Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 54 of 204
Found at i:15837742 original size:16 final size:16
Alignment explanation
Indices: 15837721--15837763 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
15837711 GGAATTGAAT
15837721 AGAGTTGTAATGGAAA
1 AGAGTTGTAATGGAAA
*
15837737 AGAGTTGTAATGGAAT
1 AGAGTTGTAATGGAAA
*
15837753 AGAATTGTAAT
1 AGAGTTGTAAT
15837764 TAGTAATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (16 bp):
AGAGTTGTAATGGAAA
Found at i:15838040 original size:10 final size:10
Alignment explanation
Indices: 15837980--15838051 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 10
15837970 ATAATAAATT
15837980 ATTTAATCATA
1 ATTTAAT-ATA
*
15837991 TTTTAATATA
1 ATTTAATATA
15838001 ATTATTAAATATA
1 A-T-TT-AATATA
*
15838014 ATTTAATAACA
1 ATTTAAT-ATA
15838025 ATTTTAATATA
1 A-TTTAATATA
15838036 ATTTAATATA
1 ATTTAATATA
*
15838046 AATTAA
1 ATTTAA
15838052 ATTATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
10 20 0.39
11 15 0.29
12 9 0.18
13 7 0.14
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTAATATA
Found at i:15838049 original size:11 final size:11
Alignment explanation
Indices: 15837992--15838049 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
15837982 TTAATCATAT
*
15837992 TTTAATATAAT
1 TTTAATATAAA
15838003 TATTAA-ATATAA
1 T-TTAATATA-AA
15838015 TTTAATA-ACAA
1 TTTAATATA-AA
15838026 TTTTAATAT-AA
1 -TTTAATATAAA
15838037 TTTAATATAAA
1 TTTAATATAAA
15838048 TT
1 TT
15838050 AAATTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
10 8 0.21
11 17 0.44
12 14 0.36
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTAATATAAA
Found at i:15838049 original size:22 final size:22
Alignment explanation
Indices: 15837981--15838049 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 22
15837971 TAATAAATTA
*
15837981 TTTAATCATATTTTAATAT-AAT
1 TTTAAT-ATAATTTAATATAAAT
15838003 TATTAAATATAATTTAATA-ACAAT
1 T-TT-AATATAATTTAATATA-AAT
15838027 TTTAATATAATTTAATATAAAT
1 TTTAATATAATTTAATATAAAT
15838049 T
1 T
15838050 AAATTATATT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
22 19 0.46
23 15 0.37
24 7 0.17
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAATATAATTTAATATAAAT
Found at i:15838071 original size:15 final size:15
Alignment explanation
Indices: 15838053--15838109 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
15838043 ATAAATTAAA
15838053 TTATATTAAAATATT
1 TTATATTAAAATATT
*
15838068 TTATTTTAAATCATATT
1 TTATATTAAA--ATATT
*
15838085 TTGA-AATAAAATATT
1 TT-ATATTAAAATATT
*
15838100 ATATATTAAA
1 TTATATTAAA
15838110 TTATATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 1 0.03
15 20 0.61
17 11 0.33
18 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TTATATTAAAATATT
Found at i:15840509 original size:18 final size:18
Alignment explanation
Indices: 15840488--15840547 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
15840478 AAATCAAATA
15840488 ATTATTTTAAATATCATT
1 ATTATTTTAAATATCATT
* *
15840506 ATTATTTT-TATAT-ATAA
1 ATTATTTTAAATATCAT-T
* *
15840523 AATATTTCAAATATCATT
1 ATTATTTTAAATATCATT
15840541 ATT-TTTT
1 ATTATTTT
15840548 TCATCTACAC
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
16 2 0.06
17 13 0.42
18 14 0.45
19 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTATTTTAAATATCATT
Found at i:15842864 original size:28 final size:29
Alignment explanation
Indices: 15842800--15842870 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 29
15842790 CTTTAGAGTG
*
15842800 CACCACAAAGGCATTCATTTTTCATAGAT
1 CACCACAAAGGCTTTCATTTTTCATAGAT
*
15842829 CACTACAAAGGCTTTCA-TTTTCATAGAT
1 CACCACAAAGGCTTTCATTTTTCATAGAT
**
15842857 TGCCACAAAGGCTT
1 CACCACAAAGGCTT
15842871 CCAATTCTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 22 0.59
29 15 0.41
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (29 bp):
CACCACAAAGGCTTTCATTTTTCATAGAT
Found at i:15845914 original size:30 final size:29
Alignment explanation
Indices: 15845853--15845914 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
15845843 TTCTCAGATT
* * *
15845853 TTTTTTACGGCTTAACTAAAACCCTTTAA
1 TTTTTTAAGACTTAACTAAAACCCTTCAA
*
15845882 TTTTTTAAGACTTAACTATAACCCTTCCAA
1 TTTTTTAAGACTTAACTAAAACCCTT-CAA
15845912 TTT
1 TTT
15845915 ACAATTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (29 bp):
TTTTTTAAGACTTAACTAAAACCCTTCAA
Found at i:15850000 original size:29 final size:29
Alignment explanation
Indices: 15849967--15850022 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
15849957 TATAAATTCG
* *
15849967 GAGGGTTATAGTTAAGTCTTAAAAAAATA
1 GAGGGTTATAGTTAAGCCATAAAAAAATA
*
15849996 GAGGGTTTTAGTTAAGCCATAAAAAAA
1 GAGGGTTATAGTTAAGCCATAAAAAAA
15850023 CATGTTAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (29 bp):
GAGGGTTATAGTTAAGCCATAAAAAAATA
Found at i:15853354 original size:127 final size:126
Alignment explanation
Indices: 15853200--15853446 Score: 354
Period size: 127 Copynumber: 2.0 Consensus size: 126
15853190 AAATTTTGTA
* *
15853200 TTTTAAAATTTTAAAAGGATATTTTGCTATTTAGGTTTAACGAGAAAA-TCGAGACCCCGTAAGT
1 TTTTAAAATTTTAAAAGGATATTTTGCTATTTACGTTTAACGAGAAAACT-GAAACCCCGTAAGT
** * * *
15853264 TAGGGTAC-AGTTTCTTGAATTCCCAAAAATGTGAAGTATTGCCTTATATCGAGATTTCTTTCT
65 TAGGGTACGA-TTTCTCAAATT-CCAAAAACGCGAAATATTGCCTTATATCGAGATTTCTTTCT
*
15853327 TTTTAAAATTTTAAAAGGATATTTTGCTATTTACGTTTAACGAGAAAACTGAAACCCTGTAAGTT
1 TTTTAAAATTTTAAAAGGATATTTTGCTATTTACGTTTAACGAGAAAACTGAAACCCCGTAAGTT
* * *
15853392 AGGGTACGATTTCTCAAATTTCTAAAACGCGAAATATTGCCTTATTTCGAGATTT
66 AGGGTACGATTTCTCAAATTCCAAAAACGCGAAATATTGCCTTATATCGAGATTT
15853447 TTATTAAATT
Statistics
Matches: 107, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
126 29 0.27
127 76 0.71
128 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTTAAAATTTTAAAAGGATATTTTGCTATTTACGTTTAACGAGAAAACTGAAACCCCGTAAGTT
AGGGTACGATTTCTCAAATTCCAAAAACGCGAAATATTGCCTTATATCGAGATTTCTTTCT
Found at i:15860938 original size:43 final size:44
Alignment explanation
Indices: 15860877--15860964 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
15860867 GCCTAATCTC
15860877 CTCCAGTTCAGTGATATCCAACAACCTTTTCTTTCCAGCAGCTT
1 CTCCAGTTCAGTGATATCCAACAACCTTTTCTTTCCAGCAGCTT
15860921 CTCCAGTT-AGTGATATCCAACAACCTTTTCTTTCCAGCAGCTT
1 CTCCAGTTCAGTGATATCCAACAACCTTTTCTTTCCAGCAGCTT
15860964 C
1 C
15860965 ATAGTCTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 36 0.82
44 8 0.18
ACGTcount: A:0.23, C:0.32, G:0.11, T:0.34
Consensus pattern (44 bp):
CTCCAGTTCAGTGATATCCAACAACCTTTTCTTTCCAGCAGCTT
Found at i:15864628 original size:9 final size:9
Alignment explanation
Indices: 15864614--15864646 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
15864604 TAAAATGATA
15864614 AATTATATT
1 AATTATATT
15864623 AATTATATT
1 AATTATATT
15864632 AATTAT-TT
1 AATTATATT
15864640 -ATTATAT
1 AATTATAT
15864647 GACTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 5 0.22
8 3 0.13
9 15 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATTATATT
Found at i:15869079 original size:42 final size:41
Alignment explanation
Indices: 15869021--15869099 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
15869011 GTGGTCTAAA
*
15869021 AAATTCAACGCCCATATTGCAACAGTCAGATTCCAACGGTC
1 AAATTCAACGACCATATTGCAACAGTCAGATTCCAACGGTC
* ** *
15869062 AAATTCTAACGACCATATTGTAATTGTTAGATTCCAAC
1 AAATTC-AACGACCATATTGCAACAGTCAGATTCCAAC
15869100 AACCATATTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.19
42 26 0.81
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (41 bp):
AAATTCAACGACCATATTGCAACAGTCAGATTCCAACGGTC
Found at i:15874748 original size:22 final size:23
Alignment explanation
Indices: 15874722--15874768 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
15874712 TATTAGAATA
15874722 ATAAAATAT-A-ATTTTAAAATGT
1 ATAAAATATAATATTTTAAAA-GT
*
15874744 ATAAATTATAATATTTTAAAAGT
1 ATAAAATATAATATTTTAAAAGT
15874767 AT
1 AT
15874769 TATAATTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 5 0.23
24 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAAAATATAATATTTTAAAAGT
Found at i:15880452 original size:9 final size:9
Alignment explanation
Indices: 15880438--15880481 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
15880428 GTTTTTGAGT
15880438 ATTTTTATAA
1 ATTTTTAT-A
15880448 ATTTTTATA
1 ATTTTTATA
*
15880457 ATTTTTGTA
1 ATTTTTATA
15880466 ATTTTCTATA
1 ATTTT-TATA
15880476 AGTTTT
1 A-TTTT
15880482 CGTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 14 0.47
10 12 0.40
11 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:15880460 original size:19 final size:19
Alignment explanation
Indices: 15880438--15880481 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15880428 GTTTTTGAGT
15880438 ATTTTTATAAATTTT-TATA
1 ATTTTTAT-AATTTTCTATA
*
15880457 ATTTTTGTAATTTTCTATA
1 ATTTTTATAATTTTCTATA
15880476 AGTTTT
1 A-TTTT
15880482 CGTATTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 12 0.55
20 4 0.18
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (19 bp):
ATTTTTATAATTTTCTATA
Found at i:15880488 original size:19 final size:18
Alignment explanation
Indices: 15880447--15880490 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15880437 TATTTTTATA
*
15880447 AATTTTTATAATTTTTGT
1 AATTTTTATAATTTTCGT
15880465 AATTTTCTATAAGTTTTCGT
1 AATTTT-TATAA-TTTTCGT
15880485 -ATTTTT
1 AATTTTT
15880491 TTGTCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 7 0.30
19 10 0.43
20 6 0.26
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (18 bp):
AATTTTTATAATTTTCGT
Found at i:15880919 original size:44 final size:40
Alignment explanation
Indices: 15880869--15880955 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
15880859 TGGGCACATT
* *
15880869 TCATTTCCTTCTCTTTTTTTTTAAAGTTGATATTTCTTTTTGGG
1 TCATTTCC-T-TC-TTTTTCTT-AAGTTAATATTTCTTTTTGGG
*
15880913 TCATTTCCTTCTTTTTCTTAATTTAATATTTCTTTTTGGG
1 TCATTTCCTTCTTTTTCTTAAGTTAATATTTCTTTTTGGG
15880953 TCA
1 TCA
15880956 ATAAATCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 22 0.55
41 7 0.17
42 2 0.05
43 1 0.03
44 8 0.20
ACGTcount: A:0.15, C:0.15, G:0.09, T:0.61
Consensus pattern (40 bp):
TCATTTCCTTCTTTTTCTTAAGTTAATATTTCTTTTTGGG
Found at i:15882292 original size:30 final size:29
Alignment explanation
Indices: 15882243--15882301 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
15882233 AATTATATAA
15882243 ATTATTAAAATGATAAAAATATAAATAATT
1 ATTATTAAAATGATAAAAATATAAA-AATT
*
15882273 ATTATTTAAAAT-ATTAAAATATAAAAATT
1 ATTA-TTAAAATGATAAAAATATAAAAATT
15882302 GTAGAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (29 bp):
ATTATTAAAATGATAAAAATATAAAAATT
Found at i:15882927 original size:11 final size:10
Alignment explanation
Indices: 15882882--15882925 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
15882872 TAATTTATGG
15882882 TTTTTAATAA
1 TTTTTAATAA
15882892 TTTTTAA-AA
1 TTTTTAATAA
15882901 -TTTTAATAA
1 TTTTTAATAA
*
15882910 CATTTTAATAA
1 -TTTTTAATAA
15882921 TTTTT
1 TTTTT
15882926 TATTTTAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
8 6 0.20
9 4 0.13
10 11 0.37
11 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:15883065 original size:38 final size:39
Alignment explanation
Indices: 15882974--15883065 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 39
15882964 TTTTTTTCAT
** *
15882974 TTTTAATATTTTTATAATTTTCTAAAATTTTCTATAACA
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
** *
15883013 TTTTAATAAA-TTATAATTTTCCATGATTTT-TATAA-T
1 TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
15883049 TTTCTAATAAATTTATA
1 TTT-TAATAAATTTATA
15883066 TTAAATTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 3 0.07
37 12 0.27
38 22 0.49
39 8 0.18
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (39 bp):
TTTTAATAAATTTATAATTTTCCAAAATTTTCTATAACA
Found at i:15883087 original size:48 final size:48
Alignment explanation
Indices: 15882974--15883091 Score: 134
Period size: 48 Copynumber: 2.4 Consensus size: 48
15882964 TTTTTTTCAT
*
15882974 TTTTAATATTTTTATAATTTTCTAAAATTTTCTATAACATTTTAATAAA
1 TTTT-ATATTTTTATGATTTTCTAAAATTTTCTATAACATTTTAATAAA
* * * *
15883023 TTATA-ATTTTCCATGATTTT-TATAATTTTCTAATAA-ATTTATATTAAA
1 TTTTATATTTT-TATGATTTTCTAAAATTTTCT-ATAACATTT-TAATAAA
15883071 TTTTATATTTTTATGATTTTC
1 TTTTATATTTTTATGATTTTC
15883092 GATAAGTTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
47 19 0.33
48 30 0.53
49 8 0.14
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (48 bp):
TTTTATATTTTTATGATTTTCTAAAATTTTCTATAACATTTTAATAAA
Found at i:15883219 original size:16 final size:17
Alignment explanation
Indices: 15883186--15883220 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15883176 TTTTCTACAA
*
15883186 ATTTTAATATTTTTTAT
1 ATTTTAATATTATTTAT
15883203 ATTTTAA-ATTATTTAT
1 ATTTTAATATTATTTAT
15883219 AT
1 AT
15883221 ATATTTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTAATATTATTTAT
Found at i:15886197 original size:16 final size:16
Alignment explanation
Indices: 15886178--15886217 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15886168 GGCTAAACTG
*
15886178 TAAATAAATAAATGAA
1 TAAATAAATAAAGGAA
* *
15886194 TAAATAAATAGAGGAC
1 TAAATAAATAAAGGAA
15886210 TAAATAAA
1 TAAATAAA
15886218 AATTTAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.65, C:0.03, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAATAAATAAAGGAA
Found at i:15888629 original size:25 final size:25
Alignment explanation
Indices: 15888592--15888665 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
15888582 AGCTCTCTCT
* * *
15888592 TGAGCCATATAACGAGAAGCTTATG
1 TGAGCCTTGTAACGAGAAGCTCATG
*
15888617 TGAGTCTTGTAACGAGAAGCTCATG
1 TGAGCCTTGTAACGAGAAGCTCATG
*
15888642 TGAGCCTTGTAACGGGAAGCTCAT
1 TGAGCCTTGTAACGAGAAGCTCAT
15888666 TCGAGCTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (25 bp):
TGAGCCTTGTAACGAGAAGCTCATG
Found at i:15888671 original size:25 final size:24
Alignment explanation
Indices: 15888601--15888690 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 24
15888591 TTGAGCCATA
* *
15888601 TAACGAGAAGCTTATGTGAGTCTTG
1 TAACGGGAAGCTCATGTGAG-CTTG
*
15888626 TAACGAGAAGCTCATGTGAGCCTTG
1 TAACGGGAAGCTCATGTGAG-CTTG
*
15888651 TAACGGGAAGCTCAT-TCGAGCTGTA
1 TAACGGGAAGCTCATGT-GAGCT-TG
*
15888676 TAACAGGAAGCTCAT
1 TAACGGGAAGCTCAT
15888691 AAGAGCCATA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
24 3 0.05
25 55 0.95
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (24 bp):
TAACGGGAAGCTCATGTGAGCTTG
Found at i:15890278 original size:44 final size:44
Alignment explanation
Indices: 15890225--15890468 Score: 218
Period size: 44 Copynumber: 5.5 Consensus size: 44
15890215 TATTCCGCTA
* * * *
15890225 CAACCTCAGGGAGATTAGATTTGTAGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTG
* * * * * *
15890269 CAACTTCAGGAAGATAATATTTGTTATCTTCAATCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTG-TAGCTTCAATATGCTCCACTG
* * *
15890314 CAACTTTAGGGAAATAAGATTTGTAGCTTCAATATGCTCTACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTG
* * * * * *
15890358 CAACTTTAGAGAGATAAGATTTGCTATCTTCAATTTGCTTCATTG
1 CAACTTCAGGGAGATAAGATTTG-TAGCTTCAATATGCTCCACTG
* * * ** * *
15890403 CAATTTCAGAGAAATAAGATTTGTAATTTTAATATGCTACACTG
1 CAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTG
**
15890447 CAACTTCAATGAGATAAGATTT
1 CAACTTCAGGGAGATAAGATTT
15890469 ATGGTTAACT
Statistics
Matches: 161, Mismatches: 37, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
44 89 0.55
45 72 0.45
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGATTTGTAGCTTCAATATGCTCCACTG
Found at i:15890311 original size:45 final size:45
Alignment explanation
Indices: 15890175--15890468 Score: 201
Period size: 44 Copynumber: 6.6 Consensus size: 45
15890165 TCATTCTAAC
* * * * **
15890175 CCACCGCAACTTCA-GAGGTATAGGATTTGTAAT-TTCAATCTATT
1 CCACTGCAACTTCAGGAAG-ATAAGATTTGTTATCTTCAATCTGCT
* * * * * * *
15890219 CCGCTACAACCTCAGGGAGATTAGATTTG-TAGCTTTAATCTGCT
1 CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
* *
15890263 CCACTGCAACTTCAGGAAGATAATATTTGTTATCTTCAATCTACT
1 CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
* * * *
15890308 CCACTACAACTTTAGGGAA-ATAAGATTTG-TAGCTTCAATATGCT
1 CCACTGCAACTTCA-GGAAGATAAGATTTGTTATCTTCAATCTGCT
* * * *
15890352 CTACTGCAACTTTA-GAGAGATAAGATTTGCTATCTTCAATTTGCT
1 CCACTGCAACTTCAGGA-AGATAAGATTTGTTATCTTCAATCTGCT
* * * * * *
15890397 TCATTGCAATTTCAGAGAA-ATAAGATTTGTAAT-TTTAATATGCT
1 CCACTGCAACTTCAG-GAAGATAAGATTTGTTATCTTCAATCTGCT
* *
15890441 ACACTGCAACTTCAATG-AGATAAGATTT
1 CCACTGCAACTTC-AGGAAGATAAGATTT
15890469 ATGGTTAACT
Statistics
Matches: 194, Mismatches: 45, Indels: 22
0.74 0.17 0.08
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 112 0.58
45 70 0.36
46 5 0.03
47 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (45 bp):
CCACTGCAACTTCAGGAAGATAAGATTTGTTATCTTCAATCTGCT
Found at i:15890334 original size:89 final size:89
Alignment explanation
Indices: 15890175--15890468 Score: 301
Period size: 89 Copynumber: 3.3 Consensus size: 89
15890165 TCATTCTAAC
* * * * * * * *
15890175 CCACCGCAACTTCAGAG-GTATAGGATTTGTAAT-TTCAATCTATTCCGCTACAACCTCAGGGAG
1 CCACTGCAACTTCAGAGAG-ATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
* *
15890238 ATTAGATTTGTAGCTTTAATCTGCT
65 ATAAGATTTGTAGCTTTAATATGCT
*
15890263 CCACTGCAACTTCAG-GAAGATAATATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
1 CCACTGCAACTTCAGAG-AGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAA
*
15890327 ATAAGATTTGTAGCTTCAATATGCT
65 ATAAGATTTGTAGCTTTAATATGCT
* * * * * * * * *
15890352 CTACTGCAACTTTAGAGAGATAAGATTTGCTATCTTCAATTTGCTTCATTGCAA-TTTCAGAGAA
1 CCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTT-AGGGAA
**
15890416 ATAAGATTTGTAATTTTAATATGCT
65 ATAAGATTTGTAGCTTTAATATGCT
*
15890441 ACACTGCAACTTCA-ATGAGATAAGATTT
1 CCACTGCAACTTCAGA-GAGATAAGATTT
15890469 ATGGTTAACT
Statistics
Matches: 172, Mismatches: 28, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
87 1 0.01
88 29 0.17
89 141 0.82
90 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (89 bp):
CCACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATCTACTCCACTACAACTTTAGGGAAA
TAAGATTTGTAGCTTTAATATGCT
Found at i:15893197 original size:54 final size:53
Alignment explanation
Indices: 15892960--15893185 Score: 312
Period size: 53 Copynumber: 4.2 Consensus size: 53
15892950 CTTTAGTGCC
*
15892960 GGCCATTGACATGCCAGCACAAAAAAAATTT-ACTTTTTTTTGGGTACTT-GTGGT
1 GGCCATTGACAGGCCAGCACAAAAAAAATTTGA-TTTTTTTT--GTACTTGGTGGT
* *
15893014 GGCCATTGACAGGCCAACACAAAAAATATTTGATTTTTTTTGTACTTGGTGGT
1 GGCCATTGACAGGCCAGCACAAAAAAAATTTGATTTTTTTTGTACTTGGTGGT
* * ** *
15893067 GGCAATTGACAGGCCAACATTAAAAATATTTGATTTTTTTTGTACTTGGTGGT
1 GGCCATTGACAGGCCAGCACAAAAAAAATTTGATTTTTTTTGTACTTGGTGGT
* *
15893120 GGCCATTGACAGGCTAGCACAAAAAAAATTTGATTTTTTTTGTACTTAGTGGT
1 GGCCATTGACAGGCCAGCACAAAAAAAATTTGATTTTTTTTGTACTTGGTGGT
*
15893173 GGCTATTGACAGG
1 GGCCATTGACAGG
15893186 AGAGCACCAA
Statistics
Matches: 156, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
52 6 0.04
53 113 0.72
54 36 0.23
55 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (53 bp):
GGCCATTGACAGGCCAGCACAAAAAAAATTTGATTTTTTTTGTACTTGGTGGT
Found at i:15896859 original size:24 final size:23
Alignment explanation
Indices: 15896810--15896864 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
15896800 TGTTGGATTC
* ** *
15896810 TTTTTAATAATTTCATAATATTA
1 TTTTTAAAAATTAAATAATATAA
15896833 TTTTTAAAAATTAAATAATTATAA
1 TTTTTAAAAATTAAATAA-TATAA
15896857 -TTTTAAAA
1 TTTTTAAAA
15896865 TATCGGTGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTTTAAAAATTAAATAATATAA
Found at i:15898517 original size:13 final size:13
Alignment explanation
Indices: 15898492--15898524 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15898482 AAAAATCAGC
15898492 TCAATTG-AGAGG
1 TCAATTGAAGAGG
15898504 TCAATTGAAGAGG
1 TCAATTGAAGAGG
*
15898517 TTAATTGA
1 TCAATTGA
15898525 GTAGGGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (13 bp):
TCAATTGAAGAGG
Found at i:15921191 original size:25 final size:24
Alignment explanation
Indices: 15921144--15921215 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
15921134 ATTCATTCAT
*
15921144 GTATGCTCTATGAGCTATAAATCA
1 GTATGCTCTACGAGCTATAAATCA
* *
15921168 GTATGCTCTCACGAGCTGTGAATCGA
1 GTATGCTCT-ACGAGCTATAAATC-A
* *
15921194 G-AAGCTCATACGAGCTACAAAT
1 GTATGCTC-TACGAGCTATAAAT
15921216 TGGGAACCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
24 9 0.24
25 26 0.68
26 3 0.08
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (24 bp):
GTATGCTCTACGAGCTATAAATCA
Found at i:15921240 original size:25 final size:25
Alignment explanation
Indices: 15921178--15921279 Score: 132
Period size: 25 Copynumber: 4.1 Consensus size: 25
15921168 GTATGCTCTC
*
15921178 ACGAGCTGTGAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
** * * *
15921203 ACGAGCTACAAATTGGGAACCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
* *
15921228 ACGAGCTGTAAATAGAAAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
15921253 ACGAGCTGTAAATCGAGAAGCTCAT
1 ACGAGCTGTAAATCGAGAAGCTCAT
15921278 AC
1 AC
15921280 AAGTTGTGGT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (25 bp):
ACGAGCTGTAAATCGAGAAGCTCAT
Found at i:15925704 original size:26 final size:27
Alignment explanation
Indices: 15925663--15925725 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 27
15925653 TTTAAAATAC
* *
15925663 TTTTAAAATAATTTTTTTATTTTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
15925690 TTTTAAAATAA-TTTTTTAATGTTTAT
1 TTTTAAAATAATTTTTTTAATGTTTAT
*
15925716 TTTAAAAATA
1 TTTTAAAATA
15925726 GGTCGGGTCG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTAAAATAATTTTTTTAATGTTTAT
Found at i:15927091 original size:27 final size:27
Alignment explanation
Indices: 15927021--15927093 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
15927011 TACACGTCAG
*
15927021 GAAAGAAAAGCCTTTGCGGCATAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATAT
*
15927048 GAAAGAAAAGCCTTTGTGGCGTAATAT
1 GAAAGAAAAGCCTTTGTGGCATAATAT
* *
15927075 GAAGGAAAATCCTTTGTGG
1 GAAAGAAAAGCCTTTGTGG
15927094 TAGAAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCATAATAT
Found at i:15940661 original size:17 final size:18
Alignment explanation
Indices: 15940635--15940677 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
15940625 TTACCTTTCA
*
15940635 AATAAAAATATAAA-CAT
1 AATAACAATATAAAGCAT
15940652 AATAACAATATAAAGCAT
1 AATAACAATATAAAGCAT
15940670 AATCAACA
1 AAT-AACA
15940678 CCTCTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.57
18 6 0.26
19 4 0.17
ACGTcount: A:0.65, C:0.12, G:0.02, T:0.21
Consensus pattern (18 bp):
AATAACAATATAAAGCAT
Found at i:15945020 original size:30 final size:30
Alignment explanation
Indices: 15944986--15945046 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
15944976 CTTGATTATA
15944986 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGATCCTTCT
15945016 ATCAAGTACAGATTTCCATGTGATCCTTCT
1 ATCAAGTACAGATTTCCATGTGATCCTTCT
15945046 A
1 A
15945047 ACCGTTCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (30 bp):
ATCAAGTACAGATTTCCATGTGATCCTTCT
Found at i:15948234 original size:11 final size:11
Alignment explanation
Indices: 15948218--15948243 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15948208 ATTTTTTTAA
15948218 TTTTAAAATAC
1 TTTTAAAATAC
15948229 TTTTAAAATAC
1 TTTTAAAATAC
15948240 TTTT
1 TTTT
15948244 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:15948267 original size:17 final size:17
Alignment explanation
Indices: 15948242--15948307 Score: 64
Period size: 17 Copynumber: 4.0 Consensus size: 17
15948232 TAAAATACTT
*
15948242 TTTTTAAATTTTTTTAA
1 TTTTAAAATTTTTTTAA
15948259 TTTTAAAATTTTTTTAA
1 TTTTAAAATTTTTTTAA
** **
15948276 -AAT-ACTTTTTTTTAA
1 TTTTAAAATTTTTTTAA
*
15948291 TTTTAAAATATTTTTAA
1 TTTTAAAATTTTTTTAA
15948308 AATACTTTTT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
15 10 0.27
16 2 0.05
17 25 0.68
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTAAAATTTTTTTAA
Found at i:15948317 original size:31 final size:31
Alignment explanation
Indices: 15948229--15948344 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 31
15948219 TTTAAAATAC
**
15948229 TTTTAAAATACTTTTTTTAA-A-TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA
*
15948259 TTTTAAAATTTTTTTAAAATACTTTTTTTTAA
1 TTTTAAAATATTTTTAAAATAC-TTTTTTTAA
15948291 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTTAA
**
15948322 TTTTTAATTTAATTTTTAAAATA
1 -TTTTAAAAT-ATTTTTAAAATA
15948345 AATTTTTGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
29 7 0.09
30 10 0.13
31 9 0.12
32 37 0.49
33 12 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:15960901 original size:23 final size:24
Alignment explanation
Indices: 15960875--15960927 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
15960865 AATAAGAAAA
15960875 CAAGAAT-ACATAA-AACGTGCTAC
1 CAAGAATAACA-AAGAACGTGCTAC
15960898 CAAGAATAGACAAAGAACGTGCTAC
1 CAAGAATA-ACAAAGAACGTGCTAC
15960923 CAAGA
1 CAAGA
15960928 GCAGACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.26
24 2 0.07
25 18 0.67
ACGTcount: A:0.49, C:0.21, G:0.17, T:0.13
Consensus pattern (24 bp):
CAAGAATAACAAAGAACGTGCTAC
Found at i:15961304 original size:24 final size:24
Alignment explanation
Indices: 15961277--15961328 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15961267 AATCAAAGTC
* *
15961277 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
15961301 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
15961325 AAAT
1 AAAT
15961329 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:15969810 original size:141 final size:141
Alignment explanation
Indices: 15969556--15969840 Score: 570
Period size: 141 Copynumber: 2.0 Consensus size: 141
15969546 TATTTTTTCT
15969556 TGTTTTCGAACGAGACAAGCCGGATTTCATGTAATTATCTTTTAATAAAGTACCGTATAACTCTA
1 TGTTTTCGAACGAGACAAGCCGGATTTCATGTAATTATCTTTTAATAAAGTACCGTATAACTCTA
15969621 TCAGCTGAAAAGCAAAGCAAACAAGCAGCATGTGAAGCAAAAACGTTTTAAGAGCGGAAGGCTCA
66 TCAGCTGAAAAGCAAAGCAAACAAGCAGCATGTGAAGCAAAAACGTTTTAAGAGCGGAAGGCTCA
15969686 ACATGTCATAA
131 ACATGTCATAA
15969697 TGTTTTCGAACGAGACAAGCCGGATTTCATGTAATTATCTTTTAATAAAGTACCGTATAACTCTA
1 TGTTTTCGAACGAGACAAGCCGGATTTCATGTAATTATCTTTTAATAAAGTACCGTATAACTCTA
15969762 TCAGCTGAAAAGCAAAGCAAACAAGCAGCATGTGAAGCAAAAACGTTTTAAGAGCGGAAGGCTCA
66 TCAGCTGAAAAGCAAAGCAAACAAGCAGCATGTGAAGCAAAAACGTTTTAAGAGCGGAAGGCTCA
15969827 ACATGTCATAA
131 ACATGTCATAA
15969838 TGT
1 TGT
15969841 ATGTGTATAT
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (141 bp):
TGTTTTCGAACGAGACAAGCCGGATTTCATGTAATTATCTTTTAATAAAGTACCGTATAACTCTA
TCAGCTGAAAAGCAAAGCAAACAAGCAGCATGTGAAGCAAAAACGTTTTAAGAGCGGAAGGCTCA
ACATGTCATAA
Found at i:15970313 original size:22 final size:22
Alignment explanation
Indices: 15970288--15970336 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
15970278 TGTTTTCTCC
15970288 TTATTTTGCTACCATTTTATTA
1 TTATTTTGCTACCATTTTATTA
* * * * *
15970310 TTATGTTGTTACTATTTTGTTG
1 TTATTTTGCTACCATTTTATTA
15970332 TTATT
1 TTATT
15970337 GTTTGGATAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.08, G:0.10, T:0.63
Consensus pattern (22 bp):
TTATTTTGCTACCATTTTATTA
Found at i:15971678 original size:21 final size:21
Alignment explanation
Indices: 15971630--15971680 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
15971620 ATATAAAAGA
15971630 TATAAAATAATAAAAATACTT
1 TATAAAATAATAAAAATACTT
**
15971651 T-TAAAATAATATAATTTA-TT
1 TATAAAATAATA-AAAATACTT
15971671 TATAAAATAA
1 TATAAAATAA
15971681 GAATAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAAATAATAAAAATACTT
Found at i:15979722 original size:19 final size:19
Alignment explanation
Indices: 15979682--15979724 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
15979672 AAAAATATTT
15979682 TTTATATTTTATAATTAAA
1 TTTATATTTTATAATTAAA
15979701 TTTA-ATTTTAATAA-TAATA
1 TTTATATTTT-ATAATTAA-A
15979720 TTTAT
1 TTTAT
15979725 TATCTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATATTTTATAATTAAA
Found at i:15980189 original size:24 final size:25
Alignment explanation
Indices: 15980162--15980212 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
15980152 AAATTTTAAT
15980162 ATACCATGTAAATTTTTT-TTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
*
15980186 ATACCTTGTAAATTTTTTGTTCAAA
1 ATACCATGTAAATTTTTTGTTCAAA
15980211 AT
1 AT
15980213 GCTCTATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (25 bp):
ATACCATGTAAATTTTTTGTTCAAA
Found at i:15980293 original size:16 final size:15
Alignment explanation
Indices: 15980270--15980299 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15980260 TCACTATGGG
15980270 ATTTTTTTAATATAA
1 ATTTTTTTAATATAA
15980285 ATTTATTTTAATATA
1 ATTT-TTTTAATATA
15980300 GTATACTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTTTTAATATAA
Found at i:15985398 original size:45 final size:45
Alignment explanation
Indices: 15985334--15985423 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
15985324 AAGAAGTAAG
*
15985334 AGAATGGTCTGCTAAGAGAGATGAAATTGCACAAACTATATGGAC
1 AGAATGGTCTGCTAAGAGAGACGAAATTGCACAAACTATATGGAC
* *
15985379 AGAATGGTCTGCTAAGAGAGACGAAATTTCACAAACTATGTGGAC
1 AGAATGGTCTGCTAAGAGAGACGAAATTGCACAAACTATATGGAC
15985424 TAATTATATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.22
Consensus pattern (45 bp):
AGAATGGTCTGCTAAGAGAGACGAAATTGCACAAACTATATGGAC
Found at i:15985606 original size:27 final size:27
Alignment explanation
Indices: 15985576--15985648 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 27
15985566 TGTCTTGAAT
15985576 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
15985603 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
15985635 TTGTTGGATATTGA
1 TTGTTAGATATTGA
15985649 AATGATTGAC
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 14 0.35
32 26 0.65
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:15985628 original size:32 final size:32
Alignment explanation
Indices: 15985589--15985649 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
15985579 TTAGATATTG
15985589 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
15985621 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
15985650 ATGATTGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.18, T:0.51
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:15986945 original size:18 final size:18
Alignment explanation
Indices: 15986901--15986937 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15986891 AAACAATTTA
15986901 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
15986919 AAATATAAATTTATTAAT
1 AAATATAAATTTATTAAT
15986937 A
1 A
15986938 TATGTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAATATAAATTTATTAAT
Found at i:15992768 original size:17 final size:19
Alignment explanation
Indices: 15992746--15992782 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
15992736 TGAAATTGTA
*
15992746 ATATG-TATTCGG-AATTG
1 ATATGTTATGCGGTAATTG
15992763 ATATGTTATGCGGTAATTG
1 ATATGTTATGCGGTAATTG
15992782 A
1 A
15992783 ATATTGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 6 0.35
19 6 0.35
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (19 bp):
ATATGTTATGCGGTAATTG
Found at i:15995907 original size:25 final size:25
Alignment explanation
Indices: 15995872--15995940 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
15995862 GGACACACCA
*
15995872 CAGCTCTTATGAGTTTCCCGATACT
1 CAGCTCGTATGAGTTTCCCGATACT
* * *
15995897 CAGCTCGTATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGTTTCCCGATACT
*
15995922 CAGCTCGCATGAGCTTTCC
1 CAGCTCGTATGAG-TTTCC
15995941 GTTATTCAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 33 0.89
26 4 0.11
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGTTTCCCGATACT
Found at i:15995942 original size:25 final size:25
Alignment explanation
Indices: 15995880--15995948 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
15995870 CACAGCTCTT
* * * *
15995880 ATGAGTTTCCCGATACTCAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGC
15995905 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
*
15995930 ATGAGCTTTCCGTTATTCA
1 ATGAGCTTCCCGTTATTCA
15995949 ACTCAGAAGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:16004563 original size:26 final size:24
Alignment explanation
Indices: 16004528--16004576 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
16004518 AACTCTTTTA
*
16004528 TATATAATTTAGTTTTTTTAAAATTT
1 TATATAATTT--TTATTTTAAAATTT
*
16004554 TATATCATTTTTATTTTAAAATT
1 TATATAATTTTTATTTTAAAATT
16004577 CTTAGGTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
26 9 0.43
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TATATAATTTTTATTTTAAAATTT
Found at i:16009065 original size:12 final size:12
Alignment explanation
Indices: 16009050--16009083 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
16009040 AAACTGAGCC
16009050 ATAAATATTTTT
1 ATAAATATTTTT
16009062 ATAAATATTTTT
1 ATAAATATTTTT
16009074 ATAAATATTT
1 ATAAATATTT
16009084 ATGGAGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAAATATTTTT
Found at i:16014665 original size:23 final size:24
Alignment explanation
Indices: 16014638--16014682 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
16014628 TATATGTTAA
16014638 AAATGA-AATTAAAA-ATAAAAATT
1 AAATGATAA-TAAAACATAAAAATT
16014661 AAATGATAATAAAACATAAAAA
1 AAATGATAATAAAACATAAAAA
16014683 CAAAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (24 bp):
AAATGATAATAAAACATAAAAATT
Found at i:16026007 original size:51 final size:50
Alignment explanation
Indices: 16025948--16026131 Score: 192
Period size: 51 Copynumber: 3.6 Consensus size: 50
16025938 AAAGGTCGCA
* * *
16025948 TGTGTAGTACCATGTACAGGCTACTATGCGTACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAG-TTTGATCACG
* * *
16025999 TGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTT--TGATCACG
** * * * * *
16026050 TGTGTAGTACTATGTGTAGACTACTACGTGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTTTGATCACG
*
16026100 TGTGTAGTACTATGTGA-AGGCTACTACGTGTA
1 TGTGTAGTACTATGT-ACAGGCTACTATGTGTA
16026132 TCGAATGATA
Statistics
Matches: 112, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
49 2 0.02
50 35 0.31
51 73 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTACAGGCTACTATGTGTACCAGATAGTTTGATCACG
Found at i:16026020 original size:101 final size:100
Alignment explanation
Indices: 16025895--16026139 Score: 303
Period size: 101 Copynumber: 2.4 Consensus size: 100
16025885 AGTGATGGTT
* * *
16025895 ACGTGTGTAGTACTATGTGTAGGCTACTACATGTATCAGAATGAAAGGTCGCATGTGTAGTACCA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAGTACCA
* * * *
16025960 TGTACAGGCTACTATGCGTACCAGATAGCTTCGATC
66 TGTACAGACTACTACGCGAACCAGAAAG-TTCGATC
* * * * * *
16025996 ACGTGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATATTAATGGTCACGTGTGTAGTACT
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGA-ATGAAAGGTCACATGTGTAGTACC
** * * *
16026061 ATGTGTAGACTACTACGTGAACCGGAAAGTTTGATC
65 ATGTACAGACTACTACGCGAACCAGAAAGTTCGATC
16026097 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGA
16026140 TAATAGTTAA
Statistics
Matches: 123, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 78 0.63
102 40 0.33
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (100 bp):
ACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCAGAATGAAAGGTCACATGTGTAGTACCA
TGTACAGACTACTACGCGAACCAGAAAGTTCGATC
Found at i:16029283 original size:23 final size:22
Alignment explanation
Indices: 16029232--16029284 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
16029222 CCTCGTCTTT
*
16029232 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
16029254 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
16029277 TTCTTTTC
1 TTCTTTTC
16029285 AATTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.19
23 14 0.54
24 5 0.19
ACGTcount: A:0.09, C:0.25, G:0.02, T:0.64
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:16032112 original size:38 final size:38
Alignment explanation
Indices: 16031989--16032112 Score: 88
Period size: 40 Copynumber: 3.2 Consensus size: 38
16031979 GGCGATTGGA
* * * *
16031989 CCAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTCT
1 CCAAAAATGCCGCTAAAAAT-GAGCATTAGCGGCGTTTT
*** * * * * *
16032028 ATGAAAATCGCCACTAAAGATTTAGCAATAGCGACGGTTTT
1 CCAAAAAT-GCCGCTAAA-AATGAGCATTAGCGGC-GTTTT
*
16032069 -AAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTT
1 CCAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTT
16032106 CCAAAAA
1 CCAAAAA
16032113 GCGCCGCAAA
Statistics
Matches: 61, Mismatches: 20, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
37 5 0.08
38 17 0.28
39 12 0.20
40 22 0.36
41 5 0.08
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (38 bp):
CCAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTT
Found at i:16032119 original size:39 final size:38
Alignment explanation
Indices: 16031989--16032125 Score: 98
Period size: 39 Copynumber: 3.5 Consensus size: 38
16031979 GGCGATTGGA
* *
16031989 CCAAAAACGCCGCTAAAAATCGAACATTAGCGGCGCTCTAT
1 CCAAAAACGCCGCTAAAAAT-GAGCATTAGCGGCG-T-TTT
* * * * * * *
16032030 -GAAAATCGCCACTAAAGATTTAGCAATAGCGACGGTTTT
1 CCAAAAACGCCGCTAAA-AATGAGCATTAGCGGC-GTTTT
* *
16032069 -AAAAAATGCCGCTAAAAATGAGCATTAGCGGCGTTTT
1 CCAAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTT
*
16032106 CCAAAAAGCGCCGCAAAAAA
1 CCAAAAA-CGCCGCTAAAAA
16032126 CCTAATCCCA
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
37 5 0.07
38 17 0.24
39 24 0.33
40 23 0.32
41 3 0.04
ACGTcount: A:0.39, C:0.23, G:0.19, T:0.19
Consensus pattern (38 bp):
CCAAAAACGCCGCTAAAAATGAGCATTAGCGGCGTTTT
Found at i:16032217 original size:41 final size:41
Alignment explanation
Indices: 16032160--16032486 Score: 415
Period size: 41 Copynumber: 8.0 Consensus size: 41
16032150 AGGCCTTTCG
* *
16032160 TGGTCTTTAACGGCGTTTTTGGAAAAGCGCCTCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* * *
16032201 TGGTCTTTAGTGGCGTTTTTAGAAAAGCGCCGCTACTGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
*
16032242 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGTCGCTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* *
16032283 TGGTATTTAGCGGCATTTTTGGAAAAGCGCCG-TGAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCT-AATGCTC
* * *
16032324 TGGTCTTTAGCGGCGTTTTTGGCAAAGCGCTGCTAATGGTC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
* ** *
16032365 TGGTCTTTAGCGGCATTTTTGGAAATTTC-CCGTTAATGCTC
1 TGGTCTTTAGCGGCGTTTTTGGAAA-AGCGCCGCTAATGCTC
* ** *
16032406 TGGCCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTGGTGCTA
1 TGGTCTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTC
* * *
16032448 TGATCTTTAGCTGCGTTTTTGCAAAAGCGCCGCTAATGC
1 TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
16032487 AAAATACTAT
Statistics
Matches: 243, Mismatches: 38, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
40 1 0.00
41 210 0.86
42 32 0.13
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (41 bp):
TGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTC
Found at i:16032744 original size:22 final size:21
Alignment explanation
Indices: 16032703--16032752 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
16032693 GAGTTACTAT
*
16032703 TTTAAGGTTTAGGGAGTATGAA
1 TTTAAGGATTAGGGAGTATG-A
* * *
16032725 TTTAAGGATTATGGATTATGG
1 TTTAAGGATTAGGGAGTATGA
16032746 TTTAAGG
1 TTTAAGG
16032753 GTAGGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (21 bp):
TTTAAGGATTAGGGAGTATGA
Found at i:16032797 original size:22 final size:22
Alignment explanation
Indices: 16032744--16032822 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 22
16032734 TATGGATTAT
**
16032744 GGTTTAAGGG-TAGGAATTTAA-
1 GGTTTAAGGGTTA-GAGGTTAAG
* *
16032765 GGTTTAGGGGTTAGCGGTTAAG
1 GGTTTAAGGGTTAGAGGTTAAG
*
16032787 GGTTTAAGGGTTAGAGGTTATG
1 GGTTTAAGGGTTAGAGGTTAAG
* *
16032809 GGGTTAAGAGTTAG
1 GGTTTAAGGGTTAG
16032823 GGATTTAAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 14 0.30
22 33 0.70
ACGTcount: A:0.25, C:0.01, G:0.41, T:0.33
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGGTTAAG
Found at i:16033185 original size:301 final size:290
Alignment explanation
Indices: 16032642--16033228 Score: 763
Period size: 294 Copynumber: 2.0 Consensus size: 290
16032632 TTAGGGTTTT
* * *
16032642 GGGTTTTTGGTTTAGTGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGTTACTATTTTA
1 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
*
16032707 AGGTTTAGGGAGTATGAATTTAAGGATTATGGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
66 AGGTTTAGGGAGTATGAATTTAAGGATTATAGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
* * *
16032772 GGGTTAGCGGTTAAGGGTTTAAGGGTTAGAGGTTATGGGGTTAAGAGTTAGGGATTTAAGGGTCG
131 GGGTTAGCGGTTAAGGGTTTAAGGGTTAGAAGTTATGGGGTTAAGAGTTAGGGACTGAAGGGTCG
*
16032837 GTTAGGTTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTCTTATATAT
196 GTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTC---T-TAT
16032902 ATAATTGTAAAAGAAATAATAATAAATTTATTTA
257 ATAATTGTAAAAGAAATAATAATAAATTTATTTA
*
16032936 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTGTTTTA
1 GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
* * *
16033001 AGGTTTAGGGAGTATGGATTTAGGGATTATAGATTAAGGAACATGGTTTAAGGGTTGGAATTTAA
66 AGGTTTAGGGAGTATGAATTTAAGGATTATAGATT-------ATGGTTTAAGGGTAGGAATTTAA
* * * ** * *
16033066 GGTTTAGGGGTTTTGGGGTT-AGATGTTTTGGGGTTA-ATAGTTA-GGGATTTTAG-GTTTA-GG
124 GGTTTAGGGG-TTAGCGGTTAAG-GGTTTAAGGGTTAGA-AGTTATGGG-GTTAAGAG-TTAGGG
* * * *
16033126 CCTGAGGGGTCGGGTTGGGGTTTTGGGTTTAGATTAATTAG-TTTTTTAATTTATATTTTAAATA
184 ACTGAAGGGTC-GGTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATA
*
16033190 TGTTCTTATATAATTGTAAAAGAGATAATAATAAATTTA
248 TGTTCTTATATAATTGTAAAAGAAATAATAATAAATTTA
16033229 ATATATTGAA
Statistics
Matches: 256, Mismatches: 24, Indels: 23
0.84 0.08 0.08
Matches are distributed among these distances:
294 93 0.36
297 32 0.12
298 1 0.00
301 76 0.30
302 54 0.21
ACGTcount: A:0.28, C:0.02, G:0.27, T:0.42
Consensus pattern (290 bp):
GGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGATTTAGGAGTTACTATTTTA
AGGTTTAGGGAGTATGAATTTAAGGATTATAGATTATGGTTTAAGGGTAGGAATTTAAGGTTTAG
GGGTTAGCGGTTAAGGGTTTAAGGGTTAGAAGTTATGGGGTTAAGAGTTAGGGACTGAAGGGTCG
GTTAGGGTTTTGGGTGTAGATTAATTAGTTTTTTTAATTTATATTTTAAATATGTTCTTATATAA
TTGTAAAAGAAATAATAATAAATTTATTTA
Found at i:16033549 original size:25 final size:25
Alignment explanation
Indices: 16033516--16033574 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
16033506 GGACCAAATT
* *
16033516 ATAAGAAATAAAATTAAAATACAAAA
1 ATAA-AAATAAAAATAAAATAAAAAA
* *
16033542 ATAAAAATAAAAATGAATTAAAAAA
1 ATAAAAATAAAAATAAAATAAAAAA
16033567 ATAAAAAT
1 ATAAAAAT
16033575 TATAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 25 0.86
26 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (25 bp):
ATAAAAATAAAAATAAAATAAAAAA
Found at i:16035185 original size:19 final size:18
Alignment explanation
Indices: 16035161--16035214 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
16035151 TAATGTTTAC
*
16035161 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
16035180 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
16035197 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
16035215 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:16037508 original size:27 final size:26
Alignment explanation
Indices: 16037478--16037534 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
16037468 AATTTCGAGG
*
16037478 TTTACAATTTT-TAATTTTTATTAATTA
1 TTTAC-ATTTTATAAGTTTTATTAA-TA
* *
16037505 TTTACGTTTTATCAGTTTTATTAATA
1 TTTACATTTTATAAGTTTTATTAATA
16037531 TTTA
1 TTTA
16037535 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.30, C:0.05, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTACATTTTATAAGTTTTATTAATA
Found at i:16037828 original size:43 final size:42
Alignment explanation
Indices: 16037721--16037863 Score: 166
Period size: 43 Copynumber: 3.4 Consensus size: 42
16037711 ATGATATGTT
* * * **
16037721 TTTAGCGGCGTTTTTG-CGAGAAGCGCCGCTAAAGGT-TTGTT
1 TTTAGCGGCGTTTGTGAC-AAAAGCGCCGCTAAAGGTCATGGC
*
16037762 TTATAGCGGCGTTTGTAACAAAAGCGCCGCTAAAGGTCATGAGC
1 TT-TAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG-GC
*
16037806 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGG-C
16037849 TTTAG-GGCGTTTGTG
1 TTTAGCGGCGTTTGTG
16037864 GGTAAAAATG
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
41 2 0.02
42 40 0.45
43 45 0.51
44 2 0.02
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATGGC
Found at i:16040195 original size:36 final size:36
Alignment explanation
Indices: 16040148--16040220 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
16040138 AGAAAGAGAG
16040148 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
1 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
16040184 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
1 ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
16040220 A
1 A
16040221 GTTACTATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (36 bp):
ATATTGGATAGTTCTAAAAACTACTTAGATTATGCA
Found at i:16042579 original size:101 final size:100
Alignment explanation
Indices: 16042459--16042705 Score: 298
Period size: 101 Copynumber: 2.5 Consensus size: 100
16042449 AAAGTGATGG
* * * *
16042459 TCACGTGTGTATTACTATGTGTAGGATACTACATGTATCAGAATGAAAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGAAAGGTCACATGTGTAGTAC
* * * * *
16042524 TATGTTCAGGCTACTATGCGTACCAGATAGCTTCGA
66 TATGTGCAGACTACTACGCGAACCAGAAAG-TTCGA
* * * * *
16042560 TCACGTGTGTAGTAGTATGTGCAGGCTACTACATGTATCAGATATTAATGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGA-ATGAAAGGTCACATGTGTAGTA
* * *
16042625 CTATGTGCAGACTACTACGTGAACCGGAAAGTTTGA
65 CTATGTGCAGACTACTACGCGAACCAGAAAGTTCGA
* *
16042661 TCACGTGTGCAGTACTATGTGAAGGCTACTACGTGTATC-GAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGA
16042706 TAATAGTTAA
Statistics
Matches: 124, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
99 3 0.02
100 2 0.02
101 77 0.62
102 42 0.34
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCAGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGACTACTACGCGAACCAGAAAGTTCGA
Found at i:16042602 original size:51 final size:50
Alignment explanation
Indices: 16042514--16042697 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 50
16042504 AAAGGTCGCA
* * * *
16042514 TGTGTAGTACTATGTTCAGGCTACTATGCGTACCAGATAGCTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TTTGATCACG
* * * *
16042565 TGTGTAGTAGTATGTGCAGGCTACTACATGTATCAGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTT--TGATCACG
* * * *
16042616 TGTGTAGTACTATGTGCAGACTACTACGTGAACCGGAAAGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTTGATCACG
* *
16042666 TGTGCAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTA
16042698 TCGAATGATA
Statistics
Matches: 110, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
49 2 0.02
50 35 0.32
51 71 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTTGATCACG
Found at i:16044896 original size:17 final size:17
Alignment explanation
Indices: 16044874--16044906 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16044864 ATTTGATTAC
16044874 CCAATTAAATTAATTCT
1 CCAATTAAATTAATTCT
*
16044891 CCAATTAATTTAATTC
1 CCAATTAAATTAATTC
16044907 ATGTGACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (17 bp):
CCAATTAAATTAATTCT
Found at i:16064707 original size:17 final size:17
Alignment explanation
Indices: 16064685--16064725 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
16064675 TTAATACTTA
16064685 AAAAAATGAAAA-AAAAG
1 AAAAAA-GAAAAGAAAAG
16064702 AAAAAAGAAAAGAAAAG
1 AAAAAAGAAAAGAAAAG
16064719 AAGAAAA
1 AA-AAAA
16064726 AAGTATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.23
17 13 0.59
18 4 0.18
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAGAAAAG
Found at i:16064737 original size:20 final size:19
Alignment explanation
Indices: 16064684--16064740 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
16064674 ATTAATACTT
*
16064684 AAAAAA-ATGAAAAAAAAG
1 AAAAAAGATGAAAAAGAAG
**
16064702 AAAAAAGAAAAGAAAAGAAG
1 AAAAAAGATGA-AAAAGAAG
16064722 AAAAAAGTATGAAAAAGAA
1 AAAAAAG-ATGAAAAAGAA
16064741 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
18 6 0.19
19 2 0.06
20 21 0.68
21 2 0.06
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAAAAGATGAAAAAGAAG
Found at i:16067577 original size:30 final size:30
Alignment explanation
Indices: 16067542--16067623 Score: 128
Period size: 30 Copynumber: 2.7 Consensus size: 30
16067532 TTTACGAGCC
16067542 TAGGGGCAAAATTGTATTTTTGTGAAACTT
1 TAGGGGCAAAATTGTATTTTTGTGAAACTT
*
16067572 TAGGGGCAAAATTGTAATTTTGTGAAACTT
1 TAGGGGCAAAATTGTATTTTTGTGAAACTT
* *
16067602 TAGGGGAAAAATCGTAATTTTT
1 TAGGGGCAAAATTGT-ATTTTT
16067624 CCAAAGTATG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 42 0.89
31 5 0.11
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (30 bp):
TAGGGGCAAAATTGTATTTTTGTGAAACTT
Found at i:16068001 original size:45 final size:45
Alignment explanation
Indices: 16067945--16068039 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 45
16067935 TACTATTTGA
* *
16067945 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
*
16067990 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
16068035 ACCGA
1 ACCGA
16068040 GTATCTGTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:16072415 original size:29 final size:29
Alignment explanation
Indices: 16072363--16072516 Score: 150
Period size: 29 Copynumber: 5.3 Consensus size: 29
16072353 TTTTTGTAGT
* * * *
16072363 TATCTCTATTCAATGGATGCCTTTATGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
* *
16072392 TATCTTTATTAAAAGGAAGTCTTTGTGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
*
16072421 TATCTCTATTAAAAGAAAGTCGTTT-TGGC
1 TATCTCTATTAAAAGGAAGTC-TTTATGGC
* *
16072450 TATCTCTGTGAAAAGGAAG-CTTTTATGGC
1 TATCTCTATTAAAAGGAAGTC-TTTATGGC
** * *
16072479 TATCTCTGCTAAAAGGAAGCCTTTGTGGC
1 TATCTCTATTAAAAGGAAGTCTTTATGGC
*
16072508 AATCTCTAT
1 TATCTCTAT
16072517 CAAAGGATTC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
28 4 0.04
29 96 0.92
30 4 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (29 bp):
TATCTCTATTAAAAGGAAGTCTTTATGGC
Found at i:16074352 original size:33 final size:30
Alignment explanation
Indices: 16074290--16074413 Score: 136
Period size: 28 Copynumber: 4.2 Consensus size: 30
16074280 CAACATGCAG
* *
16074290 TAACAGTCTGGGCCTGAGCCCTAAT-CAGTAA
1 TAACAGTGTGGGCCTTAGCCC-AATACAG-AA
*
16074321 TAGCACAGTGTGGGCCTTAGCCCGATACAG--
1 TA--ACAGTGTGGGCCTTAGCCCAATACAGAA
16074351 TAACAGTGTGGGCCTTAGCCCAATAC--AA
1 TAACAGTGTGGGCCTTAGCCCAATACAGAA
16074379 TAACAGTGTGGGCCTTAGCCCAATACAG--
1 TAACAGTGTGGGCCTTAGCCCAATACAGAA
16074407 TAACAGT
1 TAACAGT
16074414 ATAGTGCAAT
Statistics
Matches: 82, Mismatches: 4, Indels: 17
0.80 0.04 0.17
Matches are distributed among these distances:
28 56 0.68
30 2 0.02
31 2 0.02
32 2 0.02
33 20 0.24
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (30 bp):
TAACAGTGTGGGCCTTAGCCCAATACAGAA
Found at i:16074365 original size:28 final size:28
Alignment explanation
Indices: 16074325--16074413 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
16074315 CAGTAATAGC
*
16074325 ACAGTGTGGGCCTTAGCCCGATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
*
16074353 ACAGTGTGGGCCTTAGCCCAATACAATA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
16074381 ACAGTGTGGGCCTTAGCCCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATACAGTA
16074409 ACAGT
1 ACAGT
16074414 ATAGTGCAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATACAGTA
Found at i:16074405 original size:56 final size:60
Alignment explanation
Indices: 16074287--16074413 Score: 181
Period size: 56 Copynumber: 2.2 Consensus size: 60
16074277 ATACAACATG
* *
16074287 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGTAATAGCACAGTGTGGGCCTTAGCCCGATA
1 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATA-CACAGTGTGGGCCTTAGCCCAATA
* *
16074348 CAGTAACAGTGTGGGCCTTAGCCC-AAT-A-CAATA-ACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATACACAGTGTGGGCCTTAGCCCAATA
16074404 CAGTAACAGT
1 CAGTAACAGT
16074414 ATAGTGCAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 32 0.52
58 4 0.06
59 1 0.02
60 3 0.05
61 22 0.35
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.21
Consensus pattern (60 bp):
CAGTAACAGTCTGGGCCTGAGCCCTAATCAGCAATACACAGTGTGGGCCTTAGCCCAATA
Found at i:16074524 original size:26 final size:26
Alignment explanation
Indices: 16074501--16074601 Score: 157
Period size: 26 Copynumber: 3.9 Consensus size: 26
16074491 CCAATATCGT
*
16074501 AGCAAAGCTGCCAGTAACAGTATCAT
1 AGCAAAGCTGCCAGTAACAGTATCAC
*
16074527 AACAAAGCTGCCAGTAACAGTATCAC
1 AGCAAAGCTGCCAGTAACAGTATCAC
* * *
16074553 AGCAAAGTTGCCAATAACAGTATCGC
1 AGCAAAGCTGCCAGTAACAGTATCAC
16074579 AGCAAAGCTGCCAGTAACAGTAT
1 AGCAAAGCTGCCAGTAACAGTAT
16074602 ACTTCCTCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 67 1.00
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTATCAC
Found at i:16074889 original size:81 final size:81
Alignment explanation
Indices: 16074804--16074973 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 81
16074794 GGTGTATTTC
* * *
16074804 AGTCATTTTACCCTTC-GGAGGTAACTCGATCATTTTACCCTTCGGGGGTAATTCGATCATTTTA
1 AGTCATTTTACCCTCCAAG-GGTAACTCGATCATTTTACCCTTCGGAGGTAATTCGATCATTTTA
*
16074868 CCCTTCGAGGGTAATTA
65 CCCATCGAGGGTAATTA
* * *
16074885 AGTCATTTTACCCTCCAAGGGTAATTCGGTCATTTTACCCTTCGGAGGTAATTCGGTCATTTTAC
1 AGTCATTTTACCCTCCAAGGGTAACTCGATCATTTTACCCTTCGGAGGTAATTCGATCATTTTAC
* *
16074950 CCATCGAGGGTATTTC
66 CCATCGAGGGTAATTA
16074966 AGTCATTT
1 AGTCATTT
16074974 ACCTATAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 78 0.99
82 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.36
Consensus pattern (81 bp):
AGTCATTTTACCCTCCAAGGGTAACTCGATCATTTTACCCTTCGGAGGTAATTCGATCATTTTAC
CCATCGAGGGTAATTA
Found at i:16074961 original size:27 final size:27
Alignment explanation
Indices: 16074754--16074973 Score: 207
Period size: 27 Copynumber: 8.1 Consensus size: 27
16074744 TATAACAGTT
* *
16074754 ATTTTACCCTAT-GGGGGTATTTCAGG-C
1 ATTTTACCCT-TCGAGGGTAATTC-GGTC
* * * *
16074781 ATTCTACCCTTAG-GGTGTATTTCAGTC
1 ATTTTACCCTTCGAGG-GTAATTCGGTC
* *
16074808 ATTTTACCCTTCG-GAGGTAACTCGATC
1 ATTTTACCCTTCGAG-GGTAATTCGGTC
* *
16074835 ATTTTACCCTTCGGGGGTAATTCGATC
1 ATTTTACCCTTCGAGGGTAATTCGGTC
**
16074862 ATTTTACCCTTCGAGGGTAATTAAGTC
1 ATTTTACCCTTCGAGGGTAATTCGGTC
* *
16074889 ATTTTACCCTCCAAGGGTAATTCGGTC
1 ATTTTACCCTTCGAGGGTAATTCGGTC
16074916 ATTTTACCCTTCG-GAGGTAATTCGGTC
1 ATTTTACCCTTCGAG-GGTAATTCGGTC
* * *
16074943 ATTTTACCCATCGAGGGTATTTCAGTC
1 ATTTTACCCTTCGAGGGTAATTCGGTC
16074970 ATTT
1 ATTT
16074974 ACCTATAATT
Statistics
Matches: 164, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.03
27 156 0.95
28 3 0.02
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTAATTCGGTC
Found at i:16077382 original size:18 final size:18
Alignment explanation
Indices: 16077359--16077393 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16077349 TGGTTGATTC
16077359 TAATGAGAATAATAATGT
1 TAATGAGAATAATAATGT
*
16077377 TAATGAGCATAATAATG
1 TAATGAGAATAATAATG
16077394 CACAAATTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.31
Consensus pattern (18 bp):
TAATGAGAATAATAATGT
Found at i:16079098 original size:34 final size:34
Alignment explanation
Indices: 16079055--16079124 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
16079045 TTTTCAACAG
16079055 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
16079089 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
1 TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
16079123 TA
1 TA
16079125 CTTTGTTTCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (34 bp):
TAAGTTTTCTACAAAACCCTATTTTTAACTCATA
Found at i:16079336 original size:31 final size:31
Alignment explanation
Indices: 16079301--16079361 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
16079291 TTGCGAGCAT
*
16079301 AGCTCCCTATGCTAGCTCTCTGTGATAAGTA
1 AGCTCCCTATGCGAGCTCTCTGTGATAAGTA
16079332 AGCTCCCTATGCGAGCTCTCTGTGATAAGT
1 AGCTCCCTATGCGAGCTCTCTGTGATAAGT
16079362 CTCTGTGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (31 bp):
AGCTCCCTATGCGAGCTCTCTGTGATAAGTA
Found at i:16083988 original size:20 final size:21
Alignment explanation
Indices: 16083953--16083992 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16083943 ATAAAGAAAG
16083953 AAAAATAAAGAAAAATTATAA
1 AAAAATAAAGAAAAATTATAA
*
16083974 AAAAATAAA-AGAAATTATA
1 AAAAATAAAGAAAAATTATA
16083993 TGTTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATAAAGAAAAATTATAA
Found at i:16085101 original size:17 final size:18
Alignment explanation
Indices: 16085081--16085114 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16085071 TATTTATGGA
16085081 TATTT-TATATTTTTTTC
1 TATTTCTATATTTTTTTC
16085098 TATTTCTATATTTTTTT
1 TATTTCTATATTTTTTT
16085115 TCTAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTCTATATTTTTTTC
Found at i:16085348 original size:17 final size:17
Alignment explanation
Indices: 16085304--16085353 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
16085294 TATATTTTCT
*
16085304 TTTTTCTTTTTTATATA
1 TTTTTCTATTTTATATA
* **
16085321 TTTATGGATTTTATATA
1 TTTTTCTATTTTATATA
16085338 TTTTTCTATTTT-TATA
1 TTTTTCTATTTTATATA
16085354 AATTTCAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 4 0.15
17 22 0.85
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.70
Consensus pattern (17 bp):
TTTTTCTATTTTATATA
Found at i:16085481 original size:21 final size:22
Alignment explanation
Indices: 16085443--16085488 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
16085433 TTTTTTCTAT
*
16085443 TATTATTATTATTTAAAATTTA
1 TATTATTATTATTTAAAATGTA
16085465 TATT-TTATT-TTTAAAAATGTA
1 TATTATTATTATTT-AAAATGTA
16085486 TAT
1 TAT
16085489 ACATTTGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 3 0.14
21 15 0.68
22 4 0.18
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTATTATTATTTAAAATGTA
Found at i:16088984 original size:16 final size:16
Alignment explanation
Indices: 16088963--16088994 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16088953 TGACATGTGG
*
16088963 CAATTTTTTGTTCAAC
1 CAATTTTTTGTCCAAC
16088979 CAATTTTTTGTCCAAC
1 CAATTTTTTGTCCAAC
16088995 ATCAAATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (16 bp):
CAATTTTTTGTCCAAC
Found at i:16091262 original size:27 final size:27
Alignment explanation
Indices: 16091211--16091263 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
16091201 AGTTGTGTCG
* * *
16091211 GCCAATTGGTTTGGCGAGCTGGGGTTT
1 GCCAATTGGTTTGGCAAACTAGGGTTT
*
16091238 GCCAGTTGGTTTGGCAAACTAGGGTT
1 GCCAATTGGTTTGGCAAACTAGGGTT
16091264 CACCTTTCAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.15, G:0.38, T:0.32
Consensus pattern (27 bp):
GCCAATTGGTTTGGCAAACTAGGGTTT
Found at i:16093330 original size:27 final size:27
Alignment explanation
Indices: 16093281--16093373 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
16093271 GACAAACCCT
* *
16093281 AAAGGAACTCATTTATGGCGCAATATG
1 AAAGGAACGCCTTTATGGCGCAATATG
** * *
16093308 AAAGGAATTCCTTTGTGGGGCAATATG
1 AAAGGAACGCCTTTATGGCGCAATATG
*
16093335 AAAGGAACGCCTTTATGGCACAATATG
1 AAAGGAACGCCTTTATGGCGCAATATG
*
16093362 AAAGGAATGCCT
1 AAAGGAACGCCT
16093374 CTGTGGCAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (27 bp):
AAAGGAACGCCTTTATGGCGCAATATG
Found at i:16093380 original size:27 final size:27
Alignment explanation
Indices: 16093296--16093392 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
16093286 AACTCATTTA
* *
16093296 TGGCGCAATATGAAAGGAATTCCTTTG
1 TGGCACAATATGAAAGGAATGCCTTTG
** * *
16093323 TGGGGCAATATGAAAGGAACGCCTTTA
1 TGGCACAATATGAAAGGAATGCCTTTG
*
16093350 TGGCACAATATGAAAGGAATGCCTCTG
1 TGGCACAATATGAAAGGAATGCCTTTG
16093377 TGGCA-AAGTATGAAAG
1 TGGCACAA-TATGAAAG
16093393 AGTAGTCTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
26 2 0.03
27 58 0.97
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (27 bp):
TGGCACAATATGAAAGGAATGCCTTTG
Found at i:16093389 original size:54 final size:53
Alignment explanation
Indices: 16093281--16093392 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 53
16093271 GACAAACCCT
* * * *
16093281 AAAGGAACTCATTTATGGCGCAATATGAAAGGAATTCCTTTGTGGGGCAATATG
1 AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCCTCTGT-GGGCAATATG
*
16093335 AAAGGAACGCCTTTATGGCACAATATGAAAGGAATGCCTCTGT-GGCAAAGTATG
1 AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCCTCTGTGGGC-AA-TATG
16093389 AAAG
1 AAAG
16093393 AGTAGTCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
52 3 0.06
53 2 0.04
54 46 0.90
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (53 bp):
AAAGGAACGCATTTATGGCACAATATGAAAGGAATGCCTCTGTGGGCAATATG
Found at i:16096102 original size:20 final size:20
Alignment explanation
Indices: 16096077--16096115 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
16096067 TTACTTCTTC
16096077 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
16096097 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
16096116 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:16096479 original size:50 final size:52
Alignment explanation
Indices: 16096425--16096552 Score: 152
Period size: 50 Copynumber: 2.4 Consensus size: 52
16096415 ATGCCCATGT
* *
16096425 CATGTCCCAGACATGGTCTTACGGGGGACCTCTCAT-CTC-AATGCCAAAGC
1 CATGTCCCAGACATGGTCTTACGGGGGACCTCCCATACTCAAATCCCAAAGC
* * *
16096475 CATGTCCCAGACATGTTCTTACGTGGGACCTCCCATAACCTCAATAATCCCAATGC
1 CATGTCCCAGACATGGTCTTACGGGGGACCTCCCAT-A-CTC-A-AATCCCAAAGC
*
16096531 CATGTCCCACACATGGTCTTAC
1 CATGTCCCAGACATGGTCTTAC
16096553 ATGGGATCTC
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
50 33 0.51
53 3 0.05
56 29 0.45
ACGTcount: A:0.25, C:0.34, G:0.17, T:0.24
Consensus pattern (52 bp):
CATGTCCCAGACATGGTCTTACGGGGGACCTCCCATACTCAAATCCCAAAGC
Found at i:16096535 original size:56 final size:50
Alignment explanation
Indices: 16096425--16096558 Score: 151
Period size: 56 Copynumber: 2.6 Consensus size: 50
16096415 ATGCCCATGT
* * *
16096425 CATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAATGCCAAAGC
1 CATGTCCCAGACATGGTCTTACGTGGGACCTCCCATCTCAATCCCAAAGC
* *
16096475 CATGTCCCAGACATGTTCTTACGTGGGACCTCCCATAACCTCAATAATCCCAATGC
1 CATGTCCCAGACATGGTCTTACGTGGGACCTCCCAT---CTC---AATCCCAAAGC
* *
16096531 CATGTCCCACACATGGTCTTACATGGGA
1 CATGTCCCAGACATGGTCTTACGTGGGA
16096559 TCTCATCCCC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
50 33 0.47
53 3 0.04
56 34 0.49
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACGTGGGACCTCCCATCTCAATCCCAAAGC
Found at i:16096708 original size:22 final size:21
Alignment explanation
Indices: 16096664--16096708 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
16096654 TCAACATTAA
**
16096664 ATAATTTCATAAAATAAGTAC
1 ATAATTTCATAAAATAACAAC
*
16096685 ATAATTTCTTGAAAATAACAAC
1 ATAATTTCAT-AAAATAACAAC
16096707 AT
1 AT
16096709 TAATAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.33
Consensus pattern (21 bp):
ATAATTTCATAAAATAACAAC
Found at i:16102558 original size:55 final size:55
Alignment explanation
Indices: 16102492--16102606 Score: 230
Period size: 55 Copynumber: 2.1 Consensus size: 55
16102482 AACAACTATG
16102492 TCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTATGGTT
1 TCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTATGGTT
16102547 TCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTATGGTT
1 TCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTATGGTT
16102602 TCAAA
1 TCAAA
16102607 TGACCAATCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (55 bp):
TCAAAATAACAAACTAGTTACCCTTAATTGCACTTACGCTTCATGATTTATGGTT
Found at i:16108718 original size:27 final size:27
Alignment explanation
Indices: 16108687--16108826 Score: 163
Period size: 27 Copynumber: 5.1 Consensus size: 27
16108677 GTGAACCCTG
*
16108687 AAAGGAACACCTTTGTGGCATAATATA
1 AAAGGAACACCTTTGTGGCGTAATATA
* *
16108714 AAAGGAACACCTTTATGGCGTAAAATA
1 AAAGGAACACCTTTGTGGCGTAATATA
* * *
16108741 AACGGAACACCTTTGTGGCGCAATATG
1 AAAGGAACACCTTTGTGGCGTAATATA
* ** *
16108768 AAAGGACCACCTTTGTGATGTAATATG
1 AAAGGAACACCTTTGTGGCGTAATATA
* *
16108795 AAGGGAACACCTTTGTGGCGAAATATGA
1 AAAGGAACACCTTTGTGGCGTAATAT-A
16108823 AAAG
1 AAAG
16108827 TAGCTTTTGT
Statistics
Matches: 92, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
27 89 0.97
28 3 0.03
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.24
Consensus pattern (27 bp):
AAAGGAACACCTTTGTGGCGTAATATA
Found at i:16108839 original size:26 final size:27
Alignment explanation
Indices: 16108804--16108883 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
16108794 GAAGGGAACA
16108804 CCTTTGTGGCGAAATATGAAA-AGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
*
16108830 CTTTTGTGGCGAAATATGAAAGAGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
* *
16108857 CCTTTATGGCGAAATATGAAATAGTAG
1 CCTTTGTGGCGAAATATGAAAGAGTAG
16108884 TGTAGCATCC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 20 0.41
27 29 0.59
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (27 bp):
CCTTTGTGGCGAAATATGAAAGAGTAG
Found at i:16110381 original size:27 final size:27
Alignment explanation
Indices: 16110338--16110404 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
16110328 TATGAAATAG
* *
16110338 AAGCCTTT-TCGGTGTATTTGTAAAGAA
1 AAGCCTTTGT-GGCGTATCTGTAAAGAA
16110365 AAGCCTTTGTGGCGTATCTGTAAAGAA
1 AAGCCTTTGTGGCGTATCTGTAAAGAA
* *
16110392 AAACTTTTGTGGC
1 AAGCCTTTGTGGC
16110405 AAGCCTCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.34
Consensus pattern (27 bp):
AAGCCTTTGTGGCGTATCTGTAAAGAA
Found at i:16111975 original size:26 final size:26
Alignment explanation
Indices: 16111937--16111986 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16111927 GCGTTACAAT
16111937 TAGCCTCTGTGGAGAAATATGAAAAG
1 TAGCCTCTGTGGAGAAATATGAAAAG
* * *
16111963 TAGCCTTTTTGGATAAATATGAAA
1 TAGCCTCTGTGGAGAAATATGAAA
16111987 TGTAACACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (26 bp):
TAGCCTCTGTGGAGAAATATGAAAAG
Found at i:16113206 original size:21 final size:21
Alignment explanation
Indices: 16113146--16113210 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
16113136 AGGCTGTACA
* *
16113146 GAAGCACATAAGTGCTAAATC
1 GAAGCACATAAGAGCTGAATC
* * * * *
16113167 GAAACCCATAAGGGTTGAATG
1 GAAGCACATAAGAGCTGAATC
*
16113188 GAAGCTCATAAGAGCTGAA-C
1 GAAGCACATAAGAGCTGAATC
16113208 GAA
1 GAA
16113211 AACCCAGAAG
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 3 0.09
21 30 0.91
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
GAAGCACATAAGAGCTGAATC
Found at i:16113235 original size:42 final size:43
Alignment explanation
Indices: 16113167--16113281 Score: 109
Period size: 42 Copynumber: 2.7 Consensus size: 43
16113157 GTGCTAAATC
* * *
16113167 GAAACCCAT-AAGGGTTGAA-TGGAAGCTCATAAGAGCTGAAC-
1 GAAACCCATGAA-GGTTAAACTGAAAGCTCATAACAGCTGAACT
16113208 GAAAACCCA-GAAGGGTTAAACT-AAAGCTCGA-AACAGCTGAACT
1 G-AAACCCATGAA-GGTTAAACTGAAAGCTC-ATAACAGCTGAACT
*
16113251 GAAACCCATTAAGGTTAAACTGAAA-CTCATA
1 GAAACCCATGAAGGTTAAACTGAAAGCTCATA
16113282 TGAGTTAATT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
41 2 0.03
42 52 0.84
43 8 0.13
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (43 bp):
GAAACCCATGAAGGTTAAACTGAAAGCTCATAACAGCTGAACT
Found at i:16114743 original size:26 final size:27
Alignment explanation
Indices: 16114707--16114860 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
16114697 GGGCTGTTAC
16114707 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* * **
16114733 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
* *
16114759 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
*
16114786 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
** *
16114812 ATGAAAGAGTAGCCTTTAAGGCAAAAC
1 ATGAAAGAGTAGCCTTTGTGGCAAAAT
*
16114839 ATGAAAGA-TAAGCTTTTGTGGC
1 ATGAAAGAGT-AGCCTTTGTGGC
16114861 GACTTTAAAG
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
26 52 0.49
27 54 0.51
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (27 bp):
ATGAAAGAGTAGCCTTTGTGGCAAAAT
Found at i:16114785 original size:27 final size:27
Alignment explanation
Indices: 16114707--16114860 Score: 154
Period size: 26 Copynumber: 5.8 Consensus size: 27
16114697 GGGCTGTTAC
*
16114707 ATGAAA-AGTAGCCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* * * **
16114733 ATGAAA-AGTAGCCCTTGTAGTGAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
16114759 ATGAAAGAATAACCTTTGTGGCAAAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
16114786 ATGAAAGAGTACCCTTTGTGGC-AAAT
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
* ** *
16114812 ATGAAAGAGTAGCCTTTAAGGCAAAAC
1 ATGAAAGAGTAACCTTTGTGGCAAAAT
*
16114839 ATGAAAGA-TAAGCTTTTGTGGC
1 ATGAAAGAGTAA-CCTTTGTGGC
16114861 GACTTTAAAG
Statistics
Matches: 105, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
26 53 0.50
27 52 0.50
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (27 bp):
ATGAAAGAGTAACCTTTGTGGCAAAAT
Found at i:16114786 original size:53 final size:53
Alignment explanation
Indices: 16114718--16114846 Score: 165
Period size: 53 Copynumber: 2.4 Consensus size: 53
16114708 TGAAAAGTAG
16114718 CCTTTGTGGCAAAATATGAAA-AGTAGCCC-TTGTAGTG-AAATATGAAAGAATAA
1 CCTTTGTGGCAAAATATGAAAGAGTA-CCCTTTGT-G-GCAAATATGAAAGAATAA
* *
16114771 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAGTAG
1 CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
** *
16114824 CCTTTAAGGCAAAACATGAAAGA
1 CCTTTGTGGCAAAATATGAAAGA
16114847 TAAGCTTTTG
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
52 1 0.01
53 59 0.87
54 8 0.12
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (53 bp):
CCTTTGTGGCAAAATATGAAAGAGTACCCTTTGTGGCAAATATGAAAGAATAA
Found at i:16118723 original size:23 final size:23
Alignment explanation
Indices: 16118697--16118772 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
16118687 ATAAGTGCAA
16118697 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
16118720 CACTGTTATGTAGCCGAAGCTAT
1 CACTGATATGTAGCCGAAGCTAC
* *
16118743 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
16118766 CACTGAT
1 CACTGAT
16118773 CAATAACACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:16126059 original size:23 final size:23
Alignment explanation
Indices: 16126033--16126131 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
16126023 ATAAGTGCAA
16126033 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
16126056 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
16126079 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
16126102 CACTGAAACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
16126125 CACTGAT
1 CACTGAT
16126132 CAATAACACT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 69 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:16128698 original size:47 final size:47
Alignment explanation
Indices: 16128641--16128897 Score: 365
Period size: 47 Copynumber: 5.4 Consensus size: 47
16128631 ATTGATGTAC
* * *
16128641 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
16128688 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
16128737 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
16128784 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
16128831 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
16128878 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
16128898 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 10, Indels: 8
0.92 0.05 0.04
Matches are distributed among these distances:
46 1 0.01
47 154 0.79
49 40 0.20
50 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:16128822 original size:22 final size:22
Alignment explanation
Indices: 16128795--16128869 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
16128785 CATGTGTATG
16128795 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
16128817 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
16128842 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
16128864 TGTGAT
1 TGTGAT
16128870 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:16133249 original size:26 final size:26
Alignment explanation
Indices: 16133219--16133280 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
16133209 GGGGTAAAAT
*
16133219 AGTCATTTACCCT-CTAGGGGCATTAC
1 AGTCATTTACCCTAC-AGGGGCACTAC
* *
16133245 GGTCATTTTACCTTACAGGGGCACTAC
1 AGTCA-TTTACCCTACAGGGGCACTAC
16133272 AGTCATTTA
1 AGTCATTTA
16133281 ACAACCTTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 8 0.27
27 21 0.70
28 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (26 bp):
AGTCATTTACCCTACAGGGGCACTAC
Found at i:16136220 original size:20 final size:20
Alignment explanation
Indices: 16136170--16136229 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
16136160 GAGAATTTAA
* *
16136170 TGATTATCTTAATAGT-ATT
1 TGATTATCTTAATACTAAAT
*
16136189 TTATTAAT-TTAATACTAAAT
1 TGATT-ATCTTAATACTAAAT
*
16136209 TGATTATCTTAATATTAAAT
1 TGATTATCTTAATACTAAAT
16136229 T
1 T
16136230 TAATTTAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (20 bp):
TGATTATCTTAATACTAAAT
Found at i:16141112 original size:20 final size:20
Alignment explanation
Indices: 16141089--16141129 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
16141079 CACTTTGGTT
16141089 CCTCTATGTGCACTTCAGTG
1 CCTCTATGTGCACTTCAGTG
* * *
16141109 CCTCTTTTTGCACTTCGGTG
1 CCTCTATGTGCACTTCAGTG
16141129 C
1 C
16141130 TTCTGTATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.32, G:0.20, T:0.39
Consensus pattern (20 bp):
CCTCTATGTGCACTTCAGTG
Done.