Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, 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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 67 of 89
Found at i:15846885 original size:15 final size:16
Alignment explanation
Indices: 15846851--15846890 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
15846841 GAAAATGCTA
15846851 AAAATAAAATTCAAAT
1 AAAATAAAATTCAAAT
15846867 -AAATAAAATT-AAAT
1 AAAATAAAATTCAAAT
15846881 AAAATTAAAA
1 AAAA-TAAAA
15846891 AACAAGATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.18
15 13 0.59
16 5 0.23
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATAAAATTCAAAT
Found at i:15847711 original size:19 final size:20
Alignment explanation
Indices: 15847687--15847726 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
15847677 CTCGGTTTTC
15847687 TGCTCTCTGTCTCG-TGTCT
1 TGCTCTCTGTCTCGCTGTCT
*
15847706 TGCTCTCTTTCTCGCTGTCT
1 TGCTCTCTGTCTCGCTGTCT
15847726 T
1 T
15847727 CTCCTCTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (20 bp):
TGCTCTCTGTCTCGCTGTCT
Found at i:15848151 original size:3 final size:3
Alignment explanation
Indices: 15848143--15848221 Score: 68
Period size: 3 Copynumber: 25.0 Consensus size: 3
15848133 GTATTTTATT
* * **
15848143 TAA TAA TAA TATA TATA TAA TATA TGA TAT TAA TAA TAA TAA TGTT TAA
1 TAA TAA TAA TA-A TA-A TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA
**
15848192 TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
15848222 AAGTAAACTG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
3 51 0.84
4 10 0.16
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:15853498 original size:23 final size:22
Alignment explanation
Indices: 15853472--15853537 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
15853462 CTTGGCTTGC
15853472 TTTCTCCTTTTGATTTTC-TTTT
1 TTTCT-CTTTTGATTTTCTTTTT
15853494 TTT-TC-TTT--TTTTCTTTTT
1 TTTCTCTTTTGATTTTCTTTTT
15853512 TTTCT-TTTTGTATTTTCTTTTCT
1 TTTCTCTTTTG-ATTTTCTTTT-T
15853535 TTT
1 TTT
15853538 TGCACTCCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
17 5 0.14
18 7 0.19
19 7 0.19
20 1 0.03
21 1 0.03
22 12 0.32
23 4 0.11
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (22 bp):
TTTCTCTTTTGATTTTCTTTTT
Found at i:15853499 original size:9 final size:9
Alignment explanation
Indices: 15853485--15853538 Score: 67
Period size: 9 Copynumber: 6.1 Consensus size: 9
15853475 CTCCTTTTGA
15853485 TTTTCTTTT
1 TTTTCTTTT
15853494 TTTTC-TTT
1 TTTTCTTTT
15853502 TTTTCTTTT
1 TTTTCTTTT
15853511 TTTTCTTTT
1 TTTTCTTTT
* *
15853520 TGTAT-TTTC
1 T-TTTCTTTT
15853529 TTTTCTTTT
1 TTTTCTTTT
15853538 T
1 T
15853539 GCACTCCAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
8 10 0.26
9 26 0.68
10 2 0.05
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:15853511 original size:18 final size:17
Alignment explanation
Indices: 15853485--15853538 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
15853475 CTCCTTTTGA
15853485 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTCTTT
15853502 TTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTCTTT
* *
15853519 TTGTATTTTCTTTTCTTT
1 TTTTCTTTT-TTTTCTTT
15853537 TT
1 TT
15853539 GCACTCCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
17 24 0.71
18 10 0.29
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.85
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTTT
Found at i:15858989 original size:41 final size:41
Alignment explanation
Indices: 15858911--15858991 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
15858901 CTTTAATTTA
** *
15858911 AATTGAATTGGTTTGTGAATTAATACAAGTTATCATGATCT
1 AATTGAATTGGTTTGTGAAAAAATACAAGTTACCATGATCT
* *
15858952 AATTGAATTGGTTTGTGAAAAAATGCATGTTACCATGATC
1 AATTGAATTGGTTTGTGAAAAAATACAAGTTACCATGATC
15858992 GAATCAAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.38
Consensus pattern (41 bp):
AATTGAATTGGTTTGTGAAAAAATACAAGTTACCATGATCT
Found at i:15859030 original size:41 final size:41
Alignment explanation
Indices: 15858975--15859291 Score: 228
Period size: 41 Copynumber: 7.7 Consensus size: 41
15858965 TGTGAAAAAA
*
15858975 TGCATGTTACCATGATCGAATCAAGTTGAATGATGAACTAT
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTAT
* * * ** * * * *
15859016 TGTATGCCATCATGATTTAATTGAA-TCGAATGGTGAATTAT
1 TGCATGCTACCATGATCGAA-TCAAGTTGAATGATGAACTAT
* * *
15859057 TGCATACTACCATGACCGAATCAAGTTGAATGATGGACTAT
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTAT
* * * * * * * * *
15859098 TGTATACTGCCATGATTGAATTGAA-ATAAATGGTGAATTAT
1 TGCATGCTACCATGATCGAA-TCAAGTTGAATGATGAACTAT
*
15859139 TGCATGCTACGATGATCGAATCAAGTTGAATGATGAACTAT
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTAT
* * * * * * * *
15859180 TGTATGCTTCCATGATTGAATTGAA-TCGAATGGTTAATTAT
1 TGCATGCTACCATGATCGAA-TCAAGTTGAATGATGAACTAT
* * *
15859221 TGCATGATACCATGATCAAATCAAGTTGATTGATGAACTAT
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTAT
* * * *
15859262 TACATGATGCCAAGATCGAACTCAA-TTGAA
1 TGCATGCTACCATGATCGAA-TCAAGTTGAA
15859292 CTGAAATCGT
Statistics
Matches: 202, Mismatches: 67, Indels: 14
0.71 0.24 0.05
Matches are distributed among these distances:
40 9 0.04
41 180 0.89
42 13 0.06
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (41 bp):
TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTAT
Found at i:15859038 original size:82 final size:82
Alignment explanation
Indices: 15858975--15859262 Score: 400
Period size: 82 Copynumber: 3.5 Consensus size: 82
15858965 TGTGAAAAAA
* *
15858975 TGCATGTTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCCATCATGATTTAATTGA
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCCATCATGATTGAATTGA
15859040 ATCGAATGGTGAATTAT
66 ATCGAATGGTGAATTAT
* * * * ***
15859057 TGCATACTACCATGACCGAATCAAGTTGAATGATGGACTATTGTATACTGCCATGATTGAATTGA
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCCATCATGATTGAATTG-
*
15859122 AAT-AAATGGTGAATTAT
65 AATCGAATGGTGAATTAT
* *
15859139 TGCATGCTACGATGATCGAATCAAGTTGAATGATGAACTATTGTATG-CTTCCATGATTGAATTG
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCCAT-CATGATTGAATTG
*
15859203 AATCGAATGGTTAATTAT
65 AATCGAATGGTGAATTAT
* * *
15859221 TGCATGATACCATGATCAAATCAAGTTGATTGATGAACTATT
1 TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATT
15859263 ACATGATGCC
Statistics
Matches: 179, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
81 3 0.02
82 173 0.97
83 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (82 bp):
TGCATGCTACCATGATCGAATCAAGTTGAATGATGAACTATTGTATGCCATCATGATTGAATTGA
ATCGAATGGTGAATTAT
Found at i:15874612 original size:14 final size:14
Alignment explanation
Indices: 15874595--15874643 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
15874585 TGAACTACTA
*
15874595 ATTTTGAACTGTCG
1 ATTTTAAACTGTCG
* *
15874609 ATTTTAAATTGTCA
1 ATTTTAAACTGTCG
* *
15874623 ATTCTAAACTGTTG
1 ATTTTAAACTGTCG
15874637 ATTTTAA
1 ATTTTAA
15874644 GGCTACTTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (14 bp):
ATTTTAAACTGTCG
Found at i:15876791 original size:30 final size:30
Alignment explanation
Indices: 15876757--15876836 Score: 115
Period size: 30 Copynumber: 2.7 Consensus size: 30
15876747 GGAAAGCTTG
*
15876757 GTGGAGCACTTGGAAGACATATAAAACTTA
1 GTGGAGCATTTGGAAGACATATAAAACTTA
* * *
15876787 GTGGAGCATTTGGAAGATATATAGAGCTTA
1 GTGGAGCATTTGGAAGACATATAAAACTTA
*
15876817 GTGGAGCATTTGGGAGACAT
1 GTGGAGCATTTGGAAGACAT
15876837 TGACAGCTCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.26
Consensus pattern (30 bp):
GTGGAGCATTTGGAAGACATATAAAACTTA
Found at i:15904972 original size:385 final size:386
Alignment explanation
Indices: 15904215--15904972 Score: 1097
Period size: 385 Copynumber: 2.0 Consensus size: 386
15904205 TTCAGTATCA
* *
15904215 GCTTCCAAGCGTGATAAATGACCAGTCTAACATTCCATAGTGGATTGGTTATGGAATGGTTATCC
1 GCTTCCAAGCGTGATAAATGACCAGCCTAACATTCCATAGTGGACTGGTTATGGAATGGTTATCC
* * * *** * * *
15904280 TCTACCATGCTATAGTGTACTATCGCTTAAAGCAATTGATTCTGAAAGACTTGCAAGGTTCTGAT
66 CCTACCATGCTATAGTGTACTATCACTTAAAGCAATTGATTCTCAAAGACTCAAAAAGTTCCGAG
* * * * * *
15904345 ATTGTAGTAGTTGGTGAAAGAGTAAATATATTGTCTAATATGATTTCAGCAGACTGCTACGAAGT
131 ATTGTAGTAGTGGGTGAAAGAGTAAATATATTATATAATAGGATTTCAGCAAACTGCTAAGAAGT
* ** * * * *
15904410 TATTGCTGTAAGGATGTCAAGTGTTTTTGGTTAATGTGGTTGATACTCAAGCTTCAAAAGTTAAG
196 TATTGATACAAGGATGTCAAGTGTTTTTGGCTAATGTGGTGGATACTCAAGATTCAAAAGTCAAG
* * * *
15904475 TTATAAGATATACCAACTGTTCGAGAATATCTAGATGTGTTTCCAAAGGAATTACCAATATTACC
261 TTAGAAGATATACCAACTATTCGAGAATATCCAGATATGTTTCCAAAGGAATTACCAATATTACC
*
15904540 CACAGATTGAGATGTCGAATTTAAGATAGAGGTACTACTTGGTATTGCACCTTCGCTACCG
326 CACAGACTGAGATGTCGAATTTAAGATAGAGGTACTACTTGGTATTGCACCTTCGCTACCG
* * * *
15904601 GCTTCCAAGCGTGATGAATGATCAGCCTACCATTCCATAGTGGACT-GTTATGGACTGGTTATCC
1 GCTTCCAAGCGTGATAAATGACCAGCCTAACATTCCATAGTGGACTGGTTATGGAATGGTTATCC
** * **
15904665 CCTACCATTTTGTAGTGTACTATCACTTAAAGTGATTGATTCTCAAAGACTCAAAAAGTTCCGAG
66 CCTACCATGCTATAGTGTACTATCACTTAAAGCAATTGATTCTCAAAGACTCAAAAAGTTCCGAG
* *
15904730 ATTGTAGTAGTGGGTGAAAGAGTAAATATATTATATAATGGGATTTCAGCAAACTGTTAAGAAGT
131 ATTGTAGTAGTGGGTGAAAGAGTAAATATATTATATAATAGGATTTCAGCAAACTGCTAAGAAGT
*
15904795 TATTGATACAAGGATGTCAAGTGTTTTTGGCTAATGTGGTGGATACTCAAGATTTAAAAGTCAAG
196 TATTGATACAAGGATGTCAAGTGTTTTTGGCTAATGTGGTGGATACTCAAGATTCAAAAGTCAAG
*
15904860 TTAGAAGATATACCAACTATTCGAGAGTATCCAGATATGTTTCCAAAGGAATTACCAATATTACA
261 TTAGAAGATATACCAACTATTCGAGAATATCCAGATATGTTTCCAAAGGAATTACCAATATTAC-
* *
15904925 TC-CAGACTGAGATGTCGAATTTAGGATAGAGGTACTACTTGGTATTGC
325 CCACAGACTGAGATGTCGAATTTAAGATAGAGGTACTACTTGGTATTGC
15904973 GCCTAATTCT
Statistics
Matches: 327, Mismatches: 44, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
385 285 0.87
386 42 0.13
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (386 bp):
GCTTCCAAGCGTGATAAATGACCAGCCTAACATTCCATAGTGGACTGGTTATGGAATGGTTATCC
CCTACCATGCTATAGTGTACTATCACTTAAAGCAATTGATTCTCAAAGACTCAAAAAGTTCCGAG
ATTGTAGTAGTGGGTGAAAGAGTAAATATATTATATAATAGGATTTCAGCAAACTGCTAAGAAGT
TATTGATACAAGGATGTCAAGTGTTTTTGGCTAATGTGGTGGATACTCAAGATTCAAAAGTCAAG
TTAGAAGATATACCAACTATTCGAGAATATCCAGATATGTTTCCAAAGGAATTACCAATATTACC
CACAGACTGAGATGTCGAATTTAAGATAGAGGTACTACTTGGTATTGCACCTTCGCTACCG
Found at i:15906431 original size:42 final size:42
Alignment explanation
Indices: 15906374--15906461 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
15906364 AGATTATTCA
*
15906374 AAATAATCTTAAGATAGCAACAGATCGACAAAAGTCTTACTC
1 AAATAATCTTAAGATAGCAACAGATCGACAAAAGTCTTACGC
*
15906416 AAATAATCTTAAGATAGCAATAGATCGACAAAAGTCTTACGC
1 AAATAATCTTAAGATAGCAACAGATCGACAAAAGTCTTACGC
15906458 AAAT
1 AAAT
15906462 TTGAAAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.24
Consensus pattern (42 bp):
AAATAATCTTAAGATAGCAACAGATCGACAAAAGTCTTACGC
Found at i:15906820 original size:28 final size:29
Alignment explanation
Indices: 15906756--15906822 Score: 95
Period size: 28 Copynumber: 2.4 Consensus size: 29
15906746 TGGTGCAAGT
15906756 TATATGAGGCACTTTCGAGTGCATATTAC
1 TATATGAGGCACTTTCGAGTGCATATTAC
*
15906785 TA-ACGAGGCACTTTCGAGTGCA-ATTGA-
1 TATATGAGGCACTTTCGAGTGCATATT-AC
15906812 TATATGAGGCA
1 TATATGAGGCA
15906823 GCTAGAGTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.15
28 27 0.79
29 2 0.06
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (29 bp):
TATATGAGGCACTTTCGAGTGCATATTAC
Found at i:15906956 original size:31 final size:29
Alignment explanation
Indices: 15906900--15906975 Score: 79
Period size: 31 Copynumber: 2.7 Consensus size: 29
15906890 GGATATACTT
*
15906900 ATATGAAATTGAAAAGTACATGTTATATG
1 ATATGAAATTGAAAAGTAAATGTTATATG
* *
15906929 ATATGAATATGTGAACAGTAAATGTTATTTG
1 ATATGAA-AT-TGAAAAGTAAATGTTATATG
15906960 AT-T-AAA-TG-AAAGTAAA
1 ATATGAAATTGAAAAGTAAA
15906976 CAATTCACCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
25 7 0.17
26 2 0.05
28 1 0.02
29 9 0.22
30 3 0.07
31 19 0.46
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (29 bp):
ATATGAAATTGAAAAGTAAATGTTATATG
Found at i:15911783 original size:24 final size:24
Alignment explanation
Indices: 15911756--15911805 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15911746 CCTTAACTTG
*
15911756 AACACATACATTCTCAAATAATGA
1 AACACATACATTCTCAAAGAATGA
15911780 AACACATACATTCTCAAAGAATGA
1 AACACATACATTCTCAAAGAATGA
15911804 AA
1 AA
15911806 GTCACTCACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.20, G:0.06, T:0.22
Consensus pattern (24 bp):
AACACATACATTCTCAAAGAATGA
Found at i:15918325 original size:21 final size:20
Alignment explanation
Indices: 15918301--15918346 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15918291 GGGTCGATCT
15918301 TTTTTGAAAAGGGATCAATCA
1 TTTTT-AAAAGGGATCAATCA
* * *
15918322 TTTTTATAAGGGATCGATCC
1 TTTTTAAAAGGGATCAATCA
15918342 TTTTT
1 TTTTT
15918347 CACGGGGGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.43
Consensus pattern (20 bp):
TTTTTAAAAGGGATCAATCA
Found at i:15918332 original size:20 final size:20
Alignment explanation
Indices: 15918309--15918346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15918299 CTTTTTTGAA
15918309 AAGGGATCAATCATTTTTAT
1 AAGGGATCAATCATTTTTAT
* *
15918329 AAGGGATCGATCCTTTTT
1 AAGGGATCAATCATTTTT
15918347 CACGGGGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.39
Consensus pattern (20 bp):
AAGGGATCAATCATTTTTAT
Found at i:15918874 original size:12 final size:12
Alignment explanation
Indices: 15918843--15918875 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15918833 CATACCAAGC
*
15918843 ATCAAACAACGA
1 ATCAAACTACGA
15918855 ATCAAACTACGA
1 ATCAAACTACGA
15918867 ATCAAACTA
1 ATCAAACTA
15918876 TCGTCAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.55, C:0.24, G:0.06, T:0.15
Consensus pattern (12 bp):
ATCAAACTACGA
Found at i:15924942 original size:21 final size:22
Alignment explanation
Indices: 15924899--15924942 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
15924889 TTATGCTGGA
* * *
15924899 TTTGAATGTTATAATGTTGATT
1 TTTGAATGTTAGAAAGTTAATT
15924921 TTTG-ATGTTAGAAAGTTAATT
1 TTTGAATGTTAGAAAGTTAATT
15924942 T
1 T
15924943 GAACCATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (22 bp):
TTTGAATGTTAGAAAGTTAATT
Found at i:15925981 original size:5 final size:5
Alignment explanation
Indices: 15925963--15926008 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
15925953 GAGTGATAAT
* *
15925963 ATGAT ATGAT ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC A
1 ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC ATGAC A
15926009 GTGATGTGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (5 bp):
ATGAC
Found at i:15926017 original size:5 final size:5
Alignment explanation
Indices: 15926009--15926127 Score: 238
Period size: 5 Copynumber: 23.8 Consensus size: 5
15925999 TGACATGACA
15926009 GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT
1 GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT
15926059 GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT
1 GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT GTGAT
15926109 GTGAT GTGAT GTGAT GTGA
1 GTGAT GTGAT GTGAT GTGA
15926128 GGTACATTCA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 114 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.39
Consensus pattern (5 bp):
GTGAT
Found at i:15927866 original size:15 final size:15
Alignment explanation
Indices: 15927831--15927859 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15927821 ATGAACAGAA
15927831 AATAATTTTAAATTG
1 AATAATTTTAAATTG
15927846 AATAATTTTAAATT
1 AATAATTTTAAATT
15927860 AATTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
AATAATTTTAAATTG
Found at i:15930212 original size:22 final size:22
Alignment explanation
Indices: 15930181--15930230 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
15930171 TTATGGTATG
* *
15930181 TTTGTCGATACAATCAGATTTA
1 TTTGTAGATACAAACAGATTTA
15930203 TTTGTAGATACAAACAGATTTA
1 TTTGTAGATACAAACAGATTTA
15930225 TTTGTA
1 TTTGTA
15930231 TATATCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (22 bp):
TTTGTAGATACAAACAGATTTA
Found at i:15939191 original size:81 final size:81
Alignment explanation
Indices: 15939064--15939699 Score: 879
Period size: 81 Copynumber: 7.9 Consensus size: 81
15939054 AATTGTTTAA
* * * * * *
15939064 AGTAAAAGATTAATAACCTTA-TTATACATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATAGCC-TAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
15939128 AAGGTTAAATACCTTTC
65 AAGGTTAAATACCTTTG
* * * *
15939145 AGTAAAATATTAATAGCCTAACTGTGCATTTGACAGAAATGAGTCAATTATG-CAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939209 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
15939225 AGTAAAAGATTAGTAGCCTAGTTGTGCATTTGACAAAAAGGTGTCCATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939290 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * * *
15939306 AGTAAAAGATTAAAAGCCTAGTTGTGTATTTGACAGAAATGTGTCAATTATTCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939371 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
15939387 AGTAAAAGATTAATAGCCTAGTTGTGCATTTGACAGAACGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939452 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * *
15939468 AGTAAAAAATTAATA--C-A-CTGTGCATTTGACATAAAGGTGTCAATTATGCTAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
15939529 AGGTTAAATGCCTTTA
66 AGGTTAAATACCTTTG
* * * * ***
15939545 AGTAAAAGATTAATAGTCTAGCTGTGTATTTGAAAGAAAGGTGTCAACTATGTTGGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939610 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
15939626 AGTAAAAGATTAATAGCCTAGCTTTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAA
1 AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
15939691 AGGTTAAAT
66 AGGTTAAAT
15939700 GGCTTTTGAT
Statistics
Matches: 495, Mismatches: 54, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
77 68 0.14
78 1 0.00
79 2 0.00
80 74 0.15
81 350 0.71
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATAGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:15939606 original size:239 final size:242
Alignment explanation
Indices: 15939098--15939699 Score: 874
Period size: 239 Copynumber: 2.5 Consensus size: 242
15939088 TACATTTGGC
* * * * *
15939098 AGAAATGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTCAGTAAAATATTAATAGCC
1 AGAAAGGTGTCAACTATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCC
** * *
15939163 TAACTGTGCATTTGACAGAAATGAGTCAATTATG-CAGTTAGATGAAAGGTTAAATACCTTTGAG
66 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* * * *
15939227 TAAAAGATTAGTAGCCTAGTTGTGCATTTGACAAAAAGGTGTCCATTATGCCAGTTAGATGAAAG
131 TAAAAAATTAATA-CCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * *
15939292 GTTAAATACCTTTGAGTAAAAGATTAAAAGCCTAGTTGTGTATTTGAC
195 GTTAAATACCTTTAAGTAAAAGATTAAAAGCCTAGCTGTGTATTTGAA
* *
15939340 AGAAATGTGTCAATTATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCC
1 AGAAAGGTGTCAACTATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCC
*
15939405 TAGTTGTGCATTTGACAGAACGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
66 TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
* *
15939470 TAAAAAATTAATA-C-A-CTGTGCATTTGACATAAAGGTGTCAATTATGCTAGTTAGATGAAAGG
131 TAAAAAATTAATACCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
* * *
15939532 TTAAATGCCTTTAAGTAAAAGATTAATAGTCTAGCTGTGTATTTGAA
196 TTAAATACCTTTAAGTAAAAGATTAAAAGCCTAGCTGTGTATTTGAA
**
15939579 AGAAAGGTGTCAACTATGT-TGGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGC
1 AGAAAGGTGTCAACTAT-TCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGC
* * *
15939643 CTAGCTT-TGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGTTAAAT
65 CTAG-TTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAT
15939700 GGCTTTTGAT
Statistics
Matches: 329, Mismatches: 28, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
239 192 0.58
240 4 0.01
241 1 0.00
242 91 0.28
243 41 0.12
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (242 bp):
AGAAAGGTGTCAACTATTCCAGTTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAATAGCC
TAGTTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATACCTTTGAG
TAAAAAATTAATACCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGG
TTAAATACCTTTAAGTAAAAGATTAAAAGCCTAGCTGTGTATTTGAA
Found at i:15942246 original size:2 final size:2
Alignment explanation
Indices: 15942239--15942274 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15942229 TGAAACATGC
15942239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15942275 TCACGGGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15942308 original size:21 final size:21
Alignment explanation
Indices: 15942282--15942350 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
15942272 TATTCACGGG
15942282 ACTAAAATAAAATAAACAAAA
1 ACTAAAATAAAATAAACAAAA
* ** ** *
15942303 ACTAAAGTGCAATAATTAACA
1 ACTAAAATAAAATAAACAAAA
* *
15942324 ACTAAAATTAAATAAAGAAAA
1 ACTAAAATAAAATAAACAAAA
15942345 A-TAAAA
1 ACTAAAA
15942351 GACATAAATT
Statistics
Matches: 36, Mismatches: 12, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (21 bp):
ACTAAAATAAAATAAACAAAA
Found at i:15943006 original size:13 final size:13
Alignment explanation
Indices: 15942990--15943014 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15942980 TATATTAATC
15942990 TAAAAAACTAAAA
1 TAAAAAACTAAAA
15943003 TAAAAAACTAAA
1 TAAAAAACTAAA
15943015 GTAACCCCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
TAAAAAACTAAAA
Found at i:15949159 original size:40 final size:40
Alignment explanation
Indices: 15949085--15949166 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
15949075 AGTACAAGTC
* * *
15949085 AGGTGGGCAAAGCCCGACCTCAGCACCACGGTGCATTATT
1 AGGTGAGCAAAGCCCGACCTCAACACCACGGTGCAATATT
* * **
15949125 AGGTGAGCAAAGCTCGACCTCAACACTATTGTGCAATATT
1 AGGTGAGCAAAGCCCGACCTCAACACCACGGTGCAATATT
15949165 AG
1 AG
15949167 ACTCCTATAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (40 bp):
AGGTGAGCAAAGCCCGACCTCAACACCACGGTGCAATATT
Found at i:15950048 original size:34 final size:34
Alignment explanation
Indices: 15950001--15950068 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
15949991 TTCATGGGTG
15950001 GTAAACCACTAGGAATGTCGTCTTGAAATAGTTC
1 GTAAACCACTAGGAATGTCGTCTTGAAATAGTTC
*
15950035 GTAAACCATTAGGAATGTCGTCTTGAAATAGTTC
1 GTAAACCACTAGGAATGTCGTCTTGAAATAGTTC
15950069 TTCGAACTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (34 bp):
GTAAACCACTAGGAATGTCGTCTTGAAATAGTTC
Found at i:15968164 original size:3 final size:3
Alignment explanation
Indices: 15968156--15968196 Score: 57
Period size: 3 Copynumber: 13.3 Consensus size: 3
15968146 ATTATATATG
15968156 TTA TTA TTA TTA TTA TTA TTA TTAA TTA -TA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA T-TA TTA TTA T
15968197 ATTTACAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 2 0.06
3 27 0.77
4 6 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:15968197 original size:12 final size:12
Alignment explanation
Indices: 15968146--15968198 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
15968136 TCATTATTTA
*
15968146 ATTATATATGTT
1 ATTATATATATT
15968158 ATTAT-TATTATT
1 ATTATATA-TATT
*
15968170 ATTAT-TAT-TA
1 ATTATATATATT
15968180 ATTATATATATT
1 ATTATATATATT
15968192 ATTATAT
1 ATTATAT
15968199 TTACAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 6 0.17
11 6 0.17
12 23 0.66
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
ATTATATATATT
Found at i:15968210 original size:34 final size:35
Alignment explanation
Indices: 15968138--15968210 Score: 87
Period size: 34 Copynumber: 2.1 Consensus size: 35
15968128 ATAGTATATC
* ** *
15968138 ATTATTTAATTATATATGTTATTATTATTATTATT
1 ATTATTTAATTATATATATTATTATTATTACAAAT
15968173 ATTA-TTAATTATATATATTATTA-TATTTACAAAT
1 ATTATTTAATTATATATATTATTATTA-TTACAAAT
15968207 ATTA
1 ATTA
15968211 CAAAAATCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 2 0.06
34 27 0.82
35 4 0.12
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
ATTATTTAATTATATATATTATTATTATTACAAAT
Found at i:15976050 original size:20 final size:20
Alignment explanation
Indices: 15976027--15976092 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
15976017 TTATAAATCC
15976027 TTCGGGTCATCTATAAGTCT
1 TTCGGGTCATCTATAAGTCT
* * * *
15976047 TTCGAGCATGATGCT-TAAATCC
1 TTCG-G-GTCAT-CTATAAGTCT
*
15976069 TTCGGGTCATCTATTAGTCT
1 TTCGGGTCATCTATAAGTCT
15976089 TTCG
1 TTCG
15976093 AGCAAGTGGA
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
19 2 0.06
20 15 0.45
21 2 0.06
22 12 0.36
23 2 0.06
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (20 bp):
TTCGGGTCATCTATAAGTCT
Found at i:15976323 original size:3 final size:3
Alignment explanation
Indices: 15976317--15976375 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
15976307 TATAATAATA
*
15976317 TAT TAT TAAT TA- TAT ATGT TAT TAT TAT TAT TAT TAT TA- TAT TAAT
1 TAT TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT
15976363 TA- TAT ATAT TAT T
1 TAT TAT -TAT TAT T
15976376 CAAATATTAC
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 6 0.13
3 30 0.64
4 11 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:15976340 original size:12 final size:12
Alignment explanation
Indices: 15976314--15976375 Score: 65
Period size: 12 Copynumber: 5.0 Consensus size: 12
15976304 TTTTATAATA
15976314 ATATATTATTAATT
1 ATATA-TATT-ATT
*
15976328 ATATATGTTATT
1 ATATATATTATT
15976340 AT-TATTATTATT
1 ATATA-TATTATT
15976352 AT-TATATTAATT
1 ATATATATT-ATT
15976364 ATATATATTATT
1 ATATATATTATT
15976376 CAAATATTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 6 0.14
12 23 0.53
13 9 0.21
14 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
ATATATATTATT
Found at i:15977537 original size:14 final size:14
Alignment explanation
Indices: 15977518--15977545 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15977508 CATTTTAACC
15977518 TTATTAGTAAATTA
1 TTATTAGTAAATTA
15977532 TTATTAGTAAATTA
1 TTATTAGTAAATTA
15977546 GGGTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTATTAGTAAATTA
Found at i:15978456 original size:24 final size:24
Alignment explanation
Indices: 15978429--15978476 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
15978419 CCAAATAAAT
*
15978429 TAAAAAAAGAAATTAA-AAATTTAA
1 TAAAAAAAG-AATTAAGAAAATTAA
*
15978453 TAAACAAAGAATTAAGAAAATTAA
1 TAAAAAAAGAATTAAGAAAATTAA
15978477 AATTGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (24 bp):
TAAAAAAAGAATTAAGAAAATTAA
Found at i:15978706 original size:12 final size:12
Alignment explanation
Indices: 15978689--15978714 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15978679 AATAATTAAA
15978689 ATAAAATCATAT
1 ATAAAATCATAT
15978701 ATAAAATCATAT
1 ATAAAATCATAT
15978713 AT
1 AT
15978715 CCAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAAATCATAT
Found at i:15980712 original size:32 final size:32
Alignment explanation
Indices: 15980676--15980749 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
15980666 ACTGCTGCGT
15980676 ATTATCTGAAA-ATGACATTGACACTACTGTAC
1 ATTATCT-AAACATGACATTGACACTACTGTAC
* * **
15980708 ATTATCTAAACGTGACATTGATACTGTTGTAC
1 ATTATCTAAACATGACATTGACACTACTGTAC
15980740 ATTATCTAAA
1 ATTATCTAAA
15980750 TGGAAGACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 3 0.08
32 34 0.92
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTATCTAAACATGACATTGACACTACTGTAC
Found at i:15987180 original size:15 final size:15
Alignment explanation
Indices: 15987160--15987189 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15987150 TACCATAAGA
15987160 ACAATATTGATACTC
1 ACAATATTGATACTC
*
15987175 ACAATATTGGTACTC
1 ACAATATTGATACTC
15987190 CTACCCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (15 bp):
ACAATATTGATACTC
Found at i:15988119 original size:25 final size:25
Alignment explanation
Indices: 15988073--15988120 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
15988063 TAATATTAAC
* ** *
15988073 TAATATTAATATAATCATTAATACG
1 TAATAATAATATAAAAACTAATACG
15988098 TAATAATAATATAAAAACTAATA
1 TAATAATAATATAAAAACTAATA
15988121 AATACTAATA
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:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (25 bp):
TAATAATAATATAAAAACTAATACG
Found at i:15997662 original size:18 final size:17
Alignment explanation
Indices: 15997632--15997667 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
15997622 AGACTTTTTG
*
15997632 ATTTAGATTAAGATAAA
1 ATTTAGATAAAGATAAA
15997649 ATTTCAGATAAAGATAAA
1 ATTT-AGATAAAGATAAA
15997667 A
1 A
15997668 AGATAAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.31
Consensus pattern (17 bp):
ATTTAGATAAAGATAAA
Found at i:15997697 original size:27 final size:29
Alignment explanation
Indices: 15997656--15997712 Score: 82
Period size: 27 Copynumber: 2.0 Consensus size: 29
15997646 AAAATTTCAG
15997656 ATAAAGATAAAAAGATAAGAATAAA-ATA
1 ATAAAGATAAAAAGATAAGAATAAAGATA
* *
15997684 ATAAA-ATAATAAGATAAGGATAAAGATA
1 ATAAAGATAAAAAGATAAGAATAAAGATA
15997712 A
1 A
15997713 AATGGGGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.19
Consensus pattern (29 bp):
ATAAAGATAAAAAGATAAGAATAAAGATA
Found at i:16004203 original size:17 final size:18
Alignment explanation
Indices: 16004172--16004205 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16004162 TATAGCAAAA
*
16004172 AGTTATTAATTTTTCTGT
1 AGTTATTAATATTTCTGT
16004190 AGTTA-TAATATTTCTG
1 AGTTATTAATATTTCTG
16004206 AGCCGAGTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (18 bp):
AGTTATTAATATTTCTGT
Found at i:16015064 original size:20 final size:20
Alignment explanation
Indices: 16015039--16015081 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
16015029 GCCAAAGATG
16015039 ATTTAGGAAATTGATGTAAT
1 ATTTAGGAAATTGATGTAAT
*
16015059 ATTTAGGAAATTGATGTATT
1 ATTTAGGAAATTGATGTAAT
16015079 ATT
1 ATT
16015082 GATCATTACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTTAGGAAATTGATGTAAT
Found at i:16019407 original size:21 final size:21
Alignment explanation
Indices: 16019383--16019428 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16019373 TGTAGTATTG
* *
16019383 ATACTCCTGAACCAAGTATCA
1 ATACTCCTAAACCAAGTATAA
* *
16019404 ATACTTCTAAACCAATTATAA
1 ATACTCCTAAACCAAGTATAA
16019425 ATAC
1 ATAC
16019429 CGTTCCTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.28
Consensus pattern (21 bp):
ATACTCCTAAACCAAGTATAA
Found at i:16019626 original size:19 final size:20
Alignment explanation
Indices: 16019583--16019631 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
16019573 AATGAACCTG
* *
16019583 GTATCAATACTCATACTCAA
1 GTATCAATACTCAAACCCAA
*
16019603 GTATCAATACT-AAACCCCA
1 GTATCAATACTCAAACCCAA
16019622 GTATCAATAC
1 GTATCAATAC
16019632 CCAATGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.41, C:0.27, G:0.06, T:0.27
Consensus pattern (20 bp):
GTATCAATACTCAAACCCAA
Found at i:16026076 original size:16 final size:16
Alignment explanation
Indices: 16026041--16026077 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
16026031 ATTGGTGACC
*
16026041 AAAGTATAAATTTGGT
1 AAAGTATAAATTTGGA
*
16026057 AAAGTATAAATTTTGA
1 AAAGTATAAATTTGGA
16026073 AAAGT
1 AAAGT
16026078 TTAGGGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (16 bp):
AAAGTATAAATTTGGA
Found at i:16030168 original size:13 final size:12
Alignment explanation
Indices: 16030148--16030260 Score: 70
Period size: 13 Copynumber: 9.1 Consensus size: 12
16030138 TAAAAATTAT
*
16030148 AAAAA-AAACAA
1 AAAAAGAAAAAA
16030159 AAAAAGAAAACGAA
1 AAAAAGAAAA--AA
*
16030173 AAAAACAGAAAAA
1 AAAAAGA-AAAAA
* *
16030186 AGAAAG-AATAA
1 AAAAAGAAAAAA
*
16030197 AAAGAGAAAAAA
1 AAAAAGAAAAAA
*
16030209 AACGAAGAAAAAA
1 AA-AAAGAAAAAA
16030222 ACAAATAG-AAAAA
1 A-AAA-AGAAAAAA
*
16030235 GAAAAGAAAAGAA
1 AAAAAGAAAA-AA
*
16030248 AAAGAGAAAAAA
1 AAAAAGAAAAAA
16030260 A
1 A
16030261 TGAGAGATGA
Statistics
Matches: 78, Mismatches: 14, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
11 15 0.19
12 18 0.23
13 31 0.40
14 11 0.14
15 3 0.04
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:16030177 original size:9 final size:10
Alignment explanation
Indices: 16030149--16030250 Score: 57
Period size: 10 Copynumber: 9.5 Consensus size: 10
16030139 AAAAATTATA
*
16030149 AAAAAAACAA
1 AAAAAAACAG
*
16030159 AAAAAGAAAACG
1 AAAAA-AACA-G
16030171 AAAAAAACAG
1 AAAAAAACAG
*
16030181 AAAAAAGAAAG
1 AAAAAA-ACAG
*
16030192 AATAAAAAGAG
1 AA-AAAAACAG
16030203 AAAAAAAACGAAG
1 -AAAAAAAC--AG
16030216 AAAAAAACA-
1 AAAAAAACAG
16030225 AATAGAAAA-AG
1 AA-A-AAAACAG
16030236 AAAAGAAA-AG
1 AAAA-AAACAG
16030246 AAAAA
1 AAAAA
16030251 GAGAAAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 23
0.72 0.06 0.22
Matches are distributed among these distances:
9 4 0.05
10 25 0.33
11 25 0.33
12 19 0.25
13 2 0.03
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAAACAG
Found at i:16030184 original size:24 final size:23
Alignment explanation
Indices: 16030148--16030259 Score: 88
Period size: 23 Copynumber: 4.7 Consensus size: 23
16030138 TAAAAATTAT
*
16030148 AAAAAAA-ACAAAAAAAGAAAACG
1 AAAAAAACAGAAAAAAAGAAAA-G
16030171 AAAAAAACAG-AAAAAAG-AAAG
1 AAAAAAACAGAAAAAAAGAAAAG
* *
16030192 AATAAAAAGAGAAAAAAA-ACGAAG
1 AA-AAAAACAGAAAAAAAGA-AAAG
*
16030216 AAAAAAACAAATAGAAAAAGAAAAG
1 AAAAAAACAGA-A-AAAAAGAAAAG
*
16030241 AAAAGAAAAAGAGAAAAAA
1 AAAA-AAACAGA-AAAAAA
16030260 ATGAGAGATG
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.04
22 10 0.14
23 27 0.38
24 7 0.10
25 17 0.24
26 7 0.10
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.02
Consensus pattern (23 bp):
AAAAAAACAGAAAAAAAGAAAAG
Found at i:16030208 original size:33 final size:34
Alignment explanation
Indices: 16030150--16030261 Score: 96
Period size: 33 Copynumber: 3.4 Consensus size: 34
16030140 AAAATTATAA
* *
16030150 AAAAAACAAA-AAA-AGAAAACG-AAAAAAACAG
1 AAAAAAGAAACAAATAGAAAAAGAAAAAAAACAG
*
16030181 AAAAAAGAAA-GAATA-AAAAGAGAAAAAAAAC-G
1 AAAAAAGAAACAAATAGAAAA-AGAAAAAAAACAG
*
16030213 AAGAAAA-AAACAAATAGAAAAAGAAAAGAAA-AG
1 AA-AAAAGAAACAAATAGAAAAAGAAAAAAAACAG
*
16030246 AAAAAGAGAAAAAAAT
1 AAAAA-AGAAACAAAT
16030262 GAGAGATGAA
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
31 15 0.23
32 11 0.17
33 29 0.44
34 11 0.17
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.03
Consensus pattern (34 bp):
AAAAAAGAAACAAATAGAAAAAGAAAAAAAACAG
Found at i:16030252 original size:11 final size:10
Alignment explanation
Indices: 16030148--16030250 Score: 80
Period size: 11 Copynumber: 9.5 Consensus size: 10
16030138 TAAAAATTAT
*
16030148 AAAAAAAACAA
1 AAAAAAAA-AG
16030159 AAAAAGAAAACG
1 AAAAA-AAAA-G
*
16030171 AAAAAAACAG
1 AAAAAAAAAG
16030181 AAAAAAGAAAG
1 AAAAAA-AAAG
*
16030192 AATAAAAAGAG
1 AA-AAAAAAAG
*
16030203 AAAAAAAACG
1 AAAAAAAAAG
*
16030213 AAGAAAAAAAC
1 AA-AAAAAAAG
16030224 AAATAGAAAAAG
1 AAA-A-AAAAAG
*
16030236 AAAAGAAAAG
1 AAAAAAAAAG
16030246 AAAAA
1 AAAAA
16030251 GAGAAAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
10 25 0.34
11 29 0.39
12 20 0.27
ACGTcount: A:0.81, C:0.05, G:0.13, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:16030260 original size:11 final size:11
Alignment explanation
Indices: 16030171--16030265 Score: 59
Period size: 11 Copynumber: 8.0 Consensus size: 11
16030161 AAAGAAAACG
*
16030171 AAAAAAACAGA
1 AAAAAAAGAGA
16030182 AAAAAGAA-AGA
1 AAAAA-AAGAGA
*
16030193 ATAAAAAGAGA
1 AAAAAAAGAGA
16030204 AAAAAAACGAAGAAA
1 AAAAAAA-G-AG--A
*
16030219 AAAACAAATAGA
1 AAAA-AAAGAGA
16030231 AAAAGAAA-AGAA
1 AAAA-AAAGAG-A
16030243 AAGAAAAAGAGA
1 AA-AAAAAGAGA
*
16030255 AAAAAATGAGA
1 AAAAAAAGAGA
16030266 GATGAAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 20
0.73 0.05 0.21
Matches are distributed among these distances:
10 2 0.03
11 31 0.45
12 20 0.29
13 6 0.09
14 2 0.03
15 5 0.07
16 3 0.04
ACGTcount: A:0.78, C:0.03, G:0.16, T:0.03
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:16031933 original size:30 final size:30
Alignment explanation
Indices: 16031864--16031954 Score: 80
Period size: 30 Copynumber: 3.1 Consensus size: 30
16031854 ATGGATTTAT
* * ** *
16031864 TTAGTGACCAAATTATAAA-TTTGGTAAAG
1 TTAGGGACCAAAATATAAATTTTGAAAAAA
* *
16031893 TTTGGTGACCAAAGTATAAATTTTGAAAAAA
1 TTAGG-GACCAAAATATAAATTTTGAAAAAA
*
16031924 TTAGGGACCAAAATGT-AATTTT-AAAAAA
1 TTAGGGACCAAAATATAAATTTTGAAAAAA
16031952 TTA
1 TTA
16031955 CATATGGGTC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 9 0.18
29 9 0.18
30 22 0.43
31 11 0.22
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (30 bp):
TTAGGGACCAAAATATAAATTTTGAAAAAA
Found at i:16034064 original size:7 final size:7
Alignment explanation
Indices: 16034030--16034072 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
16034020 TATATTGGGC
*
16034030 TATGGTC
1 TATGGTT
* *
16034037 TATTGTC
1 TATGGTT
16034044 TATGGTT
1 TATGGTT
16034051 TATGGTT
1 TATGGTT
16034058 TATGGTT
1 TATGGTT
16034065 TATTGGTT
1 TA-TGGTT
16034073 AATAAATGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
7 27 0.84
8 5 0.16
ACGTcount: A:0.14, C:0.05, G:0.26, T:0.56
Consensus pattern (7 bp):
TATGGTT
Found at i:16042577 original size:30 final size:30
Alignment explanation
Indices: 16042541--16042603 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
16042531 TGTGTGTTAC
16042541 AAGCATGAAAGTTGACACCTTTTAACCTCT
1 AAGCATGAAAGTTGACACCTTTTAACCTCT
16042571 AAGCATGAAAGTTGACACCTTTTAACCTCT
1 AAGCATGAAAGTTGACACCTTTTAACCTCT
16042601 AAG
1 AAG
16042604 ACACTAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (30 bp):
AAGCATGAAAGTTGACACCTTTTAACCTCT
Found at i:16042904 original size:18 final size:19
Alignment explanation
Indices: 16042883--16042932 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
16042873 GCTGATTTTG
16042883 GTATCGATACTCATGG-GA
1 GTATCGATACTCATGGAGA
* *
16042901 GTATCTATACCCATGGTAGA
1 GTATCGATACTCATGG-AGA
16042921 GTATCGATACTC
1 GTATCGATACTC
16042933 CCCATAGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 14 0.54
20 12 0.46
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (19 bp):
GTATCGATACTCATGGAGA
Found at i:16047322 original size:17 final size:17
Alignment explanation
Indices: 16047279--16047314 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16047269 AGAAGATGTT
*
16047279 TATAAAAAGTTATAAAA
1 TATAAAAATTTATAAAA
*
16047296 TATTAAAATTTATAAAA
1 TATAAAAATTTATAAAA
16047313 TA
1 TA
16047315 AAATAATTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TATAAAAATTTATAAAA
Found at i:16060954 original size:68 final size:68
Alignment explanation
Indices: 16060845--16060980 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
16060835 GTTGACGCCC
16060845 CCAGTTTCATCCGTCCACTATCGGGGTAAGTGTTTCTGCCTTTTTCTTTTGGTTTCAATGAATTC
1 CCAGTTTCATCCGTCCACTATCGGGGTAAGTGTTTCTGCCTTTTTCTTTTGGTTTCAATGAATTC
16060910 GCT
66 GCT
16060913 CCAGTTTCATCCGTCCACTATCGGGGTAAGTGTTTCTGCCTTTTTCTTTTGGTTTCAATGAATTC
1 CCAGTTTCATCCGTCCACTATCGGGGTAAGTGTTTCTGCCTTTTTCTTTTGGTTTCAATGAATTC
16060978 GCT
66 GCT
16060981 TGTTTTTTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (68 bp):
CCAGTTTCATCCGTCCACTATCGGGGTAAGTGTTTCTGCCTTTTTCTTTTGGTTTCAATGAATTC
GCT
Found at i:16061238 original size:24 final size:23
Alignment explanation
Indices: 16061182--16061256 Score: 82
Period size: 24 Copynumber: 3.3 Consensus size: 23
16061172 AGTCAAGTCA
16061182 TTGACTTTGACTGACTGTTGAC-
1 TTGACTTTGACTGACTGTTGACT
* *
16061204 TTAACCATTGAGCTGACTGTTGACT
1 TTGA-CTTTGA-CTGACTGTTGACT
**
16061229 TTGACTTTGACCAAC-GTTGACT
1 TTGACTTTGACTGACTGTTGACT
16061251 TTGACT
1 TTGACT
16061257 AAAAAGTTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
22 16 0.36
23 8 0.18
24 17 0.39
25 3 0.07
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (23 bp):
TTGACTTTGACTGACTGTTGACT
Found at i:16062938 original size:20 final size:21
Alignment explanation
Indices: 16062892--16062957 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
16062882 TTACTTTTTA
16062892 TTTTTCTCTTTCATTATTAAC
1 TTTTTCTCTTTCATTATTAAC
* *
16062913 TTTTTCTATTTCATTCTTAA-
1 TTTTTCTCTTTCATTATTAAC
16062933 TTTTTCTCTTTCATTATTAAC
1 TTTTTCTCTTTCATTATTAAC
16062954 TTTT
1 TTTT
16062958 ACTTTTTCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.45
21 22 0.55
ACGTcount: A:0.18, C:0.17, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTCTCTTTCATTATTAAC
Found at i:16067377 original size:12 final size:11
Alignment explanation
Indices: 16067359--16067433 Score: 52
Period size: 11 Copynumber: 6.9 Consensus size: 11
16067349 AAAAATGAAA
16067359 AAAAGAAAATG
1 AAAAGAAAATG
**
16067370 AAAGAGAAAAAC
1 AAA-AGAAAATG
16067382 AAAAGAAAATG
1 AAAAGAAAATG
16067393 --AA-AAAATG
1 AAAAGAAAATG
*
16067401 AAAAAGAAAGA-A
1 -AAAAGAAA-ATG
16067413 AAAAGAAAAAT-
1 AAAAG-AAAATG
16067424 AAAAGAAAAT
1 AAAAGAAAAT
16067434 AAATAAAAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 17
0.70 0.07 0.23
Matches are distributed among these distances:
8 6 0.12
9 2 0.04
10 5 0.10
11 22 0.43
12 15 0.29
13 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (11 bp):
AAAAGAAAATG
Found at i:16067392 original size:37 final size:36
Alignment explanation
Indices: 16067350--16067421 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
16067340 AAAGAAAATA
*
16067350 AAAATGAAAAAAAGAAAATGAAAGAGAAAAACAAAAG
1 AAAATGAAAAAAAGAAAAAGAAAGA-AAAAACAAAAG
* *
16067387 AAAATGAAAAAATGAAAAAGAAAGAAAAAAGAAAA
1 AAAATGAAAAAAAGAAAAAGAAAGAAAAAACAAAA
16067422 ATAAAAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 9 0.28
37 23 0.72
ACGTcount: A:0.78, C:0.01, G:0.15, T:0.06
Consensus pattern (36 bp):
AAAATGAAAAAAAGAAAAAGAAAGAAAAAACAAAAG
Found at i:16067409 original size:6 final size:6
Alignment explanation
Indices: 16067358--16067432 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
16067348 TAAAAATGAA
* * * *
16067358 AAAAAG AAAATG AAAGAG AAAAA- CAAAAG AAAATG AAAAAATG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AAAAA-G AAAAAG
* *
16067407 AAAGA- AAAAAG AAAAA- TAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAA
16067433 TAAATAAAAG
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
5 12 0.23
6 30 0.58
7 9 0.17
8 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.15, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:16067413 original size:18 final size:17
Alignment explanation
Indices: 16067357--16067432 Score: 73
Period size: 18 Copynumber: 4.2 Consensus size: 17
16067347 ATAAAAATGA
*
16067357 AAAAAAGAAAATGAAAG
1 AAAAAAGAAAAAGAAAG
*
16067374 AGAAAAA-CAAAAGAAAATG
1 A-AAAAAGAAAAAG-AAA-G
16067393 AAAAAATGAAAAAGAAAG
1 AAAAAA-GAAAAAGAAAG
*
16067411 AAAAAAGAAAAATAAAAG
1 AAAAAAGAAAAA-GAAAG
16067429 AAAA
1 AAAA
16067433 TAAATAAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
17 11 0.22
18 28 0.57
19 5 0.10
20 5 0.10
ACGTcount: A:0.79, C:0.01, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAGAAAG
Found at i:16068810 original size:134 final size:132
Alignment explanation
Indices: 16068365--16068830 Score: 382
Period size: 134 Copynumber: 3.5 Consensus size: 132
16068355 AACTCGATTT
* * * *
16068365 AATATTCCCTGAAGAATAGTGGAATGAATCAATGTTTCCAGATCTAATTTTCCCTGAAGAAGTAG
1 AATATTCCCTGAAGAATAGTGGAATGAATAAAAGTTTCCAAATCTAATTTTCCCTGAAGAAGCAG
* * * * *
16068430 CGGAACGGATCCGTTATTTTTCTAGATTTGATCTTACCTGAGGAACAGTGGAACAAGTCTAAC-C
66 CAGAACAGATCC--TATTTTTCCAGATTTGATCTT-CCTGAGGAATAGTGGAACAAGTCTATCTC
*
16068494 TGATTC
128 -AATTC
* * * * * * * * *
16068500 AATGTTCTCTGAAGAATAGTTGAATGAATCAACGTTTCCATATATCATTTTCCCAT-AAGAAGGA
1 AATATTCCCTGAAGAATAGTGGAATGAATAAAAGTTTCCAAATCTAATTTTCCC-TGAAGAAGCA
* * * * * * *
16068564 GTAGAGCAGATAACTTTTTTTCCAAATTTGATCTTCTCTGAGGAACT-GTGGAACAATTATATCT
65 GCAGAACAGAT-CCTATTTTTCCAGATTTGATCTTC-CTGAGGAA-TAGTGGAACAAGTCTATCT
16068628 CAATTC
127 CAATTC
* * * * * * * * * *
16068634 AATCTTCCCTGAAGAATAATAGAGTAAATCAACA-TCTACAAATCTAATTTTCCCTGATGAAACA
1 AATATTCCCTGAAGAATAGTGGAATGAAT-AAAAGTTTCCAAATCTAATTTTCCCTGAAGAAGCA
* * ** * * *
16068698 ACATAACAGATCCCCTTTTTCCAGATTTGATCTTCCATGAAGAAGTAGTGGAATAAGTCTGTCTC
65 GCAGAACAGATCCTATTTTTCCAGATTTGATCTTCC-TGAGGAA-TAGTGGAACAAGTCTATCTC
16068763 AATTC
128 AATTC
* * * *
16068768 AATATTCCCTGAAGAATAGTGGAATGAATAAAAGTTTCCAAATCTGATATACCCTAAAGAAGC
1 AATATTCCCTGAAGAATAGTGGAATGAATAAAAGTTTCCAAATCTAATTTTCCCTGAAGAAGC
16068831 TACGGAGCAG
Statistics
Matches: 255, Mismatches: 66, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
132 1 0.00
133 32 0.13
134 157 0.62
135 63 0.25
136 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (132 bp):
AATATTCCCTGAAGAATAGTGGAATGAATAAAAGTTTCCAAATCTAATTTTCCCTGAAGAAGCAG
CAGAACAGATCCTATTTTTCCAGATTTGATCTTCCTGAGGAATAGTGGAACAAGTCTATCTCAAT
TC
Found at i:16069093 original size:3 final size:3
Alignment explanation
Indices: 16069085--16069129 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
16069075 TTTATTTTAA
16069085 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16069130 GTAGTCCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:16072222 original size:20 final size:20
Alignment explanation
Indices: 16072197--16072246 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
16072187 ATTCAATCAA
*
16072197 TATCGATACCGAAAGGGGA-G
1 TATCGATACCG-AAGGGAAGG
16072217 TATCGATACCGAAGGGAAGG
1 TATCGATACCGAAGGGAAGG
16072237 TATCGATACC
1 TATCGATACC
16072247 ATTCAAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (20 bp):
TATCGATACCGAAGGGAAGG
Found at i:16072336 original size:20 final size:21
Alignment explanation
Indices: 16072270--16072340 Score: 76
Period size: 22 Copynumber: 3.5 Consensus size: 21
16072260 TGAAAAAATG
* *
16072270 GTATCAATACCATAGCAT--A
1 GTATCGATACCATAGTATGGA
*
16072289 GTATCGGTACCATAGTATGGTA
1 GTATCGATACCATAGTATGG-A
*
16072311 GTATCGATACCATGGTATGG-
1 GTATCGATACCATAGTATGGA
16072331 GTATCGATAC
1 GTATCGATAC
16072341 TGAGGAGCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 15 0.34
20 10 0.23
22 19 0.43
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGTATGGA
Found at i:16072723 original size:54 final size:54
Alignment explanation
Indices: 16072665--16073072 Score: 582
Period size: 54 Copynumber: 7.6 Consensus size: 54
16072655 TTACCAAATA
* * *
16072665 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
16072719 GGCACTAAGTGTGTATTTCACAGAATTCATCCTATGTGGATGAAAAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
16072773 GGCACTAAGTGTGTATTTCACAGAATTTATCCCATGTGGATGAATAATCGTTTT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
** * *
16072827 GAAACTAAGTGTGCATTTCACGGAATTCATCCCATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
16072881 AGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
** *
16072935 GGCACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
16072989 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGTATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
** * *
16073043 AACACTAAGTGTTCATTTCATAGAATTCAT
1 GGCACTAAGTGTGCATTTCACAGAATTCAT
16073073 AATATGTTTA
Statistics
Matches: 317, Mismatches: 37, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 317 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:16073456 original size:46 final size:46
Alignment explanation
Indices: 16073367--16073456 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
16073357 AGTTAGATGA
* * * *
16073367 ATAACAGTGCATAATTGGAATGAGAGGATGACATAACTGAAAATGT
1 ATAACAGTGCATAATTGGAATGAAAGGATGACACAAATAAAAATGT
*
16073413 ATAACAGTGCATAATTGGCATGAAAGGAT-ACCACAAATAAAAAT
1 ATAACAGTGCATAATTGGAATGAAAGGATGA-CACAAATAAAAAT
16073457 AAATAATGGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.03
46 37 0.97
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (46 bp):
ATAACAGTGCATAATTGGAATGAAAGGATGACACAAATAAAAATGT
Found at i:16079570 original size:24 final size:23
Alignment explanation
Indices: 16079543--16079619 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
16079533 GCAAGCCATA
16079543 GTACGATGTGATTTTGGTGCTATT
1 GTACGATGTGATTTT-GTGCTATT
* * * *
16079567 GTAC-ACAGTTGCATTATGTAC-ATA
1 GTACGA-TG-TG-ATTTTGTGCTATT
16079591 GTACGATGTGATTTTTGTGCTATT
1 GTACGATGTGA-TTTTGTGCTATT
16079615 GTACG
1 GTACG
16079620 CAATTGTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
22 1 0.03
23 9 0.23
24 19 0.49
25 6 0.15
26 4 0.10
ACGTcount: A:0.22, C:0.12, G:0.25, T:0.42
Consensus pattern (23 bp):
GTACGATGTGATTTTGTGCTATT
Found at i:16079596 original size:48 final size:48
Alignment explanation
Indices: 16079539--16079662 Score: 164
Period size: 48 Copynumber: 2.6 Consensus size: 48
16079529 GTTGGCAAGC
*
16079539 CATAGTACGATGTGATTTTGGTGCTATTGTACACAGTTGCATT-ATGTA
1 CATAGTACGATGTGATTTTGGTGCTATTGTACACAATTGCATTGA-GTA
* * *
16079587 CATAGTACGATGTGATTTTTGTGCTATTGTACGCAATTGTATTGAGTA
1 CATAGTACGATGTGATTTTGGTGCTATTGTACACAATTGCATTGAGTA
* *
16079635 CATAGT-CGATTTGATTTTGG-ACTATTGT
1 CATAGTACGATGTGATTTTGGTGCTATTGT
16079663 GCTCTTAAGA
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 7 0.10
47 12 0.18
48 48 0.71
49 1 0.01
ACGTcount: A:0.24, C:0.11, G:0.23, T:0.42
Consensus pattern (48 bp):
CATAGTACGATGTGATTTTGGTGCTATTGTACACAATTGCATTGAGTA
Found at i:16084771 original size:12 final size:12
Alignment explanation
Indices: 16084756--16084781 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16084746 TTTTCTGTAA
16084756 GTTTGCAAATTT
1 GTTTGCAAATTT
16084768 GTTTGCAAATTT
1 GTTTGCAAATTT
16084780 GT
1 GT
16084782 GTATTTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (12 bp):
GTTTGCAAATTT
Found at i:16090448 original size:24 final size:24
Alignment explanation
Indices: 16090416--16090468 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
16090406 GGTAAAAGAG
16090416 GATATTTAGAAACTCCTCGATGCC
1 GATATTTAGAAACTCCTCGATGCC
16090440 GATATTTAGAAACTCCTCGATGCC
1 GATATTTAGAAACTCCTCGATGCC
16090464 GATAT
1 GATAT
16090469 AATTTACCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
GATATTTAGAAACTCCTCGATGCC
Found at i:16097597 original size:41 final size:41
Alignment explanation
Indices: 16097540--16097622 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
16097530 GAAGACGACC
16097540 CCGACGTATTGCACCATTATCATTCGACCACTCCTCGGCAT
1 CCGACGTATTGCACCATTATCATTCGACCACTCCTCGGCAT
*
16097581 CCGACGTATTGCACCATTATCATTTGACCACTCCTCGGCAT
1 CCGACGTATTGCACCATTATCATTCGACCACTCCTCGGCAT
16097622 C
1 C
16097623 GTCAAGAACA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.36, G:0.14, T:0.28
Consensus pattern (41 bp):
CCGACGTATTGCACCATTATCATTCGACCACTCCTCGGCAT
Found at i:16098575 original size:22 final size:22
Alignment explanation
Indices: 16098549--16098598 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
16098539 AATTTTATAT
*
16098549 TATAATTTTATCA-AAATTAAAA
1 TATAAATTTAT-ATAAATTAAAA
*
16098571 TATAAATTTATATAATTTAAAA
1 TATAAATTTATATAAATTAAAA
16098593 TATAAA
1 TATAAA
16098599 AATTATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TATAAATTTATATAAATTAAAA
Found at i:16098618 original size:14 final size:14
Alignment explanation
Indices: 16098579--16098618 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16098569 AATATAAATT
*
16098579 TATATAATTTAAAA
1 TATATAATTTATAA
* *
16098593 TATAAAAATTATAA
1 TATATAATTTATAA
16098607 TATATAATTTAT
1 TATATAATTTAT
16098619 TAAAATTTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAATTTATAA
Found at i:16100632 original size:26 final size:26
Alignment explanation
Indices: 16100603--16100653 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
16100593 GCAACCGAAG
16100603 GATAATTCACCCTAGAATGGAAGAAT
1 GATAATTCACCCTAGAATGGAAGAAT
16100629 GATAATTCACCCTAGAATGGAAGAA
1 GATAATTCACCCTAGAATGGAAGAA
16100654 GAATTTGAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.22
Consensus pattern (26 bp):
GATAATTCACCCTAGAATGGAAGAAT
Found at i:16105862 original size:23 final size:22
Alignment explanation
Indices: 16105819--16105862 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16105809 ATAGTTTTTA
**
16105819 AAAATAATATTATATTTTTATG
1 AAAATAATATTATATAATTATG
16105841 AAAATAATATTTATATAATTAT
1 AAAATAATA-TTATATAATTAT
16105863 TATTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAATAATATTATATAATTATG
Found at i:16105885 original size:21 final size:19
Alignment explanation
Indices: 16105848--16105891 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
16105838 ATGAAAATAA
* *
16105848 TATTTATATAATTATTATT
1 TATTTAAATAATTATTAAT
16105867 TATTTAAATATATTAATTAAT
1 TATTTAAATA-ATT-ATTAAT
16105888 TATT
1 TATT
16105892 ATTTGTGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTAAATAATTATTAAT
Found at i:16105907 original size:29 final size:29
Alignment explanation
Indices: 16105842--16105909 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
16105832 ATTTTTATGA
* *
16105842 AAATAATATTTATATAATTATTATTTATTT
1 AAAT-ATATTAATATAATTATTATTTATCT
*
16105872 AAATATATTAAT-TAATTATTATTTGTGCT
1 AAATATATTAATATAATTATTATTTAT-CT
*
16105901 AATTATATT
1 AAATATATT
16105910 TATTTGTCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 13 0.39
29 16 0.48
30 4 0.12
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (29 bp):
AAATATATTAATATAATTATTATTTATCT
Found at i:16106015 original size:25 final size:26
Alignment explanation
Indices: 16105987--16106039 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
16105977 ATTTTAGTGA
16105987 TATGTTAATA-TA-TATATTTTTAATT
1 TATGTTAATATTATTAT-TTTTTAATT
*
16106012 TATGTTAATGTTATTATTTTTTAATT
1 TATGTTAATATTATTATTTTTTAATT
16106038 TA
1 TA
16106040 AATTTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 9 0.36
26 13 0.52
27 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (26 bp):
TATGTTAATATTATTATTTTTTAATT
Found at i:16106032 original size:26 final size:25
Alignment explanation
Indices: 16105987--16106039 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
16105977 ATTTTAGTGA
16105987 TATGTTAATATATATATTTTTAATT
1 TATGTTAATATATATATTTTTAATT
*
16106012 TATGTTAATGT-TATTATTTTTTAATT
1 TATGTTAATATATA-TA-TTTTTAATT
16106038 TA
1 TA
16106040 AATTTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 2 0.08
25 12 0.48
26 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
TATGTTAATATATATATTTTTAATT
Found at i:16107035 original size:17 final size:17
Alignment explanation
Indices: 16107013--16107048 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
16107003 GCTTGATATA
16107013 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
16107030 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
16107047 AT
1 AT
16107049 GTTTCTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:16107707 original size:42 final size:41
Alignment explanation
Indices: 16107607--16107709 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
16107597 GATGCCACAG
* *
16107607 GGGTACATGCCCAGCCCACCAATTCAGATGCCATCTCCGCAA
1 GGGTACATACCAAGCCCACCAATTCAGATGCCATCTCCGC-A
* * * *
16107649 GGGTATATACCAAGCCCACCAATTCATATGTCATCTTCGCA
1 GGGTACATACCAAGCCCACCAATTCAGATGCCATCTCCGCA
* *
16107690 GGGTTACATTCCTAGCCCAC
1 GGG-TACATACCAAGCCCAC
16107710 AGGGGTACAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 4 0.08
42 47 0.92
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.22
Consensus pattern (41 bp):
GGGTACATACCAAGCCCACCAATTCAGATGCCATCTCCGCA
Found at i:16107727 original size:21 final size:21
Alignment explanation
Indices: 16107688--16107757 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
16107678 GTCATCTTCG
* *
16107688 CAGGGTTACATTCCTAGCCCA
1 CAGGGTTACATACCCAGCCCA
* *
16107709 CAGGGGTACATACCCAGCCTA
1 CAGGGTTACATACCCAGCCCA
* * * *
16107730 CAAGGTTACATGCCCAGCTCG
1 CAGGGTTACATACCCAGCCCA
16107751 CAGGGTT
1 CAGGGTT
16107758 TTCTGACATC
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (21 bp):
CAGGGTTACATACCCAGCCCA
Found at i:16109105 original size:139 final size:138
Alignment explanation
Indices: 16108940--16110382 Score: 1600
Period size: 137 Copynumber: 10.4 Consensus size: 138
16108930 CTCTAGGGCC
* * ** * * *
16108940 CAATTATAACATATTCTATGACAAAAAAAGGGAAGGCGCGCCCCACAAGAAGTGTTTTCACCACA
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
* * * * *
16109005 TTGTTGTGTTCCCTGAAACATGATAGGTGTTAACATGAATAATGCCATTTCGAGGGACATCACAC
66 TTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCA-TTCGAGGGACATCACAC
16109070 ATAATAGGG
130 ATAATAGGG
* * * ** **
16109079 CAATTATAACCCATTCTCTGACAAAAAAAAGAAAGGAACATCCCACAAGAAG-TATTGTAACCAC
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTT-TAACCAC
* ** * *
16109143 ATTGTTGCGTCCCCTCAAACATGATAGGTGTTGATATGAATAGTGGTATTTTGGGGGACATCACA
65 ATTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCA-TTCGAGGGACATCACA
16109208 CATAATAGGG
129 CATAATAGGG
* * * ** *
16109218 AAATTATAACCTATTCTTTGACAAAAGAAAAAGGGAAGGTGTGTCCCATAAGAAGCGCTTTAACC
1 CAATTATAACCTATTCTCTGAC--AA-AAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACC
*
16109283 ACATTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCATTCCAGGGGACATCA
63 ACATTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCATTCGA-GGGACATCA
16109348 CACATAATAGGG
127 CACATAATAGGG
* * * * * * *
16109360 CAATTATAACATATTCTTTGAC-AAAAAATGGAAGGCGCGTCCCA-ACGGAAGTGCTTTGACCAC
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACA-AGAAGCGCTTTAACCAC
* * *
16109423 ATTGTTACGTCCCCTCAAACATGATAGGTAG-TGACATGAATAGTGTCCCA-CCGGGGGACATCA
65 ATTGTTGCGTCCCCTCAAACATGATAGGT-GTTGACATGAATAGTG--CCATTCGAGGGACATCA
16109486 CACATAATAGGG
127 CACATAATAGGG
* * *
16109498 TAATTATAACCTATTCTCT-A-ACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACA
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
* * *** * *
16109561 TTGTTGCATCCCCTCAAACATGATAGGTAG-TGACTTGAATAGTGCCCCGGCG-GGGAATATCAT
66 TTGTTGCGTCCCCTCAAACATGATAGGT-GTTGACATGAATAGTG-CCATTCGAGGG-ACATCAC
16109624 ACATAATAGGG
128 ACATAATAGGG
* * *
16109635 CAATTATAACATATTCTCTGAC--AAAAAGGGAAGGCACATCCCACAAGAAGCGATTTAACCACA
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
* * * * * *
16109698 TTATTGCATCCCTTTAAACATGATAGGTGTTGACATGAATAGTGGCATTCCAGGAGACATCACAC
66 TTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCATTCGAGG-GACATCACAC
16109763 ATAATAGGG
130 ATAATAGGG
* * *
16109772 CAATTATAACCTATTCTCTGACAAAAAAA-TGAATGGTGTATCCCACAAGAAGCGCTTTAACCAC
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAA-GGCGCATCCCACAAGAAGCGCTTTAACCAC
* * *
16109836 ATTATTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCAATCCAGGGGACATCACA
65 ATTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCATTCGA-GGGACATCACA
16109901 CATAATAGGG
129 CATAATAGGG
* ** *
16109911 CAATTATAACCTATTCCCTGGA-AAAAAAAGGGAAGGCGCATCCCACAAGAAGCATTTTCACCAC
1 CAATTATAACCTATTCTCT-GACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCAC
** * * *
16109975 ATTGTTATGTCCCTTCAAACATGATAGGTAG-TGACAAGAATAGTGCC-TGCTGAGGGACATCAC
65 ATTGTTGCGTCCCCTCAAACATGATAGGT-GTTGACATGAATAGTGCCATTC-GAGGGACATCAC
16110038 ACATAATAGGG
128 ACATAATAGGG
* * * *
16110049 AAATTATAACCTATTCTCT-A-ACAAAAAGGGAAGGCGTATCCCACAGGAAGCGCTTTAACCACA
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
* *
16110112 TTGTTGTGTCCCCTAAAACATGATAGGTAG-TGACATGAATAGTGCC--TCGCAAGGGGACATCA
66 TTGTTGCGTCCCCTCAAACATGATAGGT-GTTGACATGAATAGTGCCATTCG--A-GGGACATCA
16110174 CACATAATAGGG
127 CACATAATAGGG
* * *
16110186 CAATTATAACCTATTCTTTGACAAAAAAA--GAAGACGCATCCCACAATAAGCGCTTTAACCACA
1 CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
* * * *** * *
16110249 TTATTGCGTCTCCTCAAACATGATAGGTGTTGACGTGAATAAG-GCCCCACCAGGGGACATGACA
66 TTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAAT-AGTGCCATTCGA-GGGACATCACA
*
16110313 TATAATAGGG
129 CATAATAGGG
* * **
16110323 CAATTATAACCTATTCTCTGACAAAACAAAAGGAAAGGTGTGTCCCACAAGAAGCGCTTT
1 CAATTATAACCTATTCTCTGAC-AAA-AAAAGGGAAGGCGCATCCCACAAGAAGCGCTTT
16110383 CATGTGAATA
Statistics
Matches: 1119, Mismatches: 145, Indels: 78
0.83 0.11 0.06
Matches are distributed among these distances:
134 1 0.00
135 1 0.00
136 91 0.08
137 374 0.33
138 164 0.15
139 336 0.30
140 11 0.01
141 25 0.02
142 114 0.10
143 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (138 bp):
CAATTATAACCTATTCTCTGACAAAAAAAGGGAAGGCGCATCCCACAAGAAGCGCTTTAACCACA
TTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCATTCGAGGGACATCACACA
TAATAGGG
Found at i:16110034 original size:551 final size:548
Alignment explanation
Indices: 16108941--16110382 Score: 1924
Period size: 551 Copynumber: 2.6 Consensus size: 548
16108931 TCTAGGGCCC
* * * * * * *
16108941 AATTATAACATATTCTATGACAAAAAAAGGGAAGGCGCGCCCCACAAGAAGTGTTTTCACCACAT
1 AATTATAACCTATTCTCT-A-ACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACAT
* * * * **
16109006 TGTTGTGTTCCCTGAAACATGATAGGT-GTTAACATGAATAATGCCATTTCGAGGGACATCACAC
64 TGTTGTGTCCCCTAAAACATGATAGGTAG-TGACATGAATAGTGCCA-CGCG-GGGACATCACAC
* * * *
16109070 ATAATAGGGCAATTATAACCCATTCTCTGACAAAAAAAAGAAAGGAACATCCCACAAGAAG-TAT
126 ATAATAGGGCAATTATAACCTATTCTCTGAC--AAAAAAGGAAGGCACATCCCACAAGAAGCGAT
* * * ***
16109134 TGTAACCACATTGTTGCGTCCCCTCAAACATGATAGGTGTTGATATGAATAGTGGTATTTTGGGG
189 T-TAACCACATTATTGCGT-CCCTCAAACATGATAGGTGTTGACATGAATAGTGGCATTCCAGGG
* *
16109199 GACATCACACATAATAGGGAAATTATAACCTATTCTTTGACAAAAGAAAAAGGGAAGGTGTGTCC
252 GACATCACACATAATAGGGCAATTATAACCTATTCTCTGAC-AAA-AAAAA-GGAAGGTGTGTCC
* *
16109264 CATAAGAAGCGCTTTAACCACATTGTTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGT
314 CACAAGAAGCGCTTTAACCACATTATTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGT
* * * * *
16109329 GCCATTCCAGGGGACATCACACATAATAGGGCAATTATAACATATTCTTTGACAAAAAATGGAAG
379 GCCAATCCAGGGGACATCACACATAATAGGGCAATTATAACATATTCCTGGAAAAAAAAGGGAAG
* * ** *
16109394 GCGCGTCCCAACGGAAGTGCTTTGACCACATTGTTACGTCCCCTCAAACATGATAGGTAGTGACA
444 GCGCATCCCAACAGAAGCACTTTCACCACATTGTTACGTCCCCTCAAACATGATAGGTAGTGACA
* * *
16109459 TGAATAGTGTCCCACCGGGGGACATCACACATAATAGGGT
509 AGAATAGTGTCCCACCGAGGGACATCACACATAATAGGGA
16109499 AATTATAACCTATTCTCTAACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACATTG
1 AATTATAACCTATTCTCTAACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACATTG
** * * * * *
16109564 TTGCATCCCCTCAAACATGATAGGTAGTGACTTGAATAGTGCCCCGGCGGGGAATATCATACATA
66 TTGTGTCCCCTAAAACATGATAGGTAGTGACATGAATAGTGCCAC-GCGGGG-ACATCACACATA
* *
16109629 ATAGGGCAATTATAACATATTCTCTGACAAAAAGGGAAGGCACATCCCACAAGAAGCGATTTAAC
129 ATAGGGCAATTATAACCTATTCTCTGACAAAAAAGGAAGGCACATCCCACAAGAAGCGATTTAAC
* * *
16109694 CACATTATTGCATCCCTTTAAACATGATAGGTGTTGACATGAATAGTGGCATTCCAGGAGACATC
194 CACATTATTGCGTCCC-TCAAACATGATAGGTGTTGACATGAATAGTGGCATTCCAGGGGACATC
* *
16109759 ACACATAATAGGGCAATTATAACCTATTCTCTGAC-AAAAAAATGAATGGTGTATCCCACAAGAA
258 ACACATAATAGGGCAATTATAACCTATTCTCTGACAAAAAAAAGGAA-GGTGTGTCCCACAAGAA
16109823 GCGCTTTAACCACATTATTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCAATCC
322 GCGCTTTAACCACATTATTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCAATCC
*
16109888 AGGGGACATCACACATAATAGGGCAATTATAACCTATTCCCTGGAAAAAAAAGGGAAGGCGCATC
387 AGGGGACATCACACATAATAGGGCAATTATAACATATT-CCTGGAAAAAAAAGGGAAGGCGCATC
* * *
16109953 CC-ACAAGAAGCATTTTCACCACATTGTTATGTCCCTTCAAACATGATAGGTAGTGACAAGAATA
451 CCAAC-AGAAGCACTTTCACCACATTGTTACGTCCCCTCAAACATGATAGGTAGTGACAAGAATA
** *
16110017 GTG-CCTGCTGAGGGACATCACACATAATAGGGA
515 GTGTCCCACCGAGGGACATCACACATAATAGGGA
** *
16110050 AATTATAACCTATTCTCTAACAAAAAGGGAAGGCGTATCCCACAGGAAGCGCTTTAACCACATTG
1 AATTATAACCTATTCTCTAACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACATTG
*
16110115 TTGTGTCCCCTAAAACATGATAGGTAGTGACATGAATAGTGCCTCGCAAGGGGACATCACACATA
66 TTGTGTCCCCTAAAACATGATAGGTAGTGACATGAATAGTGCCACGC--GGGGACATCACACATA
* * * * * *
16110180 ATAGGGCAATTATAACCTATTCTTTGACAAAAAAAGAAGACGCATCCCACAATAAGCGCTTTAAC
129 ATAGGGCAATTATAACCTATTCTCTGACAAAAAAGGAAGGCACATCCCACAAGAAGCGATTTAAC
* * ***
16110245 CACATTATTGCGTCTCCTCAAACATGATAGGTGTTGACGTGAATAAG-GCCCCACCAGGGGACAT
194 CACATTATTGCGTC-CCTCAAACATGATAGGTGTTGACATGAAT-AGTGGCATTCCAGGGGACAT
* *
16110309 GACATATAATAGGGCAATTATAACCTATTCTCTGACAAAACAAAAGGAAAGGTGTGTCCCACAAG
257 CACACATAATAGGGCAATTATAACCTATTCTCTGACAAAA-AAAAGG-AAGGTGTGTCCCACAAG
16110374 AAGCGCTTT
320 AAGCGCTTT
16110383 CATGTGAATA
Statistics
Matches: 779, Mismatches: 90, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
550 5 0.01
551 400 0.51
552 90 0.12
553 31 0.04
554 116 0.15
555 6 0.01
556 113 0.15
557 2 0.00
558 16 0.02
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (548 bp):
AATTATAACCTATTCTCTAACAAAAAGGGAAGGCGCGTCCCACAAGAAGCGCTTTAACCACATTG
TTGTGTCCCCTAAAACATGATAGGTAGTGACATGAATAGTGCCACGCGGGGACATCACACATAAT
AGGGCAATTATAACCTATTCTCTGACAAAAAAGGAAGGCACATCCCACAAGAAGCGATTTAACCA
CATTATTGCGTCCCTCAAACATGATAGGTGTTGACATGAATAGTGGCATTCCAGGGGACATCACA
CATAATAGGGCAATTATAACCTATTCTCTGACAAAAAAAAGGAAGGTGTGTCCCACAAGAAGCGC
TTTAACCACATTATTGCGTCCCCTCAAACATGATAGGTGTTGACATGAATAGTGCCAATCCAGGG
GACATCACACATAATAGGGCAATTATAACATATTCCTGGAAAAAAAAGGGAAGGCGCATCCCAAC
AGAAGCACTTTCACCACATTGTTACGTCCCCTCAAACATGATAGGTAGTGACAAGAATAGTGTCC
CACCGAGGGACATCACACATAATAGGGA
Found at i:16115481 original size:23 final size:23
Alignment explanation
Indices: 16115437--16115508 Score: 72
Period size: 23 Copynumber: 2.9 Consensus size: 23
16115427 TTAAATTCAT
16115437 AATATTTTATATAAATTAACTTAAAA
1 AATATTTT-TAT--ATTAACTTAAAA
**
16115463 AATATTTTTATATTAACTTACTA
1 AATATTTTTATATTAACTTAAAA
*
16115486 AATATATTTTATTGTTAACTTAA
1 AATAT-TTTTA-TATTAACTTAA
16115509 TTTAAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 15 0.38
24 5 0.12
25 12 0.30
26 8 0.20
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (23 bp):
AATATTTTTATATTAACTTAAAA
Found at i:16115520 original size:27 final size:25
Alignment explanation
Indices: 16115460--16115546 Score: 77
Period size: 27 Copynumber: 3.3 Consensus size: 25
16115450 AATTAACTTA
* *
16115460 AAAAATATTTTTATATTAACTTA-CT
1 AAAAATA-TTTTATTTTAACTTATTT
*
16115485 AAATATATTTTATTGTTAACTTAATTT
1 AAAAATATTTTATT-TTAACTT-ATTT
*
16115512 AAAAATATTTTAATTTTAATTTTATTT
1 AAAAATATTTT-ATTTTAA-CTTATTT
*
16115539 ACAAATAT
1 AAAAATAT
16115547 ATATATTATG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
24 6 0.12
25 13 0.25
26 1 0.02
27 26 0.51
28 5 0.10
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.52
Consensus pattern (25 bp):
AAAAATATTTTATTTTAACTTATTT
Found at i:16115723 original size:30 final size:31
Alignment explanation
Indices: 16115683--16115742 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
16115673 ATGTGATAAC
*
16115683 CACATCTTAATTAAAT-AAAACAAAAGTGAA
1 CACATATTAATTAAATAAAAACAAAAGTGAA
*
16115713 CACATATTAATTAAATAAAAACGAAAGTGA
1 CACATATTAATTAAATAAAAACAAAAGTGA
16115743 CCATATCTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.23
Consensus pattern (31 bp):
CACATATTAATTAAATAAAAACAAAAGTGAA
Found at i:16124317 original size:38 final size:38
Alignment explanation
Indices: 16124225--16124411 Score: 220
Period size: 38 Copynumber: 4.9 Consensus size: 38
16124215 CTGGGGCTTA
*
16124225 TTTTGAAAATATATATAATATATAGTTTTTGAAAAC-A-
1 TTTTGAAAATATATATATTATATA-TTTTTGAAAACGAT
* * *
16124262 TTTTGAAAACATGTATATATTATATATTTTTTAAAACAAT
1 TTTTG-AAA-ATATATATATTATATATTTTTGAAAACGAT
* *
16124302 TTTTGAAAATATATATATTATTTAGTTTTGAAAACGAT
1 TTTTGAAAATATATATATTATATATTTTTGAAAACGAT
*
16124340 TTTT-TAAA-ATATATATTATATATTTTTGAAAACGAT
1 TTTTGAAAATATATATATTATATATTTTTGAAAACGAT
* *
16124376 TTTTGAGAATATATATATATCATATAGTTTTGAAAA
1 TTTTGA-AA-ATATATATATTATATATTTTTGAAAA
16124412 TATATATGTT
Statistics
Matches: 128, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
36 30 0.23
37 8 0.06
38 44 0.34
39 19 0.15
40 27 0.21
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (38 bp):
TTTTGAAAATATATATATTATATATTTTTGAAAACGAT
Found at i:16124392 original size:76 final size:75
Alignment explanation
Indices: 16124225--16124411 Score: 252
Period size: 76 Copynumber: 2.5 Consensus size: 75
16124215 CTGGGGCTTA
*
16124225 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAAACATGTATATATTATATATT
1 TTTTGAAAATATATATATTATATAG-TTTTGAAAACATTTTGAAAACA-GTATATATTATATATT
*
16124290 TTTTAAAACAAT
64 TTTGAAAACAAT
* **
16124302 TTTTGAAAATATATATATTATTTAGTTTTGAAAACGATTTTTTAAA-A-TATATATTATATATTT
1 TTTTGAAAATATATATATTATATAGTTTTGAAAAC-ATTTTGAAAACAGTATATATTATATATTT
*
16124365 TTGAAAACGAT
65 TTGAAAACAAT
*
16124376 TTTTGAGAATATATATATATCATATAGTTTTGAAAA
1 TTTTGA-AA-ATATATATATTATATAGTTTTGAAAA
16124412 TATATATGTT
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
74 31 0.31
75 2 0.02
76 35 0.35
77 31 0.31
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (75 bp):
TTTTGAAAATATATATATTATATAGTTTTGAAAACATTTTGAAAACAGTATATATTATATATTTT
TGAAAACAAT
Found at i:16124425 original size:25 final size:25
Alignment explanation
Indices: 16124376--16124436 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
16124366 TGAAAACGAT
16124376 TTTTGAGAATATATATATATCATATAG
1 TTTTGA-AA-ATATATATATCATATAG
* *
16124403 TTTTGAAAATATATATGTTATATAG
1 TTTTGAAAATATATATATCATATAG
16124428 TTTTGAAAA
1 TTTTGAAAA
16124437 CGCTTTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 24 0.75
26 2 0.06
27 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (25 bp):
TTTTGAAAATATATATATCATATAG
Found at i:16124531 original size:18 final size:17
Alignment explanation
Indices: 16124507--16124563 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
16124497 TCTTATTTTC
*
16124507 TTTTTTATTTATTTGTT
1 TTTTTTATTTATTTATT
* *
16124524 TATTTTTATTTGTGTATT
1 T-TTTTTATTTATTTATT
16124542 TTTTTTATTCTATTTTATT
1 TTTTTTATT-TA-TTTATT
16124561 TTT
1 TTT
16124564 CATGTTCGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 9 0.28
18 15 0.47
19 8 0.25
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTTTATTTATTTATT
Found at i:16124533 original size:14 final size:14
Alignment explanation
Indices: 16124514--16124561 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
16124504 TTCTTTTTTA
16124514 TTTATTTGTTTATT
1 TTTATTTGTTTATT
*
16124528 TTTATTTGTGTATT
1 TTTATTTGTTTATT
*
16124542 TTT-TTTATTCTA-T
1 TTTATTTGTT-TATT
16124555 TTTATTT
1 TTTATTT
16124562 TTCATGTTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 8 0.28
14 21 0.72
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (14 bp):
TTTATTTGTTTATT
Found at i:16127313 original size:526 final size:527
Alignment explanation
Indices: 16126310--16127365 Score: 1654
Period size: 526 Copynumber: 2.0 Consensus size: 527
16126300 TCAGTTGTCT
* * *
16126310 TTTTTAAGTGAAAATAACAAATTTATATTTTAATTTATTTATTTGATTCTAATTATATACATTTG
1 TTTTTAAGTGAAAATAACAAATTTAGATTTTAATTTATTTATTCGATTCAAATTATATACATTTG
16126375 ATTATTTTTCAAATAAATAGTTGTACTGACTTTTTTTCAATGATTTCAGCTTTTTAAAATTTTCA
66 ATTATTTTTCAAATAAATAGTTGTACTGACTTTTTTTCAATGATTTCAGCTTTTTAAAATTTTCA
* * *
16126440 TCTTAAGCTCTATACCCGAGCTCCAAACCTCTTTTATAAGTGGAGTTGAAAGAGACACCTTTGTG
131 TCTCAAGCTCTATACCCGAGCTCCAAACCTCTTTTATAAGTGGAGGTGAAAGAGACACCTTCGTG
* * * * * *
16126505 GTAATTTAATTTCCGTATAGGCCTAGCAAGTAACCTTCGGGATTCATATACCTTATGTCTTCGTT
196 GGAATTTAATTTACATATAGGCCTAGCAAGTAACCTTCGAGATTCATATACCTTATGTCTTCATG
* *
16126570 TGAATTTATTCTCCATATAGACATAAGGGAATTTGTCCTCTCGAGTTTAACTAGGTCCACATAAG
261 TGAATTTATTCTCCATATAGACATAAGGGAATGTGTCCTCTCGAGTTTAACTAGATCCACATAAG
*
16126635 CTTGTAATGGGCTTGGGACTGAGGGTCTGGTAAGCCCAAGGGGGCACCAGCAAGAAGAACTCGAG
326 CTTGTAATGGGCTTGGGACTGAGGGTCTGGTAAGCCCAAGGGGGCACCAGCAAGAAGAACACGAG
* *
16126700 TGCCTTTTTTTAGAACCTAAACCGAGAGACAAGGAATTAGAGCCCACCCCAAAACTTCATTTCAA
391 TACCTTTTTTTAGAACCTAAACCGAGAGACAAGGAATTAAAGCCCACCCCAAAACTTCATTTCAA
* * * * *
16126765 AACCTAGGCTATTTTGAGATTATTTCTTGCTTTATTTTTTTGTTTATAGTATGTGAACAAGAAGT
456 AACCTAGGCTATTTTAAGATTATTTCTTACTTTATTTTTTTGTTCAGAGCATGTGAACAAGAAGT
16126830 TTATGTG
521 TTATGTG
* * *
16126837 TTTTTAA-TAGAAAATTACAAATTTAGATTTTAATTTATTTATTCGATTCAAATTATTTACCTTT
1 TTTTTAAGT-GAAAATAACAAATTTAGATTTTAATTTATTTATTCGATTCAAATTATATACATTT
16126901 GATTATTTTTCAAATAAATAGTTGTACTGAC-TTTTTTCAATGATTTCAGCTTTTTAAAATTTTC
65 GATTATTTTTCAAATAAATAGTTGTACTGACTTTTTTTCAATGATTTCAGCTTTTTAAAATTTTC
* * * *
16126965 ATCTCAAGCTCTATACCTGAGTTCCAAACCTCTTTTATAAGTGGAGGTGAAAGTGACGCCTTCGT
130 ATCTCAAGCTCTATACCCGAGCTCCAAACCTCTTTTATAAGTGGAGGTGAAAGAGACACCTTCGT
* *
16127030 GGGAATTT-ATTCTATATATAGGCCTAGCAAGTAACCTTCGAGATTCATATACTTTATGTCTTCA
195 GGGAATTTAATT-TACATATAGGCCTAGCAAGTAACCTTCGAGATTCATATACCTTATGTCTTCA
* * *
16127094 TGTGAATTTATTCTCCGTATAGACATAAGGGAATGTGTCCTCTCGAGTTTAACTCGATGCACATA
259 TGTGAATTTATTCTCCATATAGACATAAGGGAATGTGTCCTCTCGAGTTTAACTAGATCCACATA
* *
16127159 AGCTTTTAATGGGCTTAGGG-CTGAGGGTCTGGTAAGCCCAATGGGGCACCAGCAAGAAGAACAC
324 AGCTTGTAATGGGCTT-GGGACTGAGGGTCTGGTAAGCCCAAGGGGGCACCAGCAAGAAGAACAC
* * *
16127223 GGGTACCTTTTTTTAGAACCTAAACC-AGGAGACAAGGGATTAAAGCCCGCCCCAAAACTTCATT
388 GAGTACCTTTTTTTAGAACCTAAACCGA-GAGACAAGGAATTAAAGCCCACCCCAAAACTTCATT
* * **
16127287 TCAAAACCTAGGTTGTTTTAAGATTATTTCTTACTTTATTTTTTTGTTCAGAGCATGTGAAGTAG
452 TCAAAACCTAGGCTATTTTAAGATTATTTCTTACTTTATTTTTTTGTTCAGAGCATGTGAACAAG
16127352 AAGTTTATGTG
517 AAGTTTATGTG
16127363 TTT
1 TTT
16127366 AAGACTTGTT
Statistics
Matches: 482, Mismatches: 43, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
525 4 0.01
526 388 0.80
527 90 0.19
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (527 bp):
TTTTTAAGTGAAAATAACAAATTTAGATTTTAATTTATTTATTCGATTCAAATTATATACATTTG
ATTATTTTTCAAATAAATAGTTGTACTGACTTTTTTTCAATGATTTCAGCTTTTTAAAATTTTCA
TCTCAAGCTCTATACCCGAGCTCCAAACCTCTTTTATAAGTGGAGGTGAAAGAGACACCTTCGTG
GGAATTTAATTTACATATAGGCCTAGCAAGTAACCTTCGAGATTCATATACCTTATGTCTTCATG
TGAATTTATTCTCCATATAGACATAAGGGAATGTGTCCTCTCGAGTTTAACTAGATCCACATAAG
CTTGTAATGGGCTTGGGACTGAGGGTCTGGTAAGCCCAAGGGGGCACCAGCAAGAAGAACACGAG
TACCTTTTTTTAGAACCTAAACCGAGAGACAAGGAATTAAAGCCCACCCCAAAACTTCATTTCAA
AACCTAGGCTATTTTAAGATTATTTCTTACTTTATTTTTTTGTTCAGAGCATGTGAACAAGAAGT
TTATGTG
Found at i:16133225 original size:20 final size:20
Alignment explanation
Indices: 16133200--16133241 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
16133190 TTTTTGGGTT
*
16133200 ACAGTATCTATACTAGATGA
1 ACAGTATCGATACTAGATGA
16133220 ACAGTATCGATACTAGATGA
1 ACAGTATCGATACTAGATGA
16133240 AC
1 AC
16133242 TGGGATGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
ACAGTATCGATACTAGATGA
Found at i:16133449 original size:20 final size:19
Alignment explanation
Indices: 16133384--16133451 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
16133374 TTTTTGGTTC
16133384 CGATACT-CATAAGGGTAT
1 CGATACTACATAAGGGTAT
*
16133402 TGATACTTGA-ATAGAGGGTAT
1 CGATAC-T-ACATA-AGGGTAT
16133423 C-AGTACTACATATAGGGTAT
1 CGA-TACTACATA-AGGGTAT
16133443 CGATACTAC
1 CGATACTAC
16133452 CCATTTTGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
18 5 0.12
19 2 0.05
20 22 0.55
21 11 0.28
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (19 bp):
CGATACTACATAAGGGTAT
Found at i:16139138 original size:18 final size:18
Alignment explanation
Indices: 16139115--16139173 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
16139105 AAATTTATTA
16139115 TAATTTCATTAGTTTGAT
1 TAATTTCATTAGTTTGAT
*
16139133 TAATTTTCA--AATTT-ATT
1 TAA-TTTCATTAGTTTGA-T
16139150 ATAATTTCATTAGTTTGAT
1 -TAATTTCATTAGTTTGAT
16139169 TAATT
1 TAATT
16139174 AATTAATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
16 1 0.03
17 10 0.30
18 11 0.33
19 10 0.30
20 1 0.03
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (18 bp):
TAATTTCATTAGTTTGAT
Found at i:16139149 original size:36 final size:36
Alignment explanation
Indices: 16139102--16139173 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
16139092 GTGAGAGTAG
16139102 TTCAAATTTATTATAATTTCATTAGTTTGATTAATT
1 TTCAAATTTATTATAATTTCATTAGTTTGATTAATT
16139138 TTCAAATTTATTATAATTTCATTAGTTTGATTAATT
1 TTCAAATTTATTATAATTTCATTAGTTTGATTAATT
16139174 AATTAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (36 bp):
TTCAAATTTATTATAATTTCATTAGTTTGATTAATT
Found at i:16144011 original size:22 final size:21
Alignment explanation
Indices: 16143982--16144032 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
16143972 CATATTTATA
*
16143982 AAAAAATATTAATA-TTAATTG
1 AAAAAATATTAA-ACCTAATTG
16144003 ATAAAAATA-TAAACCTAATTG
1 A-AAAAATATTAAACCTAATTG
16144024 AAAAAATAT
1 AAAAAATAT
16144033 AGATATGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.31
21 11 0.42
22 7 0.27
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (21 bp):
AAAAAATATTAAACCTAATTG
Found at i:16147703 original size:82 final size:82
Alignment explanation
Indices: 16147566--16147741 Score: 289
Period size: 82 Copynumber: 2.1 Consensus size: 82
16147556 ATTTGAGCTT
* * *
16147566 CCCATTGTGTTCTATGAGCTGCAATGAAGCTTGTGAGCTAATTGTGAGCTGCATATGAATTCCAA
1 CCCATTGTGTTCCATGAGCTGCAATGAAGCTTGTGAGCTAACTGTAAGCTGCATATGAATTCCAA
*
16147631 ATATTCCCACAAGCTAC
66 ATATTACCACAAGCTAC
* *
16147648 CCCATTGTGTTCCATGAGCTTCCATGAAGCTTGTGAGCTAACTGTAAGCTGCATATGAATTCCAA
1 CCCATTGTGTTCCATGAGCTGCAATGAAGCTTGTGAGCTAACTGTAAGCTGCATATGAATTCCAA
16147713 ATATTACCACAAGCTAC
66 ATATTACCACAAGCTAC
*
16147730 CCCAATGTGTTC
1 CCCATTGTGTTC
16147742 TTTACTTCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (82 bp):
CCCATTGTGTTCCATGAGCTGCAATGAAGCTTGTGAGCTAACTGTAAGCTGCATATGAATTCCAA
ATATTACCACAAGCTAC
Found at i:16155603 original size:13 final size:14
Alignment explanation
Indices: 16155578--16155609 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
16155568 ACTTTTTCAG
16155578 ATTATTATATTATT
1 ATTATTATATTATT
16155592 ATTATT-TATTATT
1 ATTATTATATTATT
16155605 ATTAT
1 ATTAT
16155610 AAATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATTATATTATT
Found at i:16155615 original size:13 final size:11
Alignment explanation
Indices: 16155578--16155606 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
16155568 ACTTTTTCAG
16155578 ATTATTATATT
1 ATTATTATATT
16155589 ATTATTAT-TT
1 ATTATTATATT
16155599 ATTATTAT
1 ATTATTAT
16155607 TATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
ATTATTATATT
Found at i:16157166 original size:15 final size:15
Alignment explanation
Indices: 16157140--16157196 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
16157130 TATTCGTTTA
16157140 ATTTAT-TTTTTGTT
1 ATTTATATTTTTGTT
16157154 ATTTATATTTTTGTT
1 ATTTATATTTTTGTT
*** *
16157169 CGATAAATTTTTGTT
1 ATTTATATTTTTGTT
16157184 ATTT-TAATTTTTG
1 ATTTAT-ATTTTTG
16157197 CATTTACTCT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
14 6 0.18
15 27 0.82
ACGTcount: A:0.21, C:0.02, G:0.09, T:0.68
Consensus pattern (15 bp):
ATTTATATTTTTGTT
Found at i:16159616 original size:14 final size:15
Alignment explanation
Indices: 16159597--16159659 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
16159587 CCTTGTTACA
16159597 TTTGCATCTTGCA-T
1 TTTGCATCTTGCATT
16159611 TTTGCA-CTCT-CATT
1 TTTGCATCT-TGCATT
16159625 TTTGCATCTTTGCA--
1 TTTGCATC-TTGCATT
*
16159639 TTTGCAT-GTGCATT
1 TTTGCATCTTGCATT
16159653 TTTGCAT
1 TTTGCAT
16159660 TTTTACATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
12 4 0.10
13 4 0.10
14 28 0.68
15 2 0.05
16 3 0.07
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (15 bp):
TTTGCATCTTGCATT
Found at i:16159629 original size:28 final size:28
Alignment explanation
Indices: 16159597--16159668 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
16159587 CCTTGTTACA
16159597 TTTGCATC-TTGCATTTTGCACTCT-CATT
1 TTTGCATCTTTGCA-TTTGCA-TCTGCATT
*
16159625 TTTGCATCTTTGCATTTGCATGTGCATT
1 TTTGCATCTTTGCATTTGCATCTGCATT
* *
16159653 TTTGCATTTTTACATT
1 TTTGCATCTTTGCATT
16159669 AGTATATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 32 0.82
29 5 0.13
ACGTcount: A:0.15, C:0.19, G:0.12, T:0.53
Consensus pattern (28 bp):
TTTGCATCTTTGCATTTGCATCTGCATT
Found at i:16160748 original size:2 final size:2
Alignment explanation
Indices: 16160736--16160813 Score: 147
Period size: 2 Copynumber: 39.0 Consensus size: 2
16160726 ATCCTTTCAA
*
16160736 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16160778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16160814 CCATTGTAGC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16161102 original size:9 final size:9
Alignment explanation
Indices: 16161083--16161117 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
16161073 AAAGAATGGA
16161083 GAAAAAGAAG
1 GAAAAA-AAG
16161093 GAAAAAAAG
1 GAAAAAAAG
*
16161102 GAAAAAAAA
1 GAAAAAAAG
16161111 GAAAAAA
1 GAAAAAA
16161118 GAAGAAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.75
10 6 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:16161122 original size:3 final size:3
Alignment explanation
Indices: 16161116--16161156 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16161106 AAAAAGAAAA
16161116 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
16161157 AAAACCGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:16166475 original size:15 final size:15
Alignment explanation
Indices: 16166455--16166486 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16166445 TTTTATTTTA
16166455 TGTTCTTTAAATATT
1 TGTTCTTTAAATATT
*
16166470 TGTTCTTTAAATTTT
1 TGTTCTTTAAATATT
16166485 TG
1 TG
16166487 CATTTATTTT
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:0.22, C:0.06, G:0.09, T:0.62
Consensus pattern (15 bp):
TGTTCTTTAAATATT
Found at i:16168926 original size:30 final size:31
Alignment explanation
Indices: 16168870--16168927 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
16168860 AACCATTCAT
* *
16168870 AACTTTTCCAAAATTATCGAATTGGTCCCCC
1 AACTTTTCAAAAATTATAGAATTGGTCCCCC
16168901 AACTTTTCAAAAATTATAGAA-TGGTCC
1 AACTTTTCAAAAATTATAGAATTGGTCC
16168928 TCAAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 6 0.24
31 19 0.76
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.33
Consensus pattern (31 bp):
AACTTTTCAAAAATTATAGAATTGGTCCCCC
Found at i:16168938 original size:30 final size:31
Alignment explanation
Indices: 16168870--16168938 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
16168860 AACCATTCAT
* * *
16168870 AACTTTTCCAAAATTATCGAATTGGTCCCCC
1 AACTTTTCAAAAATTATAGAATTGGTCCCCA
*
16168901 AACTTTTCAAAAATTATAGAA-TGGTCCTCA
1 AACTTTTCAAAAATTATAGAATTGGTCCCCA
*
16168931 AATTTTTC
1 AACTTTTC
16168939 TAAGGCTTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (31 bp):
AACTTTTCAAAAATTATAGAATTGGTCCCCA
Found at i:16173384 original size:13 final size:13
Alignment explanation
Indices: 16173368--16173397 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16173358 TTATGACACG
*
16173368 CATTTATGACTTA
1 CATTTACGACTTA
16173381 CATTTACGACTTA
1 CATTTACGACTTA
16173394 CATT
1 CATT
16173398 GTGTGTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (13 bp):
CATTTACGACTTA
Found at i:16178942 original size:64 final size:63
Alignment explanation
Indices: 16178821--16179009 Score: 202
Period size: 65 Copynumber: 2.9 Consensus size: 63
16178811 GCACTATCTA
* ** * *
16178821 ATGCATCGATGCA-TCCTTGAATAAATTGATATTTCGAATGCATTTTATGTA-CTGATGCACAAG
1 ATGCATCGATGCACTCC-TGAAT-ATTTGA-ACATCGAATGCATTTTATGCATC-GATGCACAAA
*
16178884 GC
62 CC
16178886 ATGCATCGATGCACTCCTGAATATTTTGAACATCGAATGCATTTTATGCATCGATGCACAAACC
1 ATGCATCGATGCACTCCTGAATA-TTTGAACATCGAATGCATTTTATGCATCGATGCACAAACC
* * ** *
16178950 ATGCATTGATGCACTCCAGGCTCATTTGAAACATCGAATGTATTTTATGCATCGATGCAC
1 ATGCATCGATGCACTCCTGAAT-ATTTG-AACATCGAATGCATTTTATGCATCGATGCAC
16179010 CCCTAGTGTA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
64 51 0.47
65 54 0.50
66 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTGAATATTTGAACATCGAATGCATTTTATGCATCGATGCACAAACC
Done.