Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 277 of 332
Found at i:92507742 original size:27 final size:26
Alignment explanation
Indices: 92507687--92507746 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
92507677 GTGTTGCCTA
*
92507687 TTTTTTAATATGCATGCAATGAGTAT
1 TTTTTTAATATGCATGCAATGACTAT
* * *
92507713 TTTTTATAATATGCATGTAGTGACTGT
1 TTTTT-TAATATGCATGCAATGACTAT
92507740 TTTTTTA
1 TTTTTTA
92507747 GGGATCTGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.52
Consensus pattern (26 bp):
TTTTTTAATATGCATGCAATGACTAT
Found at i:92515497 original size:35 final size:35
Alignment explanation
Indices: 92515457--92515527 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
92515447 CCAGTTGCTC
92515457 TAACATGAAAAAACCTTGTGTTTCTATCACCTTCT
1 TAACATGAAAAAACCTTGTGTTTCTATCACCTTCT
92515492 TAACATGAAAAAACCTTGTGTTTCTATCACCTTCT
1 TAACATGAAAAAACCTTGTGTTTCTATCACCTTCT
92515527 T
1 T
92515528 TTAGCCACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (35 bp):
TAACATGAAAAAACCTTGTGTTTCTATCACCTTCT
Found at i:92522858 original size:16 final size:17
Alignment explanation
Indices: 92522819--92522858 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
92522809 TTAAATTCAC
92522819 TCATTTAAAATTAATTT
1 TCATTTAAAATTAATTT
*
92522836 T-AATTAAAA-TAATTT
1 TCATTTAAAATTAATTT
92522851 TCATTTAA
1 TCATTTAA
92522859 TAAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 7 0.35
16 12 0.60
17 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (17 bp):
TCATTTAAAATTAATTT
Found at i:92523480 original size:24 final size:25
Alignment explanation
Indices: 92523452--92523505 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
92523442 AAAAAAAAGT
* * *
92523452 ATATAAT-AATACTATGATATTATA
1 ATATAATAAATAATAAGATATAATA
92523476 ATAT-ATAAATAATAAGATATAATA
1 ATATAATAAATAATAAGATATAATA
92523500 ATATAA
1 ATATAA
92523506 ATGATATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
ATATAATAAATAATAAGATATAATA
Found at i:92523683 original size:43 final size:43
Alignment explanation
Indices: 92523600--92523688 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 43
92523590 AATGGAAACT
92523600 GAGCTACTTTTGGCTCCGCTCGAAAACGGTGTTTATTTTTTGA
1 GAGCTACTTTTGGCTCCGCTCGAAAACGGTGTTTATTTTTTGA
92523643 GAGCTACCTTTTGGCTCCGCTCGAAAACGGTGTTTATTTTTTGA
1 GAGCTA-CTTTTGGCTCCGCTCGAAAACGGTGTTTATTTTTTGA
92523687 GA
1 GA
92523689 ATTAAAAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 6 0.13
44 39 0.87
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (43 bp):
GAGCTACTTTTGGCTCCGCTCGAAAACGGTGTTTATTTTTTGA
Found at i:92527536 original size:33 final size:33
Alignment explanation
Indices: 92527482--92527565 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
92527472 ATATCTAAAC
* * * * *
92527482 AATAACAATAAAATAGTAGCAATATAATAG-TGA
1 AATAACAGTAAAAAAGAAGCAAAACAATAGAT-A
*
92527515 AATGACAGTAAAAAAGAAGCAAAACAATAGATA
1 AATAACAGTAAAAAAGAAGCAAAACAATAGATA
92527548 AATAACAGTAAAAAAGAA
1 AATAACAGTAAAAAAGAA
92527566 AGTTTATGTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (33 bp):
AATAACAGTAAAAAAGAAGCAAAACAATAGATA
Found at i:92528170 original size:19 final size:18
Alignment explanation
Indices: 92528123--92528170 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
92528113 TAAACCATTC
92528123 AATAATATAAA-TAATTT
1 AATAATATAAATTAATTT
*
92528140 AA-AATGTGAAATTTAATTT
1 AATAATAT-AAA-TTAATTT
92528159 AATAATATAAAT
1 AATAATATAAAT
92528171 AGTAGATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
16 4 0.16
17 5 0.20
18 1 0.04
19 11 0.44
20 4 0.16
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
AATAATATAAATTAATTT
Found at i:92528939 original size:28 final size:28
Alignment explanation
Indices: 92528908--92528997 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 28
92528898 AAATATAAAA
92528908 TAAAATTTATTACATAATTACTTTTAAC
1 TAAAATTTATTACATAATTACTTTTAAC
** *
92528936 TAAAACAAATTTCATT-TTTATATTAAATTTTAA-
1 T---A-AAATTT-ATTACATA-ATT-ACTTTTAAC
92528969 T-AAATTTATTACATAATTACTTTTAAC
1 TAAAATTTATTACATAATTACTTTTAAC
92528996 TA
1 TA
92528998 CATCTTGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 20
0.64 0.08 0.28
Matches are distributed among these distances:
26 7 0.15
27 7 0.15
28 9 0.20
31 1 0.02
32 8 0.17
33 7 0.15
34 7 0.15
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (28 bp):
TAAAATTTATTACATAATTACTTTTAAC
Found at i:92529941 original size:28 final size:28
Alignment explanation
Indices: 92529901--92529961 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
92529891 ATTCTTTTCT
*
92529901 TTTGACAAAGAACTTG-AGGTTGAACTGA
1 TTTGACAAAGAACTTGCA-GTTGAACTAA
*
92529929 TTTGACTAAGAACTTGCAGTTGAACTAA
1 TTTGACAAAGAACTTGCAGTTGAACTAA
92529957 TTTGA
1 TTTGA
92529962 TTCTTGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (28 bp):
TTTGACAAAGAACTTGCAGTTGAACTAA
Found at i:92533996 original size:20 final size:20
Alignment explanation
Indices: 92533965--92534002 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
92533955 AATTTGTGAG
92533965 TGAAATTTGATGATTTTTGCA
1 TGAAATTTGATG-TTTTTGCA
92533986 TGAAA-TTGATGTTTTTG
1 TGAAATTTGATGTTTTTG
92534003 GAGATATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (20 bp):
TGAAATTTGATGTTTTTGCA
Found at i:92539183 original size:13 final size:13
Alignment explanation
Indices: 92539167--92539232 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
92539157 TTTAAATTAA
*
92539167 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
* *
92539180 ACTTCTCAAAAGT
1 ACTTTTCAAAAGC
* *
92539193 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
92539206 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
92539219 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
92539232 A
1 A
92539233 TTGTCAAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:92539232 original size:26 final size:26
Alignment explanation
Indices: 92539167--92539240 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
92539157 TTTAAATTAA
* **
92539167 ACTTTTTAAAAGCACTTCTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAAC
* * *
92539193 ACTTTTCCACAGCACTTTTCAAAAAC
1 ACTTTTCAAAAGCACTTCTCAAAAAC
*
92539219 ACTTTTCAAAAGCA-TTGTCAAA
1 ACTTTTCAAAAGCACTTCTCAAA
92539241 CTAAGTCTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAAC
Found at i:92556542 original size:4 final size:4
Alignment explanation
Indices: 92556533--92556557 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
92556523 GTGTTTTGAC
92556533 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
92556558 GATCAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:92560201 original size:24 final size:24
Alignment explanation
Indices: 92560174--92560287 Score: 97
Period size: 24 Copynumber: 4.8 Consensus size: 24
92560164 AGATAAAATC
*
92560174 ATAAG-TTTTGACGAGCTGAAAACA
1 ATAAGCTTTT-ACAAGCTGAAAACA
*
92560198 ATAAGCTTTTATAAGCTGAAAACA
1 ATAAGCTTTTACAAGCTGAAAACA
* *
92560222 GTAAGCTTTTATAAGCTG-AAACA
1 ATAAGCTTTTACAAGCTGAAAACA
* *** *
92560245 GTAAGCTCCAATAAGCTGAAAACA
1 ATAAGCTTTTACAAGCTGAAAACA
* * *
92560269 GTAAGCTCTTACGAGCTGA
1 ATAAGCTTTTACAAGCTGA
92560288 TATGTCGGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 20 0.26
24 54 0.69
25 4 0.05
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (24 bp):
ATAAGCTTTTACAAGCTGAAAACA
Found at i:92560247 original size:23 final size:24
Alignment explanation
Indices: 92560187--92560275 Score: 135
Period size: 24 Copynumber: 3.8 Consensus size: 24
92560177 AGTTTTGACG
*
92560187 AGCTGAAAACAATAAGCTTTTATA
1 AGCTGAAAACAGTAAGCTTTTATA
92560211 AGCTGAAAACAGTAAGCTTTTATA
1 AGCTGAAAACAGTAAGCTTTTATA
***
92560235 AGCTG-AAACAGTAAGCTCCAATA
1 AGCTGAAAACAGTAAGCTTTTATA
92560258 AGCTGAAAACAGTAAGCT
1 AGCTGAAAACAGTAAGCT
92560276 CTTACGAGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
23 20 0.33
24 40 0.67
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTTTTATA
Found at i:92560286 original size:47 final size:47
Alignment explanation
Indices: 92560184--92560287 Score: 136
Period size: 47 Copynumber: 2.2 Consensus size: 47
92560174 ATAAGTTTTG
*** *
92560184 ACGAGCTGAAAACAATAAGCTTTTATAAGCTGAAAACAGTAAGCTTTT
1 ACGAGCTG-AAACAATAAGCTCCAATAAGCTGAAAACAGTAAGCTCTT
** *
92560232 ATAAGCTGAAACAGTAAGCTCCAATAAGCTGAAAACAGTAAGCTCTT
1 ACGAGCTGAAACAATAAGCTCCAATAAGCTGAAAACAGTAAGCTCTT
92560279 ACGAGCTGA
1 ACGAGCTGA
92560288 TATGTCGGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.23
Consensus pattern (47 bp):
ACGAGCTGAAACAATAAGCTCCAATAAGCTGAAAACAGTAAGCTCTT
Found at i:92567391 original size:58 final size:58
Alignment explanation
Indices: 92567300--92567414 Score: 144
Period size: 57 Copynumber: 2.0 Consensus size: 58
92567290 GAGAAAATAA
* *
92567300 AGAAATAGGAAACATTTGGAAATGATTATGTTTTTCTCCAAAAT-AAAAATAAAAATGG
1 AGAAATAGGAAACATTGGGAAATGAATATGTTTTT-TCCAAAATGAAAAATAAAAATGG
* * * *
92567358 AGAAAT-GGAATCATTGGGAAATGAATGTGGTTTTTTCTAAAATGAAAAATGAAAATG
1 AGAAATAGGAAACATTGGGAAATGAATAT-GTTTTTTCCAAAATGAAAAATAAAAATG
92567415 ACCTGTAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
57 25 0.51
58 24 0.49
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (58 bp):
AGAAATAGGAAACATTGGGAAATGAATATGTTTTTTCCAAAATGAAAAATAAAAATGG
Found at i:92574708 original size:28 final size:28
Alignment explanation
Indices: 92574666--92574724 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
92574656 TTTATCATAA
*
92574666 GTTGGCAGAATGATTCCCCATTACAAAT
1 GTTGGCAGAAGGATTCCCCATTACAAAT
92574694 GTTGGCAGAAGGATTCCCCATTACAAAT
1 GTTGGCAGAAGGATTCCCCATTACAAAT
92574722 GTT
1 GTT
92574725 TTGCAAAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (28 bp):
GTTGGCAGAAGGATTCCCCATTACAAAT
Found at i:92578379 original size:36 final size:36
Alignment explanation
Indices: 92578332--92578404 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
92578322 CATTTTTTCA
* *
92578332 TGGCTTCTTTTTATGATAAAAATGGGGAAAAAAAAT
1 TGGCTTCTTTTTATGATAAAAAAGGGCAAAAAAAAT
92578368 TGGCTTCTTTTTATGATAAAAAAGGGCAAAAAAAAT
1 TGGCTTCTTTTTATGATAAAAAAGGGCAAAAAAAAT
92578404 T
1 T
92578405 TGGAAAAAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (36 bp):
TGGCTTCTTTTTATGATAAAAAAGGGCAAAAAAAAT
Found at i:92586395 original size:18 final size:18
Alignment explanation
Indices: 92586359--92586502 Score: 211
Period size: 18 Copynumber: 7.9 Consensus size: 18
92586349 AATCATATCT
*
92586359 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
92586378 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
92586396 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
92586414 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
92586431 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
92586449 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
92586466 TCTAAGATTGCATATCACA
1 TCTAAGATTGCA-ATCATA
92586485 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
92586503 TGAAGATTAT
Statistics
Matches: 115, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
17 32 0.28
18 50 0.43
19 33 0.29
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:92586436 original size:35 final size:36
Alignment explanation
Indices: 92586359--92586494 Score: 222
Period size: 35 Copynumber: 3.8 Consensus size: 36
92586349 AATCATATCT
* *
92586359 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCATATCATATCTAAGATTG-TATCATA
92586396 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
92586431 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGTATCATA
*
92586466 TCTAAGATTGCATATCACATCTAAGATTG
1 TCTAAGATTGCATATCATATCTAAGATTG
92586495 CATATCATTG
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 53 0.56
36 31 0.33
37 11 0.12
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGCATATCATATCTAAGATTGTATCATA
Found at i:92586510 original size:53 final size:54
Alignment explanation
Indices: 92586359--92586502 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 54
92586349 AATCATATCT
92586359 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATA
*
92586414 TCTAAGATTG-TATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATA
*
92586466 TCTAAGATTGCATATCACATCTAAGATTGCATATCAT
1 TCTAAGATTG-ATATCATATCTAAGATTGCA-ATCAT
92586503 TGAAGATTAT
Statistics
Matches: 84, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
52 16 0.19
53 35 0.42
54 18 0.21
55 15 0.18
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATA
Found at i:92590875 original size:18 final size:18
Alignment explanation
Indices: 92590852--92590887 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
92590842 CGGTCAAAAC
92590852 TAAAATTTCAAAAATAAA
1 TAAAATTTCAAAAATAAA
92590870 TAAAATTTCAAAAATAAA
1 TAAAATTTCAAAAATAAA
92590888 AAAGTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTTCAAAAATAAA
Found at i:92595565 original size:40 final size:40
Alignment explanation
Indices: 92595519--92595656 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
92595509 CTCGATAATA
* * *
92595519 TAAAGTGGATAGGATTTGTTCCGGATTCACTATAATACCT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
* * * *
92595559 CAAAGTGCATAGGATTTGTTCCTGATTCACTATGGTAATT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
* *
92595599 TAAAGTGAATAGGATTTATTCCTGATTCACTATAGTAACT
1 TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
*
92595639 TAAAGCGGATAGGATTTG
1 TAAAGTGGATAGGATTTG
92595657 ACCTGAAAAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (40 bp):
TAAAGTGGATAGGATTTGTTCCTGATTCACTATAGTAACT
Found at i:92600082 original size:78 final size:78
Alignment explanation
Indices: 92599949--92600100 Score: 241
Period size: 78 Copynumber: 1.9 Consensus size: 78
92599939 GAGTCACATC
* * *
92599949 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTATAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
92600014 AATGAATCATATA
66 AATGAATCATATA
* **
92600027 TCATGTAACTATAGCGAATCAGGATTACCTTTTCAGGTCAAATCTTATCTGCCTTAAGTTACCAT
1 TCATGTAACTATAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
92600092 AGTGAATCA
66 AATGAATCA
92600101 GGAATAAATC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (78 bp):
TCATGTAACTATAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:92600129 original size:40 final size:40
Alignment explanation
Indices: 92600080--92600202 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 40
92600070 CTTATCTGCC
* * *
92600080 TTAAGTTACCATAGTGAATCAGGAATAAATCCCATTCACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCTATCCACT
*
92600120 TTAAATTACCATAGTGAATCAGGAACAAATCCTATCCACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCTATCCACT
* * ** *
92600160 TTGAGGTATTATAGTGAATCCGGAACAAATCCTATCCACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCTATCCACT
92600200 TTA
1 TTA
92600203 TATTCTCGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (40 bp):
TTAAGTTACCATAGTGAATCAGGAACAAATCCTATCCACT
Found at i:92601506 original size:33 final size:33
Alignment explanation
Indices: 92601464--92601531 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
92601454 TTCACCCTAT
92601464 AATTCGATTTCTACAATTTTTGGTGATTTTTCA
1 AATTCGATTTCTACAATTTTTGGTGATTTTTCA
*
92601497 AATTTGATTTCTACAATTTTTGGTGATTTTTCA
1 AATTCGATTTCTACAATTTTTGGTGATTTTTCA
92601530 AA
1 AA
92601532 GTTAGACTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.10, G:0.12, T:0.51
Consensus pattern (33 bp):
AATTCGATTTCTACAATTTTTGGTGATTTTTCA
Found at i:92601525 original size:19 final size:19
Alignment explanation
Indices: 92601469--92601525 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
92601459 CCTATAATTC
92601469 GATTTCTACAATTTTTGGT
1 GATTTCTACAATTTTTGGT
* *
92601488 GATTT-TTCAA--ATT--T
1 GATTTCTACAATTTTTGGT
92601502 GATTTCTACAATTTTTGGT
1 GATTTCTACAATTTTTGGT
92601521 GATTT
1 GATTT
92601526 TTCAAAGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
14 6 0.21
15 4 0.14
16 2 0.07
17 2 0.07
18 4 0.14
19 11 0.38
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (19 bp):
GATTTCTACAATTTTTGGT
Found at i:92601842 original size:38 final size:38
Alignment explanation
Indices: 92601799--92601877 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
92601789 TAATTTTCTC
*
92601799 TCTTCTTCAGCTTTCATTCCTTGAATCCAACTTGATAT
1 TCTTCTTCAGCTTGCATTCCTTGAATCCAACTTGATAT
*
92601837 TCTTCTTCAGCTTGCATTTCTTGAATCCAACTTGATAT
1 TCTTCTTCAGCTTGCATTCCTTGAATCCAACTTGATAT
92601875 TCT
1 TCT
92601878 AACTTCCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.20, C:0.25, G:0.09, T:0.46
Consensus pattern (38 bp):
TCTTCTTCAGCTTGCATTCCTTGAATCCAACTTGATAT
Found at i:92601877 original size:20 final size:20
Alignment explanation
Indices: 92601818--92601877 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
92601808 GCTTTCATTC
92601818 CTTGAATCCAACTTGATATT
1 CTTGAATCCAACTTGATATT
* * *
92601838 CTT--CTTCAGCTTGCAT-TT
1 CTTGAATCCAACTTG-ATATT
92601856 CTTGAATCCAACTTGATATT
1 CTTGAATCCAACTTGATATT
92601876 CT
1 CT
92601878 AACTTCCCAT
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 14 0.47
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.43
Consensus pattern (20 bp):
CTTGAATCCAACTTGATATT
Found at i:92604096 original size:3 final size:3
Alignment explanation
Indices: 92604088--92604122 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
92604078 ATTAAGATGC
92604088 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
92604123 TCTATATTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:92619636 original size:5 final size:5
Alignment explanation
Indices: 92619617--92619718 Score: 73
Period size: 5 Copynumber: 18.8 Consensus size: 5
92619607 CAACCCAATC
* *
92619617 TTTATT TTTATT TTTAT TTTGATT TTTATT TATTAT TTT-T CTTTCT TTTCT
1 TTTA-T TTTA-T TTTAT TTT-A-T TTTA-T T-TTAT TTTAT -TTTAT TTTAT
*
92619668 TTTATT ATTTAT TATT-T ATTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTA-T -TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
92619715 TTTA
1 TTTA
92619719 GTTAAATATT
Statistics
Matches: 84, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
4 3 0.04
5 48 0.57
6 22 0.26
7 11 0.13
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:92619685 original size:37 final size:36
Alignment explanation
Indices: 92619618--92619718 Score: 65
Period size: 37 Copynumber: 2.8 Consensus size: 36
92619608 AACCCAATCT
92619618 TTATTT-TTATTTTTATTTTGATTTT-TATTTATTATTT
1 TTATTTATTA-TTTTATTTT-ATTTTAT-TTTATTATTT
* *
92619655 TTCTTTCTT-TTCTT-TTATTA-TTTATTATTTATTA-TT
1 TTATTTATTATT-TTATT-TTATTTTA-T-TTTATTATTT
92619691 TTA-TT-TTATTTTATTTTATTTTATTTTA
1 TTATTTATTATTTTATTTTATTTTATTTTA
92619719 GTTAAATATT
Statistics
Matches: 54, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
33 4 0.07
34 8 0.15
35 13 0.24
36 9 0.17
37 18 0.33
38 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (36 bp):
TTATTTATTATTTTATTTTATTTTATTTTATTATTT
Found at i:92620840 original size:118 final size:118
Alignment explanation
Indices: 92620632--92620844 Score: 390
Period size: 118 Copynumber: 1.8 Consensus size: 118
92620622 TGTTTTCCAT
* *
92620632 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
92620697 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
**
92620750 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
92620815 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
92620845 TTGGGTAAAA
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 91 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:92628708 original size:43 final size:43
Alignment explanation
Indices: 92628653--92628766 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
92628643 ATAATCAGTG
*
92628653 AGATCAGGATTACCAGTCCAGGCTAAATCC-CATATCCAACATA
1 AGATCAAGATTACCAGTCCAGGCTAAATCCTCAT-TCCAACATA
* * * *
92628696 TA-ATCAAGATTACCAGTCCAAGTTAAATCCTGATTTCAACATA
1 -AGATCAAGATTACCAGTCCAGGCTAAATCCTCATTCCAACATA
92628739 AGATC-AGAATTACCAGTCCAGGCTAAAT
1 AGATCAAG-ATTACCAGTCCAGGCTAAAT
92628767 TCTGTCTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 54 0.90
44 3 0.05
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.25
Consensus pattern (43 bp):
AGATCAAGATTACCAGTCCAGGCTAAATCCTCATTCCAACATA
Found at i:92630468 original size:35 final size:35
Alignment explanation
Indices: 92630422--92630492 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
92630412 TATCTCTGGA
*
92630422 GCTTGGAAAATATGGAAAATAATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAAGAATCTTCAAAGATAT
* ** *
92630457 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAAGAATCTTCAAAGATAT
92630492 G
1 G
92630493 TGATCCTAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAAGAATCTTCAAAGATAT
Found at i:92637561 original size:26 final size:27
Alignment explanation
Indices: 92637521--92637602 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 27
92637511 AGCCAATATG
92637521 GGGAAGCTCCAG-AA-AGCCAATTAATC
1 GGGAAGCTCCAGAAAGAGCC-ATTAATC
92637547 GGGAAGCT-CATGAAAGAGCCATTAATC
1 GGGAAGCTCCA-GAAAGAGCCATTAATC
* *
92637574 GAGAAGTTCC-G-AAGAGCCA-TATATC
1 GGGAAGCTCCAGAAAGAGCCATTA-ATC
92637599 GGGA
1 GGGA
92637603 TGTTCATAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 2 0.04
25 16 0.33
26 10 0.21
27 15 0.31
28 5 0.10
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.17
Consensus pattern (27 bp):
GGGAAGCTCCAGAAAGAGCCATTAATC
Found at i:92657498 original size:22 final size:23
Alignment explanation
Indices: 92657449--92657499 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
92657439 TTTATCGATG
* * *
92657449 ATAAATTTGAGACAAATATATTA
1 ATAAATTTAAAACAAATACATTA
92657472 A-AAATTTAAAACAAAT-CATTA
1 ATAAATTTAAAACAAATACATTA
92657493 ATAAATT
1 ATAAATT
92657500 AATGAATAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.21
22 18 0.75
23 1 0.04
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (23 bp):
ATAAATTTAAAACAAATACATTA
Found at i:92658143 original size:53 final size:51
Alignment explanation
Indices: 92658061--92658160 Score: 137
Period size: 53 Copynumber: 1.9 Consensus size: 51
92658051 TATGAAACTT
*
92658061 CCCCATTTCCTCAAAATCCAATCCATTTTCGCACTTTGTTCCAATCTTTATAA
1 CCCCATTTCCTCAAAATCCAATCCATTTTC-CACTATGTT-CAATCTTTATAA
* ** *
92658114 CCCCATTTCCTCAAAATCCCATCTTTTTTCCCCTATGTTCAATCTTT
1 CCCCATTTCCTCAAAATCCAATCCATTTTCCACTATGTTCAATCTTT
92658161 GAAATCTCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 8 0.19
52 7 0.17
53 27 0.64
ACGTcount: A:0.23, C:0.34, G:0.03, T:0.40
Consensus pattern (51 bp):
CCCCATTTCCTCAAAATCCAATCCATTTTCCACTATGTTCAATCTTTATAA
Found at i:92680254 original size:26 final size:26
Alignment explanation
Indices: 92680201--92680256 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
92680191 TATTTTTAAC
* *
92680201 TATTTTTAAAATATTTTTTTATTTTT
1 TATTTTTAAAATATTTTTTGATTGTT
92680227 TATTTTTAAAATAATTTTTTGA-TGTT
1 TATTTTTAAAAT-ATTTTTTGATTGTT
92680253 TATT
1 TATT
92680257 AAATAATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (26 bp):
TATTTTTAAAATATTTTTTGATTGTT
Found at i:92681239 original size:18 final size:17
Alignment explanation
Indices: 92681190--92681241 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
92681180 ATATAAATTC
92681190 TATAAATTAAAAAAAAA
1 TATAAATTAAAAAAAAA
*
92681207 TACATAATTACAAAAAAAA
1 TATA-AATTA-AAAAAAAA
*
92681226 GTTTAAATTAAAAAAA
1 -TATAAATTAAAAAAA
92681242 TTATTCTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 13 0.45
20 2 0.07
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
TATAAATTAAAAAAAAA
Found at i:92694354 original size:17 final size:15
Alignment explanation
Indices: 92694305--92694377 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 15
92694295 AGAAATAAGT
*
92694305 AAAATATATAAA-TAT
1 AAAAT-TATAAATTAA
*
92694320 AAATTTATAAATTAA
1 AAAATTATAAATTAA
92694335 AAAATTATATAATTACAAAA
1 AAAATTATA-AATT----AA
92694355 AAAAGTT-TAAATTAA
1 AAAA-TTATAAATTAA
92694370 AAAATTAT
1 AAAATTAT
92694378 TCTTTTAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 16
0.71 0.05 0.24
Matches are distributed among these distances:
14 8 0.17
15 21 0.45
16 4 0.09
19 4 0.09
20 8 0.17
21 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (15 bp):
AAAATTATAAATTAA
Found at i:92695215 original size:34 final size:34
Alignment explanation
Indices: 92695172--92695240 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
92695162 AGAGGTCATC
92695172 TTCACAACCGAAGAAAATATTTCCTCAAAATCAA
1 TTCACAACCGAAGAAAATATTTCCTCAAAATCAA
*
92695206 TTCACAACCGAAGAAAATATTTCTTCAAAATCAA
1 TTCACAACCGAAGAAAATATTTCCTCAAAATCAA
92695240 T
1 T
92695241 CTCTTTTTCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.46, C:0.22, G:0.06, T:0.26
Consensus pattern (34 bp):
TTCACAACCGAAGAAAATATTTCCTCAAAATCAA
Found at i:92698773 original size:48 final size:48
Alignment explanation
Indices: 92698709--92698816 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
92698699 TTTGTGGACA
** *
92698709 AGCCACCACATAGATACTGATGAATGGTCATATAGCACATCGTGGATG
1 AGCCACCACATAGATACCAATGAACGGTCATATAGCACATCGTGGATG
* *
92698757 AGCCAGCACATAGATACCAATGAACGGTCATATAGCACATCGTGGATA
1 AGCCACCACATAGATACCAATGAACGGTCATATAGCACATCGTGGATG
*
92698805 AACCACCACATA
1 AGCCACCACATA
92698817 ATTGCCGATA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (48 bp):
AGCCACCACATAGATACCAATGAACGGTCATATAGCACATCGTGGATG
Found at i:92705771 original size:67 final size:68
Alignment explanation
Indices: 92705669--92705959 Score: 298
Period size: 68 Copynumber: 4.3 Consensus size: 68
92705659 AAGATCTAGC
* * * * ** *
92705669 TGGGTTATGGTAGCATATAAAGTTTGTCAAAACAGTAAACATGAGATTACATTGCGTAAGACCAT
1 TGGGTTATGGCAGCATATGAAGTCTGCCAGGACAGTAAACATGAGATTATATTGCGTAAGACCAT
*
92705734 AGC
66 AGT
* * * * *
92705737 TAGATTAT-GCAGCATATGAAGTCTACCAGGACAGTAAACATGAGATTATATTGCATAAGACTAT
1 TGGGTTATGGCAGCATATGAAGTCTGCCAGGACAGTAAACATGAGATTATATTGCGTAAGACCAT
92705801 AGT
66 AGT
** * * * * *
92705804 TGGGTTATGGCATTATAAGAAGTCTGCCAGGCCAATAAACATG-GAACTATATTGCGTAAGATCA
1 TGGGTTATGGCAGCATATGAAGTCTGCCAGGACAGTAAACATGAG-ATTATATTGCGTAAGACCA
*
92705868 TGGT
65 TAGT
* * * * *
92705872 TGGGCTATGGCAGCATATGAAGTCTGCCATGATAGTAAACATGGGATTATATTGTGTAAGACCAT
1 TGGGTTATGGCAGCATATGAAGTCTGCCAGGACAGTAAACATGAGATTATATTGCGTAAGACCAT
*
92705937 AAT
66 AGT
* *
92705940 TGGGCTATGACAGCATATGA
1 TGGGTTATGGCAGCATATGA
92705960 TGTAATACCC
Statistics
Matches: 180, Mismatches: 40, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
67 55 0.31
68 124 0.69
69 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (68 bp):
TGGGTTATGGCAGCATATGAAGTCTGCCAGGACAGTAAACATGAGATTATATTGCGTAAGACCAT
AGT
Found at i:92707302 original size:35 final size:35
Alignment explanation
Indices: 92707247--92707454 Score: 186
Period size: 35 Copynumber: 5.9 Consensus size: 35
92707237 TTTCATATGG
* *
92707247 CCGAATATATATATGTTCAATATATCATCACATGTAA
1 CCGAATATACA-A-GTTCAATATAACATCACATGTAA
* * * * * * **
92707284 CCTAATGTTCAAGTTCAATAAAACATCTCATATGG
1 CCGAATATACAAGTTCAATATAACATCACATGTAA
* * *
92707319 CCAAATATACAAATACAATATAATC-TCACATGTAA
1 CCGAATATACAAGTTCAATATAA-CATCACATGTAA
*
92707354 CCGGATATACAAGTTCAATATAA-ACTCACATGTAA
1 CCGAATATACAAGTTCAATATAACA-TCACATGTAA
* * * * *
92707389 TCGAATACACAAGTTCAATATAACCTCACATGCAG
1 CCGAATATACAAGTTCAATATAACATCACATGTAA
*
92707424 CCGAATATACAAGTTCAATATAACCTCACAT
1 CCGAATATACAAGTTCAATATAACATCACAT
92707455 ATACTTACCT
Statistics
Matches: 135, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
35 126 0.93
36 2 0.01
37 7 0.05
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (35 bp):
CCGAATATACAAGTTCAATATAACATCACATGTAA
Found at i:92707373 original size:105 final size:104
Alignment explanation
Indices: 92707261--92707454 Score: 230
Period size: 105 Copynumber: 1.8 Consensus size: 104
92707251 ATATATATAT
* * *** *
92707261 GTTCAATAT-ATCATCACATGTAACCTAATGTTCAAGTTCAATAAAACATCTCATATG-GCCAAA
1 GTTCAATATAAAC-TCACATGTAACCGAATACACAAGTTCAATAAAAC--CTCACATGAGCCAAA
*
92707324 TATACAAATACAATATAATCTCACATGTAACCGGATATACAA
63 TATACAAATACAATATAACCTCACATGTAACCGGATATACAA
* * *
92707366 GTTCAATATAAACTCACATGTAATCGAATACACAAGTTCAATATAACCTCACATGCAGCCGAATA
1 GTTCAATATAAACTCACATGTAACCGAATACACAAGTTCAATAAAACCTCACATG-AGCCAAATA
* *
92707431 TACAAGTTCAATATAACCTCACAT
65 TACAAATACAATATAACCTCACAT
92707455 ATACTTACCT
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
103 7 0.09
105 65 0.88
106 2 0.03
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (104 bp):
GTTCAATATAAACTCACATGTAACCGAATACACAAGTTCAATAAAACCTCACATGAGCCAAATAT
ACAAATACAATATAACCTCACATGTAACCGGATATACAA
Found at i:92710876 original size:12 final size:12
Alignment explanation
Indices: 92710859--92710891 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
92710849 TACATCTCAA
92710859 CATTTTTCATTT
1 CATTTTTCATTT
92710871 CATTTTTCATTT
1 CATTTTTCATTT
92710883 CATTTTTCA
1 CATTTTTCA
92710892 ACATTATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.64
Consensus pattern (12 bp):
CATTTTTCATTT
Found at i:92716339 original size:18 final size:18
Alignment explanation
Indices: 92716316--92716353 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
92716306 TTGTAGTTCA
92716316 TATCAAGTTAGAAGAATT
1 TATCAAGTTAGAAGAATT
92716334 TATCAAGTTAGAAGAATT
1 TATCAAGTTAGAAGAATT
92716352 TA
1 TA
92716354 CTTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (18 bp):
TATCAAGTTAGAAGAATT
Found at i:92722141 original size:23 final size:23
Alignment explanation
Indices: 92722111--92722154 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
92722101 GGGAGTAACA
92722111 TACCAAACTAATAACAAAGCTTT
1 TACCAAACTAATAACAAAGCTTT
92722134 TACCAAACTAATAACAAAGCT
1 TACCAAACTAATAACAAAGCT
92722155 CTTAGGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.23
Consensus pattern (23 bp):
TACCAAACTAATAACAAAGCTTT
Found at i:92723172 original size:16 final size:16
Alignment explanation
Indices: 92723151--92723222 Score: 81
Period size: 16 Copynumber: 4.5 Consensus size: 16
92723141 GTTTGGTTCA
*
92723151 CTGTAATAGAATAGGG
1 CTGTAATAGAATAGAG
*
92723167 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
* *
92723183 CTGTAATGGAATAGAA
1 CTGTAATAGAATAGAG
* * *
92723199 CTATAATGGAATAGAA
1 CTGTAATAGAATAGAG
92723215 CTGTAATA
1 CTGTAATA
92723223 AGTAATTCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.42, C:0.07, G:0.24, T:0.28
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:92723195 original size:32 final size:32
Alignment explanation
Indices: 92723150--92723222 Score: 92
Period size: 32 Copynumber: 2.3 Consensus size: 32
92723140 CGTTTGGTTC
** * *
92723150 ACTGTAATAGAATAGGGCTGTAATTGAATAGA
1 ACTGTAATAGAATAGAACTATAATGGAATAGA
* *
92723182 GCTGTAATGGAATAGAACTATAATGGAATAGA
1 ACTGTAATAGAATAGAACTATAATGGAATAGA
92723214 ACTGTAATA
1 ACTGTAATA
92723223 AGTAATTCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.27
Consensus pattern (32 bp):
ACTGTAATAGAATAGAACTATAATGGAATAGA
Found at i:92723446 original size:17 final size:17
Alignment explanation
Indices: 92723424--92723456 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
92723414 AATTATTATT
92723424 AAATATAATTTAATAAA
1 AAATATAATTTAATAAA
92723441 AAATATAATTTAATAA
1 AAATATAATTTAATAA
92723457 CATTCATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAATTTAATAAA
Found at i:92723984 original size:18 final size:18
Alignment explanation
Indices: 92723961--92723995 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92723951 ACGTGGTAGT
*
92723961 CCAACTAGATTTTAAGTG
1 CCAACTAGATCTTAAGTG
92723979 CCAACTAGATCTTAAGT
1 CCAACTAGATCTTAAGT
92723996 ATATCTATTA
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:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (18 bp):
CCAACTAGATCTTAAGTG
Found at i:92724063 original size:40 final size:40
Alignment explanation
Indices: 92723999--92724247 Score: 390
Period size: 40 Copynumber: 6.2 Consensus size: 40
92723989 CTTAAGTATA
* *
92723999 TCTATTAATACATACTTCATCCGGGTAAATTATACAATTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
* *
92724039 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
* *
92724079 TCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
* *
92724119 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
*
92724159 TCTATTAATACATACTTTACCCGGGTAAATTATACAGTTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
* * *
92724199 TCTATTAATATATACTTCATCCGGATAAATTATACAGTTT
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
92724239 TCTATTAAT
1 TCTATTAAT
92724248 GTGCTTGTGA
Statistics
Matches: 192, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 192 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (40 bp):
TCTATTAATACATACTTCACCCGGGTAAATTATACAGTTT
Found at i:92724216 original size:120 final size:120
Alignment explanation
Indices: 92723999--92724247 Score: 444
Period size: 120 Copynumber: 2.1 Consensus size: 120
92723989 CTTAAGTATA
* *
92723999 TCTATTAATACATACTTCATCCGGGTAAATTATACAATTTTCTGTTAATACATACTTTACCCGGG
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
92724064 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
* * *
92724119 TCTGTTAATACATACTTTACCCGGGTAAATTATACAGTTTTCTATTAATACATACTTTACCCGGG
1 TCTATTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
*
92724184 TAAATTATACAGTTTTCTATTAATATATACTTCATCCGGATAAATTATACAGTTT
66 TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
92724239 TCTATTAAT
1 TCTATTAAT
92724248 GTGCTTGTGA
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (120 bp):
TCTATTAATACATACTTCACCCGGGTAAATTATACAATTTTCTATTAATACATACTTTACCCGGG
TAAATTATACAGTTTTCTATTAATACATACTTCATCCGGATAAATTATACAGTTT
Found at i:92728396 original size:43 final size:43
Alignment explanation
Indices: 92728330--92728494 Score: 131
Period size: 43 Copynumber: 3.8 Consensus size: 43
92728320 AGCTCGTACA
* * *
92728330 ATGCCAAC-GTCCCAGATAAGGTCTTACATGTAATCAAAAATCG
1 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAAATCAAAAATCG
* * * *
92728373 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATAT-G
1 ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAAAATCG
* ** * * **
92728415 ATGCCAATGTTTCAGATATGGTCTTACATGTAAATCTCAAATCG
1 ATGCCACTGTCCCAGACAGGGTCTTACATG-AAATCAAAAATCG
*
92728459 ATGCCAAC-GTCCCTGAC-GTGGTCTTACATGAAATCA
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACATGAAATCA
92728495 CATATCAGAA
Statistics
Matches: 93, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 26 0.28
43 44 0.47
44 22 0.24
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAAAAATCG
Found at i:92728493 original size:86 final size:85
Alignment explanation
Indices: 92728342--92728499 Score: 212
Period size: 86 Copynumber: 1.8 Consensus size: 85
92728332 GCCAACGTCC
92728342 CAGATAAGGTCTTACATGTAATCAAAAATCGATGCCACTATCCCAGACAGGGTCTTACACGAAAT
1 CAGATAAGGTCTTACATGTAATCAAAAATCGATGCCACTATCCCAGACAGGGTCTTACACGAAAT
*
92728407 CATATATGATGCCAATGTTT
66 CACATATGATGCCAATGTTT
* ** * * *
92728427 CAGATATGGTCTTACATGTAAATCTCAAATCGATGCCAAC-GTCCCTGAC-GTGGTCTTACATGA
1 CAGATAAGGTCTTACATGT-AATCAAAAATCGATGCC-ACTATCCCAGACAG-GGTCTTACACGA
92728490 AATCACATAT
63 AATCACATAT
92728500 CAGAATCCTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 19 0.30
86 42 0.67
87 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (85 bp):
CAGATAAGGTCTTACATGTAATCAAAAATCGATGCCACTATCCCAGACAGGGTCTTACACGAAAT
CACATATGATGCCAATGTTT
Found at i:92729875 original size:16 final size:17
Alignment explanation
Indices: 92729854--92729894 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
92729844 TATTATTATA
* *
92729854 TTTAAATTTTAAA-AAT
1 TTTAAATTTAAAACAAG
92729870 TTTAAATTTAAAACAAG
1 TTTAAATTTAAAACAAG
92729887 TTTAAATT
1 TTTAAATT
92729895 ATATGCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (17 bp):
TTTAAATTTAAAACAAG
Found at i:92735316 original size:48 final size:48
Alignment explanation
Indices: 92735245--92735340 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
92735235 TACCTATTTC
92735245 ATACTCTCCAACCAAACCTATCAATTTATGCACCAAGTAAAAAATTCA
1 ATACTCTCCAACCAAACCTATCAATTTATGCACCAAGTAAAAAATTCA
*
92735293 ATACTCTCCAACCAAACCTATCAATTTATGCACCAAGTACAAAATTCA
1 ATACTCTCCAACCAAACCTATCAATTTATGCACCAAGTAAAAAATTCA
92735341 TTGCTAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.25
Consensus pattern (48 bp):
ATACTCTCCAACCAAACCTATCAATTTATGCACCAAGTAAAAAATTCA
Found at i:92735335 original size:27 final size:27
Alignment explanation
Indices: 92735257--92735335 Score: 64
Period size: 23 Copynumber: 3.1 Consensus size: 27
92735247 ACTCTCCAAC
92735257 CAAACCTATCAATTTATGCACCAAGTA
1 CAAACCTATCAATTTATGCACCAAGTA
** * *
92735284 -AAAAAT-TCAA--TACT-CTCCAA--C
1 CAAACCTATCAATTTA-TGCACCAAGTA
92735305 CAAACCTATCAATTTATGCACCAAGTA
1 CAAACCTATCAATTTATGCACCAAGTA
92735332 CAAA
1 CAAA
92735336 ATTCATTGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 16
0.60 0.13 0.27
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 2 0.06
25 11 0.31
26 4 0.11
27 4 0.11
ACGTcount: A:0.44, C:0.27, G:0.05, T:0.24
Consensus pattern (27 bp):
CAAACCTATCAATTTATGCACCAAGTA
Found at i:92740044 original size:25 final size:25
Alignment explanation
Indices: 92740010--92740061 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
92740000 AAATGGTTAG
*
92740010 CTCGAATGAGCTTCCCGTTATTCAA
1 CTCGAATGAGCTTCCCATTATTCAA
*
92740035 CTCGTATGAGCTTCCCATTATTCAA
1 CTCGAATGAGCTTCCCATTATTCAA
92740060 CT
1 CT
92740062 GGGAAGAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.29, G:0.13, T:0.35
Consensus pattern (25 bp):
CTCGAATGAGCTTCCCATTATTCAA
Found at i:92740070 original size:25 final size:25
Alignment explanation
Indices: 92740017--92740072 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
92740007 TAGCTCGAAT
* * *
92740017 GAGCTTCCCGTTATTCAACTCGTAT
1 GAGCTTCCCATTATTCAACTCGGAA
*
92740042 GAGCTTCCCATTATTCAACTGGGAA
1 GAGCTTCCCATTATTCAACTCGGAA
92740067 GAGCTT
1 GAGCTT
92740073 ACTATTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
GAGCTTCCCATTATTCAACTCGGAA
Found at i:92740150 original size:168 final size:168
Alignment explanation
Indices: 92739867--92740175 Score: 564
Period size: 168 Copynumber: 1.8 Consensus size: 168
92739857 CACACCATAG
*
92739867 CTCGAATGAGCTTCCCGTTATTCAACTCGGAAGAGCTTACTATTTACAGCTCGTATGAGCATACA
1 CTCGAATGAGCTTCCCATTATTCAACTCGGAAGAGCTTACTATTTACAGCTCGTATGAGCATACA
* *
92739932 TGAGTATGAATTGACAGATTACAGTTCAGTACATCTCGTGTGTACTACCCATGTATCGACGATAT
66 TGAGTATGAATTGACAGATTACAGTTCAGTACATCTCGTGTGTACTACCCATGTATCAACAATAT
92739997 TTTAAATGGTTAGCTCGAATGAGCTTCCCGTTATTCAA
131 TTTAAATGGTTAGCTCGAATGAGCTTCCCGTTATTCAA
* *
92740035 CTCGTATGAGCTTCCCATTATTCAACTGGGAAGAGCTTACTATTTACAGCTCGTATGAGCATACA
1 CTCGAATGAGCTTCCCATTATTCAACTCGGAAGAGCTTACTATTTACAGCTCGTATGAGCATACA
*
92740100 TGAGTATGAATTGACAGATTACAGTTTAGTACATCTCGTGTGTACTACCCATGTATCAACAATAT
66 TGAGTATGAATTGACAGATTACAGTTCAGTACATCTCGTGTGTACTACCCATGTATCAACAATAT
92740165 TTTAAATGGTT
131 TTTAAATGGTT
92740176 CAATGGGTAC
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
168 135 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (168 bp):
CTCGAATGAGCTTCCCATTATTCAACTCGGAAGAGCTTACTATTTACAGCTCGTATGAGCATACA
TGAGTATGAATTGACAGATTACAGTTCAGTACATCTCGTGTGTACTACCCATGTATCAACAATAT
TTTAAATGGTTAGCTCGAATGAGCTTCCCGTTATTCAA
Found at i:92741060 original size:30 final size:30
Alignment explanation
Indices: 92741026--92741091 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
92741016 TGTCTCAGCT
* *
92741026 GTGTGTGACACACTGCCAGGTGACATGGCC
1 GTGTGTGACACACGGCCAAGTGACATGGCC
92741056 GTGTGTGACACACGGCCAAGTGACATGGCC
1 GTGTGTGACACACGGCCAAGTGACATGGCC
92741086 GTGTGT
1 GTGTGT
92741092 CCTATGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.20, C:0.24, G:0.35, T:0.21
Consensus pattern (30 bp):
GTGTGTGACACACGGCCAAGTGACATGGCC
Found at i:92744272 original size:46 final size:46
Alignment explanation
Indices: 92744220--92744493 Score: 374
Period size: 46 Copynumber: 6.0 Consensus size: 46
92744210 GCTCTTTGAA
** *
92744220 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
92744266 ATGAAATGAATAAGACCATGGCTGAAAGATACCATAGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
92744312 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG--
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
92744356 ATGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 AT-G-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
92744404 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
92744450 A-GAAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
92744494 TCAAAGATAA
Statistics
Matches: 203, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.01
45 2 0.01
46 196 0.97
47 1 0.00
48 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:92744474 original size:138 final size:138
Alignment explanation
Indices: 92744230--92744493 Score: 422
Period size: 138 Copynumber: 1.9 Consensus size: 138
92744220 ATGAAATGTG
92744230 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGCTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGCTGAAAGA
* ** * *
92744295 TACCATAGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGG
66 TACCATAGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGATGG
92744360 AAAATGAA
131 AAAATGAA
* *
92744368 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGCTGAAAGA
* * *
92744433 TACCATGGCAACATGACA-GAAAATGAATAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATAGCAACATGACATG-AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
92744494 TCAAAGATAA
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
137 1 0.01
138 114 0.99
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAATAAGACCATGGCTGAAAGA
TACCATAGCAACATGACATGAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGATGG
AAAATGAA
Found at i:92745350 original size:41 final size:40
Alignment explanation
Indices: 92745305--92745393 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
92745295 AATTACCAAT
*
92745305 TTAGTCCT-TAACCCATGATTTAAAAACTAATTCAACAAAAA
1 TTAGT-CTATAACCC-TGAATTAAAAACTAATTCAACAAAAA
* ** *
92745346 TTAGTCTATGAGTCTTAATTAAAAACTAATTCAACAAAAA
1 TTAGTCTATAACCCTGAATTAAAAACTAATTCAACAAAAA
92745386 TTA-TCTAT
1 TTAGTCTAT
92745394 CCAAAATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.12
40 29 0.69
41 8 0.19
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.34
Consensus pattern (40 bp):
TTAGTCTATAACCCTGAATTAAAAACTAATTCAACAAAAA
Found at i:92756205 original size:17 final size:17
Alignment explanation
Indices: 92756183--92756216 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
92756173 ATCCAACATG
92756183 CTTGAGTTCAAACTTTT
1 CTTGAGTTCAAACTTTT
92756200 CTTGAGTTCAAACTTTT
1 CTTGAGTTCAAACTTTT
92756217 TCCTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (17 bp):
CTTGAGTTCAAACTTTT
Found at i:92756631 original size:58 final size:58
Alignment explanation
Indices: 92756541--92756655 Score: 230
Period size: 58 Copynumber: 2.0 Consensus size: 58
92756531 CGCTAAACTT
92756541 GATCTAACTCCACCAAAAACTTGATTTCAAAAAAAGAAAATGAAAATGAAACACTAAC
1 GATCTAACTCCACCAAAAACTTGATTTCAAAAAAAGAAAATGAAAATGAAACACTAAC
92756599 GATCTAACTCCACCAAAAACTTGATTTCAAAAAAAGAAAATGAAAATGAAACACTAA
1 GATCTAACTCCACCAAAAACTTGATTTCAAAAAAAGAAAATGAAAATGAAACACTAA
92756656 TCTTATCGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.54, C:0.18, G:0.09, T:0.19
Consensus pattern (58 bp):
GATCTAACTCCACCAAAAACTTGATTTCAAAAAAAGAAAATGAAAATGAAACACTAAC
Found at i:92764427 original size:75 final size:75
Alignment explanation
Indices: 92764304--92764454 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
92764294 GCTTTCAATG
92764304 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
*
92764369 TCTCGTTTGC
66 TCTAGTTTGC
92764379 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
1 TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
92764444 TCTAGTTTGC
66 TCTAGTTTGC
92764454 T
1 T
92764455 TCCATTGGAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (75 bp):
TATGCCTGTATCTTAAAAACATGAAAAAGAAAAAATGGAAACATTTGGCTATTATCTGCTTTTAG
TCTAGTTTGC
Found at i:92764676 original size:18 final size:17
Alignment explanation
Indices: 92764648--92764682 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92764638 ATTATTAAGA
*
92764648 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
92764665 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
92764683 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:92764831 original size:157 final size:157
Alignment explanation
Indices: 92764636--92764952 Score: 607
Period size: 157 Copynumber: 2.0 Consensus size: 157
92764626 ATAAGAATAT
92764636 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
92764701 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
92764766 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
92764793 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
92764858 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
92764923 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
92764950 TAA
1 TAA
92764953 GGGTATTCTA
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:92764833 original size:18 final size:17
Alignment explanation
Indices: 92764805--92764839 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92764795 ATTATTAAGA
*
92764805 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
92764822 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
92764840 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:92764873 original size:75 final size:75
Alignment explanation
Indices: 92764637--92764875 Score: 200
Period size: 75 Copynumber: 3.1 Consensus size: 75
92764627 TAAGAATATT
92764637 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
92764702 AATATGATTA
66 AATATGATTA
* ** * * * * *
92764712 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
92764774 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
92764794 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
92764859 AATATGATTA
66 AATATGATTA
92764869 AATTATT
1 AATTATT
92764876 TATTATTGAT
Statistics
Matches: 117, Mismatches: 30, Indels: 34
0.65 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 16 0.14
82 15 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:92765030 original size:39 final size:40
Alignment explanation
Indices: 92764987--92765091 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
92764977 TTTCATTATG
92764987 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
92765026 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
92765071 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
92765092 ACACCTCTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:92765085 original size:45 final size:44
Alignment explanation
Indices: 92764985--92765094 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
92764975 TTTTTCATTA
92764985 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
92765024 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
92765069 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
92765095 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:92765094 original size:16 final size:16
Alignment explanation
Indices: 92765073--92765110 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
92765063 TTGATTTGCT
*
92765073 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
92765089 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
92765105 AATACA
1 ATTACA
92765111 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:92771399 original size:19 final size:18
Alignment explanation
Indices: 92771364--92771407 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
92771354 TTTAGATGTA
92771364 TTATTT-ATAATTTCTG-
1 TTATTTGATAATTTCTGT
92771380 TTATTTGATAATTGTACTGT
1 TTATTTGATAATT-T-CTGT
92771400 TTATTTGA
1 TTATTTGA
92771408 ACTGTGACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
18 1 0.04
19 3 0.12
20 8 0.33
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (18 bp):
TTATTTGATAATTTCTGT
Found at i:92772970 original size:23 final size:23
Alignment explanation
Indices: 92772938--92773060 Score: 129
Period size: 23 Copynumber: 5.3 Consensus size: 23
92772928 AAGGCTAACG
* **
92772938 CAAAGGCTAATTAGAATATTCCA
1 CAAAGGCTAATCAGAATACGCCA
* *
92772961 CAAAGACTAATCAGAATACGCGA
1 CAAAGGCTAATCAGAATACGCCA
* * *
92772984 CAAAGGTTAATTAGAATATGCCA
1 CAAAGGCTAATCAGAATACGCCA
* * *
92773007 GAAAGGCTAATCAAAATACACCA
1 CAAAGGCTAATCAGAATACGCCA
* *
92773030 CAAAGGCTAATCATAATACACCA
1 CAAAGGCTAATCAGAATACGCCA
92773053 CAAAGGCT
1 CAAAGGCT
92773061 CTATTTTGAT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 82 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (23 bp):
CAAAGGCTAATCAGAATACGCCA
Found at i:92773058 original size:46 final size:46
Alignment explanation
Indices: 92772938--92773060 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 46
92772928 AAGGCTAACG
* * * * *
92772938 CAAAGGCTAATTAGAATATTCCACAAAGACTAATCAGAATACGCGA
1 CAAAGGCTAATTAGAATATACCACAAAGGCTAATCAAAATACACCA
* * *
92772984 CAAAGGTTAATTAGAATATGCCAGAAAGGCTAATCAAAATACACCA
1 CAAAGGCTAATTAGAATATACCACAAAGGCTAATCAAAATACACCA
* * *
92773030 CAAAGGCTAATCATAATACACCACAAAGGCT
1 CAAAGGCTAATTAGAATATACCACAAAGGCT
92773061 CTATTTTGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (46 bp):
CAAAGGCTAATTAGAATATACCACAAAGGCTAATCAAAATACACCA
Found at i:92777853 original size:6 final size:6
Alignment explanation
Indices: 92777833--92777870 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
92777823 GTGAAATTAA
*
92777833 AAATAT AAA-AT AAATAT AAATAT AAAAAT AAATAT AAA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAA
92777871 ATTAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (6 bp):
AAATAT
Found at i:92777860 original size:18 final size:17
Alignment explanation
Indices: 92777833--92777870 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
92777823 GTGAAATTAA
92777833 AAATATAAAATAAATAT
1 AAATATAAAATAAATAT
92777850 AAATATAAAAATAAATAT
1 AAATAT-AAAATAAATAT
92777868 AAA
1 AAA
92777871 ATTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATATAAAATAAATAT
Found at i:92777863 original size:12 final size:12
Alignment explanation
Indices: 92777826--92777881 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
92777816 GTTAAAGGTG
92777826 AAAT-TAAAAAT
1 AAATATAAAAAT
* *
92777837 ATAAAATAAATAT
1 A-AATATAAAAAT
92777850 AAATATAAAAAT
1 AAATATAAAAAT
*
92777862 AAATATAAAATT
1 AAATATAAAAAT
92777874 AAAT-TAAA
1 AAATATAAA
92777882 CATCATCATC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
11 5 0.13
12 26 0.68
13 7 0.18
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:92777876 original size:18 final size:18
Alignment explanation
Indices: 92777826--92777876 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
92777816 GTTAAAGGTG
*
92777826 AAAT-TAAAAATATAAAAT
1 AAATATAAAATTA-AAAAT
92777844 AAATAT-AAATATAAAAAT
1 AAATATAAAAT-TAAAAAT
92777862 AAATATAAAATTAAA
1 AAATATAAAATTAAA
92777877 TTAAACATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 22 0.76
19 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATATAAAATTAAAAAT
Found at i:92784774 original size:43 final size:43
Alignment explanation
Indices: 92784722--92784843 Score: 138
Period size: 43 Copynumber: 2.8 Consensus size: 43
92784712 ATATATCGAT
* * * *
92784722 GCCACTGTCCTAGACAGGGTCTTACACGAAATCA-AATAACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCACAAT-ACAAC
* *
92784765 GCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACAAC
* * * *
92784808 GCCAATCTCCCAGACATGGTCTAACATGTAATCACA
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCACA
92784844 TCTCAACAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 66 0.96
44 3 0.04
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACAAC
Found at i:92793538 original size:15 final size:15
Alignment explanation
Indices: 92793520--92793576 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
92793510 TATCTATTTT
92793520 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
92793535 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
92793550 ATTGAATTTATATTG
1 ATTGAATTTATATTG
92793565 ATTGAA-TTATAT
1 ATTGAATTTATAT
92793577 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:92793555 original size:30 final size:28
Alignment explanation
Indices: 92793514--92793574 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 28
92793504 TATGAATATC
92793514 TATTTTATTGAATTTATATTGATTGAAAT
1 TATTTTATTGAATTTATATTGATTG-AAT
92793543 TATTTTGATTGAATTTATATTGATTGAAT
1 TATTTT-ATTGAATTTATATTGATTGAAT
92793572 TAT
1 TAT
92793575 ATAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (28 bp):
TATTTTATTGAATTTATATTGATTGAAT
Found at i:92793974 original size:21 final size:21
Alignment explanation
Indices: 92793948--92794011 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
92793938 GCTTTACTGG
92793948 TCAGGCACTTTATGTGTCGTA
1 TCAGGCACTTTATGTGTCGTA
* ** *
92793969 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCACTTTATGTGTCGTA
* * *
92793990 TTAGACACTTTACGTGTCGTA
1 TCAGGCACTTTATGTGTCGTA
92794011 T
1 T
92794012 ACTGATCAGG
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (21 bp):
TCAGGCACTTTATGTGTCGTA
Found at i:92805655 original size:21 final size:21
Alignment explanation
Indices: 92805588--92805660 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
92805578 GAGCCCGAAG
*
92805588 GCTGAACAAAAGCACATAAGT
1 GCTGAACAAAAGCACATAAGA
* * * *
92805609 GCT-AACGGAAA-CCCGTAAGG
1 GCTGAAC-AAAAGCACATAAGA
* *
92805629 GTTGAACAAAAGCTCATAAGA
1 GCTGAACAAAAGCACATAAGA
92805650 GCTGAACAAAA
1 GCTGAACAAAA
92805661 ACCTAGTAGG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
20 14 0.36
21 25 0.64
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (21 bp):
GCTGAACAAAAGCACATAAGA
Found at i:92805736 original size:18 final size:18
Alignment explanation
Indices: 92805713--92805747 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92805703 ACCTATTAGG
92805713 ATTAACTGAAACTCATGA
1 ATTAACTGAAACTCATGA
*
92805731 ATTAACTGAAGCTCATG
1 ATTAACTGAAACTCATG
92805748 TGAGCTAAAC
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:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (18 bp):
ATTAACTGAAACTCATGA
Found at i:92810707 original size:21 final size:21
Alignment explanation
Indices: 92810665--92810708 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92810655 AATATTACAC
*
92810665 AAACAAAGAAAAGAAAAGAAA
1 AAACAAAGAAAAAAAAAGAAA
*
92810686 AAACAAA-AAAAAAAGAATAAA
1 AAACAAAGAAAAAAA-AAGAAA
92810707 AA
1 AA
92810709 TGATGAGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (21 bp):
AAACAAAGAAAAAAAAAGAAA
Found at i:92813259 original size:17 final size:17
Alignment explanation
Indices: 92813221--92813279 Score: 73
Period size: 17 Copynumber: 3.5 Consensus size: 17
92813211 ATCAAATGCA
* * *
92813221 CGAGCTCTACAAAACTA
1 CGAGCTCAACAAGACTG
*
92813238 CGAGCTCATCAAGACTG
1 CGAGCTCAACAAGACTG
*
92813255 TGAGCTCAACAAGACTG
1 CGAGCTCAACAAGACTG
92813272 CGAGCTCA
1 CGAGCTCA
92813280 CCAAATATTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (17 bp):
CGAGCTCAACAAGACTG
Found at i:92818022 original size:43 final size:43
Alignment explanation
Indices: 92817961--92818205 Score: 300
Period size: 43 Copynumber: 5.8 Consensus size: 43
92817951 GACAGATCAA
* *
92817961 ATGCACAACATATTTGCAGATAAAAACCGCCATTGGGTTGTGG
1 ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
* *
92818004 ATGCACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTGA
1 ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
* * *
92818047 ATGTACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTGA
1 ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
* *
92818090 ATGTACAACATATTTACAGAT--AAACTGCCACTGGGTTGTGG
1 ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
* * * * *
92818131 ATGCACAACATATTTACAAATAAAAATTGTCACTGGGTTATGG
1 ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
* * * *
92818174 TTACAAAACATATTTGTAGAT--AAACTGCCACT
1 ATGCACAACATATTTGCAGATAAAAACTGCCACT
92818206 CTTCCTCCGT
Statistics
Matches: 179, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
41 46 0.26
43 133 0.74
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGCACAACATATTTGCAGATAAAAACTGCCACTGGGTTGTGG
Found at i:92818166 original size:84 final size:82
Alignment explanation
Indices: 92817960--92818205 Score: 287
Period size: 84 Copynumber: 2.9 Consensus size: 82
92817950 CGACAGATCA
* * *
92817960 AATGCACAACATATTTGCAGATAAAAACCGCCATTGGGTTGTGGATGCACAACATATTTGCAGAT
1 AATGCACAACATATTTGCAGATAAAAACTG-CACTGGGTTGT-GATGTACAACATATTTGCAGAT
*
92818025 AAAAACTGCAACTGGGTTGTG
64 --AAACTGCCACTGGGTTGTG
* *
92818046 AATGTACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTGAATGTACAACATATTTACAGAT
1 AATGCACAACATATTTGCAGATAAAAACTGC-ACTGGGTTGTG-ATGTACAACATATTTGCAGAT
92818111 AAACTGCCACTGGGTTGTG
64 AAACTGCCACTGGGTTGTG
* * * * * * *
92818130 GATGCACAACATATTTACAAATAAAAATTGTCACTGGGTTATGGT-TACAAAACATATTTGTAGA
1 AATGCACAACATATTTGCAGATAAAAACTG-CACTGGGTTGTGATGTAC--AACATATTTGCAGA
92818194 TAAACTGCCACT
63 TAAACTGCCACT
92818206 CTTCCTCCGT
Statistics
Matches: 140, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
82 3 0.02
83 1 0.01
84 77 0.55
85 3 0.02
86 56 0.40
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (82 bp):
AATGCACAACATATTTGCAGATAAAAACTGCACTGGGTTGTGATGTACAACATATTTGCAGATAA
ACTGCCACTGGGTTGTG
Found at i:92818195 original size:127 final size:128
Alignment explanation
Indices: 92817960--92818197 Score: 322
Period size: 127 Copynumber: 1.9 Consensus size: 128
92817950 CGACAGATCA
* * * *
92817960 AATGCACAACATATTTGCAGATAAAAACCGCCATTGGGTTGTGGATGCACAACATATTTGCAGAT
1 AATGCACAACATATTTACAGAT-AAAACCGCCACTGGGTTGTGGATGCACAACATATTTACAAAT
*
92818025 AAAAACTGCAACTGGGTTGTGAATGTACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTG
65 AAAAACTGCAACTGGGTTATGAATGTACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTG
* *
92818089 AATGTACAACATATTTACAGAT-AAACTGCCACTGGGTTGTGGATGCACAACATATTTACAAATA
1 AATGCACAACATATTTACAGATAAAACCGCCACTGGGTTGTGGATGCACAACATATTTACAAATA
* * *
92818153 AAAATTGTC-ACTGGGTTATG-GT-TACAAAACATATTTGTAGATAAA
66 AAAACTG-CAACTGGGTTATGAATGTAC--AACATATTTGCAGATAAA
92818198 CTGCCACTCT
Statistics
Matches: 96, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
125 3 0.03
126 1 0.01
127 71 0.74
128 1 0.01
129 20 0.21
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.28
Consensus pattern (128 bp):
AATGCACAACATATTTACAGATAAAACCGCCACTGGGTTGTGGATGCACAACATATTTACAAATA
AAAACTGCAACTGGGTTATGAATGTACAACATATTTGCAGATAAAAACTGCAACTGGGTTGTG
Found at i:92818382 original size:38 final size:38
Alignment explanation
Indices: 92818265--92818375 Score: 177
Period size: 38 Copynumber: 2.9 Consensus size: 38
92818255 TGTAATAGAA
*
92818265 CAATTCAACACTAGCAGTGGACATGCTTAACATGTATT
1 CAATTGAACACTAGCAGTGGACATGCTTAACATGTATT
92818303 CAATTGAACACTAGCAGTGGACATGCTTAACATGTATT
1 CAATTGAACACTAGCAGTGGACATGCTTAACATGTATT
* * * *
92818341 CAATTGAACACTAGTAGTAGACATGTTTATCATGT
1 CAATTGAACACTAGCAGTGGACATGCTTAACATGT
92818376 TCTCAATAGG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 68 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (38 bp):
CAATTGAACACTAGCAGTGGACATGCTTAACATGTATT
Found at i:92826317 original size:67 final size:67
Alignment explanation
Indices: 92826206--92826402 Score: 322
Period size: 67 Copynumber: 2.9 Consensus size: 67
92826196 TACCTAAGTA
* *
92826206 ATAGATTACATCTCATTAAAAATGTTACATATATGAAATTCCACATCATCCCGTTAACTTTTTCA
1 ATAGATTACATCTCATTAAAAATGTTCCATATATTAAATTCCACATCATCCCGTTAACTTTTTCA
*
92826271 GT
66 AT
* *
92826273 ATAGATTACATTTCATTAAAAATGTTCCATATATTAAATGCCACATCATCCCGTTAACTTTTTCA
1 ATAGATTACATCTCATTAAAAATGTTCCATATATTAAATTCCACATCATCCCGTTAACTTTTTCA
92826338 AT
66 AT
* * *
92826340 ATAGATTACATCTCATTAAAAATGTTCCATACATTAAATTCCATATCATCCCGTTAAATTTTT
1 ATAGATTACATCTCATTAAAAATGTTCCATATATTAAATTCCACATCATCCCGTTAACTTTTT
92826403 TAATGGTACT
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 120 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (67 bp):
ATAGATTACATCTCATTAAAAATGTTCCATATATTAAATTCCACATCATCCCGTTAACTTTTTCA
AT
Found at i:92827437 original size:17 final size:17
Alignment explanation
Indices: 92827409--92827452 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
92827399 ATTGTTTTTA
* *
92827409 AAAAATATTTTTGGAAT
1 AAAAATATTTTCGAAAT
92827426 AAAAAGTATTTTCGAAAT
1 AAAAA-TATTTTCGAAAT
92827444 AAAAATATT
1 AAAAATATT
92827453 ATTAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAAATATTTTCGAAAT
Found at i:92829269 original size:27 final size:27
Alignment explanation
Indices: 92829238--92829294 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
92829228 ACTATCATGA
*
92829238 AATAA-TTTCGTAACTAAATAAGTTTAT
1 AATAACTTT-GTAACTAAATAAATTTAT
92829265 AATAACTTTGTAACTAAATAAATTTAT
1 AATAACTTTGTAACTAAATAAATTTAT
92829292 AAT
1 AAT
92829295 TAATAGGCGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (27 bp):
AATAACTTTGTAACTAAATAAATTTAT
Found at i:92835502 original size:16 final size:16
Alignment explanation
Indices: 92835481--92835516 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
92835471 AATGATCATA
92835481 AAGCACAACATTTTAG
1 AAGCACAACATTTTAG
92835497 AAGCACAACATTTTAG
1 AAGCACAACATTTTAG
92835513 AAGC
1 AAGC
92835517 CTTTAGGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.22
Consensus pattern (16 bp):
AAGCACAACATTTTAG
Found at i:92838484 original size:15 final size:16
Alignment explanation
Indices: 92838464--92838494 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
92838454 TAATGTAAAG
92838464 TGAATTG-AAATATAT
1 TGAATTGAAAATATAT
92838479 TGAATTGAAAATATAT
1 TGAATTGAAAATATAT
92838495 ATGATTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
TGAATTGAAAATATAT
Found at i:92841681 original size:38 final size:38
Alignment explanation
Indices: 92841630--92841705 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
92841620 TAAGAACACA
*
92841630 GATACTAGTGAGTTAACCACTATTTCAGAATAGAATAC
1 GATACTAGTGAGTTAACCACTATTTCAGAACAGAATAC
92841668 GATACTAGTGAGTTAACCACTATTTCAGAACAGAATAC
1 GATACTAGTGAGTTAACCACTATTTCAGAACAGAATAC
92841706 TTCCTCCTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (38 bp):
GATACTAGTGAGTTAACCACTATTTCAGAACAGAATAC
Found at i:92843686 original size:55 final size:57
Alignment explanation
Indices: 92843603--92843713 Score: 131
Period size: 56 Copynumber: 2.0 Consensus size: 57
92843593 TAAATTAAAG
92843603 TTTAAATGAAAATTAAAAATAATCAAC-TTCAAAAAA-ATAATTAAAATAAAAATATA
1 TTTAAATGAAAATTAAAAATAATCAACTTTCAAAAAATA-AATTAAAATAAAAATATA
* * * **
92843659 TTTATATG-AAATTAAAAA-AATTTAACTTTCTAAAAATAAATTATTATAAAAATAT
1 TTTAAATGAAAATTAAAAATAA-TCAACTTTCAAAAAATAAATTAAAATAAAAATAT
92843714 TTAAGTAATC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
54 2 0.04
55 14 0.30
56 30 0.64
57 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (57 bp):
TTTAAATGAAAATTAAAAATAATCAACTTTCAAAAAATAAATTAAAATAAAAATATA
Found at i:92846182 original size:23 final size:22
Alignment explanation
Indices: 92846133--92846188 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
92846123 TGTAGTGTAA
92846133 GTATGTTT-TATTATTTTGCAGT
1 GTATGTTTAT-TTATTTTGCAGT
* *
92846155 ATATGTTTATTTCATTTTGTAGT
1 GTATGTTTATTT-ATTTTGCAGT
92846178 GTATGTTTATT
1 GTATGTTTATT
92846189 AAGATAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.20, C:0.04, G:0.16, T:0.61
Consensus pattern (22 bp):
GTATGTTTATTTATTTTGCAGT
Found at i:92848273 original size:48 final size:47
Alignment explanation
Indices: 92848215--92848435 Score: 112
Period size: 48 Copynumber: 4.7 Consensus size: 47
92848205 AATAATATAA
92848215 AATAATTATAATATATAATATGAAAGTATATATGTAAAAATAATATAT
1 AATAA-TATAATATATAATATGAAAGTATATATGTAAAAATAATATAT
* * *
92848263 AATATATATAAAGAATATAA-A-GAATACGTAATACAAGTAAAAAT-ATA-AT
1 AATA-ATAT-AA-TATATAATATGAA-A-GT-ATATATGTAAAAATAATATAT
* * *
92848312 AATAATAT-GTAAATAATAATGTAAAATAATAATAGTTTGTAAAAAAATAATATAT
1 AATAATATAATATATAAT-ATG-AAAGT-AT-ATA---TGT--AAAAATAATATAT
*
92848367 AATAA-ATAATA-ATAATAT-AAA--ATA-ATGT-ATAATAA-A-AT
1 AATAATATAATATATAATATGAAAGTATATATGTAAAAATAATATAT
*
92848405 AATTATATAATATATAATAT-AAAGATATATA
1 AATAATATAATATATAATATGAAAG-TATATA
92848436 AACATTATGT
Statistics
Matches: 136, Mismatches: 12, Indels: 54
0.67 0.06 0.27
Matches are distributed among these distances:
38 6 0.04
39 7 0.05
40 16 0.12
43 6 0.04
44 1 0.01
45 5 0.04
46 1 0.01
47 6 0.04
48 20 0.15
49 13 0.10
50 11 0.08
51 17 0.12
53 8 0.06
54 10 0.07
55 9 0.07
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (47 bp):
AATAATATAATATATAATATGAAAGTATATATGTAAAAATAATATAT
Found at i:92848288 original size:22 final size:21
Alignment explanation
Indices: 92848231--92848288 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
92848221 TATAATATAT
* *
92848231 AATATGAAAGTATATATGTAAA
1 AATAT-AAAGAATATATATAAA
* *
92848253 AATAATATATAATATATATAAA
1 AAT-ATAAAGAATATATATAAA
92848275 GAATATAAAGAATA
1 -AATATAAAGAATA
92848289 CGTAATACAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (21 bp):
AATATAAAGAATATATATAAA
Found at i:92848340 original size:13 final size:12
Alignment explanation
Indices: 92848312--92848344 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
92848302 AAAATATAAT
92848312 AATAAT-ATGTA
1 AATAATAATGTA
92848323 AATAATAATGTAA
1 AATAATAATGT-A
92848336 AATAATAAT
1 AATAATAAT
92848345 AGTTTGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 4 0.20
13 10 0.50
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (12 bp):
AATAATAATGTA
Found at i:92848382 original size:20 final size:20
Alignment explanation
Indices: 92848357--92848425 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
92848347 TTTGTAAAAA
92848357 AATAATATATAATAAATAAT
1 AATAATATATAATAAATAAT
* *
92848377 AATAATATAAAAT-AATGTAT
1 AATAATATATAATAAAT-AAT
*
92848397 AATAA-A-ATAATTATATAAT
1 AATAATATATAA-TAAATAAT
92848416 ATATAATATA
1 A-ATAATATA
92848426 AAGATATATA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 3 0.08
19 8 0.21
20 25 0.66
21 1 0.03
22 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
AATAATATATAATAAATAAT
Found at i:92848391 original size:23 final size:23
Alignment explanation
Indices: 92848355--92848423 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
92848345 AGTTTGTAAA
* *
92848355 AAAATAAT-ATATAATAAATAAT
1 AAAATAATAAAATAATATATAAT
*
92848377 AATAAT-ATAAAATAATGTATAAT
1 AA-AATAATAAAATAATATATAAT
* *
92848400 AAAATAATTATATAATATATAAT
1 AAAATAATAAAATAATATATAAT
92848423 A
1 A
92848424 TAAAGATATA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 7 0.18
23 31 0.82
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (23 bp):
AAAATAATAAAATAATATATAAT
Found at i:92848421 original size:15 final size:14
Alignment explanation
Indices: 92848358--92848436 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 14
92848348 TTGTAAAAAA
*
92848358 ATAATATATAATAA
1 ATAATATATAATAT
92848372 ATAATA-ATAATAT
1 ATAATATATAATAT
* *
92848385 AAAATAATGTATAATAAA
1 ---ATAATATATAAT-AT
92848403 ATAATTATATAATAT
1 ATAA-TATATAATAT
*
92848418 ATAATATAAAGATAT
1 ATAATATATA-ATAT
92848433 ATAA
1 ATAA
92848437 ACATTATGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
13 6 0.12
14 11 0.21
15 17 0.33
16 12 0.23
17 5 0.10
18 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:92848426 original size:20 final size:19
Alignment explanation
Indices: 92848358--92848426 Score: 67
Period size: 18 Copynumber: 3.8 Consensus size: 19
92848348 TTGTAAAAAA
92848358 ATAATATATAATA-AATA-
1 ATAATATATAATATAATAT
* *
92848375 ATAATAATATAAAATAATGT
1 ATAAT-ATATAATATAATAT
*
92848395 ATAATA-A-AATA-ATTAT
1 ATAATATATAATATAATAT
92848411 ATAATATATAATATAA
1 ATAATATATAATATAA
92848427 AGATATATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 9 0.22
17 9 0.22
18 12 0.30
19 5 0.12
20 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.36
Consensus pattern (19 bp):
ATAATATATAATATAATAT
Found at i:92851802 original size:18 final size:18
Alignment explanation
Indices: 92851779--92851815 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
92851769 TCGAAAGCTT
92851779 CGACACAAAAATCTAACA
1 CGACACAAAAATCTAACA
92851797 CGACACAAAAATCTAACA
1 CGACACAAAAATCTAACA
92851815 C
1 C
92851816 TTACTGATGA
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:0.54, C:0.30, G:0.05, T:0.11
Consensus pattern (18 bp):
CGACACAAAAATCTAACA
Found at i:92852102 original size:5 final size:5
Alignment explanation
Indices: 92852094--92852123 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
92852084 GAGAAAACAA
*
92852094 AAAAG AAAAG AAAAG AAAAG AAAGG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
92852124 GAAATAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:92852135 original size:15 final size:15
Alignment explanation
Indices: 92852094--92852146 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
92852084 GAGAAAACAA
*
92852094 AAAAGAAAAGAAAAG
1 AAAAGAAAGGAAAAG
92852109 AAAAGAAAGGAAAAG
1 AAAAGAAAGGAAAAG
* * *
92852124 GAAATAAGGGAAAA-
1 AAAAGAAAGGAAAAG
*
92852138 AAGAGAAAG
1 AAAAGAAAG
92852147 AAAGAAATAA
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGGAAAAG
Found at i:92852153 original size:26 final size:25
Alignment explanation
Indices: 92852109--92852178 Score: 68
Period size: 26 Copynumber: 2.7 Consensus size: 25
92852099 AAAAGAAAAG
* *
92852109 AAAAGAAAGGAAAAGGAAATAAGGGAA
1 AAAAGAAA--AAAAAGAAATAACGGAA
* *
92852136 AAAAGAGAAAGAAAGAAATAACGTAA
1 AAAAGA-AAAAAAAGAAATAACGGAA
*
92852162 AAGAGAAAAAAAAGAAA
1 AAAAGAAAAAAAAGAAA
92852179 GTTCAAGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 10 0.28
26 18 0.50
27 6 0.17
28 2 0.06
ACGTcount: A:0.71, C:0.01, G:0.23, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAAAAGAAATAACGGAA
Found at i:92852170 original size:33 final size:32
Alignment explanation
Indices: 92852087--92852179 Score: 82
Period size: 33 Copynumber: 2.8 Consensus size: 32
92852077 AACGATTGAG
* *
92852087 AAAAC-AAAAA-AGAAAAGAAAAGAAAAGAAAGG
1 AAAACGAAAAAGAGAAAA-AAGAG-AAAGAAAGA
* *
92852119 AAAAGGAAATAAGGGAAAAAAGAGAAAGAAAGA
1 AAAACGAAA-AAGAGAAAAAAGAGAAAGAAAGA
* *
92852152 AATAACGTAAAAGAGAAAAAAAAGAAAG
1 AA-AACGAAAAAGAGAAAAAAGAGAAAG
92852180 TTCAAGAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
32 4 0.08
33 29 0.59
34 11 0.22
35 5 0.10
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.03
Consensus pattern (32 bp):
AAAACGAAAAAGAGAAAAAAGAGAAAGAAAGA
Found at i:92862627 original size:13 final size:13
Alignment explanation
Indices: 92862609--92862661 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
92862599 AGTTTGGCAA
92862609 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
92862622 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
92862635 T--TTTGTGGAAAAT
1 TGCTTT-T-GAAAAG
*
92862648 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
92862661 T
1 T
92862662 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
11 3 0.09
12 1 0.03
13 26 0.76
14 1 0.03
15 3 0.09
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.43
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:92862674 original size:26 final size:26
Alignment explanation
Indices: 92862616--92862666 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
92862606 CAATGCTTTT
* * **
92862616 GAAAAGTGCTTTTGAAAAGTTTTGTG
1 GAAAATTGTTTTTGAAAAGTTTAATG
92862642 GAAAATTGTTTTTGAAAAGTTTAAT
1 GAAAATTGTTTTTGAAAAGTTTAAT
92862667 TTAAAATTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (26 bp):
GAAAATTGTTTTTGAAAAGTTTAATG
Found at i:92881143 original size:55 final size:53
Alignment explanation
Indices: 92880943--92881194 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 53
92880933 ACGCGGGTAC
* * * * *
92880943 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA----T-CCTTTTGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
* * * *
92880992 CTTACCATTGCCATGTCTCGACTTGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAA
* * * * *
92881045 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-G-AA
* * * *
92881100 CTTATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCTTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG-AA
* * *
92881153 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGTATC
92881195 CTTAAACCCT
Statistics
Matches: 162, Mismatches: 32, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
49 33 0.20
53 47 0.29
54 14 0.09
55 68 0.42
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATGAA
Done.