Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 84 of 133
Found at i:16659113 original size:18 final size:18
Alignment explanation
Indices: 16659082--16659133 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
16659072 AAGATAAGAA
*
16659082 AAAATAAGTTAATAAAAGT
1 AAAATAA-TAAATAAAAGT
16659101 AAAACTAA-AAAT-AAAGT
1 AAAA-TAATAAATAAAAGT
*
16659118 AGAATAATAAATAAAA
1 AAAATAATAAATAAAA
16659134 AACAAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 6 0.21
19 4 0.14
20 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (18 bp):
AAAATAATAAATAAAAGT
Found at i:16659143 original size:12 final size:13
Alignment explanation
Indices: 16659126--16659154 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16659116 GTAGAATAAT
16659126 AAAT-AAAAAACA
1 AAATAAAAAAACA
16659138 AAATAAAAAAACA
1 AAATAAAAAAACA
16659151 AAAT
1 AAAT
16659155 TATATTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (13 bp):
AAATAAAAAAACA
Found at i:16659975 original size:53 final size:53
Alignment explanation
Indices: 16659901--16660004 Score: 131
Period size: 51 Copynumber: 2.0 Consensus size: 53
16659891 AAAAAATTTG
*
16659901 TTTTAAAAAATATATTAAGGAAAAAAATTCAAATATCAATTTCTCCTTAAATAAA
1 TTTTAAAAAATATATTAAGG--AAAAATTCAAATATCAATTTCTCCTAAAATAAA
* * * *
16659956 TTTTTAAAAATAT-TT-AGGAAAATTTGAAATATCAATTTTTCCTAAAATA
1 TTTTAAAAAATATATTAAGGAAAAATTCAAATATCAATTTCTCCTAAAATA
16660005 TCCTTGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 27 0.61
53 3 0.07
54 2 0.05
55 12 0.27
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.38
Consensus pattern (53 bp):
TTTTAAAAAATATATTAAGGAAAAATTCAAATATCAATTTCTCCTAAAATAAA
Found at i:16660853 original size:11 final size:12
Alignment explanation
Indices: 16660825--16660854 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16660815 TTTCAATATT
16660825 AAATTCTTTTGA
1 AAATTCTTTTGA
16660837 AAATTCTTTTG-
1 AAATTCTTTTGA
16660848 AAATTCT
1 AAATTCT
16660855 ACCTAACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (12 bp):
AAATTCTTTTGA
Found at i:16662716 original size:35 final size:34
Alignment explanation
Indices: 16662677--16662782 Score: 99
Period size: 34 Copynumber: 3.1 Consensus size: 34
16662667 AAATGATCGA
*
16662677 GATTAAGCCATAAAG-TCGAAATATGAAGTGACCTG
1 GATTAAGCCA-AAAGAT-AAAATATGAAGTGACCTG
* *
16662712 GATTAAGCCACAAGATAAAATATGAAGTGACCTA
1 GATTAAGCCAAAAGATAAAATATGAAGTGACCTG
* * * * * *
16662746 AACTAAACCACAA-ATAAAAAATGAAGTGATCTG
1 GATTAAGCCAAAAGATAAAATATGAAGTGACCTG
16662779 GATT
1 GATT
16662783 GAACCACGAG
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
33 19 0.32
34 29 0.49
35 11 0.19
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (34 bp):
GATTAAGCCAAAAGATAAAATATGAAGTGACCTG
Found at i:16662738 original size:34 final size:33
Alignment explanation
Indices: 16662695--16662803 Score: 114
Period size: 33 Copynumber: 3.3 Consensus size: 33
16662685 CATAAAGTCG
16662695 AAATATGAAGTGACCTGGATTAAGCCACAAGATA
1 AAATATGAAGTGACCTGGATTAA-CCACAAGATA
** *
16662729 AAATATGAAGTGACCTAAACTAAACCACAA-ATA
1 AAATATGAAGTGACCTGGA-TTAACCACAAGATA
* * * *
16662762 AAAAATGAAGTGATCTGGATTGAACCACGAGTTA
1 AAATATGAAGTGACCTGGATT-AACCACAAGATA
16662796 AAA-ATGAA
1 AAATATGAA
16662804 ATAATTGGGA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
32 1 0.02
33 30 0.48
34 28 0.45
35 3 0.05
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (33 bp):
AAATATGAAGTGACCTGGATTAACCACAAGATA
Found at i:16662770 original size:33 final size:34
Alignment explanation
Indices: 16662699--16662774 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
16662689 AAGTCGAAAT
** * * *
16662699 ATGAAGTGACCTGGATTAAGCCACAAGATAAAAT
1 ATGAAGTGACCTAAACTAAACCACAAGATAAAAA
16662733 ATGAAGTGACCTAAACTAAACCACAA-ATAAAAA
1 ATGAAGTGACCTAAACTAAACCACAAGATAAAAA
16662766 ATGAAGTGA
1 ATGAAGTGA
16662775 TCTGGATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 15 0.41
34 22 0.59
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.18
Consensus pattern (34 bp):
ATGAAGTGACCTAAACTAAACCACAAGATAAAAA
Found at i:16662788 original size:33 final size:32
Alignment explanation
Indices: 16662627--16662803 Score: 106
Period size: 33 Copynumber: 5.3 Consensus size: 32
16662617 CCATAAACCG
* * * *
16662627 AAAAAAAGAA-TGATCAGGATTAAAACACAAGT
1 AAAAAATGAAGTGATCTGGATT-AACCACAAAT
* *
16662659 AAAAAATGAAATGATC-GAGATTAAGCCATAAAGT
1 AAAAAATGAAGTGATCTG-GATTAA-CCACAAA-T
* * *
16662693 CGAAATATGAAGTGACCTGGATTAAGCCACAAGAT
1 -AAAAAATGAAGTGATCTGGATTAA-CCACAA-AT
* * ** *
16662728 AAAATATGAAGTGACCTAAACTAAACCACAAAT
1 AAAAAATGAAGTGATCTGGA-TTAACCACAAAT
* *
16662761 AAAAAATGAAGTGATCTGGATTGAACCACGAGT
1 AAAAAATGAAGTGATCTGGATT-AACCACAAAT
*
16662794 TAAAAATGAA
1 AAAAAATGAA
16662804 ATAATTGGGA
Statistics
Matches: 115, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
32 13 0.11
33 48 0.42
34 24 0.21
35 28 0.24
36 2 0.02
ACGTcount: A:0.51, C:0.12, G:0.18, T:0.19
Consensus pattern (32 bp):
AAAAAATGAAGTGATCTGGATTAACCACAAAT
Found at i:16663100 original size:62 final size:61
Alignment explanation
Indices: 16662983--16663100 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
16662973 TGCTAACTTC
* * *
16662983 ATTGGGCTTAAATCTCTTGTCGCATCCAACTTAATTGGGCTTAAAACTTTATGCCAACTAT
1 ATTGGACTTAAAACTCTTGTCGCATCCAACTTAACTGGGCTTAAAACTTTATGCCAACTAT
* * *
16663044 ATTGGACTTAAAACTCTTGTCTTGCAT-TAATTTAACTGGGCTTAAAACTTTGTGCCA
1 ATTGGACTTAAAACTCTTGTC--GCATCCAACTTAACTGGGCTTAAAACTTTATGCCA
16663101 GCTAGATTAG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
61 19 0.39
62 26 0.53
63 4 0.08
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.37
Consensus pattern (61 bp):
ATTGGACTTAAAACTCTTGTCGCATCCAACTTAACTGGGCTTAAAACTTTATGCCAACTAT
Found at i:16672850 original size:2 final size:2
Alignment explanation
Indices: 16672843--16672869 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
16672833 TGTTTTATTT
16672843 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
16672870 TACTCTTCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16674723 original size:58 final size:58
Alignment explanation
Indices: 16674624--16674737 Score: 147
Period size: 58 Copynumber: 2.0 Consensus size: 58
16674614 TAAAAGTTTA
* * * * *
16674624 GGATTAAAATAGATAATATCTCACAGGTTGAATGCGGGTCTCTACACAAATCCTATTT
1 GGATCAAAATAGATAATATATCACAGGTTGAATACGAGTCTCCACACAAATCCTATTT
* * * *
16674682 GGATCAAAATAGATAATATATTACAGGTTGAGTATGAGTCTCCATACAAATCCTAT
1 GGATCAAAATAGATAATATATCACAGGTTGAATACGAGTCTCCACACAAATCCTAT
16674738 GCTATAGCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (58 bp):
GGATCAAAATAGATAATATATCACAGGTTGAATACGAGTCTCCACACAAATCCTATTT
Found at i:16676172 original size:21 final size:21
Alignment explanation
Indices: 16676121--16676183 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 21
16676111 AACTTAAAAT
16676121 AAATAAATATTTTGAATAAATAAA
1 AAATAAA-A-TTTGAA-AAATAAA
16676145 AACATAAAATTTGAAAAATAAA
1 AA-ATAAAATTTGAAAAATAAA
*
16676167 AAATAAAATTTTAAAAA
1 AAATAAAATTTGAAAAA
16676184 AATTAAAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
21 14 0.38
22 9 0.24
23 6 0.16
24 3 0.08
25 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.29
Consensus pattern (21 bp):
AAATAAAATTTGAAAAATAAA
Found at i:16676190 original size:17 final size:18
Alignment explanation
Indices: 16676164--16676207 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
16676154 TTTGAAAAAT
16676164 AAAAAA-TAAAAT-TTTA
1 AAAAAATTAAAATATTTA
16676180 AAAAAATTAAAATATTTA
1 AAAAAATTAAAATATTTA
*
16676198 AAGAAATTAA
1 AAAAAATTAA
16676208 TTTAATGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.24
17 6 0.24
18 13 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAAAATTAAAATATTTA
Found at i:16676191 original size:22 final size:21
Alignment explanation
Indices: 16676116--16676193 Score: 63
Period size: 22 Copynumber: 3.5 Consensus size: 21
16676106 TCAAAAACTT
16676116 AAAAT-AAATAAATATTTTGAATA
1 AAAATAAAATAAA-ATTTT-AA-A
*
16676139 AATAA-AAACATAAAATTTGAAA
1 AA-AATAAA-ATAAAATTTTAAA
16676161 AATAA-AAAATAAAATTTTAAA
1 AA-AATAAAATAAAATTTTAAA
16676182 AAAATTAAAATA
1 AAAA-TAAAATA
16676194 TTTAAAGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 15 0.31
23 4 0.08
24 8 0.17
25 5 0.10
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAATAAAATAAAATTTTAAA
Found at i:16676191 original size:23 final size:22
Alignment explanation
Indices: 16676121--16676184 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
16676111 AACTTAAAAT
*
16676121 AAATAAATATTTTGAATAAATAAA
1 AAATAAA-ATTTT-AAAAAATAAA
*
16676145 AACATAAAA-TTTGAAAAATAAA
1 AA-ATAAAATTTTAAAAAATAAA
16676167 AAATAAAATTTTAAAAAA
1 AAATAAAATTTTAAAAAA
16676185 ATTAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
21 6 0.17
22 18 0.51
23 3 0.09
24 3 0.09
25 5 0.14
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (22 bp):
AAATAAAATTTTAAAAAATAAA
Found at i:16676297 original size:25 final size:25
Alignment explanation
Indices: 16676269--16676325 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
16676259 AAATTCTTTT
* *
16676269 AAAAATATATATTTTTT-ACAAATGA
1 AAAAATATA-ATTTTTTAAAAAATAA
16676294 AAAAATATAATTTTTTAAAAAATAA
1 AAAAATATAATTTTTTAAAAAATAA
16676319 AAAAATA
1 AAAAATA
16676326 AAAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (25 bp):
AAAAATATAATTTTTTAAAAAATAA
Found at i:16676323 original size:8 final size:8
Alignment explanation
Indices: 16676310--16676336 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
16676300 ATAATTTTTT
16676310 AAAAAATA
1 AAAAAATA
16676318 AAAAAATA
1 AAAAAATA
16676326 AAAAAATA
1 AAAAAATA
16676334 AAA
1 AAA
16676337 TTAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAAATA
Found at i:16676380 original size:23 final size:23
Alignment explanation
Indices: 16676354--16676407 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
16676344 TTTAAAAATC
*
16676354 TAAAAAATTGAAATATTAA-ATTT
1 TAAAAAATTAAAATA-TAATATTT
* *
16676377 TAAAAAAATAAAATATAATGTTT
1 TAAAAAATTAAAATATAATATTT
16676400 TAAAAAAT
1 TAAAAAAT
16676408 GATTATTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAAAAATTAAAATATAATATTT
Found at i:16676389 original size:31 final size:30
Alignment explanation
Indices: 16676316--16676389 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
16676306 TTTTAAAAAA
16676316 TAAAAAAATAAAAAAATAAAATTAATATTT
1 TAAAAAAATAAAAAAATAAAATTAATATTT
** *
16676346 TAAAAATCTAAAAAATTGAAATATTAA-ATTT
1 TAAAAAAATAAAAAAAT-AAA-ATTAATATTT
16676377 TAAAAAAATAAAA
1 TAAAAAAATAAAA
16676390 TATAATGTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 14 0.38
31 18 0.49
32 5 0.14
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (30 bp):
TAAAAAAATAAAAAAATAAAATTAATATTT
Found at i:16676538 original size:18 final size:18
Alignment explanation
Indices: 16676515--16676552 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
16676505 AAAAAATTAT
*
16676515 AATATGTTTTTTTAAAAA
1 AATATGATTTTTTAAAAA
16676533 AATATGATTTTTTAAAAA
1 AATATGATTTTTTAAAAA
16676551 AA
1 AA
16676553 ATATTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (18 bp):
AATATGATTTTTTAAAAA
Found at i:16676680 original size:23 final size:24
Alignment explanation
Indices: 16676641--16676686 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
16676631 AAACTACTTT
*
16676641 TTTTAAAAACTTGAAAAGAAAAAA
1 TTTTAAAAAATTGAAAAGAAAAAA
16676665 TTTTAAAAAATT-AAAAGAAAAA
1 TTTTAAAAAATTGAAAAGAAAAA
16676687 TGCAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (24 bp):
TTTTAAAAAATTGAAAAGAAAAAA
Found at i:16679157 original size:7 final size:7
Alignment explanation
Indices: 16679140--16679174 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
16679130 TTGCCATTCC
16679140 CAATGGGG
1 CAAT-GGG
16679148 CAATGGG
1 CAATGGG
16679155 CAATGGG
1 CAATGGG
16679162 CAATGGG
1 CAATGGG
16679169 CAATGG
1 CAATGG
16679175 TCGTTTGTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.29, C:0.14, G:0.43, T:0.14
Consensus pattern (7 bp):
CAATGGG
Found at i:16684834 original size:16 final size:15
Alignment explanation
Indices: 16684813--16684842 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16684803 TTTTATTATA
16684813 CATATTTATATATTAG
1 CATATTTATA-ATTAG
16684829 CATATTTATAATTA
1 CATATTTATAATTA
16684843 TAAATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
CATATTTATAATTAG
Found at i:16686799 original size:143 final size:144
Alignment explanation
Indices: 16686602--16686901 Score: 313
Period size: 143 Copynumber: 2.1 Consensus size: 144
16686592 GATCAATATT
* * * * * *
16686602 AAACATTATGTTATGATTTTTTGTGCATTAAAAACCCTAATAGCACCTCGAAATGGTTAAAATTA
1 AAACATTATTTTATGATTTTTTATACATTAAAAACCCTAATAGCACCTCAAAATGATTAAAATGA
* * * **
16686667 TC-AAAAT-ACCCTTTAAGAGTATTTTCGTAATTTAACCTTATCGAG-TTGGTGTT-TCGTGAAA
66 -CGAAAATGA-CCTTTAAGAATATTTTCATAATTTAACCTTATCGAGATTGAT-TTATCAAGAAA
*
16686728 AGCTTCATATCATGATA
128 AGCTTCAAATCATGATA
* * * **
16686745 AAACATTATTTTATGATTTTTTATACATTAGAAAA-CCTGATTGGATTTCAAAATGATTAAAATG
1 AAACATTATTTTATGATTTTTTATACATTA-AAAACCCTAATAGCACCTCAAAATGATTAAAATG
* * * * * *
16686809 ACGAAAATGACCTTTAGGAATATTTTCATAATTTGACTTTCTTGAGATTGATTTATCAAGAAGAG
65 ACGAAAATGACCTTTAAGAATATTTTCATAATTTAACCTTATCGAGATTGATTTATCAAGAAAAG
*
16686874 CTTCAAATCATGATT
130 CTTCAAATCATGATA
16686889 AAACATTATTTTA
1 AAACATTATTTTA
16686902 CGAATTATGG
Statistics
Matches: 128, Mismatches: 24, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
142 1 0.01
143 85 0.66
144 42 0.33
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (144 bp):
AAACATTATTTTATGATTTTTTATACATTAAAAACCCTAATAGCACCTCAAAATGATTAAAATGA
CGAAAATGACCTTTAAGAATATTTTCATAATTTAACCTTATCGAGATTGATTTATCAAGAAAAGC
TTCAAATCATGATA
Found at i:16688412 original size:7 final size:7
Alignment explanation
Indices: 16688312--16688509 Score: 81
Period size: 7 Copynumber: 29.6 Consensus size: 7
16688302 GCAAAAACTT
16688312 TAAACCC
1 TAAACCC
*
16688319 TTAAACCT
1 -TAAACCC
16688327 TAAA-CC
1 TAAACCC
16688333 -AAACCC
1 TAAACCC
*
16688339 CAAACCC
1 TAAACCC
*
16688346 CAAA-CC
1 TAAACCC
*
16688352 -AAACTC
1 TAAACCC
*
16688358 TCAAATCC
1 T-AAACCC
*
16688366 T-AA-CT
1 TAAACCC
*
16688371 TAAATCC
1 TAAACCC
16688378 TCAAAGCCC
1 T-AAA-CCC
16688387 -AAA-CC
1 TAAACCC
*
16688392 TAAACCTT
1 TAAACC-C
16688400 TAAACCC
1 TAAACCC
16688407 TAAACCC
1 TAAACCC
16688414 TAAA--C
1 TAAACCC
*
16688419 -AAACTC
1 TAAACCC
*
16688425 TCAAATCC
1 T-AAACCC
16688433 T-AA-CC
1 TAAACCC
**
16688438 TAAATCTT
1 TAAA-CCC
16688446 TAAACCC
1 TAAACCC
16688453 TAAA-CC
1 TAAACCC
16688459 TAAACCC
1 TAAACCC
16688466 TTAAA-CC
1 -TAAACCC
16688473 TAAA-CC
1 TAAACCC
16688479 TAAACCC
1 TAAACCC
16688486 TTAAA-CC
1 -TAAACCC
16688493 TAAA-CC
1 TAAACCC
16688499 TAAACCC
1 TAAACCC
16688506 TAAA
1 TAAA
16688510 TGATAACTCT
Statistics
Matches: 150, Mismatches: 16, Indels: 49
0.70 0.07 0.23
Matches are distributed among these distances:
4 3 0.02
5 14 0.09
6 44 0.29
7 50 0.33
8 37 0.25
9 2 0.01
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:16688430 original size:67 final size:67
Alignment explanation
Indices: 16688313--16688483 Score: 210
Period size: 67 Copynumber: 2.6 Consensus size: 67
16688303 CAAAAACTTT
* * *
16688313 AAACCCTTAAACCTTAAA-CC--AAACCCCAAACCCCAAACCAAACTCTCAAATCCTAACTTAAA
1 AAACCC-TAAACC-TAAACCCTTAAACCCTAAACCCTAAA-CAAACTCTCAAATCCTAACCTAAA
16688375 TCCTC
63 TCCTC
*
16688380 AAAGCCC-AAACCTAAACCTTTAAACCCTAAACCCTAAACAAACTCTCAAATCCTAACCTAAATC
1 AAA-CCCTAAACCTAAACCCTTAAACCCTAAACCCTAAACAAACTCTCAAATCCTAACCTAAATC
* *
16688444 TTT
65 CTC
16688447 AAACCCTAAACCTAAACCCTTAAA-CCTAAA-CCTAAAC
1 AAACCCTAAACCTAAACCCTTAAACCCTAAACCCTAAAC
16688484 CCTTAAACCT
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
65 11 0.12
66 15 0.16
67 48 0.52
68 18 0.20
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (67 bp):
AAACCCTAAACCTAAACCCTTAAACCCTAAACCCTAAACAAACTCTCAAATCCTAACCTAAATCC
TC
Found at i:16688438 original size:46 final size:41
Alignment explanation
Indices: 16688387--16688506 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 41
16688377 CTCAAAGCCC
16688387 AAACCTAAACCTTTAAACCCTAAACCCTAAACAAACTCTCAAATCCT
1 AAACCTAAACCTTTAAACCCTAAA-CCTAAAC---C-CTCAAA-CCT
* *
16688434 -AACCTAAATCTTTAAACCCTAAACCTAAACCCTTAAACCT
1 AAACCTAAACCTTTAAACCCTAAACCTAAACCCTCAAACCT
*
16688474 AAACCTAAACCCTTAAA-CCTAAACCTAAACCCT
1 AAACCTAAACCTTTAAACCCTAAACCTAAACCCT
16688507 AAATGATAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
40 19 0.28
41 19 0.28
42 1 0.01
45 7 0.10
46 22 0.32
ACGTcount: A:0.44, C:0.34, G:0.00, T:0.22
Consensus pattern (41 bp):
AAACCTAAACCTTTAAACCCTAAACCTAAACCCTCAAACCT
Found at i:16688474 original size:20 final size:21
Alignment explanation
Indices: 16688447--16688506 Score: 106
Period size: 20 Copynumber: 3.0 Consensus size: 21
16688437 CTAAATCTTT
16688447 AAACCCTAAACCTAAACCCTT
1 AAACCCTAAACCTAAACCCTT
16688468 AAA-CCTAAACCTAAACCCTT
1 AAACCCTAAACCTAAACCCTT
16688488 AAA-CCTAAACCTAAACCCT
1 AAACCCTAAACCTAAACCCT
16688507 AAATGATAAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
20 36 0.92
21 3 0.08
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCTAAACCCTT
Found at i:16697611 original size:11 final size:11
Alignment explanation
Indices: 16697597--16697687 Score: 51
Period size: 11 Copynumber: 9.0 Consensus size: 11
16697587 TCATTAAATT
16697597 AACCCTAAACC
1 AACCCTAAACC
*
16697608 AACCCTAAATC
1 AACCCTAAACC
16697619 AA--CT---CC
1 AACCCTAAACC
16697625 AAACCCT-AACC
1 -AACCCTAAACC
16697636 AAGCCCTAAACC
1 AA-CCCTAAACC
16697648 AA--CTAAA--
1 AACCCTAAACC
*
16697655 AACCCTAAACT
1 AACCCTAAACC
*
16697666 AACCTTAAACC
1 AACCCTAAACC
16697677 AATCCC-AAACC
1 AA-CCCTAAACC
16697688 CTAACTCAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 24
0.68 0.05 0.26
Matches are distributed among these distances:
6 1 0.02
7 4 0.06
9 14 0.22
10 2 0.03
11 34 0.54
12 8 0.13
ACGTcount: A:0.46, C:0.40, G:0.01, T:0.13
Consensus pattern (11 bp):
AACCCTAAACC
Found at i:16697630 original size:29 final size:28
Alignment explanation
Indices: 16697597--16697704 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 28
16697587 TCATTAAATT
*
16697597 AACCCTAAACCAACCCTAAATCAACTCCA
1 AACCCT-AACCAACCCTAAACCAACTCCA
**
16697626 AACCCTAACCAAGCCCTAAACCAACTAAA
1 AACCCTAACCAA-CCCTAAACCAACTCCA
* *
16697655 AACCCTAAACTAACCTTAAACCAA-TCCCA
1 AACCCT-AACCAACCCTAAACCAACT-CCA
16697684 AACCCTAACTCAAACCCTAAA
1 AACCCTAAC-C-AACCCTAAA
16697705 ACGAACCAAC
Statistics
Matches: 65, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
28 10 0.15
29 42 0.65
30 13 0.20
ACGTcount: A:0.46, C:0.39, G:0.01, T:0.14
Consensus pattern (28 bp):
AACCCTAACCAACCCTAAACCAACTCCA
Found at i:16697717 original size:16 final size:18
Alignment explanation
Indices: 16697694--16697735 Score: 70
Period size: 16 Copynumber: 2.4 Consensus size: 18
16697684 AACCCTAACT
16697694 CAAACCCTAAA-ACGAAC
1 CAAACCCTAAAGACGAAC
16697711 C-AACCCTAAAGACGAAC
1 CAAACCCTAAAGACGAAC
16697728 CAAACCCT
1 CAAACCCT
16697736 TACCTAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.48, C:0.38, G:0.07, T:0.07
Consensus pattern (18 bp):
CAAACCCTAAAGACGAAC
Found at i:16703757 original size:20 final size:20
Alignment explanation
Indices: 16703732--16703772 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
16703722 ATCTATGAAA
*
16703732 AATTATCAAGATTAATCAAG
1 AATTATCAAGAATAATCAAG
*
16703752 AATTATCAAGAATATTCAAG
1 AATTATCAAGAATAATCAAG
16703772 A
1 A
16703773 TTTACTCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (20 bp):
AATTATCAAGAATAATCAAG
Found at i:16709235 original size:17 final size:18
Alignment explanation
Indices: 16709215--16709249 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16709205 TTTTGGCTTC
16709215 TTTTCT-TTTTTTATCAT
1 TTTTCTCTTTTTTATCAT
*
16709232 TTTTCTCTTTTTTCTCAT
1 TTTTCTCTTTTTTATCAT
16709250 CAACTACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTCTCTTTTTTATCAT
Found at i:16712536 original size:19 final size:19
Alignment explanation
Indices: 16712512--16712552 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16712502 TAAGAATACC
*
16712512 AAATCCTAATCCATA-TAGG
1 AAATCCAAATCCA-AGTAGG
16712531 AAATCCAAATCCAAGTAGG
1 AAATCCAAATCCAAGTAGG
16712550 AAA
1 AAA
16712553 AGTAATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (19 bp):
AAATCCAAATCCAAGTAGG
Found at i:16718226 original size:20 final size:20
Alignment explanation
Indices: 16718201--16718239 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16718191 TTCTGGATGA
16718201 AAAAAAATTAAGG-AAGAAAC
1 AAAAAAA-TAAGGAAAGAAAC
16718221 AAAAAAATAAGGAAAGAAA
1 AAAAAAATAAGGAAAGAAA
16718240 GGAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAAAATAAGGAAAGAAAC
Found at i:16719270 original size:15 final size:15
Alignment explanation
Indices: 16719244--16719285 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
16719234 TCCATTTTCA
*
16719244 TAAAATCCCAAAATT
1 TAAAACCCCAAAATT
*
16719259 TGAAACCCCAAAATT
1 TAAAACCCCAAAATT
16719274 TAAAACCCCAAA
1 TAAAACCCCAAA
16719286 TTCTTATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.19
Consensus pattern (15 bp):
TAAAACCCCAAAATT
Found at i:16720459 original size:23 final size:22
Alignment explanation
Indices: 16720432--16720483 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
16720422 CCATCTTTCA
* *
16720432 TTCTTTTTCTTTTTCTCTTTTTT
1 TTCTTTTTCATTTT-TCATTTTT
16720455 TTC-TTTTCATTTTTCATTTTT
1 TTCTTTTTCATTTTTCATTTTT
*
16720476 TCCTTTTT
1 TTCTTTTT
16720484 TTGGACATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 9 0.36
22 13 0.52
23 3 0.12
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (22 bp):
TTCTTTTTCATTTTTCATTTTT
Found at i:16720461 original size:22 final size:21
Alignment explanation
Indices: 16720436--16720482 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16720426 CTTTCATTCT
* * *
16720436 TTTTCTTTTTCTCTTTTTTTTC
1 TTTTCATTTT-TCATTTTTTCC
16720458 TTTTCATTTTTCATTTTTTCC
1 TTTTCATTTTTCATTTTTTCC
16720479 TTTT
1 TTTT
16720483 TTTGGACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTCATTTTTCATTTTTTCC
Found at i:16721756 original size:18 final size:19
Alignment explanation
Indices: 16721735--16721770 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
16721725 CCATAAAAAA
16721735 TAAAAACTT-AAAAGAAAT
1 TAAAAACTTCAAAAGAAAT
16721753 TAAAAACTTCAAAAGAAA
1 TAAAAACTTCAAAAGAAA
16721771 AATATTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAAACTTCAAAAGAAAT
Found at i:16722996 original size:11 final size:10
Alignment explanation
Indices: 16722975--16723008 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
16722965 TAATAAAATC
16722975 TTAAAATTAA
1 TTAAAATTAA
16722985 TTAAAATATAA
1 TTAAAAT-TAA
16722996 TTAAAAATTAA
1 TT-AAAATTAA
16723007 TT
1 TT
16723009 TTATAGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 10 0.45
12 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:16724074 original size:19 final size:19
Alignment explanation
Indices: 16724048--16724095 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
16724038 AATAGTTTGG
*
16724048 AGCAGTTTAGTGGTTTAT-
1 AGCAGTTTAGAGGTTTATA
*
16724066 AGACAGTTTAAAGGTTTATA
1 AG-CAGTTTAGAGGTTTATA
16724086 AGCAGTTTAG
1 AGCAGTTTAG
16724096 GACAATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 21 0.84
20 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (19 bp):
AGCAGTTTAGAGGTTTATA
Found at i:16724727 original size:9 final size:9
Alignment explanation
Indices: 16724713--16724740 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
16724703 TTTTTAGTTT
16724713 TCTCTTTTC
1 TCTCTTTTC
16724722 TCTCTTTTC
1 TCTCTTTTC
16724731 TCTCTTTTC
1 TCTCTTTTC
16724740 T
1 T
16724741 TTTTTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (9 bp):
TCTCTTTTC
Found at i:16724751 original size:7 final size:7
Alignment explanation
Indices: 16724710--16724775 Score: 51
Period size: 7 Copynumber: 8.6 Consensus size: 7
16724700 GCTTTTTTAG
*
16724710 TTTTCTC
1 TTTTTTC
16724717 TTTTCTCTC
1 TTTT-T-TC
*
16724726 TTTTCTC
1 TTTTTTC
*
16724733 TCTTTTC
1 TTTTTTC
16724740 TTTTTTC
1 TTTTTTC
16724747 TTTTTGTTC
1 -TTTT-TTC
16724756 TATTTTTC
1 T-TTTTTC
16724764 TTTTGTTC
1 TTTT-TTC
16724772 TTTT
1 TTTT
16724776 ATTTTATTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
7 20 0.42
8 16 0.33
9 12 0.25
ACGTcount: A:0.02, C:0.20, G:0.03, T:0.76
Consensus pattern (7 bp):
TTTTTTC
Found at i:16724763 original size:17 final size:15
Alignment explanation
Indices: 16724710--16724775 Score: 62
Period size: 16 Copynumber: 4.3 Consensus size: 15
16724700 GCTTTTTTAG
* *
16724710 TTTTCTCTTTTCTCTC
1 TTTTTTCTTTTGT-TC
* *
16724726 TTTTCTCTCTT-TTC
1 TTTTTTCTTTTGTTC
16724740 TTTTTTCTTTTTGTTC
1 TTTTTTC-TTTTGTTC
16724756 TATTTTTCTTTTGTTC
1 T-TTTTTCTTTTGTTC
16724772 TTTT
1 TTTT
16724776 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.18
15 7 0.16
16 23 0.52
17 6 0.14
ACGTcount: A:0.02, C:0.20, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTCTTTTGTTC
Found at i:16724883 original size:46 final size:47
Alignment explanation
Indices: 16724815--16724921 Score: 128
Period size: 46 Copynumber: 2.3 Consensus size: 47
16724805 GGCTCCATAG
* **
16724815 CTTTAAAAATCTAAACAAAAAGGCTCTTCTTATTAGAGG-TTCAACAA
1 CTTTAAAAATCTAAACAAAAAGGCTCCTCACATTAGAGGCTT-AACAA
* * * *
16724862 CTTT-AAAATCTAAATAGAAAGGCTCCTCACATTATAGGCTTGACAA
1 CTTTAAAAATCTAAACAAAAAGGCTCCTCACATTAGAGGCTTAACAA
16724908 CTTTAAAAATCTAA
1 CTTTAAAAATCTAA
16724922 TTTGGTGCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
46 36 0.71
47 15 0.29
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (47 bp):
CTTTAAAAATCTAAACAAAAAGGCTCCTCACATTAGAGGCTTAACAA
Found at i:16725069 original size:59 final size:59
Alignment explanation
Indices: 16724994--16725275 Score: 332
Period size: 59 Copynumber: 4.7 Consensus size: 59
16724984 TCTTGCAGCA
* * * * *
16724994 ATTGGGCTTAACATTCATCTCCTGCCAACTTAACTAGGCTTGACCTTTATACCAATTAG
1 ATTGGGCTTAATATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAACTAG
* * * *
16725053 ATTGGGCTTAATATTCATCTCATGCCAACTTAA-TTGGATTTAACTTTTGTGCCAACTAG
1 ATTGGGCTTAATATTCATCTCATGCCAACTTAACTAGG-CTTAACCTTTGTACCAACTAG
* *
16725112 ATTGGGCTTAATATTCATCTCATGTCAACTTAACTAGGCTTAACCTTTGTACCAGCTAG
1 ATTGGGCTTAATATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAACTAG
* * * * * *
16725171 ATTGGGCTTAATATTCATCACGTGCTAACTTAACTGGGCTTAACCTTTGTGCCAACTAA
1 ATTGGGCTTAATATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAACTAG
* ** *
16725230 ATTAGGCACAGAAACTCTCATCTCATGCCAACTTAACTAGGCTTAA
1 ATTGGGCTTA-ATA-T-TCATCTCATGCCAACTTAACTAGGCTTAA
16725276 AACTTTGTTG
Statistics
Matches: 187, Mismatches: 31, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
58 3 0.02
59 153 0.82
60 5 0.03
61 1 0.01
62 25 0.13
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (59 bp):
ATTGGGCTTAATATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAACTAG
Found at i:16725184 original size:118 final size:118
Alignment explanation
Indices: 16724993--16725303 Score: 370
Period size: 118 Copynumber: 2.6 Consensus size: 118
16724983 ATCTTGCAGC
* * * * **
16724993 AATTGGGCTTAACATTCATCTCCTGCCAACTTAACTAGGCTTGACCTTTATACCAATTAGATTGG
1 AATTGGGCTTAAAATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAGCTAGATTGG
* * * *
16725058 GCTTAATATTCATCTCATGCCAACTTAATTGGATTTAACTTTTGTGCCAACTA
66 GCTTAATATTCATCACATGCCAACTTAACTGGACTTAACCTTTGTGCCAACTA
* * *
16725111 GATTGGGCTTAATATTCATCTCATGTCAACTTAACTAGGCTTAACCTTTGTACCAGCTAGATTGG
1 AATTGGGCTTAAAATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAGCTAGATTGG
* * *
16725176 GCTTAATATTCATCACGTGCTAACTTAACTGGGCTTAACCTTTGTGCCAACTA
66 GCTTAATATTCATCACATGCCAACTTAACTGGACTTAACCTTTGTGCCAACTA
* ** * **
16725229 AATTAGGCACAGAAACTCTCATCTCATGCCAACTTAACTAGGCTTAAAACTTTGTTGCAGCTAGA
1 AATTGGGCTTA-AAA-T-TCATCTCATGCCAACTTAACTAGGCTT-AACCTTTGTACCAGCTAGA
* *
16725294 CTGGACTTAA
62 TTGGGCTTAA
16725304 AAATTTAGAC
Statistics
Matches: 163, Mismatches: 26, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
118 110 0.67
119 2 0.01
120 1 0.01
121 26 0.16
122 24 0.15
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (118 bp):
AATTGGGCTTAAAATTCATCTCATGCCAACTTAACTAGGCTTAACCTTTGTACCAGCTAGATTGG
GCTTAATATTCATCACATGCCAACTTAACTGGACTTAACCTTTGTGCCAACTA
Found at i:16730320 original size:26 final size:26
Alignment explanation
Indices: 16730284--16730334 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
16730274 ACCTAAAAAA
*
16730284 GAATTGTAAAGATAAAAGAATCTTTG
1 GAATTGTAAAGATAAAAAAATCTTTG
16730310 GAATTGTAAAGATAAAAAAATCTTT
1 GAATTGTAAAGATAAAAAAATCTTT
16730335 CTTGACCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (26 bp):
GAATTGTAAAGATAAAAAAATCTTTG
Found at i:16730743 original size:29 final size:28
Alignment explanation
Indices: 16730692--16730746 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
16730682 AAAAAGCCTT
* *
16730692 TTACAAGAAAAAGATTCCTAAATCACCA
1 TTACAAGAAAAACATCCCTAAATCACCA
16730720 TTACAAGAAAAACATCCCTTAAATCAC
1 TTACAAGAAAAACATCCC-TAAATCAC
16730747 TATTTCTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.49, C:0.24, G:0.05, T:0.22
Consensus pattern (28 bp):
TTACAAGAAAAACATCCCTAAATCACCA
Found at i:16736117 original size:16 final size:16
Alignment explanation
Indices: 16736098--16736131 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
16736088 TTTGAGCTTA
16736098 TTTGGATTTGGATAAT
1 TTTGGATTTGGATAAT
16736114 TTTGGATTTGGATAAT
1 TTTGGATTTGGATAAT
16736130 TT
1 TT
16736132 CAAGTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (16 bp):
TTTGGATTTGGATAAT
Found at i:16736387 original size:17 final size:17
Alignment explanation
Indices: 16736356--16736390 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16736346 TAAATTTTAA
16736356 AAATAATATATTTATAT
1 AAATAATATATTTATAT
16736373 AAAT-ATATATATTATAT
1 AAATAATATAT-TTATAT
16736390 A
1 A
16736391 TTATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAATATATTTATAT
Found at i:16736390 original size:7 final size:7
Alignment explanation
Indices: 16736361--16736400 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
16736351 TTTAAAAATA
16736361 ATATATT
1 ATATATT
16736368 -TATA-T
1 ATATATT
*
16736373 AAATA-T
1 ATATATT
16736379 ATATATT
1 ATATATT
16736386 ATATATT
1 ATATATT
16736393 ATATATT
1 ATATATT
16736400 A
1 A
16736401 ATTTTGTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 1 0.03
6 12 0.41
7 16 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:16736396 original size:18 final size:16
Alignment explanation
Indices: 16736356--16736399 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
16736346 TAAATTTTAA
16736356 AAATAATATATTTATAT
1 AAAT-ATATATTTATAT
16736373 AAATATATATATTATAT
1 AAATATATAT-TTATAT
*
16736390 -ATTATATATT
1 AAATATATATT
16736400 AATTTTGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 14 0.56
17 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATATTTATAT
Found at i:16737761 original size:21 final size:22
Alignment explanation
Indices: 16737737--16737780 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
16737727 TTTTCATTTT
16737737 TATATTTTAATTT-TAAAATAA
1 TATATTTTAATTTATAAAATAA
*
16737758 TATATTTTAATTTATAAGATAA
1 TATATTTTAATTTATAAAATAA
16737780 T
1 T
16737781 TTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATTTTAATTTATAAAATAA
Found at i:16739217 original size:18 final size:18
Alignment explanation
Indices: 16739190--16739227 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16739180 CTTGACATTC
*
16739190 AATGCTTGAGTAATGCAA
1 AATGCATGAGTAATGCAA
*
16739208 AATGCATGAGTAGTGCAA
1 AATGCATGAGTAATGCAA
16739226 AA
1 AA
16739228 AATGAATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (18 bp):
AATGCATGAGTAATGCAA
Found at i:16740435 original size:21 final size:20
Alignment explanation
Indices: 16740396--16740435 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
16740386 ATGAAATGTA
16740396 AAATATTTTTTTATATTTTC
1 AAATATTTTTTTATATTTTC
* *
16740416 AAATTTTTTCTTTTTATTTT
1 AAATATTTT-TTTATATTTT
16740436 TTTTCTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
AAATATTTTTTTATATTTTC
Found at i:16741562 original size:19 final size:19
Alignment explanation
Indices: 16741556--16741603 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
16741546 GGTTAGGCTT
16741556 AGGGTTTAGGTTCGGGTTA
1 AGGGTTTAGGTTCGGGTTA
16741575 AGGGTTTAGGTTCGGGTTA
1 AGGGTTTAGGTTCGGGTTA
16741594 AGGGTTTAGG
1 AGGGTTTAGG
16741604 CTAGGTTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.17, C:0.04, G:0.44, T:0.35
Consensus pattern (19 bp):
AGGGTTTAGGTTCGGGTTA
Found at i:16741579 original size:31 final size:31
Alignment explanation
Indices: 16741516--16741580 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
16741506 GGGGCTTACT
* *
16741516 GTTAGGCTTAGGGTTTAGATTAATGTTTAGG
1 GTTAGGCTTAGGGTTTAGATTAAGGTTAAGG
* **
16741547 GTTAGGCTTAGGGTTTAGGTTCGGGTTAAGG
1 GTTAGGCTTAGGGTTTAGATTAAGGTTAAGG
16741578 GTT
1 GTT
16741581 TAGGTTCGGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.18, C:0.05, G:0.37, T:0.40
Consensus pattern (31 bp):
GTTAGGCTTAGGGTTTAGATTAAGGTTAAGG
Found at i:16744435 original size:8 final size:8
Alignment explanation
Indices: 16744424--16744470 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
16744414 TTCTTCCTTT
16744424 TTTTTTTA
1 TTTTTTTA
16744432 TTTTTTTA
1 TTTTTTTA
16744440 TTTTTTT-
1 TTTTTTTA
* **
16744447 CTTTTAAA
1 TTTTTTTA
16744455 TTTTTGTTA
1 TTTTT-TTA
16744464 TTTTTTT
1 TTTTTTT
16744471 CCTTTGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
7 4 0.13
8 21 0.68
9 6 0.19
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16744483 original size:24 final size:23
Alignment explanation
Indices: 16744431--16744475 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
16744421 TTTTTTTTTT
*
16744431 ATTTTTTTATTTTTTTCTTTTAA
1 ATTTTTTTATTTTTTTCCTTTAA
16744454 ATTTTTGTTATTTTTTTCCTTT
1 ATTTTT-TTATTTTTTTCCTTT
16744476 GTTTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.13, C:0.07, G:0.02, T:0.78
Consensus pattern (23 bp):
ATTTTTTTATTTTTTTCCTTTAA
Found at i:16744890 original size:29 final size:29
Alignment explanation
Indices: 16744833--16744891 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
16744823 ATGTATTATA
* *
16744833 TTAATAAAAATATTATTTAATATCTTAAT
1 TTAATAAAAATATTATTTAATACCATAAT
16744862 TTAATAAAAATACTATATTT-AT-CCATAAT
1 TTAATAAAAATA-T-TATTTAATACCATAAT
16744891 T
1 T
16744892 AAGTTGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 18 0.69
30 3 0.12
31 5 0.19
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (29 bp):
TTAATAAAAATATTATTTAATACCATAAT
Found at i:16745703 original size:10 final size:10
Alignment explanation
Indices: 16745672--16745696 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16745662 CCTTTTTAAG
16745672 TTTTTAATTT
1 TTTTTAATTT
16745682 TTTTTAATTT
1 TTTTTAATTT
16745692 TTTTT
1 TTTTT
16745697 CCTTTTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:16745838 original size:8 final size:9
Alignment explanation
Indices: 16745775--16745846 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
16745765 TGAGGCCTTA
16745775 ATTTTTTTT
1 ATTTTTTTT
16745784 ATTTTTTGTT
1 ATTTTTT-TT
16745794 -TTTCGTTTTT
1 ATTT--TTTTT
*
16745804 ATTCATTTTTC
1 ATT--TTTTTT
16745815 ATTTTTTTT
1 ATTTTTTTT
*
16745824 CA--CTTTTT
1 -ATTTTTTTT
16745832 ATTTTTTTT
1 ATTTTTTTT
16745841 ATTTTT
1 ATTTTT
16745847 GGTTTTTTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 26 0.52
10 5 0.10
11 12 0.24
13 1 0.02
ACGTcount: A:0.11, C:0.07, G:0.03, T:0.79
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:16745853 original size:17 final size:17
Alignment explanation
Indices: 16745792--16745855 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
16745782 TTATTTTTTG
*
16745792 TTTTTCGTTTTTATTCA
1 TTTTTCGTTTTTTTTCA
*
16745809 TTTTTCATTTTTTTTCA
1 TTTTTCGTTTTTTTTCA
*
16745826 CTTTTT-ATTTTTTTT-A
1 -TTTTTCGTTTTTTTTCA
*
16745842 TTTTTGGTTTTTTT
1 TTTTTCGTTTTTTT
16745856 ATTAGATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 5 0.12
16 8 0.19
17 24 0.57
18 5 0.12
ACGTcount: A:0.09, C:0.08, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTCGTTTTTTTTCA
Found at i:16750389 original size:27 final size:27
Alignment explanation
Indices: 16750315--16750376 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
16750305 TTTTTTCTGT
*
16750315 ACATGATTGGGTTAGGGTATTTTGTGC
1 ACATGACTGGGTTAGGGTATTTTGTGC
16750342 ACATGACTGGGTTAGGGTATTTTGTGC
1 ACATGACTGGGTTAGGGTATTTTGTGC
16750369 ACATGACT
1 ACATGACT
16750377 TGTTTAGGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.21, C:0.11, G:0.31, T:0.37
Consensus pattern (27 bp):
ACATGACTGGGTTAGGGTATTTTGTGC
Found at i:16752976 original size:20 final size:21
Alignment explanation
Indices: 16752929--16752972 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
16752919 AAAAAAAACC
*
16752929 AAAATAAAAAACTTCTATTTT
1 AAAATAAAAAACTTCTATTTA
16752950 AAAATAAAAAA-TTCT-TTTA
1 AAAATAAAAAACTTCTATTTA
16752969 AAAA
1 AAAA
16752973 ATAATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATAAAAAACTTCTATTTA
Found at i:16753243 original size:18 final size:18
Alignment explanation
Indices: 16753192--16753243 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
16753182 ATAAATAATT
* *
16753192 TTATTTAATACTAGAAAATT
1 TTATTTAATA-TA-ACAATA
* *
16753212 TTATTTTATTTAACAATA
1 TTATTTAATATAACAATA
16753230 TTATTTAATATAAC
1 TTATTTAATATAAC
16753244 TTTAAAATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 16 0.62
19 2 0.08
20 8 0.31
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATTTAATATAACAATA
Found at i:16761406 original size:20 final size:21
Alignment explanation
Indices: 16761383--16761421 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
16761373 TTTTAATTTT
* *
16761383 ATTTATTTTATTTT-ATATGA
1 ATTTAATTAATTTTCATATGA
16761403 ATTTAATTAATTTTCATAT
1 ATTTAATTAATTTTCATAT
16761422 TGAAAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTAATTAATTTTCATATGA
Found at i:16761730 original size:20 final size:20
Alignment explanation
Indices: 16761692--16761730 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16761682 AACAGCCAAA
*
16761692 AATAAAATTGATAATTAAAG
1 AATAAAATTGATAAGTAAAG
16761712 AATAAAATATG-TAAGTAAA
1 AATAAAAT-TGATAAGTAAA
16761731 TATAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (20 bp):
AATAAAATTGATAAGTAAAG
Found at i:16764123 original size:23 final size:23
Alignment explanation
Indices: 16764075--16764123 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
16764065 AAAATCTAAA
* *
16764075 AAATATAATAAAAAGATAAATAT
1 AAATATAATAAAAACATAAAAAT
*
16764098 AAATATAA-AAAGACATAAAAACT
1 AAATATAATAAAAACATAAAAA-T
16764121 AAA
1 AAA
16764124 AAAAAATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (23 bp):
AAATATAATAAAAACATAAAAAT
Found at i:16766902 original size:15 final size:15
Alignment explanation
Indices: 16766884--16766933 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
16766874 TAGTATCCAT
*
16766884 ATAGCTTTAGTGTAT
1 ATAGCTTTAGTGTAC
*
16766899 ATAG-ATTAGTGTAC
1 ATAGCTTTAGTGTAC
*
16766913 ATAGCTTTAGTATAC
1 ATAGCTTTAGTGTAC
16766928 ATAGCT
1 ATAGCT
16766934 ATTAAGTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (15 bp):
ATAGCTTTAGTGTAC
Found at i:16770038 original size:27 final size:27
Alignment explanation
Indices: 16770008--16770070 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 27
16769998 ATAAAAATAA
16770008 TATTTAATTAATAACTATA-TTAATATT
1 TATTTAATTAAT-ACTATATTTAATATT
* * *
16770035 TATTGTATTTAATATTATATTTAATTTT
1 TATT-TAATTAATACTATATTTAATATT
*
16770063 TATGTAAT
1 TATTTAAT
16770071 AAAAATTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 12 0.41
28 17 0.59
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (27 bp):
TATTTAATTAATACTATATTTAATATT
Found at i:16770784 original size:38 final size:39
Alignment explanation
Indices: 16770695--16770784 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 39
16770685 CATTTGGAGG
*
16770695 TAATTTTTTTATTTTAAGTTTTATTTTTAATATGATTAA
1 TAATTTTTTTATTTTAAGTTTTATTTTGAATATGATTAA
* * *
16770734 -AATATTTATATTTT-AGTTTTATTTTG-ATTTAGA-TAA
1 TAATTTTTTTATTTTAAGTTTTATTTTGAATAT-GATTAA
16770770 TTAATTTTTTTATTT
1 -TAATTTTTTTATTT
16770785 AAAAATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
36 6 0.14
37 13 0.31
38 23 0.55
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (39 bp):
TAATTTTTTTATTTTAAGTTTTATTTTGAATATGATTAA
Found at i:16771332 original size:2 final size:2
Alignment explanation
Indices: 16771325--16771350 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16771315 TAAAAACATG
16771325 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
16771351 TGGTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16771714 original size:15 final size:15
Alignment explanation
Indices: 16771694--16771724 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16771684 TGAGTGACTG
*
16771694 TAGTTTCGTAACTAT
1 TAGTTTCATAACTAT
16771709 TAGTTTCATAACTAT
1 TAGTTTCATAACTAT
16771724 T
1 T
16771725 GCTATATTTT
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:0.29, C:0.13, G:0.10, T:0.48
Consensus pattern (15 bp):
TAGTTTCATAACTAT
Found at i:16773421 original size:8 final size:8
Alignment explanation
Indices: 16773408--16773443 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
16773398 CTTATTTTCC
16773408 AAAAAAGA
1 AAAAAAGA
16773416 AAAAAAGA
1 AAAAAAGA
16773424 AAAAAAGA
1 AAAAAAGA
16773432 AAGAAAA-A
1 AA-AAAAGA
16773440 AAAA
1 AAAA
16773444 CAAAGTAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 2 0.07
8 21 0.78
9 4 0.15
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:16775327 original size:3 final size:3
Alignment explanation
Indices: 16775321--16775482 Score: 146
Period size: 3 Copynumber: 56.7 Consensus size: 3
16775311 GTAGTAGTAG
16775321 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
16775369 TAA T-A TAA TGA TAA TAA T-A TAA T-A TAA TAAA TAA T-A TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * *
16775410 TAA T-A TAA T-A TAA TAA T-A TAA T-A TCGA TAA TAA AAA AAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * * *
16775452 TAA TAC TAA -AA CAA CAA TAA TAA TAA AAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16775483 TTAGTACACA
Statistics
Matches: 134, Mismatches: 13, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
2 19 0.14
3 110 0.82
4 5 0.04
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:16775467 original size:17 final size:17
Alignment explanation
Indices: 16775436--16775480 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16775426 TATAATATCG
16775436 ATAATAAAAAAAACAATA
1 ATAAT-AAAAAAACAATA
* *
16775454 ATACTAAAACAACAATA
1 ATAATAAAAAAACAATA
16775471 ATAATAAAAA
1 ATAATAAAAA
16775481 TATTAGTACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAATAAAAAAACAATA
Found at i:16775731 original size:56 final size:54
Alignment explanation
Indices: 16775670--16775850 Score: 177
Period size: 56 Copynumber: 3.3 Consensus size: 54
16775660 GTTAGAAAGG
16775670 TGATCTGGATCGAGCTAAGATCAAACGACCTAGATTGAACCATAAGTCTGAAAAAA
1 TGATCTGGATCGAGCTAAGATCAAACGA-CTAGATTGAACCATAAGTCT-AAAAAA
* * * *
16775726 TGATCTGAATCGAG-TCAAGATTAGATGACTAGGATTGAACCATAAGTC-AAGAAAA
1 TGATCTGGATCGAGCT-AAGATCAAACGACTA-GATTGAACCATAAGTCTAA-AAAA
* ** * * *
16775781 TTATCTGGATTAAGCTGAGATCAAACGACTGAGATTGAACCACAAGTTTAAAAAAA
1 TGATCTGGATCGAGCTAAGATCAAACGACT-AGATTGAACCATAAGTCT-AAAAAA
* *
16775837 TAATATGGATCGAG
1 TGATCTGGATCGAG
16775851 TCAAGATTGG
Statistics
Matches: 100, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
54 2 0.02
55 42 0.42
56 54 0.54
57 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.24
Consensus pattern (54 bp):
TGATCTGGATCGAGCTAAGATCAAACGACTAGATTGAACCATAAGTCTAAAAAA
Found at i:16775873 original size:111 final size:111
Alignment explanation
Indices: 16775672--16775876 Score: 270
Period size: 111 Copynumber: 1.8 Consensus size: 111
16775662 TAGAAAGGTG
* * * * *
16775672 ATCTGGATCGAGCTAAGATCAAACGACCTAGATTGAACCATAAGTCTGAAAAAATGATCTGAATC
1 ATCTGGATCAAGCTAAGATCAAACGACCTAGATTGAACCACAAGTCTAAAAAAATAATATGAATC
* *
16775737 GAGTCAAGATTAGATGACTAGGATTGAACCATAAGTCAAGAAAATT
66 GAGTCAAGATTAGACGACGAGGATTGAACCATAAGTCAAGAAAATT
* * * *
16775783 ATCTGGATTAAGCTGAGATCAAACGA-CTGAGATTGAACCACAAGTTTAAAAAAATAATATGGAT
1 ATCTGGATCAAGCTAAGATCAAACGACCT-AGATTGAACCACAAGTCTAAAAAAATAATATGAAT
*
16775847 CGAGTCAAGATTGGACGATCGA-GATTGAAC
65 CGAGTCAAGATTAGACGA-CGAGGATTGAAC
16775877 TGCAAGTCTG
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
110 2 0.03
111 76 0.95
112 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (111 bp):
ATCTGGATCAAGCTAAGATCAAACGACCTAGATTGAACCACAAGTCTAAAAAAATAATATGAATC
GAGTCAAGATTAGACGACGAGGATTGAACCATAAGTCAAGAAAATT
Found at i:16786725 original size:6 final size:7
Alignment explanation
Indices: 16786709--16786735 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16786699 AAGAGGAAAG
16786709 AAAAATA
1 AAAAATA
16786716 AAAAATA
1 AAAAATA
16786723 AAAAATA
1 AAAAATA
16786730 AAAAAT
1 AAAAAT
16786736 CTCAAGTTTA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:16788580 original size:3 final size:3
Alignment explanation
Indices: 16788574--16788706 Score: 74
Period size: 3 Copynumber: 48.3 Consensus size: 3
16788564 GATGATGATG
*
16788574 ATA ATA ATA ATA ATA AT- ATA AT- ATA AT- ATA ATA ATA AT- ATA GT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
16788617 ATA AT- ATA AT- ATA AT- AGA AT- ATA CT- ATA CT- ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
16788658 ATG CTA GTA ATA AAA AAA ATA ATA ATA CTA ATA ACA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16788706 A
1 A
16788707 AAGTACTAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
2 20 0.20
3 79 0.80
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16788659 original size:5 final size:5
Alignment explanation
Indices: 16788574--16788652 Score: 95
Period size: 5 Copynumber: 15.2 Consensus size: 5
16788564 GATGATGATG
*
16788574 ATAAT AATAAT AATAAT ATAAT ATAAT ATAAT AATAAT ATAGT ATAAT
1 ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT
* * *
16788622 ATAAT ATAAT AGAAT ATACT ATACT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
16788653 ATATAATGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
5 50 0.76
6 16 0.24
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:16791996 original size:20 final size:20
Alignment explanation
Indices: 16791960--16792047 Score: 78
Period size: 20 Copynumber: 4.5 Consensus size: 20
16791950 CAAATTATAC
*
16791960 AATAATA-TAATAGTCATGA
1 AATAATATTAATAATCATGA
*
16791979 AATAATATTAATAATCATATA
1 AATAATATTAATAATCAT-GA
16792000 AAT-ATATTAATAATCATGTA
1 AATAATATTAATAATCATG-A
* *
16792020 ATTAATA--AATAATCAAGA
1 AATAATATTAATAATCATGA
16792038 AGATAA-ATTA
1 A-ATAATATTA
16792048 GACCTATACA
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
18 3 0.05
19 19 0.34
20 27 0.48
21 7 0.12
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.34
Consensus pattern (20 bp):
AATAATATTAATAATCATGA
Found at i:16793653 original size:7 final size:6
Alignment explanation
Indices: 16793563--16793650 Score: 95
Period size: 6 Copynumber: 14.0 Consensus size: 6
16793553 AACTAGAATC
* ** **
16793563 TTAAAA TTAAAA TAAAAAA CCAAAA TCCAAA TTAAAAA TTAAAAA TTAAAAA
1 TTAAAA TTAAAA T-TAAAA TTAAAA TTAAAA TT-AAAA TT-AAAA TT-AAAA
16793615 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
16793651 ATTTTGAGCT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
6 50 0.68
7 23 0.32
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (6 bp):
TTAAAA
Found at i:16793984 original size:18 final size:18
Alignment explanation
Indices: 16793963--16794109 Score: 67
Period size: 18 Copynumber: 8.2 Consensus size: 18
16793953 AAAGATTCAC
16793963 AAGATTTCAAGATTTGCA
1 AAGATTTCAAGATTTGCA
* ***
16793981 AAGATTCCAAGATTCATA
1 AAGATTTCAAGATTTGCA
16793999 AAGA-TTCTAAGATTTG-A
1 AAGATTTC-AAGATTTGCA
* *
16794016 AAAAGTCTT-AAGATTAGCA
1 AAGA-T-TTCAAGATTTGCA
*
16794035 AAGA-TTC-TGATATT-CA
1 AAGATTTCAAGAT-TTGCA
*
16794051 CAAAAGTTTCAA-ATTTTGCA
1 -AAGA-TTTCAAGA-TTTGCA
16794071 AA-AGTTTCAAGATTTGCA
1 AAGA-TTTCAAGATTTGCA
** *
16794089 AAGGCTTCAAGATTCGCA
1 AAGATTTCAAGATTTGCA
16794107 AAG
1 AAG
16794110 GTCTTAACAT
Statistics
Matches: 97, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
16 7 0.07
17 10 0.10
18 62 0.64
19 13 0.13
20 5 0.05
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.31
Consensus pattern (18 bp):
AAGATTTCAAGATTTGCA
Found at i:16793991 original size:26 final size:26
Alignment explanation
Indices: 16793944--16793994 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16793934 GATTTGAAAG
16793944 CAAGAATTGAAAGATTCACAAGATTT
1 CAAGAATTGAAAGATTCACAAGATTT
*
16793970 CAAGATTTGCAAAGATTC-CAAGATT
1 CAAGAATTG-AAAGATTCACAAGATT
16793995 CATAAAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (26 bp):
CAAGAATTGAAAGATTCACAAGATTT
Found at i:16794110 original size:18 final size:19
Alignment explanation
Indices: 16794076--16794129 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
16794066 TTGCAAAAGT
*
16794076 TTCAAGATTTGCAAAGG-C
1 TTCAAGATTCGCAAAGGTC
16794094 TTCAAGATTCGCAAAGGTC
1 TTCAAGATTCGCAAAGGTC
* *
16794113 TT-AACATTCACAAAGGT
1 TTCAAGATTCGCAAAGGT
16794130 TCCAAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (19 bp):
TTCAAGATTCGCAAAGGTC
Found at i:16794451 original size:22 final size:23
Alignment explanation
Indices: 16794398--16794451 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
16794388 AAAATTTTGT
* *
16794398 ATTTGAAAAATTTTAGAGATTCAC
1 ATTTG-AAAATTTAAGAGATTAAC
*
16794422 ATAT-AAAATTTAAGA-ATTAAC
1 ATTTGAAAATTTAAGAGATTAAC
16794443 ATTTGAAAA
1 ATTTGAAAA
16794452 GTTCATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 8 0.32
22 14 0.56
24 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (23 bp):
ATTTGAAAATTTAAGAGATTAAC
Found at i:16813487 original size:27 final size:27
Alignment explanation
Indices: 16813441--16813494 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
16813431 GATTGGGAGA
*
16813441 AGCAGTCTAAGGGAAAGGATCGTGACC
1 AGCAGTCTAAGGGAAAGGATCGAGACC
*
16813468 AGCAGTCTAA-GGATAGGGATCGAGACC
1 AGCAGTCTAAGGGA-AAGGATCGAGACC
16813495 GTTCAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.33, C:0.19, G:0.33, T:0.15
Consensus pattern (27 bp):
AGCAGTCTAAGGGAAAGGATCGAGACC
Found at i:16813922 original size:17 final size:17
Alignment explanation
Indices: 16813900--16813933 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16813890 TTCCAGCCAT
16813900 TGGAGTTGCACGAGGAG
1 TGGAGTTGCACGAGGAG
*
16813917 TGGAGTTGCATGAGGAG
1 TGGAGTTGCACGAGGAG
16813934 ATTGGAAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.47, T:0.21
Consensus pattern (17 bp):
TGGAGTTGCACGAGGAG
Found at i:16819647 original size:27 final size:27
Alignment explanation
Indices: 16819581--16819648 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
16819571 CAAGGATAAG
**
16819581 AGGGATCGAGAGAAGTAGTCCAAGGGA
1 AGGGATCGAGACCAGTAGTCCAAGGGA
* *
16819608 ATGGA-CTGTGACCAGTAGTCCAA-GGA
1 AGGGATC-GAGACCAGTAGTCCAAGGGA
16819634 TAGGGATCGAGACCA
1 -AGGGATCGAGACCA
16819649 TTCGGACAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
26 4 0.12
27 27 0.84
28 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.35, T:0.15
Consensus pattern (27 bp):
AGGGATCGAGACCAGTAGTCCAAGGGA
Found at i:16830639 original size:63 final size:63
Alignment explanation
Indices: 16830517--16830647 Score: 149
Period size: 63 Copynumber: 2.1 Consensus size: 63
16830507 CACACATTAT
* * * * *
16830517 ATAATCCCGTTATAAAAATAGATAGGGGATTACTGAAGGCTTTTTTGGCAGACAACGCCTTGA
1 ATAATCCCCTCATAAAAAAAGATAGGGGATTACTGAAGGCTTTTCTGGCAGACAACGCCTTCA
* * * *
16830580 ATAATCCCCTCATAAAAAAATATAGGTGATTATTGAAGGCATTTTCT-GCAAGA-ATCGCCTTCA
1 ATAATCCCCTCATAAAAAAAGATAGGGGATTACTGAAGGC-TTTTCTGGC-AGACAACGCCTTCA
16830643 ATAAT
1 ATAAT
16830648 TTTGCTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 49 0.86
64 8 0.14
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (63 bp):
ATAATCCCCTCATAAAAAAAGATAGGGGATTACTGAAGGCTTTTCTGGCAGACAACGCCTTCA
Found at i:16831032 original size:125 final size:125
Alignment explanation
Indices: 16830883--16831170 Score: 323
Period size: 125 Copynumber: 2.3 Consensus size: 125
16830873 AGAGAGAAAA
* * * *
16830883 TATTGAAGGCATTTTGGCAGAAAAACACCTTTAATAATCTATAGAAAAAATTTGAAATGGATTAT
1 TATTGAAGGCATTTTGGCA-AAAAACACCTTCAATAATCCATACAAAAAAGTTGAAATGGATTAT
* *
16830948 TGAAGGCACTTTTAG-TC-AAAAGCGCCTTCAATAATTCAATCAATAAA-TTTTATGAGGGAT
65 TGAAGGCACTTTTAGCCCAAAAAGC-TC-TCAATAATTCAATCAATAAATTTTTATGAGGGAT
* * *
16831008 TATTGAAGGCAATTTTGGTC-AAAAACACCTTCAATAATCCATACAAAAAAGTTGGAGTGGATTC
1 TATTGAAGGC-ATTTTGG-CAAAAAACACCTTCAATAATCCATACAAAAAAGTTGAAATGGATTA
** * * *
16831072 TTGAAGGCGTTTTTGGCCCAAAAAGCTCTCAATAATTCACTTAATAAATTTTTATGAGGGAT
64 TTGAAGGCACTTTTAGCCCAAAAAGCTCTCAATAATTCAATCAATAAATTTTTATGAGGGAT
* ** **
16831134 TATTAAAGGCGATTTTGATAAAAAATGCCTTCAATAA
1 TATTGAAGGC-ATTTTGGCAAAAAACACCTTCAATAA
16831171 AATTTTGTTA
Statistics
Matches: 137, Mismatches: 20, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
125 78 0.57
126 52 0.38
127 7 0.05
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (125 bp):
TATTGAAGGCATTTTGGCAAAAAACACCTTCAATAATCCATACAAAAAAGTTGAAATGGATTATT
GAAGGCACTTTTAGCCCAAAAAGCTCTCAATAATTCAATCAATAAATTTTTATGAGGGAT
Found at i:16831087 original size:62 final size:62
Alignment explanation
Indices: 16830839--16831079 Score: 204
Period size: 63 Copynumber: 3.9 Consensus size: 62
16830829 ATTTTTTAGG
* * * * * *
16830839 CAAAAACACCTTCACTAATCCAT-CTAAAAATTTTAGAGAGAAAATATTGAAGGC-ATTTTGG-
1 CAAAAACACCTTCAATAATCCATAC-AAAAAATTTGGAGTG-GATTATTGAAGGCAATTTTGGT
* * * * * * *
16830900 CAGAAAAACACCTTTAATAATCTATAGAAAAAATTTGAAATGGATTATTGAAGGCACTTTTAGT
1 C--AAAAACACCTTCAATAATCCATACAAAAAATTTGGAGTGGATTATTGAAGGCAATTTTGGT
* * * * *
16830964 CAAAAGCGCCTTCAATAATTCA-ATCAATAAATTTTATGAG-GGATTATTGAAGGCAATTTTGGT
1 CAAAAACACCTTCAATAATCCATA-CAA-AAAATTT-GGAGTGGATTATTGAAGGCAATTTTGGT
* *
16831027 CAAAAACACCTTCAATAATCCATACAAAAAAGTTGGAGTGGATTCTTGAAGGC
1 CAAAAACACCTTCAATAATCCATACAAAAAATTTGGAGTGGATTATTGAAGGC
16831080 GTTTTTGGCC
Statistics
Matches: 138, Mismatches: 32, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
61 5 0.04
62 47 0.34
63 83 0.60
64 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (62 bp):
CAAAAACACCTTCAATAATCCATACAAAAAATTTGGAGTGGATTATTGAAGGCAATTTTGGT
Found at i:16831310 original size:35 final size:35
Alignment explanation
Indices: 16831260--16831329 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
16831250 TATATATGTA
* *
16831260 AAGTCAATTGTAGGTTTATGTCTAGAAAACATTTG
1 AAGTCAATTGCAGGTTTATGCCTAGAAAACATTTG
* *
16831295 AAGTCAGTTGCAGGTTTATGCCTGGAAAACATTTG
1 AAGTCAATTGCAGGTTTATGCCTAGAAAACATTTG
16831330 GTTTATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (35 bp):
AAGTCAATTGCAGGTTTATGCCTAGAAAACATTTG
Found at i:16842549 original size:161 final size:161
Alignment explanation
Indices: 16842270--16842585 Score: 397
Period size: 161 Copynumber: 2.0 Consensus size: 161
16842260 ATGAAAATTA
* * * *
16842270 GTTATTGTTTTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATT
1 GTTATTGTTCTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATT
* * ** *
16842335 GAACTTAGTTTTCATGGTTGATATGTATGAAAAAATTATTATTTATGTCTATTTAAGACTCTTTG
66 GAACTTAGATTTCATGGTTGATATGTATGAAAAAATTATCATTTACATCTATTTAAGACTATTTG
*
16842400 TGCC-GTTAATAGGTAAAAATACAAAATTGTT
131 TGCCTGTTAA-AGGCAAAAATACAAAATTGTT
*
16842431 GTTATTGTTCTATTTTAACAGTTTGGATAGCTTT-AATACATGATATTAAACTTGTCCAAA-TGA
1 GTTATTGTTCTATTTTAACAGTTTGGATAG-TTTCAATACATGATATTAAACTTATCCAAAGT-A
* * * * **
16842494 TTGAACTT-GATTTCTATGGTTGATATGTGTGAAAAAGTTGTCGTTTACATCTATTTGGGACTAT
64 TTGAACTTAGATTTC-ATGGTTGATATGTATGAAAAAATTATCATTTACATCTATTTAAGACTAT
* *
16842558 TTTTGCCTTTTAAAGGCAAAAATACAAA
128 TTGTGCCTGTTAAAGGCAAAAATACAAA
16842586 TTAAACTTTC
Statistics
Matches: 132, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
160 6 0.05
161 119 0.90
162 7 0.05
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (161 bp):
GTTATTGTTCTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAAGTATT
GAACTTAGATTTCATGGTTGATATGTATGAAAAAATTATCATTTACATCTATTTAAGACTATTTG
TGCCTGTTAAAGGCAAAAATACAAAATTGTT
Found at i:16848066 original size:98 final size:95
Alignment explanation
Indices: 16847883--16848071 Score: 229
Period size: 98 Copynumber: 2.0 Consensus size: 95
16847873 TTTTCTGATA
* *
16847883 AAAAATGCCTTAAATAATCCCCAAAAAATGAGAGGGGATTATTTAAGGCATTTTTTTGCCAAAAA
1 AAAAATACCTTAAATAATCCCCAAAAAATGAGAAGGGATTATTTAAGGCATTTTTTTGCCAAAAA
**
16847948 TGTATCGAATAATCCCATTCAATTTTGACC
66 TACATCGAATAATCCCATTCAATTTTGACC
* *
16847978 AAAAATACCTTAAATAATCCACTTATAAAAATTGA-AAGGGATTATTTAAGGC-TTTTTTTAGCT
1 AAAAATACCTTAAATAATCC-C-CA-AAAAA-TGAGAAGGGATTATTTAAGGCATTTTTTT-GCC
** * *
16848041 AAAAATACATTTAATATTCCGATTCAATTTT
61 AAAAATACATCGAATAATCCCATTCAATTTT
16848072 TTGTAATAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
95 19 0.24
96 1 0.01
97 8 0.10
98 48 0.61
99 3 0.04
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (95 bp):
AAAAATACCTTAAATAATCCCCAAAAAATGAGAAGGGATTATTTAAGGCATTTTTTTGCCAAAAA
TACATCGAATAATCCCATTCAATTTTGACC
Found at i:16848230 original size:62 final size:59
Alignment explanation
Indices: 16848128--16848246 Score: 159
Period size: 62 Copynumber: 2.0 Consensus size: 59
16848118 TAATCTCATC
*
16848128 ATAAAAATTTGAAAGATTATTAAGGCATTTTTTGCCAGAAACGCCTTGAATAATCCCTTT
1 ATAAAAATTTGAAAGATTATTAAGGCATTTTTTACCAGAAACGCCTTGAATAA-CCCTTT
* * *
16848188 ATAAAAA-TTGAAAGAGATTATTTAAGGCATTTTTTACTAGAAACTCCTTGACTAACCCT
1 ATAAAAATTTG-AA-AGATTA-TTAAGGCATTTTTTACCAGAAACGCCTTGAATAACCCT
16848247 ATTCAATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 3 0.06
60 9 0.17
61 10 0.19
62 30 0.58
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (59 bp):
ATAAAAATTTGAAAGATTATTAAGGCATTTTTTACCAGAAACGCCTTGAATAACCCTTT
Found at i:16852803 original size:12 final size:11
Alignment explanation
Indices: 16852774--16852823 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
16852764 AATAAAAATA
16852774 AAATAAACAAC
1 AAATAAACAAC
16852785 AAGATAAACAATC
1 AA-ATAAACAA-C
*
16852798 TAATAAACAA-
1 AAATAAACAAC
16852808 AAAT-AACAA-
1 AAATAAACAAC
16852817 AAATAAA
1 AAATAAA
16852824 AATTATAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 9 0.26
10 5 0.15
11 2 0.06
12 16 0.47
13 2 0.06
ACGTcount: A:0.72, C:0.12, G:0.02, T:0.14
Consensus pattern (11 bp):
AAATAAACAAC
Found at i:16853025 original size:17 final size:17
Alignment explanation
Indices: 16853005--16853053 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
16852995 GTAGGCTAAT
*
16853005 AAAATAGCATGAAAATA
1 AAAATAGCATGAAAACA
16853022 AAAATAGCATGAAAACA
1 AAAATAGCATGAAAACA
* *
16853039 AAAACAGTATGAAAA
1 AAAATAGCATGAAAA
16853054 ATAGCATGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.65, C:0.08, G:0.12, T:0.14
Consensus pattern (17 bp):
AAAATAGCATGAAAACA
Found at i:16859406 original size:16 final size:18
Alignment explanation
Indices: 16859385--16859421 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16859375 ATGATCTTTT
16859385 TTTAAAGT-TT-ATATAA
1 TTTAAAGTATTAATATAA
*
16859401 TTTAAATTATTAATATAA
1 TTTAAAGTATTAATATAA
16859419 TTT
1 TTT
16859422 TTAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAAGTATTAATATAA
Found at i:16866844 original size:42 final size:42
Alignment explanation
Indices: 16866797--16866892 Score: 183
Period size: 42 Copynumber: 2.3 Consensus size: 42
16866787 CATCATGCTA
16866797 AAATCATTCAAACAAGTAAATTTAAGCAAAATACCATAGGAT
1 AAATCATTCAAACAAGTAAATTTAAGCAAAATACCATAGGAT
*
16866839 AAATCATTCAAACAAGTATATTTAAGCAAAATACCATAGGAT
1 AAATCATTCAAACAAGTAAATTTAAGCAAAATACCATAGGAT
16866881 AAATCATTCAAA
1 AAATCATTCAAA
16866893 GCTTAATAGG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.25
Consensus pattern (42 bp):
AAATCATTCAAACAAGTAAATTTAAGCAAAATACCATAGGAT
Found at i:16867632 original size:18 final size:18
Alignment explanation
Indices: 16867609--16867655 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
16867599 ACAAGTTCTC
16867609 AATAATGTCAATTTCAAA
1 AATAATGTCAATTTCAAA
16867627 AATAATGTCAATTTCAAA
1 AATAATGTCAATTTCAAA
*
16867645 AATAATATCAA
1 AATAATGTCAA
16867656 AATATCAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (18 bp):
AATAATGTCAATTTCAAA
Found at i:16869116 original size:17 final size:17
Alignment explanation
Indices: 16869094--16869127 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16869084 ATAATGAATT
*
16869094 TATGAACTATAAGCAAA
1 TATGAACTATAACCAAA
16869111 TATGAACTATAACCAAA
1 TATGAACTATAACCAAA
16869128 ATAAAGAGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (17 bp):
TATGAACTATAACCAAA
Found at i:16876038 original size:3 final size:3
Alignment explanation
Indices: 16876030--16876073 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
16876020 TTAGATACTT
* * *
16876030 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA GTA TTA CTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
16876074 TTTTTTCATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:16876448 original size:21 final size:20
Alignment explanation
Indices: 16876406--16876444 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16876396 GGTTTTATAA
* *
16876406 GTGAATTCAGGTTTCTAGAG
1 GTGAATTCAGGGTTCTAAAG
*
16876426 GTGAATTCAGGGTTGTAAA
1 GTGAATTCAGGGTTCTAAA
16876445 AGGTTCAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.08, G:0.31, T:0.33
Consensus pattern (20 bp):
GTGAATTCAGGGTTCTAAAG
Found at i:16876493 original size:11 final size:11
Alignment explanation
Indices: 16876477--16876516 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
16876467 TATTGGGGAG
16876477 TTTTTTTGAATT
1 TTTTTTTGAA-T
*
16876489 TTTTTTTGGAT
1 TTTTTTTGAAT
*
16876500 TTTTTTTTAAT
1 TTTTTTTGAAT
16876511 TTTTTT
1 TTTTTT
16876517 AAAATTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:16876494 original size:12 final size:12
Alignment explanation
Indices: 16876477--16876516 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
16876467 TATTGGGGAG
16876477 TTTTTTTGAATT
1 TTTTTTTGAATT
*
16876489 TTTTTTTGGATT
1 TTTTTTTGAATT
16876501 TTTTTTT-AATT
1 TTTTTTTGAATT
16876512 TTTTT
1 TTTTT
16876517 AAAATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:16883669 original size:189 final size:189
Alignment explanation
Indices: 16883348--16883729 Score: 719
Period size: 189 Copynumber: 2.0 Consensus size: 189
16883338 AAGTATCAAG
*
16883348 CCTTAGCAAGAGGGTAAGGAATGAGTCAACAGTTGTCCCCTACTTAAATGAGACTTTCACTCTTT
1 CCTTAGCAAGAGGGTAAAGAATGAGTCAACAGTTGTCCCCTACTTAAATGAGACTTTCACTCTTT
*
16883413 AAGGATACATGTTTCCAAAAACTGAAGAGGACACCAAAAAAGAACTAAAGTGAGAGGAAGCTTTT
66 AAGGATACATGTTTCCAAAAACTGAAGAGGACACCAAAAAAGAACCAAAGTGAGAGGAAGCTTTT
*
16883478 GCCAAGTTATCCATTCACATGATGGATAATGAAAGCTAAAATAAGAAAGTCATAGTTTA
131 GCCAAGTTATCCATTCACATGATGGATAATGAAAGCTAAAATAAGAAAGCCATAGTTTA
*
16883537 CCTTAGCAAGAGGGTAAAGAATGAGTCAACAGTTGTCCCCTACTTGAATGAGACTTTCACTCTTT
1 CCTTAGCAAGAGGGTAAAGAATGAGTCAACAGTTGTCCCCTACTTAAATGAGACTTTCACTCTTT
*
16883602 AAGGATACATGTTTCCAAAAACTGAAGAGGACACCAAAAAAGAACCAAAGTGAGAGGAAGTTTTT
66 AAGGATACATGTTTCCAAAAACTGAAGAGGACACCAAAAAAGAACCAAAGTGAGAGGAAGCTTTT
16883667 GCCAAGTTATCCATTCACATGATGGATAATGAAAGCTAAAATAAGAAAGCCATAGTTTA
131 GCCAAGTTATCCATTCACATGATGGATAATGAAAGCTAAAATAAGAAAGCCATAGTTTA
16883726 CCTT
1 CCTT
16883730 TGCCCACCGA
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
189 188 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (189 bp):
CCTTAGCAAGAGGGTAAAGAATGAGTCAACAGTTGTCCCCTACTTAAATGAGACTTTCACTCTTT
AAGGATACATGTTTCCAAAAACTGAAGAGGACACCAAAAAAGAACCAAAGTGAGAGGAAGCTTTT
GCCAAGTTATCCATTCACATGATGGATAATGAAAGCTAAAATAAGAAAGCCATAGTTTA
Found at i:16888601 original size:118 final size:116
Alignment explanation
Indices: 16888269--16888664 Score: 413
Period size: 118 Copynumber: 3.4 Consensus size: 116
16888259 TTTGCTTACT
*
16888269 TGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTTCA-TCTCGATTATTTATTTTTA
1 TGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTTCATTC-CGATCATTTATTTTTA
* * * * *
16888333 ACATTAACTTGATCCTTGTTACCTTATTTGACTAATAGTTTCATCTCGGTCGTA
65 ACATTGACTCGATCC-TG-TACCTTATTTGACTAGTAGTTTCATCTCGATCGCA
* * * * *
16888387 TGATCTTGGCTTAGTCTAGATTATTTCTTATGATTCATGGTTTCATCCCGATCATTTATTTTTTA
1 TGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTTCATTCCGATCATTTATTTTTAA
* * *
16888452 CATTGACTC-AGTCCTGGTAGCCTCATTTGACTCGTAGTTTCATCTCAATCGCA
66 CATTGACTCGA-TCCT-GTA-CCTTATTTGACTAGTAGTTTCATCTCGATCGCA
* * *
16888505 TGATTTTGGCTCAGTCCAGATCATTTTTTATGATTCGTGGTTTCATTCCGATCATTTATTTTTAA
1 TGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTTCATTCCGATCATTTATTTTTAA
* * * * * * * * *
16888570 CCTCGA-TCGATCCTGATCACTTTATTGTGACTTGTGGTTTTATCCCGATCACT
66 CATTGACTCGATCCTG-T-ACCTTATT-TGACTAGTAGTTTCATCTCGATCGCA
* * *
16888623 TGATCTTGGCTTAGTCTAGATCATTT-TTATTGATTCGTGGTT
1 TGATCTTGGCTCAGTCCAGATCATTTCTTA-TGATTCATGGTT
16888665 CTATCGTAAT
Statistics
Matches: 233, Mismatches: 36, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
116 1 0.00
117 19 0.08
118 212 0.91
119 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (116 bp):
TGATCTTGGCTCAGTCCAGATCATTTCTTATGATTCATGGTTTCATTCCGATCATTTATTTTTAA
CATTGACTCGATCCTGTACCTTATTTGACTAGTAGTTTCATCTCGATCGCA
Found at i:16889933 original size:15 final size:15
Alignment explanation
Indices: 16889913--16889944 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16889903 TTTCATTTTA
16889913 TTTTATTTTTTGATT
1 TTTTATTTTTTGATT
*
16889928 TTTTATTTTTTTATT
1 TTTTATTTTTTGATT
16889943 TT
1 TT
16889945 ATTTTATTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.84
Consensus pattern (15 bp):
TTTTATTTTTTGATT
Found at i:16889933 original size:20 final size:20
Alignment explanation
Indices: 16889908--16889949 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16889898 CTCTTTTTCA
16889908 TTTTATTTTATTT-TTTGATT
1 TTTTATTTT-TTTATTTGATT
*
16889928 TTTTATTTTTTTATTTTATT
1 TTTTATTTTTTTATTTGATT
16889948 TT
1 TT
16889950 ATTTCTAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTATTTTTTTATTTGATT
Found at i:16904909 original size:123 final size:123
Alignment explanation
Indices: 16904690--16904930 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 123
16904680 TGCAGCGCTT
16904690 AATGACAATTCTTTTTTCGATTTTGTTTGCTCGGTTGGTGGTATCTTTTGTGGTCTTGGTGTGGT
1 AATGACAATTCTTTTTTCGATTTTGTTTGCTCGGTTGGTGGTATCTTTTGTGGTCTTGGTGTGGT
16904755 AATTTGGCCACTTTGTTATGGATCTCTGAAGCCATGCCGTGCCATGCCATGCCATGCC
66 AATTTGGCCACTTTGTTATGGATCTCTGAAGCCATGCCGTGCCATGCCATGCCATGCC
16904813 AATGACAATTCTTTTTTCGATTTTGTTTGCTCGGTTGGTGGTATCTTTTGTGGTCTTGGTGTGGT
1 AATGACAATTCTTTTTTCGATTTTGTTTGCTCGGTTGGTGGTATCTTTTGTGGTCTTGGTGTGGT
16904878 AATTTGGCCACTTTGTTATGGATCTCTGAAGCCATGCCGTGCCATGCCATGCC
66 AATTTGGCCACTTTGTTATGGATCTCTGAAGCCATGCCGTGCCATGCCATGCC
16904931 CAAACTTTGT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (123 bp):
AATGACAATTCTTTTTTCGATTTTGTTTGCTCGGTTGGTGGTATCTTTTGTGGTCTTGGTGTGGT
AATTTGGCCACTTTGTTATGGATCTCTGAAGCCATGCCGTGCCATGCCATGCCATGCC
Found at i:16905181 original size:68 final size:67
Alignment explanation
Indices: 16905089--16905226 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 67
16905079 TACTGATCAG
* * *
16905089 ATCCGTTGAATCGATGATCTGATATTTAAATTGATTTGATTTTATTATTAGATTAGATTGGTAAT
1 ATCCGTTGAATCGATGATCTGATATTTAAATTGATTTAATTTTATTATTAAATTAAATTGGTAAT
16905154 TA
66 TA
* * * *
16905156 ATCCGTTTTAATCGGTGATTTGATATTTAAATTGGTTTAATTTTATTATTAAATTAAATTGGTAA
1 ATCCG-TTGAATCGATGATCTGATATTTAAATTGATTTAATTTTATTATTAAATTAAATTGGTAA
16905221 TTA
65 TTA
16905224 ATC
1 ATC
16905227 TACTTCAAAC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 5 0.08
68 58 0.92
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (67 bp):
ATCCGTTGAATCGATGATCTGATATTTAAATTGATTTAATTTTATTATTAAATTAAATTGGTAAT
TA
Found at i:16905365 original size:110 final size:110
Alignment explanation
Indices: 16905170--16905379 Score: 339
Period size: 110 Copynumber: 1.9 Consensus size: 110
16905160 GTTTTAATCG
* *
16905170 GTGATTTGATATTTAAATTGGTTTAATTTTATTATTAAATTAAATTGGTAATTAATCTACTTCAA
1 GTGATTCGATATTTAAATTGGTTTAATTTTATTACTAAATTAAATTGGTAATTAATCTACTTCAA
* *
16905235 ACTGTATTGAATAGGTGAATTGGTTATTTAAATTGCTTTAAATAT
66 ACTGAATTGAATAGGCGAATTGGTTATTTAAATTGCTTTAAATAT
** * *
16905280 GTGATTCGATATTTAAATTGGTTTGGTTTTATTACTAAATTAGATTGGTAATTAATCTACTTCTA
1 GTGATTCGATATTTAAATTGGTTTAATTTTATTACTAAATTAAATTGGTAATTAATCTACTTCAA
*
16905345 ACTGAATTGAATTGGCGAATTGGTTATTTAAATTG
66 ACTGAATTGAATAGGCGAATTGGTTATTTAAATTG
16905380 ATTTGGTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
110 91 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (110 bp):
GTGATTCGATATTTAAATTGGTTTAATTTTATTACTAAATTAAATTGGTAATTAATCTACTTCAA
ACTGAATTGAATAGGCGAATTGGTTATTTAAATTGCTTTAAATAT
Found at i:16907106 original size:14 final size:15
Alignment explanation
Indices: 16907089--16907122 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16907079 ATATATTTTA
*
16907089 TTTTATTATATAT-T
1 TTTTATTACATATAT
16907103 TTTTATTACATATAT
1 TTTTATTACATATAT
16907118 TTTTA
1 TTTTA
16907123 CAAAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTATTACATATAT
Found at i:16907121 original size:17 final size:16
Alignment explanation
Indices: 16907068--16907121 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
16907058 ATACAAAAGC
*
16907068 TTTTTTTCTTCATATA
1 TTTTTTTATTCATATA
16907084 TTTTATTTTATT-ATATA
1 -TTT-TTTTATTCATATA
16907101 -TTTTTTATTACATATA
1 TTTTTTTATT-CATATA
16907117 TTTTT
1 TTTTT
16907122 ACAAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 7 0.22
15 2 0.06
16 5 0.16
17 12 0.38
18 6 0.19
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTTATTCATATA
Found at i:16907429 original size:6 final size:6
Alignment explanation
Indices: 16907411--16907446 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
16907401 CGTTTTTATT
16907411 TAATTC TTAATTC TAATTC TAATTC TAATTC TAATT
1 TAATTC -TAATTC TAATTC TAATTC TAATTC TAATT
16907447 TTTAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (6 bp):
TAATTC
Found at i:16910353 original size:11 final size:10
Alignment explanation
Indices: 16910337--16910427 Score: 78
Period size: 10 Copynumber: 8.9 Consensus size: 10
16910327 AAAGAGCCCA
16910337 TTTTTTTTATG
1 TTTTTTTT-TG
16910348 -TTTTTTTTG
1 TTTTTTTTTG
16910357 TTTTGTTTTTG
1 TTTT-TTTTTG
16910368 TTTTTATTTT-
1 TTTTT-TTTTG
* * *
16910378 TATTATTTTA
1 TTTTTTTTTG
*
16910388 TTTTGTTTTG
1 TTTTTTTTTG
*
16910398 TTTTGTTTTG
1 TTTTTTTTTG
*
16910408 TTTTTTATGTG
1 TTTTTT-TTTG
16910419 TTTTTTTTT
1 TTTTTTTTT
16910428 AATCTTTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
9 6 0.09
10 38 0.57
11 23 0.34
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTG
Done.