGCCAAAATATTTACAATTT
66 AGCTGAAATACATACTGATATTTAAGTTATACGCCATTTTCGTATGGCCAAAATATTTACAATTT
16300259 CAAAACATAGTTATCATCAGCCTAACCTATACATGCCATATCGAGTCCAAAATATAACTATACCA
131 CAAAACATAGTTATCATCAGCCTAACCTATACATGCCATATCGAGTCCAAAATATAACTATACCA
16300324 AAAAGATCGATAGTGTGATGAACTGCTGACGATCCCCGAGTCGGTGGCCAAAATAAAAAATCTAT
196 AAAAGATCGATAGTGTGATGAACTGCTGACGATCCCCGAGTCGGTGGCCAAAATAAAAAATCTAT
16300389 AAAACG
261 AAAACG
16300395 GAGGTATTACCGAACTAAACATTTAATTATCTCATTCACAGTGTCAATAAACATAAACAGAGATC
1 GAGGTATTACCGAACTAAACATTTAATTATCTCATTCACAGTGTCAAT-AACATAAACAGAGATC
16300460 GAGCTGAAATACATACTGATATTTAAGTTATACGCCATTTTCGTATGGCCAAAATATTTACAATT
65 GAGCTGAAATACATACTGATATTTAAGTTATACGCCATTTTCGTATGGCCAAAATATTTACAATT
16300525 TCAAAACATAGTTATCATCAGCCTAACCTATACATGCCATATCGAGTCCAAAATATAACTATACC
130 TCAAAACATAGTTATCATCAGCCTAACCTATACATGCCATATCGAGTCCAAAATATAACTATACC
* * *
16300590 AAAAATATCGATAGTGTGATGAACTGCTGACGATCCCCGAGTCGGTGGCCAAAATCAACAATCTA
195 AAAAAGATCGATAGTGTGATGAACTGCTGACGATCCCCGAGTCGGTGGCCAAAATAAAAAATCTA
16300655 TAAAAC
260 TAAAAC
16300661 AGAGAAATAA
Statistics
Matches: 261, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
266 47 0.18
267 214 0.82
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (266 bp):
GAGGTATTACCGAACTAAACATTTAATTATCTCATTCACAGTGTCAATAACATAAACAGAGATCG
AGCTGAAATACATACTGATATTTAAGTTATACGCCATTTTCGTATGGCCAAAATATTTACAATTT
CAAAACATAGTTATCATCAGCCTAACCTATACATGCCATATCGAGTCCAAAATATAACTATACCA
AAAAGATCGATAGTGTGATGAACTGCTGACGATCCCCGAGTCGGTGGCCAAAATAAAAAATCTAT
AAAACG
Found at i:16301145 original size:38 final size:40
Alignment explanation
Indices: 16301101--16301293 Score: 159
Period size: 39 Copynumber: 5.0 Consensus size: 40
16301091 TGAAACCAAT
* *
16301101 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGG-TATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * *
16301139 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* * * *
16301178 TTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAA
1 TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
16301217 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATAA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATAA
* ** *
16301256 TTCCAGCAC-ATAGCCTGC-GGACCCTAAGTCCGGATATA
1 TACCAGCACGA-AGCCTGCGGGACTTTAAGCCCGGATATA
16301294 CATCACTGAA
Statistics
Matches: 137, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.15
39 117 0.85
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (40 bp):
TACCAGCACGAAGCCTGCGGGACTTTAAGCCCGGATATAA
Found at i:16301197 original size:78 final size:78
Alignment explanation
Indices: 16301098--16301275 Score: 175
Period size: 78 Copynumber: 2.3 Consensus size: 78
16301088 ACTTGAAACC
* * *
16301098 AATTACCAGCACAAGCCTGCGGGAATTTAAACCCGG-TATAATACCAGCTCGA-AGCCTGCGGGA
1 AATT-CCAGCACTAGCCTGCGGGAACTTAAACCCGGATATAATACCAGCAC-ATAGCCTGC-GGA
* *
16301161 -CTTTAGCCCGGACAT
63 CCCTAAGCCCGGACAT
* * ** *
16301176 ATTTCCAGCACGTAGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGACC
1 AATTCCAGCAC-TAGCCTGCGGGAACTTAAACCCGGATATAATACCAGCACATAGCCTGCGGACC
* *
16301240 CTAAGTCCGGATAT
65 CTAAGCCCGGACAT
16301254 AATTCCAGCACATAGCCTGCGG
1 AATTCCAGCAC-TAGCCTGCGG
16301276 ACCCTAAGTC
Statistics
Matches: 81, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
77 22 0.27
78 58 0.72
79 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (78 bp):
AATTCCAGCACTAGCCTGCGGGAACTTAAACCCGGATATAATACCAGCACATAGCCTGCGGACCC
TAAGCCCGGACAT
Found at i:16301276 original size:39 final size:39
Alignment explanation
Indices: 16301168--16301293 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
16301158 GGACTTTAGC
* * * *
16301168 CCGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16301207 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16301246 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
16301285 CCGGATATA
1 CCGGATATA
16301294 CATCACTGAA
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:16303571 original size:27 final size:27
Alignment explanation
Indices: 16303533--16304031 Score: 669
Period size: 27 Copynumber: 18.5 Consensus size: 27
16303523 NNNNNNNNNN
*
16303533 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303560 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303587 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303614 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
16303641 TAAATCGAGGGTAAAATAGTAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
* ** *
16303668 TCAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTG
* * * * *
16303695 TAAATTGAGGGCAAAACAATAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
**
16303722 TAAATCGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
* *
16303749 TAAATTGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303776 TAAAAT-GAGGGTAAAATAGTAATTCTA
1 T-AAATCGAGGGTAAAATAGTAATTCTG
* * *
16303803 TCAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTG
* *
16303830 TCAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303857 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303884 TAAATCGAGGGTAAAATAGTAATTCTA
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303911 TAAATTGAGGGTAAAA-AGATAATTCTG
1 TAAATCGAGGGTAAAATAG-TAATTCTG
** *
16303938 TAAATCGAGGGTAAAACGGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
* *
16303965 TAAATTGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16303992 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTG
*
16304019 TAATTCGAGGGTA
1 TAAATCGAGGGTA
16304032 CTTTGATAAT
Statistics
Matches: 427, Mismatches: 41, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
26 5 0.01
27 417 0.98
28 5 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
TAAATCGAGGGTAAAATAGTAATTCTG
Found at i:16304055 original size:27 final size:27
Alignment explanation
Indices: 16304020--16304156 Score: 127
Period size: 27 Copynumber: 5.0 Consensus size: 27
16304010 GTAATTTTGT
16304020 AATTCGAGGGTACTTT-GATAATTTTACA
1 AATT-GAGGGTA-TTTCGATAATTTTACA
* *
16304048 AGTTGAGGGTATTTCAATAATTTTACA
1 AATTGAGGGTATTTCGATAATTTTACA
*
16304075 AATTAAGGGTATTTCGATAATTTTACA
1 AATTGAGGGTATTTCGATAATTTTACA
* * * * *
16304102 AATCGAGGATATTTGGGTAATTTTATA
1 AATTGAGGGTATTTCGATAATTTTACA
* *
16304129 AA-TCAGGGGTACTTT-GGTAATTTTACA
1 AATTGA-GGGTA-TTTCGATAATTTTACA
16304156 A
1 A
16304157 CTGGGGGTAT
Statistics
Matches: 91, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.04
27 81 0.89
28 6 0.07
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (27 bp):
AATTGAGGGTATTTCGATAATTTTACA
Found at i:16304069 original size:54 final size:52
Alignment explanation
Indices: 16304009--16304182 Score: 161
Period size: 54 Copynumber: 3.2 Consensus size: 52
16303999 AGGGTAAAAT
16304009 AGTAATTTTGTAATTCGAGGGTACTTTGATAATTTTACAAGTTGAGGGTATTTC
1 AGTAATTTTGTAATTC-AGGGTACTTTGATAATTTTACAA-TTGAGGGTATTTC
* ** * * * *
16304063 AATAATTTTACAAATTAAGGGTA-TTTCGATAATTTTACAAATCGAGGATATTTG
1 AGTAATTTT-GTAATTCAGGGTACTTT-GATAATTTTAC-AATTGAGGGTATTTC
* * * * * * *
16304117 GGTAATTTTATAAATCAGGGGTACTTTGGTAATTTTACAACTGGGGGTATTTT
1 AGTAATTTTGTAATTCA-GGGTACTTTGATAATTTTACAATTGAGGGTATTTC
16304170 AGTAATTTTGTAA
1 AGTAATTTTGTAA
16304183 ACTAAAGTAT
Statistics
Matches: 94, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
53 28 0.30
54 57 0.61
55 9 0.10
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (52 bp):
AGTAATTTTGTAATTCAGGGTACTTTGATAATTTTACAATTGAGGGTATTTC
Found at i:16305854 original size:6 final size:6
Alignment explanation
Indices: 16305845--16305917 Score: 60
Period size: 6 Copynumber: 11.8 Consensus size: 6
16305835 AAACAAAATG
* * *
16305845 AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
16305894 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
16305918 GTGAATGCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
5 3 0.06
6 43 0.81
7 5 0.09
8 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:16305882 original size:31 final size:31
Alignment explanation
Indices: 16305836--16305917 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
16305826 CAGAACTAGA
* * *
16305836 AACAAAATGAGAATCAGAATCAGAATTAGGT
1 AACAGAATCAGAATCAGAATCAGAATCAGGT
* *
16305867 GACAGAATCAGAATCAGAATCAGTATCAGGT
1 AACAGAATCAGAATCAGAATCAGAATCAGGT
*
16305898 AACAGAATCAAAATCAGAAT
1 AACAGAATCAGAATCAGAAT
16305918 GTGAATGCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.18
Consensus pattern (31 bp):
AACAGAATCAGAATCAGAATCAGAATCAGGT
Found at i:16306437 original size:27 final size:27
Alignment explanation
Indices: 16306414--16306624 Score: 269
Period size: 27 Copynumber: 7.8 Consensus size: 27
16306404 ATCATTTAAC
*
16306414 AAATCGAGGGTAAAATGGTAATTTTAT
1 AAATCGAGGGTAAAATAGTAATTTTAT
** *
16306441 AAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAATAGTAATTTTAT
* * *
16306468 AAATCGAGTGTAAAATAATAATTTTGT
1 AAATCGAGGGTAAAATAGTAATTTTAT
*
16306495 AAATCGAGGGTAAAATAGTAATTTTGT
1 AAATCGAGGGTAAAATAGTAATTTTAT
* * * *
16306522 AAATCGAGGGTAAAACAATAATTCTGT
1 AAATCGAGGGTAAAATAGTAATTTTAT
* * *
16306549 CAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAATAGTAATTTTAT
*
16306576 AAATCGAGGGTAAAATAGTAATTTTGT
1 AAATCGAGGGTAAAATAGTAATTTTAT
*
16306603 AAATCGAGGGTAAAACAGTAAT
1 AAATCGAGGGTAAAATAGTAAT
16306625 CCTATATTTA
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
AAATCGAGGGTAAAATAGTAATTTTAT
Found at i:16306481 original size:54 final size:54
Alignment explanation
Indices: 16306414--16306630 Score: 299
Period size: 54 Copynumber: 4.0 Consensus size: 54
16306404 ATCATTTAAC
** * *
16306414 AAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTAT
1 AAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
* * * *
16306468 AAATCGAGTGTAAAATAATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGT
1 AAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
* * * **
16306522 AAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGTAAAATGGTAATTCTAT
1 AAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
* *
16306576 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATCCTAT
1 AAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
16306630 A
1 A
16306631 TTTAAAGTAG
Statistics
Matches: 141, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 141 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (54 bp):
AAATCGAGGGTAAAATAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
Found at i:16306554 original size:81 final size:81
Alignment explanation
Indices: 16306414--16306630 Score: 326
Period size: 81 Copynumber: 2.7 Consensus size: 81
16306404 ATCATTTAAC
* * * *
16306414 AAATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGTGT
1 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
* *
16306479 AAAATAATAATTTTGT
66 AAAATAATAATTCTAT
* * *
16306495 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTCAATCGAGGGT
1 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
**
16306560 AAAATGGTAATTCTAT
66 AAAATAATAATTCTAT
*
16306576 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATCCTATA
1 AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
16306631 TTTAAAGTAG
Statistics
Matches: 121, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 121 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (81 bp):
AAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGT
AAAATAATAATTCTAT
Found at i:16310750 original size:28 final size:27
Alignment explanation
Indices: 16310693--16310844 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
16310683 TAAATTGTGC
* *
16310693 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
16310720 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
16310748 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16310775 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
16310803 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
16310830 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16310845 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:16310758 original size:55 final size:55
Alignment explanation
Indices: 16310693--16310844 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
16310683 TAAATTGTGC
* *
16310693 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
16310748 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
16310803 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
16310845 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:16315855 original size:27 final size:27
Alignment explanation
Indices: 16315825--16316002 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
16315815 ATATCGAGTC
* * * *
16315825 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
16315852 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16315879 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16315907 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16315934 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16315961 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16315988 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16316003 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16315964 original size:82 final size:81
Alignment explanation
Indices: 16315846--16316001 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
16315836 TGCTATATAA
*
16315846 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16315911 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16315928 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16315992 CACTTAGTGC
65 CACTTAGTGC
16316002 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16318260 original size:31 final size:31
Alignment explanation
Indices: 16318222--16318285 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
16318212 TTTTGACGAT
*
16318222 CTGTGGCTACCTTCAGACTTTCGCGGATTAC
1 CTGTGGCTACCTTCAGACTTTCACGGATTAC
16318253 CTGTGGCTACCTTCAGACTTTCACGGATTAC
1 CTGTGGCTACCTTCAGACTTTCACGGATTAC
16318284 CT
1 CT
16318286 TTACTTTCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (31 bp):
CTGTGGCTACCTTCAGACTTTCACGGATTAC
Found at i:16323936 original size:27 final size:27
Alignment explanation
Indices: 16323906--16324083 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
16323896 ATATTGAGTC
* * * *
16323906 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
16323933 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16323960 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
16323988 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
16324015 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
16324042 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
16324069 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
16324084 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:16324045 original size:82 final size:81
Alignment explanation
Indices: 16323927--16324082 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
16323917 TGCTATATAA
* *
16323927 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
16323992 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
16324009 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
16324073 CACTTAGTGC
65 CACTTAGTGC
16324083 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:16330144 original size:30 final size:30
Alignment explanation
Indices: 16330098--16330157 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
16330088 TTCCCGAGCC
16330098 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* *
16330128 TAGGGGCAAAAA-TGTAATTTTGCCAAAGTT
1 TAGGGG-AAAAAGTGTAATTATGCAAAAGTT
16330158 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:16330651 original size:47 final size:46
Alignment explanation
Indices: 16330582--16330706 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 46
16330572 ATGGTTGAGT
* *
16330582 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATGT-AACTAGCC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGTGAAC--G-C
*
16330628 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGTGAACGC
16330676 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
16330707 TATGGGCGGG
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
46 31 0.44
47 28 0.39
48 3 0.04
49 1 0.01
50 5 0.07
51 3 0.04
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGTGAACGC
Done.