Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 296 of 325
Found at i:96560373 original size:101 final size:102
Alignment explanation
Indices: 96560179--96560401 Score: 225
Period size: 101 Copynumber: 2.2 Consensus size: 102
96560169 GGTATATTGT
* * * * *
96560179 GTAAGACCATAGATGAAAGAGGCTATGCCAGTCTGGTATAAGGTATATGGCATAAGACTATAGAT
1 GTAAGACCATAGATGAAAGAGACTATGACAGTATGGTATAAGGTATATGACATAAGACCATAGAT
* * **
96560244 GAAAAAGGCTATACCAGTCTAGTATAAGGTATATGAC
66 GAAAAACGCCATACCAGTAAAGTATAAGGTATATGAC
* * * *
96560281 GTAAGATCATAGATGAAAGAGACTATTATAGTATGGTA-AAGGTATATGACATAAGACCATGGAT
1 GTAAGACCATAGATGAAAGAGACTATGACAGTATGGTATAAGGTATATGACATAAGACCATAGAT
* ** * * **
96560345 GAAATACGCCATGGCGGTAAATTATAAGGTA-ATCGGT
66 GAAAAACGCCATACCAGTAAAGTATAAGGTATAT-GAC
* *
96560382 ATAAGACTATAGATGAAAGA
1 GTAAGACCATAGATGAAAGA
96560402 TGCTATGGAA
Statistics
Matches: 97, Mismatches: 23, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
100 2 0.02
101 63 0.65
102 32 0.33
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (102 bp):
GTAAGACCATAGATGAAAGAGACTATGACAGTATGGTATAAGGTATATGACATAAGACCATAGAT
GAAAAACGCCATACCAGTAAAGTATAAGGTATATGAC
Found at i:96563815 original size:25 final size:24
Alignment explanation
Indices: 96563787--96563839 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
96563777 CACAAACGCA
96563787 GCTCTTTATAAGCGTCCTGATATAG
1 GCTCTTTATAAGCGTCCTGATAT-G
* * *
96563812 GCTCTTTTTGAGCTTCCTGATATG
1 GCTCTTTATAAGCGTCCTGATATG
96563836 GCTC
1 GCTC
96563840 GTTTGAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTTTATAAGCGTCCTGATATG
Found at i:96563850 original size:23 final size:25
Alignment explanation
Indices: 96563801--96563858 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
96563791 TTTATAAGCG
* *
96563801 TCCTGATATAGGCTCTTTTTGAGCT
1 TCCTGATATAGGCTCTGTTTGAACT
96563826 TCCTGATAT-GGCTC-GTTTGAACT
1 TCCTGATATAGGCTCTGTTTGAACT
*
96563849 TCCTGTTATA
1 TCCTGATATA
96563859 TGGTTATCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.52
24 5 0.17
25 9 0.31
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (25 bp):
TCCTGATATAGGCTCTGTTTGAACT
Found at i:96566037 original size:43 final size:43
Alignment explanation
Indices: 96565990--96566094 Score: 133
Period size: 43 Copynumber: 2.4 Consensus size: 43
96565980 GTCCAGGAAG
* *
96565990 GGTCTTACACGAAATC-GAATAACGATGCCAATGTTCC-AGACAT
1 GGTCTTACACGAAATCACAAT-ACAATGCCAATG-TCCTAGACAT
*
96566033 GGTCTTACACGTAATCACAATACAATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCACAATACAATGCCAATGTCCTAGACAT
* *
96566076 GGTCTTACATGTAATCACA
1 GGTCTTACACGAAATCACA
96566095 TCTCGGTAAC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 3 0.05
43 50 0.89
44 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
GGTCTTACACGAAATCACAATACAATGCCAATGTCCTAGACAT
Found at i:96571777 original size:34 final size:34
Alignment explanation
Indices: 96571699--96571779 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
96571689 CTTGTCTGCA
* * * *
96571699 TACTG-TACTGATATGGGCTATGGCCCAGACTGC
1 TACTGTTACTGAAATAGGCTAAGGCCCAGACTAC
* * *
96571732 TTCTATCACTGAAATAGGCTAAGGCCCAGACTAC
1 TACTGTTACTGAAATAGGCTAAGGCCCAGACTAC
96571766 TACTGTTACTGAAA
1 TACTGTTACTGAAA
96571780 AGGGGGTTAA
Statistics
Matches: 37, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (34 bp):
TACTGTTACTGAAATAGGCTAAGGCCCAGACTAC
Found at i:96574782 original size:43 final size:41
Alignment explanation
Indices: 96574680--96574826 Score: 102
Period size: 44 Copynumber: 3.4 Consensus size: 41
96574670 ATCCTAGACG
* * * *
96574680 TGGTCTTACATGTAATCAAATATCGATGCC-ACTGTCTCAGACA
1 TGGTCTTACAAGAAATC-AA-ATCGATGCCAAC-GTCCCAGATA
* * *
96574723 -GGTTCTTACACA-AAATCAAATACGATGTCGACGTCCTAGATA
1 TGG-TCTTACA-AGAAATCAAAT-CGATGCCAACGTCCCAGATA
* *
96574765 TTGTCTTACAAGTAAATCTCAAATCGATGCCAACGTCCCAGATG
1 TGGTCTTACAAG-AAA--TCAAATCGATGCCAACGTCCCAGATA
*
96574809 TGGTCTTACACGAAATCA
1 TGGTCTTACAAGAAATCA
96574827 CATATCGGAA
Statistics
Matches: 82, Mismatches: 13, Indels: 20
0.71 0.11 0.17
Matches are distributed among these distances:
41 6 0.07
42 24 0.29
43 20 0.24
44 26 0.32
45 6 0.07
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (41 bp):
TGGTCTTACAAGAAATCAAATCGATGCCAACGTCCCAGATA
Found at i:96580314 original size:24 final size:24
Alignment explanation
Indices: 96580282--96580333 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
96580272 AGCAAAACAA
96580282 ACATTTAAGGCATTCATCGGGACT
1 ACATTTAAGGCATTCATCGGGACT
*
96580306 ACATTTAAGGCATTCATCGGGAGT
1 ACATTTAAGGCATTCATCGGGACT
96580330 ACAT
1 ACAT
96580334 GACAAAACAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (24 bp):
ACATTTAAGGCATTCATCGGGACT
Found at i:96587011 original size:20 final size:21
Alignment explanation
Indices: 96586974--96587021 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
96586964 ACCTAGGATG
*
96586974 TGAATTTAATTTAATTGATTA
1 TGAATTTAATTAAATTGATTA
96586995 TGAATTT-ATTAAATTGATT-
1 TGAATTTAATTAAATTGATTA
*
96587014 TAAATTTA
1 TGAATTTA
96587022 CTTGTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 11 0.46
21 7 0.29
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (21 bp):
TGAATTTAATTAAATTGATTA
Found at i:96587596 original size:24 final size:25
Alignment explanation
Indices: 96587566--96587622 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
96587556 CAGAGTTACC
*
96587566 TATTAAGCTCACATGAGCTTTCTGA
1 TATTAAGCACACATGAGCTTTCTGA
** *
96587591 T-TTAAGCACTTATGAGCTTTCTGT
1 TATTAAGCACACATGAGCTTTCTGA
96587615 TATTAAGC
1 TATTAAGC
96587623 CCGGATAAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (25 bp):
TATTAAGCACACATGAGCTTTCTGA
Found at i:96598332 original size:45 final size:43
Alignment explanation
Indices: 96598267--96598396 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
96598257 ACATAGGATC
* *
96598267 CAATATGT-GTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
96598309 CGATATATGTGGTTCCGTGTAAGACC-CTATCTGGGACAG-TGGCAT
1 C-A-ATATGTGGTTCCGTGTAAGACCAC-ATCTGGGAC-GTTGGCAT
* * ** *
96598354 CAATATGAGATAGCATGTAAGACCACATCTGGGACGTTGGCAT
1 CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
96598397 TGTTCGATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 33 0.45
44 9 0.12
45 29 0.39
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
CAATATGTGGTTCCGTGTAAGACCACATCTGGGACGTTGGCAT
Found at i:96600320 original size:15 final size:15
Alignment explanation
Indices: 96600302--96600343 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
96600292 TTTTTGACAG
96600302 TTTCTTTTTTCTGCC
1 TTTCTTTTTTCTGCC
96600317 TTTCGTTTTTCTCTGCC
1 TTTC-TTTTT-TCTGCC
*
96600334 GTTCTTTTTT
1 TTTCTTTTTT
96600344 TCCTTCACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 5 0.21
16 10 0.42
17 9 0.38
ACGTcount: A:0.00, C:0.24, G:0.10, T:0.67
Consensus pattern (15 bp):
TTTCTTTTTTCTGCC
Found at i:96600326 original size:17 final size:16
Alignment explanation
Indices: 96600306--96600345 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
96600296 TGACAGTTTC
*
96600306 TTTTTTCTGCCTTTCGT
1 TTTTTTCTGCCGTTC-T
*
96600323 TTTTCTCTGCCGTTCT
1 TTTTTTCTGCCGTTCT
96600339 TTTTTTC
1 TTTTTTC
96600346 CTTCACTGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.00, C:0.25, G:0.10, T:0.65
Consensus pattern (16 bp):
TTTTTTCTGCCGTTCT
Found at i:96601208 original size:18 final size:17
Alignment explanation
Indices: 96601175--96601208 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96601165 AATTGGGCCA
*
96601175 TGTGGGCCACATGGGCG
1 TGTGGGCCACACGGGCG
96601192 TGTGGGCCTACACGGGC
1 TGTGGGCC-ACACGGGC
96601209 AAACAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGGGCG
Found at i:96613977 original size:22 final size:23
Alignment explanation
Indices: 96613951--96613995 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
96613941 ACCTGATCAG
96613951 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
96613973 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
96613996 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:96614232 original size:28 final size:28
Alignment explanation
Indices: 96614200--96614283 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
96614190 AACACACCAG
* *
96614200 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
96614228 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
96614256 TATAATCCATCCAAAATACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
96614284 GCACAAAGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 33 0.66
29 17 0.34
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:96614255 original size:23 final size:23
Alignment explanation
Indices: 96614186--96614256 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
96614176 AAATGTCCAA
*
96614186 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
96614209 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
96614237 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
96614257 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:96617654 original size:19 final size:19
Alignment explanation
Indices: 96617630--96617694 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
96617620 AAACTTAATT
96617630 ATTTTAATTAATTATAAGG
1 ATTTTAATTAATTATAAGG
* **
96617649 ATTTTACATATAAACT-TAATT
1 ATTTTA-AT-T-AATTATAAGG
96617670 ATTTTAATTAATTATAAGG
1 ATTTTAATTAATTATAAGG
96617689 ATTTTA
1 ATTTTA
96617695 CTTTACTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 3 0.08
19 16 0.44
20 4 0.11
21 10 0.28
22 3 0.08
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (19 bp):
ATTTTAATTAATTATAAGG
Found at i:96617662 original size:40 final size:40
Alignment explanation
Indices: 96617618--96617695 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
96617608 GGCATGGAAG
96617618 ATAAACTTAATTATTTTAATTAATTATAAGGATTTTACAT
1 ATAAACTTAATTATTTTAATTAATTATAAGGATTTTACAT
96617658 ATAAACTTAATTATTTTAATTAATTATAAGGATTTTAC
1 ATAAACTTAATTATTTTAATTAATTATAAGGATTTTAC
96617696 TTTACTTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (40 bp):
ATAAACTTAATTATTTTAATTAATTATAAGGATTTTACAT
Found at i:96618415 original size:18 final size:17
Alignment explanation
Indices: 96618392--96618426 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
96618382 TCCCTTATAC
96618392 TATATTTAAAATTTTTTT
1 TATATTT-AAATTTTTTT
*
96618410 TATATTTTAATTTTTTT
1 TATATTTAAATTTTTTT
96618427 ACATAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTAAATTTTTTT
Found at i:96628468 original size:96 final size:96
Alignment explanation
Indices: 96628303--96628648 Score: 442
Period size: 96 Copynumber: 3.6 Consensus size: 96
96628293 TTGGAGTCTG
* * * * * * **
96628303 GGGCTAACTCTAGTATTTGGTGTCTTTCTTGAATCGGGTACATTCTGTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
*
96628368 GTTATCACCATTTGGTAGATTTTGAAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* * * *
96628399 GGGCTAACTCTAGTATTTAACGTCTTTCTTGAGTCAGTTGCATCCCATGTCTTCTCAATGTTTGC
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
* *
96628464 GTTATCAACATTTGGTACATTTTGGAACCTT
66 GTTATCACCATTTGGTAGATTTTGGAACCTT
* ** * * * *
96628495 GGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATCCCTTAAT-TTCTCATTATTGG
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCAT-ATCTTCTCAATGTTTG
*
96628559 AGTTATCACCATTAGGTAGATTTTGGAACCTT
65 AGTTATCACCATTTGGTAGATTTTGGAACCTT
* * *
96628591 GGGCTAACTCTAGTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAA
1 GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAA
96628649 ATTTTGGTAG
Statistics
Matches: 211, Mismatches: 37, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
95 2 0.01
96 208 0.99
97 1 0.00
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.41
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTGATGTCTTTCTTGAGTCAGTTGCATCCCATATCTTCTCAATGTTTGA
GTTATCACCATTTGGTAGATTTTGGAACCTT
Found at i:96628724 original size:78 final size:78
Alignment explanation
Indices: 96628573--96628725 Score: 211
Period size: 78 Copynumber: 1.9 Consensus size: 78
96628563 ATCACCATTA
*
96628573 GGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCA
1 GGTAGATTTTGGAACCTTGGGCTAACTC-A-TATTTGATGTCTTTCTTGGG-CGGTTGCATCCCA
96628638 TATCTTCTCAAATTTT
63 TATCTTCTCAAATTTT
* *
96628654 GGTAGATTTTGGAACCTTGGGCTAACTC-TATTTGATGTCTTTGTTGAGG-GAGTTGCATCCCTT
1 GGTAGATTTTGGAACCTTGGGCTAACTCATATTTGATGTCTTTCTTG-GGCG-GTTGCATCCCAT
*
96628717 TTCTTCTCA
64 ATCTTCTCA
96628726 TTGTTGGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
77 1 0.02
78 35 0.53
79 2 0.03
81 28 0.42
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (78 bp):
GGTAGATTTTGGAACCTTGGGCTAACTCATATTTGATGTCTTTCTTGGGCGGTTGCATCCCATAT
CTTCTCAAATTTT
Found at i:96628888 original size:81 final size:81
Alignment explanation
Indices: 96628747--96628902 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
96628737 ACCACCATTA
* * * *
96628747 GGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATGTTGTTCTTGAGTCGGTTGCATTCCA
1 GGTAGATTTTGAAACCTTGGGCTAACACTAGTATTTGATGTTGTTCTTGAGTAGGCTGCATCCCA
96628812 TATCTTCTCAATATTT
66 TATCTTCTCAATATTT
* * *
96628828 GGTAGATTTTGGAACCTTGGGCTAGCACTAGTATTTGATGTCT-TTGTTGAG-AGAGCTGCATCC
1 GGTAGATTTTGAAACCTTGGGCTAACACTAGTATTTGATGT-TGTTCTTGAGTAG-GCTGCATCC
* *
96628891 CTTTTCTTCTCA
64 CATATCTTCTCA
96628903 TTGTTGGAGT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.02
81 62 0.97
82 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (81 bp):
GGTAGATTTTGAAACCTTGGGCTAACACTAGTATTTGATGTTGTTCTTGAGTAGGCTGCATCCCA
TATCTTCTCAATATTT
Found at i:96628942 original size:177 final size:177
Alignment explanation
Indices: 96628474--96629051 Score: 889
Period size: 177 Copynumber: 3.3 Consensus size: 177
96628464 GTTATCAACA
* * *
96628474 TTTGGTACATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTATTGAGAGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
* * * *
96628539 CCTTAAT-TTCTCATTATTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGGGCTAACTCTA
66 CCTT-TTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
*
96628603 GTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAAAT
130 GTATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
96628651 TTTGGTAGATTTTGGAACCTTGGGCT-A-ACT-CTATTTGATGTCTTTGTTGAGGGAGTTGCATC
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
96628713 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
66 CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
* *
96628778 TATTTGATGTT-GTTCTTGAGTCGGTTGCATTCCATATCTTCTC-AAT
131 TATTTGAT-TTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* *
96628824 ATTTGGTAGATTTTGGAACCTTGGGCTAGCACTAGTATTTGATGTCTTTGTTGAGAGAGCTGCAT
1 -TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCAT
96628889 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
65 CCCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTA
* * * **
96628954 GTATTTGATTTCTTTCTTGTGTCAGCTGCATCCCGCATCTTCTCAAAT
130 GTATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
* * *
96629002 TTTGGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGT
1 TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGT
96629052 CGAGTCAGTT
Statistics
Matches: 366, Mismatches: 27, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
173 4 0.01
174 151 0.41
175 4 0.01
176 6 0.02
177 198 0.54
178 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (177 bp):
TTTGGTAGATTTTGGAACCTTGGGCTAACACTAGTATTTGATGTCTTTGTTGAGAGAGTTGCATC
CCTTTTCTTCTCATTGTTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGGCTAACTCTAG
TATTTGATTTCTTTCTTGAGTCGGTTGCATCCCATATCTTCTCAAAT
Found at i:96629136 original size:69 final size:69
Alignment explanation
Indices: 96629023--96629159 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 69
96629013 TTGGAACCTC
* *
96629023 GGGCTAACTCTAGTATTTGATATCTTTGTCGAGTCAGTTTCATTCCGTATCTTCACAATCTTTGA
1 GGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATTCCGTATCTTCACAATCTTTGA
96629088 GTTA
66 GTTA
* * * * *
96629092 GGGCTAGCTCTAGTATTTGATTTCTTTC-CTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGATATCTTTCTC-GAGTCAGTTGCATTCCGTATCTTCACAATCTTTG
96629156 AGTT
65 AGTT
96629160 CCCAACATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 59 0.98
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.44
Consensus pattern (69 bp):
GGGCTAACTCTAGTATTTGATATCTTTCTCGAGTCAGTTGCATTCCGTATCTTCACAATCTTTGA
GTTA
Found at i:96629227 original size:351 final size:339
Alignment explanation
Indices: 96628399--96629294 Score: 849
Period size: 351 Copynumber: 2.6 Consensus size: 339
96628389 TTGAAACCTT
* * * * *
96628399 GGGCTAACTCTAGTATTT-AACGTCTTTCTTGAGTCAGTTGCATCCCATGTCTTCTCAATGTTTG
1 GGGCTAACTCTAGTATTTGAA-ATCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTG
* * * *
96628463 CGTTATCAACATTTGGTACATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTATTGAG
65 AGTTCTCAACATTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAG
* * *
96628528 AGAGTTGCATCCCTTAATTTCTCATTATTGGAGTTATCACCATTAGGTAGATTTTGGAACCTTGG
130 AGAGCTGCATCCCTTAATTTCTCATTATTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGG
* * *
96628593 GCTAACTCTAGTATTTGATTTCTTTCTTGGGTCGGTTGCATCCCATATCTTCTCAAATTTTGGTA
195 GCTAACTCTAGTATTTGATTTCTTTCTTGGGTCAGCTGCATCCCACATCTTCTCAAATTTTGGTA
* * * * * *
96628658 GATTTTGGAACCTTGGGCTAACTCTATTTGATGTCTTTGTTGAGGGAGTTGCATCCCTTTTCTTC
260 GATTTTGGAACCTCGGGCTAACTCTATTTGATATCTTTGTCGAGGCAGTTGCATCCCGTATCTTC
* * *
96628723 TCATTGTTGGAGTTA
325 ACAATCTTGGAGTTA
* * * ** * * *
96628738 ---CCACCAT-TAGGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTG-ATGTTGTTCTTGAG
1 GGGCTAAC-TCTA-GT--A-TTTGAAATCTT-TCCTGAGTC-AG---TTGCA---T-TCCTT-A-
* * *** * * * *
96628798 TCGGTT-GCATTCCAT-ATCTTCTCAATATTTGGTAGATTTTGGAACCTTGGGCTAGCACTAGTA
50 TC--TTCTCAATGTTTGA-GTTCTCAACATTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTA
* *
96628861 TTTGATGTCTTTGTTGAGAGAGCTGCATCCCTT-TTCTTCTCATTGTTGGAGTTACCACCATTAG
112 TTTGATGTCTTTGTTGAGAGAGCTGCATCCCTTAAT-TTCTCATTATTGGAGTTACCACCATTAG
* *
96628925 GTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGTGTCAGCTGCATCCCGC
176 GTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTGATTTCTTTCTTGGGTCAGCTGCATCCCAC
96628990 ATCTTCTCAAATTTTGGTAGATTTTGGAACCTCGGGCTAACTCTAGTATTTGATATCTTTGTCGA
241 ATCTTCTCAAATTTTGGTAGATTTTGGAACCTCGGGCTAACTC---TATTTGATATCTTTGTCGA
* * * *
96629055 GTCAGTTTCATTCCGTATCTTCACAATCTTTGAGTTA
303 GGCAGTTGCATCCCGTATCTTCACAATCTTGGAGTTA
* **
96629092 GGGCTAGCTCTAGTATTTGATTTCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTGAAATCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTGA
* * * * * * **
96629157 GTTCCCAACATTTAGTAGATTTTGAAACCTTGGGCTAACTCTAGTATTTAATGTTTTTCTTGATT
66 GTTCTCAACATTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGA
** * * * * * * * * *
96629222 TTGTTGCATTCCAT-ATCTTCTCAATGTTCGATTTACCACCGTTTGGTAGATTTTGAAACCTTGG
131 GAGCTGCATCCCTTAAT-TTCTCATTATTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGG
*
96629286 ACTAACTCT
195 GCTAACTCT
96629295 TCGCTGTATT
Statistics
Matches: 438, Mismatches: 88, Indels: 59
0.75 0.15 0.10
Matches are distributed among these distances:
336 5 0.01
337 3 0.01
339 1 0.00
340 6 0.01
341 8 0.02
342 120 0.27
343 3 0.01
344 2 0.00
345 7 0.02
346 1 0.00
347 1 0.00
348 5 0.01
349 1 0.00
350 3 0.01
351 204 0.47
352 7 0.02
353 8 0.02
354 45 0.10
356 3 0.01
357 5 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (339 bp):
GGGCTAACTCTAGTATTTGAAATCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTGA
GTTCTCAACATTTGGTAGATTTTGGAACCTTGGGCTAACTCTAGTATTTGATGTCTTTGTTGAGA
GAGCTGCATCCCTTAATTTCTCATTATTGGAGTTACCACCATTAGGTAGATTTTGAAACCTTGGG
CTAACTCTAGTATTTGATTTCTTTCTTGGGTCAGCTGCATCCCACATCTTCTCAAATTTTGGTAG
ATTTTGGAACCTCGGGCTAACTCTATTTGATATCTTTGTCGAGGCAGTTGCATCCCGTATCTTCA
CAATCTTGGAGTTA
Found at i:96629228 original size:96 final size:96
Alignment explanation
Indices: 96629092--96629294 Score: 264
Period size: 96 Copynumber: 2.1 Consensus size: 96
96629082 CTTTGAGTTA
* * * *
96629092 GGGCTAGCTCTAGTATTTGATTTCTTTCCTGAGTCAGTTGCATTCCTTATCTTCTCAATGTTTGA
1 GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCGA
*
96629157 GTTCCCAACATTTAGTAGATTTTGAAACCTT
66 GTTACCAACATTTAGTAGATTTTGAAACCTT
* * **
96629188 GGGCTAACTCTAGTATTTAATGTT-TTTCTTGATTTTGTTGCATTCCATATCTTCTCAATGTTCG
1 GGGCTAACTCTAGTATTTAAT-TTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCG
* * * *
96629252 ATTTACCACCGTTTGGTAGATTTTGAAACCTT
65 AGTTACCAACATTTAGTAGATTTTGAAACCTT
*
96629284 GGACTAACTCT
1 GGGCTAACTCT
96629295 TCGCTGTATT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
96 90 0.98
97 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.43
Consensus pattern (96 bp):
GGGCTAACTCTAGTATTTAATTTCTTTCCTGAGTCAGTTGCATTCCATATCTTCTCAATGTTCGA
GTTACCAACATTTAGTAGATTTTGAAACCTT
Found at i:96630435 original size:11 final size:11
Alignment explanation
Indices: 96630390--96630443 Score: 54
Period size: 11 Copynumber: 4.5 Consensus size: 11
96630380 ATTATACATA
96630390 AATTTTAATTT
1 AATTTTAATTT
*
96630401 AATATATAATATT
1 AAT-TTTAAT-TT
96630414 ATATATTTAATTT
1 A-AT-TTTAATTT
*
96630427 AATTTTAATTC
1 AATTTTAATTT
96630438 AATTTT
1 AATTTT
96630444 CACAATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
11 16 0.43
12 7 0.19
13 6 0.16
14 8 0.22
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTAATTT
Found at i:96649347 original size:28 final size:29
Alignment explanation
Indices: 96649299--96649353 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
96649289 AGTCTTTTAA
* *
96649299 ATTTATTTTTATTATTTTAAATGAATATT
1 ATTTATTTTTATTATTATAAATAAATATT
96649328 ATTTATTTTTA-TATTATAAATAAATA
1 ATTTATTTTTATTATTATAAATAAATA
96649354 AGTTAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
ATTTATTTTTATTATTATAAATAAATATT
Found at i:96653732 original size:3 final size:3
Alignment explanation
Indices: 96653724--96653748 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
96653714 ACAAAGATAT
96653724 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
96653749 ATAAAGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:96655543 original size:18 final size:18
Alignment explanation
Indices: 96655509--96655804 Score: 195
Period size: 18 Copynumber: 16.1 Consensus size: 18
96655499 TCATTAACAA
* *
96655509 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* *
96655526 TCAGTGACAATCACTTAT
1 TCAGTAACAATCAATTAT
*
96655544 TCCGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
96655562 TCAATAATAA-CTATTTAT
1 TCAGTAACAATC-AATTAT
*
96655580 TCAGTATCGATCAATTAATCGGTTAT
1 TCAGTA---A-CAATCAA----TTAT
* *
96655606 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
96655624 TTAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
* *
96655641 TCAGTAGCAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
* *
96655660 TCAGTAACAGTCATTTAT
1 TCAGTAACAATCAATTAT
* *
96655678 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
96655696 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
96655714 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
* *
96655732 TCAGTAACAGTCTATTAT
1 TCAGTAACAATCAATTAT
* *
96655750 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
*
96655768 TCGGTAACAATCAATTAT
1 TCAGTAACAATCAATTAT
* *
96655786 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
96655804 T
1 T
96655805 TTATACCTTT
Statistics
Matches: 215, Mismatches: 49, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 18 0.08
18 165 0.77
19 13 0.06
21 1 0.00
22 8 0.04
23 1 0.00
26 9 0.04
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:96655737 original size:72 final size:72
Alignment explanation
Indices: 96655602--96655804 Score: 241
Period size: 72 Copynumber: 2.8 Consensus size: 72
96655592 AATTAATCGG
* * ** *
96655602 TTATCCAGTAACAGTCAATTATTTAGTAA-AATCAGA-TATTCAGTAGCAATTAAGTTATTCAGT
1 TTATCCAGTAACAATCAATTATTCAGTAACAATCA-ATTATTCAGTAATAA-TCAGTTATTCAGT
96655665 AACAGTC-A
64 AACAGTCTA
* * * ** *
96655673 TTTATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTA
1 -TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATTCAGTA
96655738 ACAGTCTA
65 ACAGTCTA
* *
96655746 TTATCCAGTAACAGTCAATTATTCGGTAACAATCAATTATTCAGTAATAATCAGTTATT
1 TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATT
96655805 TTATACCTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
72 95 0.86
73 15 0.14
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (72 bp):
TTATCCAGTAACAATCAATTATTCAGTAACAATCAATTATTCAGTAATAATCAGTTATTCAGTAA
CAGTCTA
Found at i:96656061 original size:45 final size:45
Alignment explanation
Indices: 96655977--96656076 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
96655967 GAACAGTGAT
**
96655977 AGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGATAAC
* * * *
96656022 GGTAATAGTAACAGTATTCGACACACAAAGTGCCAAATCGGTAAC
1 AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGATAAC
96656067 AGTAACAGTA
1 AGTAACAGTA
96656077 GTCGGCACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
AGTAACAGTAACAGTATTCAACACACAAAGTGCCAAATCGATAAC
Found at i:96656064 original size:39 final size:39
Alignment explanation
Indices: 96655978--96656093 Score: 117
Period size: 45 Copynumber: 2.8 Consensus size: 39
96655968 AACAGTGATA
* *
96655978 GTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGATAACG
1 GTAACAGTAACAGTATTCGACACACAAAGTGC-CAA---AT--CG
*
96656023 GTAATAGTAACAGTATTCGACACACAAAGTGCCAAATCG
1 GTAACAGTAACAGTATTCGACACACAAAGTGCCAAATCG
* * *
96656062 GTAACAGTAACAGTAGTCGGCACA-TAAGTGCC
1 GTAACAGTAACAGTATTCGACACACAAAGTGCC
96656094 TGATCAGTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
38 7 0.11
39 23 0.36
41 2 0.03
44 2 0.03
45 30 0.47
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (39 bp):
GTAACAGTAACAGTATTCGACACACAAAGTGCCAAATCG
Found at i:96657208 original size:25 final size:27
Alignment explanation
Indices: 96657171--96657223 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
96657161 TCAAACATGC
96657171 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
96657197 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
96657223 A
1 A
96657224 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:96658742 original size:32 final size:32
Alignment explanation
Indices: 96658705--96658769 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
96658695 AATGCTTACC
96658705 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
96658737 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
96658769 A
1 A
96658770 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:96659197 original size:22 final size:22
Alignment explanation
Indices: 96659155--96659197 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
96659145 TTATTCACTT
* *
96659155 TTCAGTATAATTTCTATTTTAG
1 TTCAGTATAATTTATAATTTAG
96659177 TTCAGTATCAA-TTATAATTTA
1 TTCAGTAT-AATTTATAATTTA
96659198 CTTTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (22 bp):
TTCAGTATAATTTATAATTTAG
Found at i:96659619 original size:13 final size:13
Alignment explanation
Indices: 96659599--96659636 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
96659589 CCTTTTCTCC
96659599 CTTT-CTTTCTTT
1 CTTTCCTTTCTTT
96659611 CTTTCCTTTCTTT
1 CTTTCCTTTCTTT
*
96659624 CTCTCCTGTTCTT
1 CTTTCCT-TTCTT
96659637 CTCTGTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.17
13 14 0.61
14 5 0.22
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.66
Consensus pattern (13 bp):
CTTTCCTTTCTTT
Found at i:96659638 original size:13 final size:13
Alignment explanation
Indices: 96659603--96659640 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
96659593 TTCTCCCTTT
*
96659603 CTTTCTTTCTTTC
1 CTTTCTTTCTCTC
96659616 CTTTCTTTCTCTC
1 CTTTCTTTCTCTC
96659629 CTGTTC-TTCTCT
1 CT-TTCTTTCTCT
96659641 GTTTCGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 20 0.87
14 3 0.13
ACGTcount: A:0.00, C:0.34, G:0.03, T:0.63
Consensus pattern (13 bp):
CTTTCTTTCTCTC
Found at i:96659705 original size:8 final size:9
Alignment explanation
Indices: 96659669--96659702 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
96659659 TTTCTTTTTC
*
96659669 ATTTCTTTT
1 ATTTCATTT
96659678 ATTTCATTT
1 ATTTCATTT
96659687 ATTT-ATTT
1 ATTTCATTT
96659695 ATTTCATT
1 ATTTCATT
96659703 ATTAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTCATTT
Found at i:96661859 original size:14 final size:15
Alignment explanation
Indices: 96661832--96661860 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
96661822 GAAACACTGG
96661832 CTTTGTCTTTTATTC
1 CTTTGTCTTTTATTC
96661847 CTTTGTC-TTTATTC
1 CTTTGTCTTTTATTC
96661861 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.07, C:0.21, G:0.07, T:0.66
Consensus pattern (15 bp):
CTTTGTCTTTTATTC
Found at i:96663225 original size:29 final size:30
Alignment explanation
Indices: 96663182--96663248 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
96663172 GGCCCAAGAA
*
96663182 TAAATACTCAAAATTTGAAGGATTAA-AGTG
1 TAAATA-TCAAAATTTGAAGGACTAATAGTG
*
96663212 TAAATATGAAAATTTGAAGGACTAATAGTG
1 TAAATATCAAAATTTGAAGGACTAATAGTG
*
96663242 AAAATAT
1 TAAATAT
96663249 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.30
Consensus pattern (30 bp):
TAAATATCAAAATTTGAAGGACTAATAGTG
Found at i:96663895 original size:840 final size:836
Alignment explanation
Indices: 96662207--96663856 Score: 2322
Period size: 848 Copynumber: 2.0 Consensus size: 836
96662197 ATTATCCTTG
* *
96662207 ATATAGTAAAATAAGGAAATAAAGTGAAAAAAAGGGAAATTTTGAGTTATGTCAACATTGGGGAG
1 ATATAGTAAAATAAGGAAATAAAGTGAAAAAAAGAGAAATTTTGAGTTATGTCAACATTGGGAAG
* * * * *
96662272 TATATTATGATATATTAATTCAAGAAATGAGTAAATTGTAAAAGTGGAAAAAGTTTTGTTGTATA
66 TATATTATGACATATTAATTCAAGAAATGAGTAAATTGTAAAAGTGGAAAAAGTTTTATGGCACA
*
96662337 AGAGTAAATACTCAAAATTTAAGGAGTTAAAGTGTAAATATGAAAAAGTTGAAGGACTAATAGTG
131 AGAATAAATACTCAAAATTTAAGGAGTTAAAGTGTAAATATGAAAAAGTTGAAGGACTAATAGTG
* * *
96662402 TAAATATTTTAAGGGTGGAATGATCTAGAAACTAAGGAAAATGGATGAATTAGGACCAAATTGAA
196 AAAATATTTTAAGGGTGGAATGATCTAGAAACCAAGAAAAATGGATGAATTAGGACCAAATTGAA
*
96662467 TAGGTGAAGAATTATAATGGACTAAATTACAATTTTACCAAATTTAAATGATGACTCAAGATGAA
261 TAGGTGAAGAATTATAAGGGACTAAATTACAATTTTACCAAATTTAAATGATGACTCAAGATGAA
* * **
96662532 ATTTTAAAAGATCATAAAGGGCAAAATGGTCAATTAGAAGGAGAGAGAAATTTAGAAGGTAATGA
326 ATTTTAAAAGATCACAAAGGGCAAAATGGTCAATTAGAAGGAGAGAGAAATCTAGAAGACAATGA
* *
96662597 TGATGTTGAAGATATTTTAGATTAAATAAATAAATATTAGTTTATTAATATTTTAATTTGATTTT
391 TGATGTTGAAGATATTTTAGATTAAATAAATAAATATTAGTTTATTAATATTTAAAATTGATTTT
* *
96662662 TAAATGATATTTTATTATTTTATTATTATTTTATTTAGTATATATAAGGAAAGAAAGATGAAGAG
456 TAAATGATATTTTATTATTTTATTATTATTTTATTTAATATATATAAGGAAAGAAAGAGGAAGAG
* ** *
96662727 CCATCATCTTTTTCCCATGCACCCAACGTATGAAGAGAAAAGAAAGAAAGAAACTTTATTTCTTT
521 ACATCATCCCTTTCCCATGCAACCAACGTATGAAGAGAAAAGAAAGAAAGAAACTTTATTTCTTT
* * * *
96662792 TACAATTTGGTCCTTTCACAAAAAATCCACCATTTTCACTTAGAAATCAAAAGAATTTCCATAGC
586 TACAATTTAGTCCTTCCACAAAAAATCCACCATTTTCACCTAAAAATCAAAAGAATTTCCATAGC
* * * *
96662857 CATCAAGAGAGAAAGATGACAAGGAGACTATGGGGAGCTAGAATATCAAGTTAGAATCAAGAAAT
651 CATCAAGAGACAAAGATAACAAGGAGACTACGGGGAGCAAGAATATCAAGTTAGAATCAAGAAAT
* * *
96662922 AGAAGCTGGAGGAGAGAGAAAATCAAGTTAGAGATTGAAATCAATAGAACAAGGTGAGAATATCA
716 AGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGAACAAGGTAAGAACATCA
***
96662987 AGATTTCAATATATTTTTAAGTGTAATACCCGAAAATTTTTATAGTAAAATATTATCCGT
781 AGATTTCAATATATTTTTAAGTGTAATA-CCGAAAA-TAGCATAGTAAAATA-TAT-CGT
* *
96663047 GATATAGTAAAATAAGGAAATAAAGTGACAAAAAGAGAAATTTTGAGTTATGTCAATATTGGGAA
1 -ATATAGTAAAATAAGGAAATAAAGTGAAAAAAAGAGAAATTTTGAGTTATGTCAACATTGGGAA
* *
96663112 GTATATTATGACATATTGATTCAAGAAA-GAATTAAATTGTAAAAGT-GAGAAAAGTTTTATGGC
65 GTATATTATGACATATTAATTCAAGAAATG-AGTAAATTGTAAAAGTGGA-AAAAGTTTTATGGC
* *
96663175 CCAAGAATAAATACTCAAAATTTGAAGGA-TTAAAGTGTAAATATG-AAAATTTGAAGGACTAAT
128 ACAAGAATAAATACTCAAAATTT-AAGGAGTTAAAGTGTAAATATGAAAAAGTTGAAGGACTAAT
*
96663238 AGTGAAAATATTTTAAGGGTGGAATGATCTAGAAACCAAGAAAAATTGATGAATTAGGACCAAAT
192 AGTGAAAATATTTTAAGGGTGGAATGATCTAGAAACCAAGAAAAATGGATGAATTAGGACCAAAT
* * *
96663303 TGAATAGGTGAAGAATTATGAGGGACTAAATTGCAATTTTACCAAA-TTAAGTGATGACTCAAGA
257 TGAATAGGTGAAGAATTATAAGGGACTAAATTACAATTTTACCAAATTTAAATGATGACTCAAG-
* * *
96663367 ATGGAATTTTACAAGATCACAAAGGGCAAAATGGTCAATTGGAA-GAGAGAGAAATCTAG-AGAC
321 ATGAAATTTTAAAAGATCACAAAGGGCAAAATGGTCAATTAGAAGGAGAGAGAAATCTAGAAGAC
*
96663430 AATGATGATGTTGGAGATATTTTAGATAAATTAAATAAATAAATATTAGTTTATTAATACTTTAA
386 AATGATGATGTTGAAGATATTTTAG----ATTAAATAAATAAATATTAGTTTATTAATA-TTTAA
96663495 AATTGATTTTTAAATGATATTTTATTATTTTATTATTATTTTATTTAATATACATATGTAAGGAA
446 AATTGATTTTTAAATGATATTTTATTATTTTATTATTATTTTATTTAATAT--ATA--TAAGGAA
* * * * *
96663560 AGAAAGGGGAAGATGACATGATCACCTTTCTCATGCAACTAACGTGA-GAAGA-AGAAG-AAGAA
507 AGAAAGAGGAAGA-GACATCATC-CCTTTCCCATGCAACCAACGT-ATGAAGAGAAAAGAAAGAA
* * * * **
96663622 AGAAAGTTT-TCCTT-TTCTTACAATTTAGTCCTTCCTCCAAAAATTCATTATTTTCACCTAAAA
569 AGAAACTTTAT--TTCTT-TTACAATTTAGTCCTTCCACAAAAAATCCACCATTTTCACCTAAAA
**
96663685 ATTGAAAGAATTTCCATAGCCATCAAGAGACAAAGATAACAAGGAGA-TGACGGGGAGCAAGAAT
631 ATCAAAAGAATTTCCATAGCCATCAAGAGACAAAGATAACAAGGAGACT-ACGGGGAGCAAGAAT
* * *
96663749 ATCAAGTTGGATTCAAGAAATAGAAGCTGGAGGAGAGAGAAAAATCAAGTTAAAGATTGAAGTCA
695 ATCAAGTTAGAATCAAGAAATAGAAGCTGGAGGAGAGAG-AAAATCAAGTTAAAGATTGAAATCA
* *
96663814 ATAAGAA-AAGGTAAGTACAT-AAGATTTCAATATGTTTTTAAGT
759 AT-AGAACAAGGTAAGAACATCAAGATTTCAATATATTTTTAAGT
96663857 TTGTTATTAT
Statistics
Matches: 720, Mismatches: 67, Indels: 37
0.87 0.08 0.04
Matches are distributed among these distances:
838 26 0.04
839 30 0.04
840 164 0.23
841 148 0.21
842 35 0.05
843 53 0.07
845 3 0.00
846 1 0.00
847 34 0.05
848 165 0.23
849 56 0.08
850 5 0.01
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (836 bp):
ATATAGTAAAATAAGGAAATAAAGTGAAAAAAAGAGAAATTTTGAGTTATGTCAACATTGGGAAG
TATATTATGACATATTAATTCAAGAAATGAGTAAATTGTAAAAGTGGAAAAAGTTTTATGGCACA
AGAATAAATACTCAAAATTTAAGGAGTTAAAGTGTAAATATGAAAAAGTTGAAGGACTAATAGTG
AAAATATTTTAAGGGTGGAATGATCTAGAAACCAAGAAAAATGGATGAATTAGGACCAAATTGAA
TAGGTGAAGAATTATAAGGGACTAAATTACAATTTTACCAAATTTAAATGATGACTCAAGATGAA
ATTTTAAAAGATCACAAAGGGCAAAATGGTCAATTAGAAGGAGAGAGAAATCTAGAAGACAATGA
TGATGTTGAAGATATTTTAGATTAAATAAATAAATATTAGTTTATTAATATTTAAAATTGATTTT
TAAATGATATTTTATTATTTTATTATTATTTTATTTAATATATATAAGGAAAGAAAGAGGAAGAG
ACATCATCCCTTTCCCATGCAACCAACGTATGAAGAGAAAAGAAAGAAAGAAACTTTATTTCTTT
TACAATTTAGTCCTTCCACAAAAAATCCACCATTTTCACCTAAAAATCAAAAGAATTTCCATAGC
CATCAAGAGACAAAGATAACAAGGAGACTACGGGGAGCAAGAATATCAAGTTAGAATCAAGAAAT
AGAAGCTGGAGGAGAGAGAAAATCAAGTTAAAGATTGAAATCAATAGAACAAGGTAAGAACATCA
AGATTTCAATATATTTTTAAGTGTAATACCGAAAATAGCATAGTAAAATATATCGT
Found at i:96665320 original size:46 final size:46
Alignment explanation
Indices: 96665269--96665678 Score: 558
Period size: 46 Copynumber: 8.9 Consensus size: 46
96665259 GTGTGCTCTC
* *
96665269 TGATATGAAATGTATAAGACTATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CG
**
96665315 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CG
* **
96665361 TGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
96665407 TGATATGAAATGAATAAGACCATGGTTGAAAGATATCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
***
96665453 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
96665499 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
***
96665545 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
96665591 TGATATGAAATGAATAAGACTATGGTTGAAAGATACCATGACAAC-
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
96665636 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
96665679 TCATGTCAAA
Statistics
Matches: 329, Mismatches: 33, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 35 0.11
46 293 0.89
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:96665985 original size:16 final size:16
Alignment explanation
Indices: 96665964--96666012 Score: 89
Period size: 16 Copynumber: 3.0 Consensus size: 16
96665954 ATGATGGAGC
96665964 ATGAAATATTGATATA
1 ATGAAATATTGATATA
96665980 ATGAAATATTGATATA
1 ATGAAATATTGATATA
96665996 ATGAAATGATTGATATA
1 ATGAAAT-ATTGATATA
96666013 TACTTATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 23 0.72
17 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (16 bp):
ATGAAATATTGATATA
Found at i:96666228 original size:43 final size:42
Alignment explanation
Indices: 96666167--96666308 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 42
96666157 TATTTTTAAA
96666167 AAACGCCGCTAAAGGTCATAGCCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAT-GCCTTTAGCGACGCTTTTCCCAC
* *
96666210 AAACGCCGCTAAAGGTCATGGCCTTTAGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCAT-GCCTTTAGCGACGCTTTTCCCAC
* * * * *
96666253 AAACGCTGCTAAAAGTCGTGACCTTTAAC-AGTGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATG-CCTTTAGCGA-CGCTTTTCCCAC
*
96666296 AAACACCGCTAAA
1 AAACGCCGCTAAA
96666309 AGTCGTGAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 84 0.99
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (42 bp):
AAACGCCGCTAAAGGTCATGCCTTTAGCGACGCTTTTCCCAC
Found at i:96666374 original size:17 final size:20
Alignment explanation
Indices: 96666339--96666374 Score: 51
Period size: 17 Copynumber: 1.9 Consensus size: 20
96666329 ATATATTATA
96666339 AAAATATTATAAATGTCATG
1 AAAATATTATAAATGTCATG
96666359 AAAA-ATTA-AAAT-TCAT
1 AAAATATTATAAATGTCAT
96666375 TATCAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
17 4 0.25
18 4 0.25
19 4 0.25
20 4 0.25
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (20 bp):
AAAATATTATAAATGTCATG
Found at i:96666583 original size:12 final size:12
Alignment explanation
Indices: 96666568--96666642 Score: 69
Period size: 12 Copynumber: 6.1 Consensus size: 12
96666558 CTCAAGTTAT
*
96666568 TAAATATTAAAA
1 TAAAAATTAAAA
*
96666580 TAAAAATAAAAA
1 TAAAAATTAAAA
*
96666592 TAAAAATAAAAA
1 TAAAAATTAAAA
*
96666604 TAAAAATATAGAA
1 TAAAAAT-TAAAA
* *
96666617 TCAAAACTAAAA
1 TAAAAATTAAAA
*
96666629 TAAATAATAAAAA
1 TAAA-AATTAAAA
96666642 T
1 T
96666643 TAGATTAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
12 36 0.71
13 15 0.29
ACGTcount: A:0.73, C:0.03, G:0.01, T:0.23
Consensus pattern (12 bp):
TAAAAATTAAAA
Found at i:96666587 original size:6 final size:6
Alignment explanation
Indices: 96666576--96666670 Score: 84
Period size: 6 Copynumber: 15.5 Consensus size: 6
96666566 ATTAAATATT
* *
96666576 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA TAGAATCA AAACT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA -AAAAT-A AAAATA
* * * * * *
96666625 AAAATA AATAATA AAAATT AGATTA AATATA AAGATA TAAATA AAA
1 AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
96666671 TACAGCAAGT
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
5 4 0.06
6 52 0.74
7 13 0.19
8 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:96666628 original size:32 final size:31
Alignment explanation
Indices: 96666587--96666646 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
96666577 AAATAAAAAT
96666587 AAAAATAAAAATAAA-AATAAAAATATAGAATC
1 AAAAAT-AAAATAAATAATAAAAAT-TAGAATC
*
96666619 AAAACTAAAATAAATAATAAAAATTAGA
1 AAAAATAAAATAAATAATAAAAATTAGA
96666647 TTAAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (31 bp):
AAAAATAAAATAAATAATAAAAATTAGAATC
Found at i:96670738 original size:36 final size:36
Alignment explanation
Indices: 96670695--96670764 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
96670685 CAACTTAGCC
*
96670695 GTTCCTTCTATTTCTTCTTTCTGTTTCAGTTTAGTT
1 GTTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAGTT
*
96670731 GTTCCTTCTGTTTCTTCCTTCTGTTTCAGTTTAG
1 GTTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAG
96670765 CTGCTTCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.07, C:0.21, G:0.13, T:0.59
Consensus pattern (36 bp):
GTTCCTTCTATTTCTTCCTTCTGTTTCAGTTTAGTT
Found at i:96670750 original size:13 final size:13
Alignment explanation
Indices: 96670732--96670757 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96670722 AGTTTAGTTG
96670732 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
96670745 TTCCTTCTGTTTC
1 TTCCTTCTGTTTC
96670758 AGTTTAGCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.31, G:0.08, T:0.62
Consensus pattern (13 bp):
TTCCTTCTGTTTC
Found at i:96671524 original size:24 final size:24
Alignment explanation
Indices: 96671492--96671537 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
96671482 GATTCACCGA
96671492 TAAACCATGTGAATACTTTAGCTC
1 TAAACCATGTGAATACTTTAGCTC
96671516 TAAACCATGTGAATACTTTAGC
1 TAAACCATGTGAATACTTTAGC
96671538 AATGCCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (24 bp):
TAAACCATGTGAATACTTTAGCTC
Found at i:96676723 original size:120 final size:120
Alignment explanation
Indices: 96676511--96677511 Score: 1891
Period size: 120 Copynumber: 8.4 Consensus size: 120
96676501 TTTGATGTTC
96676511 AAATTATATAGTTTAATTAAAATATATTTAAT-ATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
96676575 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
96676630 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
*
96676695 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
96676750 AAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
96676814 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
96676869 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
*
96676934 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
*
96676989 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
96677054 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
96677109 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
*
96677174 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
*
96677229 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
* *
96677294 TATATTATGGTTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
*
96677349 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
*
96677414 TATATTATG-TTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
*
96677468 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTT
96677512 TAAATATGAT
Statistics
Matches: 869, Mismatches: 11, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
119 239 0.28
120 630 0.72
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATT
Found at i:96676762 original size:17 final size:17
Alignment explanation
Indices: 96676742--96676775 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
96676732 ATTATTAAGA
* *
96676742 ATTTCATTAAATTATAT
1 ATTTAATTAAAATATAT
96676759 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
96676776 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:96677369 original size:18 final size:17
Alignment explanation
Indices: 96677341--96677375 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96677331 ATTATTAAGA
*
96677341 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96677358 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96677376 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:96677440 original size:479 final size:479
Alignment explanation
Indices: 96676511--96677511 Score: 1925
Period size: 479 Copynumber: 2.1 Consensus size: 479
96676501 TTTGATGTTC
*
96676511 AAATTATATAGTTTAATTAAAATATATTTAAT-ATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
96676575 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
96676640 GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
131 GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
96676705 TTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTAATTAAA
196 TTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTAATTAAA
*
96676770 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
261 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
96676835 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
326 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
*
96676900 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
391 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
96676965 ATATTAATTATTAAGAATTTCATT
456 ATATTAATTATTAAGAATTTCATT
96676989 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
96677054 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
66 TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
96677119 GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
131 GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
96677184 TTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAA
196 TTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATA-TTTAATTAA
*
96677249 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGGTTTCAGTAAA
260 AATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAA
*
96677314 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTA
325 TTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTA
96677379 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG-TTTCAGTAAATTAATATAAG
390 ATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAG
*
96677443 AATATTAATTATTAAGAATTTTATT
455 AATATTAATTATTAAGAATTTCATT
96677468 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
96677512 TAAATATGAT
Statistics
Matches: 515, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
478 31 0.06
479 304 0.59
480 180 0.35
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (479 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCA
TATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
GTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGA
TTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTAATTAAA
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTCATT
Found at i:96677488 original size:18 final size:17
Alignment explanation
Indices: 96677460--96677494 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96677450 ATTATTAAGA
*
96677460 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
96677477 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
96677495 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:96677724 original size:44 final size:45
Alignment explanation
Indices: 96677659--96677749 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
96677649 ACCTCTATTC
* * *
96677659 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
96677703 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
96677748 CA
1 CA
96677750 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:96677751 original size:16 final size:16
Alignment explanation
Indices: 96677730--96677798 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
96677720 GATTAGCTAT
96677730 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
96677746 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
96677763 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
96677779 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
96677795 TACA
1 TACA
96677799 GCGAACTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:96677772 original size:33 final size:32
Alignment explanation
Indices: 96677730--96677798 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
96677720 GATTAGCTAT
96677730 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
96677763 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
96677795 TACA
1 TACA
96677799 GCGAACTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:96679008 original size:22 final size:21
Alignment explanation
Indices: 96678963--96679028 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 21
96678953 AAACTCCAAC
96678963 CATAACCCTTAAACCCTAAAT
1 CATAACCCTTAAACCCTAAAT
96678984 CATAATCCC-TAAACCCATAATTCAT
1 CATAA-CCCTTAAACCC-TAA---AT
*
96679009 CATAAACCTTAAACCCTAAA
1 CATAACCCTTAAACCCTAAA
96679029 CTATATATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
21 13 0.34
22 6 0.16
24 5 0.13
25 14 0.37
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
CATAACCCTTAAACCCTAAAT
Found at i:96679021 original size:25 final size:21
Alignment explanation
Indices: 96678963--96679064 Score: 80
Period size: 21 Copynumber: 4.7 Consensus size: 21
96678953 AAACTCCAAC
*
96678963 CATAACCCTTAAACCCTAAAT
1 CATAAACCTTAAACCCTAAAT
* *
96678984 CATAATCCCTAAACCCATAATTCAT
1 CATAAACCTTAAACCC-TAA---AT
96679009 CATAAACCTTAAACCCTAAA-
1 CATAAACCTTAAACCCTAAAT
* * * *
96679029 CTATATATCTTAAACCATAAAC
1 C-ATAAACCTTAAACCCTAAAT
*
96679051 CTTAAACCTTAAAC
1 CATAAACCTTAAAC
96679065 TATAATGATA
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.02
21 41 0.63
22 4 0.06
24 3 0.05
25 16 0.25
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (21 bp):
CATAAACCTTAAACCCTAAAT
Found at i:96679023 original size:7 final size:7
Alignment explanation
Indices: 96679011--96679064 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
96679001 TAATTCATCA
96679011 TAAACCT
1 TAAACCT
*
96679018 TAAACCC
1 TAAACCT
96679025 TAAA-CT
1 TAAACCT
* *
96679031 ATATATCT
1 -TAAACCT
*
96679039 TAAACCA
1 TAAACCT
96679046 TAAACCT
1 TAAACCT
96679053 TAAACCT
1 TAAACCT
96679060 TAAAC
1 TAAAC
96679065 TATAATGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
6 1 0.03
7 35 0.92
8 2 0.05
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (7 bp):
TAAACCT
Found at i:96679321 original size:40 final size:41
Alignment explanation
Indices: 96679226--96679346 Score: 165
Period size: 41 Copynumber: 3.0 Consensus size: 41
96679216 GTTATATGAA
*
96679226 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
* *
96679267 TTTTAGCAGTGTTTTACCAAAAGCGCCGCTAATGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
* *
96679307 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCTG
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTG
96679347 TGTTTTACAA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
40 10 0.14
41 50 0.71
42 10 0.14
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGAT
Found at i:96681267 original size:45 final size:46
Alignment explanation
Indices: 96681213--96681481 Score: 247
Period size: 46 Copynumber: 5.9 Consensus size: 46
96681203 ATCATACCAG
* * ***
96681213 AAATAAGTAAGACCATAGTTGAAAGACACTATGGCATCATGA-TTT
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATGACAGC
* * * * * ** **
96681258 AGACGAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGA-TTC
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATGACAGC
* * * *
96681303 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGC
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATGACAGC
* * * *
96681349 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAAT-ATGACAGT
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGC-ATCATGACAGC
* * * * *
96681395 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGA
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATGACAGC
* *
96681441 AAATGAGTAAGACCATAGTTGAAACACACTATGGCATCATG
1 AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATG
96681482 TCGAAGATAA
Statistics
Matches: 188, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
45 69 0.37
46 118 0.63
47 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (46 bp):
AAATGAGTAAGACCATAGTTGAAAGACACCATGGCATCATGACAGC
Found at i:96681363 original size:46 final size:46
Alignment explanation
Indices: 96681310--96681499 Score: 265
Period size: 46 Copynumber: 4.2 Consensus size: 46
96681300 TTCAAATGTG
*
96681310 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGCAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* *
96681356 TAAGACCATGGTTGAAAGATACCATGGCAATATGACAGTAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
*
96681402 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
* * * * * * * *
96681448 TAAGACCATAGTTGAAACACACTATGGCATCATGTC-GAAGATAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
96681493 TAAGACC
1 TAAGACC
96681500 GTGGATGGGA
Statistics
Matches: 130, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
45 13 0.10
46 117 0.90
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAA
Found at i:96685511 original size:68 final size:64
Alignment explanation
Indices: 96685272--96685525 Score: 194
Period size: 68 Copynumber: 3.9 Consensus size: 64
96685262 AGTTCGGCTT
* * * * * *
96685272 TCTTGTACACATG--GTGAACACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCT
1 TCTTGTACACATGATGTGCACA-T-AGCACCACACATGTGACCTAGCTACATATATCCCGTAGCT
96685334 C
64 C
* * * * * *
96685335 TCTTGT-CTACATGGTGTCCTTCACCTGGAACCACGCATGTGACCTAGCTACATATATCCCGTAG
1 TCTTGTAC-ACATGATG---TGCACATAGCACCACACATGTGACCTAGCTACATATATCCCGTAG
96685399 CTC
62 CTC
* * * * **
96685402 TCTTGTACACATGATGTGCACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAG
1 TCTTGTACACATGATGTGCACATAGCACCACACATGTGACCTAGCTACAT-AT-A--TCCCGTAG
96685467 CTC
62 CTC
*
96685470 TCTTGTACACATGATGTGCAC-TCAGCACCATACATGTGACCTAGCTACATACTATC
1 TCTTGTACACATGATGTGCACAT-AGCACCACACATGTGACCTAGCTACATA-TATC
96685526 TGTATCATCC
Statistics
Matches: 153, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
62 1 0.01
63 11 0.07
64 27 0.18
65 5 0.03
66 21 0.14
67 31 0.20
68 57 0.37
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (64 bp):
TCTTGTACACATGATGTGCACATAGCACCACACATGTGACCTAGCTACATATATCCCGTAGCTC
Found at i:96689636 original size:13 final size:13
Alignment explanation
Indices: 96689618--96689659 Score: 84
Period size: 13 Copynumber: 3.2 Consensus size: 13
96689608 TATTAAGAAA
96689618 ATATTATTATATT
1 ATATTATTATATT
96689631 ATATTATTATATT
1 ATATTATTATATT
96689644 ATATTATTATATT
1 ATATTATTATATT
96689657 ATA
1 ATA
96689660 ATAAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:96689708 original size:21 final size:21
Alignment explanation
Indices: 96689684--96689724 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96689674 CTAGAAAATG
96689684 AGAGAAACAA-AGAAACGAAAC
1 AGAGAAACAATAG-AACGAAAC
*
96689705 AGAGAAAGAATAGAACGAAA
1 AGAGAAACAATAGAACGAAA
96689725 AAGAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.10, G:0.22, T:0.02
Consensus pattern (21 bp):
AGAGAAACAATAGAACGAAAC
Found at i:96689740 original size:21 final size:20
Alignment explanation
Indices: 96689692--96689740 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
96689682 TGAGAGAAAC
* *
96689692 AAAGAAACGAAACAGAGAAAG
1 AAAG-AACGAAAAAGAAAAAG
96689713 AATAGAACGAAAAAGAAAATAG
1 AA-AGAACGAAAAAGAAAA-AG
96689735 AAAGAA
1 AAAGAA
96689741 AAGAAGGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.69, C:0.06, G:0.20, T:0.04
Consensus pattern (20 bp):
AAAGAACGAAAAAGAAAAAG
Found at i:96692143 original size:39 final size:39
Alignment explanation
Indices: 96692100--96692178 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
96692090 TATGAATTAA
96692100 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
1 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
*
96692139 TTGAAAACTGAAAAGTGAATTAAATACTCTATTAACTAG
1 TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
96692178 T
1 T
96692179 CGGGCTAGTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (39 bp):
TTGAAAACTGAAAAGTGAATTAAATACCCTATTAACTAG
Found at i:96692349 original size:51 final size:51
Alignment explanation
Indices: 96692258--96692386 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 51
96692248 CAGACACTTA
* * * ** * *
96692258 TGTGCCGACTACTGTTACTGTTACCGTTATTGTTACCGATTCAGTCCTTTT
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAGTACTTTG
*
96692309 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTATCGATTCAGTACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAGTACTTTG
* * * *
96692360 GGTGTTGAATACTGCTACTGTTCCTGT
1 TGTGTCGAATACTGTTACTGTTACTGT
96692387 AACAGCCTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (51 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACCGTTACCGATTCAGTACTTTG
Found at i:96694097 original size:6 final size:6
Alignment explanation
Indices: 96694088--96694118 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
96694078 ACCGTACTAC
96694088 TACTGT TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT T
96694119 CCGGCTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:96694103 original size:18 final size:18
Alignment explanation
Indices: 96694082--96694118 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
96694072 CTGTGTACCG
96694082 TACTACTACTGTTACTGT
1 TACTACTACTGTTACTGT
**
96694100 TACTGTTACTGTTACTGT
1 TACTACTACTGTTACTGT
96694118 T
1 T
96694119 CCGGCTTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.49
Consensus pattern (18 bp):
TACTACTACTGTTACTGT
Found at i:96694426 original size:54 final size:54
Alignment explanation
Indices: 96694223--96694505 Score: 228
Period size: 54 Copynumber: 5.1 Consensus size: 54
96694213 AAAAGTATAA
* * * *
96694223 AATAACTGATTATTACTGAATAATTGACAGTTACCGGATAATTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * * * * * **
96694277 GAT-ATTAGACTGTTACTGAATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACT-GATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
* * * *
96694331 AATAACTGATTGTCACTGAATAAATGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAA-TTGATTGTTACTG
* * *
96694386 AATATCTGATT-TTACTGAATAATTGACTGTTACTGGATAACCGATAAATTGATCGATACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * * *
96694447 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
96694501 AATAA
1 AATAA
96694506 ATAATTGTTC
Statistics
Matches: 179, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
53 2 0.01
54 106 0.59
55 25 0.14
58 2 0.01
61 22 0.12
62 22 0.12
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (54 bp):
AATAACTGATTATTACTGAATAATTGACTGTTACTGAATAATTGATTGTTACTG
Found at i:96694503 original size:36 final size:36
Alignment explanation
Indices: 96694223--96694518 Score: 213
Period size: 36 Copynumber: 8.0 Consensus size: 36
96694213 AAAAGTATAA
* ** *
96694223 AATAACTGATTATTACTGAATAATTGACAGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * * * *
96694259 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATT-GATTGTTACTG
* * **
96694295 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
96694331 AATAACTGATTGTCACTGAATAAATGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
*
96694367 AATAACTTAATTGTTACTGAAT-ATCTGATT-TTACTG
1 AATAAC-TGATTGTTACTGAATAAT-TGATTGTTACTG
* * * *
96694403 AATAATTGACTGTTACTGGATAACCGATAAATTGATCGATACTG
1 AATAACTGATTGTTACT-G---A---AT-AATTGATTGTTACTG
* * * *
96694447 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
* * *
96694483 AATAACTGACTGTTACTGAATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTGAATAATTGATTGTTACTG
96694518 A
1 A
96694519 GTGTTAATGA
Statistics
Matches: 200, Mismatches: 46, Indels: 29
0.73 0.17 0.11
Matches are distributed among these distances:
35 15 0.08
36 135 0.68
37 22 0.11
39 1 0.00
40 1 0.00
42 2 0.01
43 5 0.03
44 19 0.09
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGATTGTTACTGAATAATTGATTGTTACTG
Found at i:96694514 original size:18 final size:18
Alignment explanation
Indices: 96694223--96694518 Score: 184
Period size: 18 Copynumber: 16.1 Consensus size: 18
96694213 AAAAGTATAA
*
96694223 AATAACTGATTATTACTG
1 AATAACTGATTGTTACTG
* ** *
96694241 AATAATTGACAGTTACCG
1 AATAACTGATTGTTACTG
* * *
96694259 GATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* * *
96694277 GAT-ATTAGACTGTTACTG
1 AATAACT-GATTGTTACTG
* *
96694295 AATAACTGAATATTACTG
1 AATAACTGATTGTTACTG
* **
96694313 AATAATTGATCATTACTG
1 AATAACTGATTGTTACTG
*
96694331 AATAACTGATTGTCACTG
1 AATAACTGATTGTTACTG
* *
96694349 AATAAATGACTGTTACTG
1 AATAACTGATTGTTACTG
*
96694367 AATAACTTAATTGTTACTG
1 AATAAC-TGATTGTTACTG
*
96694386 AATATCTGATT-TTACTG
1 AATAACTGATTGTTACTG
* *
96694403 AATAATTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
96694421 GATAACCGATAAATTGATCGATACTG
1 AATAA-C--T-GATTG-T---TACTG
* * *
96694447 AATAACTGGTTATTATTG
1 AATAACTGATTGTTACTG
* *
96694465 AATAATTGATTGTTACCG
1 AATAACTGATTGTTACTG
*
96694483 AATAACTGACTGTTACTG
1 AATAACTGATTGTTACTG
* *
96694501 AATAAATAATTGTT-CTG
1 AATAACTGATTGTTACTG
96694518 A
1 A
96694519 GTGTTAATGA
Statistics
Matches: 216, Mismatches: 50, Indels: 25
0.74 0.17 0.09
Matches are distributed among these distances:
17 21 0.10
18 159 0.74
19 17 0.08
21 2 0.01
22 5 0.02
23 2 0.01
25 1 0.00
26 9 0.04
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
AATAACTGATTGTTACTG
Found at i:96696732 original size:48 final size:48
Alignment explanation
Indices: 96696613--96696766 Score: 254
Period size: 48 Copynumber: 3.2 Consensus size: 48
96696603 TATGGTCTTA
96696613 CACATATTCACATATCGATGCCATAGCCCAACTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAACTATGGTCTTACACG-AAT
* *
96696663 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
* *
96696711 CACATATCACATATTGATGCCATAGCCCAACTATGGTTTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
96696759 CACATATC
1 CACATATC
96696767 TCACTGATGC
Statistics
Matches: 98, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 54 0.55
49 38 0.39
50 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAACTATGGTCTTACACGAAT
Found at i:96699012 original size:18 final size:19
Alignment explanation
Indices: 96698969--96699014 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
96698959 TAGCATATAG
*
96698969 GTAATTATATATAAAAAAT
1 GTAATAATATATAAAAAAT
*
96698988 GTTATAATA-ATAATAAAA-
1 GTAATAATATATAA-AAAAT
96699006 GTAATAATA
1 GTAATAATA
96699015 CAATAGTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
GTAATAATATATAAAAAAT
Found at i:96699207 original size:10 final size:11
Alignment explanation
Indices: 96699134--96699216 Score: 82
Period size: 11 Copynumber: 7.5 Consensus size: 11
96699124 TATTAAAAGC
96699134 ATATACATAAT
1 ATATACATAAT
96699145 ATATACATAAT
1 ATATACATAAT
* *
96699156 ATACAAAACAAAAT
1 AT---ATACATAAT
*
96699170 ATACACATAAT
1 ATATACATAAT
96699181 ATATTA-A-AAT
1 ATA-TACATAAT
96699191 ATATACATAAT
1 ATATACATAAT
96699202 AT-TACATAAT
1 ATATACATAAT
96699212 ATATA
1 ATATA
96699217 TAATGTTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 2 0.03
10 17 0.28
11 31 0.52
12 1 0.02
14 9 0.15
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATACATAAT
Found at i:96699212 original size:21 final size:21
Alignment explanation
Indices: 96699137--96699216 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 21
96699127 TAAAAGCATA
96699137 TACATAATATATACATAATAT
1 TACATAATATATACATAATAT
* * *
96699158 ACAAAACAAAATATACACATAATATAT
1 ----TACATAATATATACAT-A-ATAT
96699185 TA-A-AATATATACATAATAT
1 TACATAATATATACATAATAT
96699204 TACATAATATATA
1 TACATAATATATA
96699217 TAATGTTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
19 6 0.13
20 2 0.04
21 18 0.39
22 1 0.02
23 1 0.02
25 13 0.28
26 1 0.02
27 4 0.09
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
TACATAATATATACATAATAT
Found at i:96699441 original size:12 final size:12
Alignment explanation
Indices: 96699424--96699456 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
96699414 GTAATAAAGT
*
96699424 ATAATATTATGG
1 ATAATATTATGA
96699436 ATAATATTATGA
1 ATAATATTATGA
96699448 ATAATATTA
1 ATAATATTA
96699457 AAATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (12 bp):
ATAATATTATGA
Found at i:96700873 original size:44 final size:44
Alignment explanation
Indices: 96700772--96700886 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
96700762 TGCTTTACTG
*
96700772 CTCTACT-ACAACTTCAGAGAGATAAGGCTTGTAACTTCGACCTA
1 CTCTACTGA-AACTTCAGGGAGATAAGGCTTGTAACTTCGACCTA
* * * * * ** * *
96700816 CTCCATTGCAACTTTAGGGAGATAAGTCTTGTAGTTTCGATCTT
1 CTCTACTGAAACTTCAGGGAGATAAGGCTTGTAACTTCGACCTA
*
96700860 CTCTACTGAAACTTCAAGGAGATAAGG
1 CTCTACTGAAACTTCAGGGAGATAAGG
96700887 TTAATGGGTT
Statistics
Matches: 54, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCTACTGAAACTTCAGGGAGATAAGGCTTGTAACTTCGACCTA
Found at i:96700977 original size:88 final size:88
Alignment explanation
Indices: 96700882--96701062 Score: 263
Period size: 88 Copynumber: 2.1 Consensus size: 88
96700872 TTCAAGGAGA
* * *
96700882 TAAGGTTAATGGGTTCGATCTGCTCCACTACAATTTTAAGGAGAAAAGATTTGTAATTTCCAGCC
1 TAAGGTTAATGGCTTCGATCTGCTCCACTACAATTTCAAGGAGAAAAGATTTATAATTTCCAGCC
*
96700947 TGTTACCTTACTGCATAAGGGTT
66 TGTTACCCTACTGCATAAGGGTT
* * ** * *
96700970 TAAGGTTAATGGCTTCGATTTGCTCCACTGCAATTTCGGGGAGAAAAGATTTATAATTTTCAGCT
1 TAAGGTTAATGGCTTCGATCTGCTCCACTACAATTTCAAGGAGAAAAGATTTATAATTTCCAGCC
*
96701035 TGTTACCCTACTGCATAGGGGTT
66 TGTTACCCTACTGCATAAGGGTT
96701058 TAAGG
1 TAAGG
96701063 CCCATCTCCT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 82 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (88 bp):
TAAGGTTAATGGCTTCGATCTGCTCCACTACAATTTCAAGGAGAAAAGATTTATAATTTCCAGCC
TGTTACCCTACTGCATAAGGGTT
Found at i:96701146 original size:87 final size:86
Alignment explanation
Indices: 96701036--96701590 Score: 724
Period size: 87 Copynumber: 6.4 Consensus size: 86
96701026 TTTTCAGCTT
* *
96701036 GTTACCCTACTGCATAGGGGTTTAAGGCCCATC-TCCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGT-CTTCGATCTGTTTCCCTACTGCTTAGGGG
96701100 GTTAAGATCTTGTAAATTCAGCC
65 GTTAAGATC-TGTAAATTCAGCC
* * * ** *
96701123 ATTACCCTACTGTTTAGGGGTTTAAGGCCCATCAACCTCGATCTGTTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
96701188 TTAAGATCTGTAAATCTTCAGCC
66 TTAAGATCTGTAAA--TTCAGCC
* *
96701211 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCACTACTGCTTAGGGG
1 -GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
96701276 GTTAAGAT-T-TAGAAGTTCAGCC
65 GTTAAGATCTGTA-AA-TTCAGCC
** * *
96701298 TGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCATCTTTGATCTG-TTCCACTACTGCTTAGGG
1 -GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGG
* * * *
96701362 AGATAAGATCTGT-AATTCGGTCT
64 GGTTAAGATCTGTAAATTCAG-CC
* * * *
96701385 GTTACCCTACTGCTTAGAGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTATTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
96701450 TTAAGATCTGTAAATTTAGTCT
66 TTAAGATCTGTAAATTCAG-CC
*
96701472 GTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
96701537 TTAAGATCTGTAAATTCAGCGT
66 TTAAGATCTGTAAATTCAGC-C
*
96701559 GTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 GTTACCCTACTGCTTAGGGGTTTAAGGCCCTT
96701591 GTGAGTTCAT
Statistics
Matches: 414, Mismatches: 42, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
86 75 0.18
87 263 0.64
88 11 0.03
89 65 0.16
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (86 bp):
GTTACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
TTAAGATCTGTAAATTCAGCC
Found at i:96701476 original size:173 final size:172
Alignment explanation
Indices: 96701028--96701590 Score: 767
Period size: 173 Copynumber: 3.2 Consensus size: 172
96701018 ATTTATAATT
* * *
96701028 TTCAGCTTGTTACCCTACTGCATAGGGGTTTAAGGCCCATC-TCCTTCGATCTGTTTCCCTACTG
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT-CTTCGATCTGTTTCCCTACTG
** *
96701092 CTTAGGGGGTTAAGATCTTGTAAATTCAGCCATTACCCTACTGTTTAGGGGTTTAAGGCCCATCA
64 CTTAGGGGGTTAAGATC-TGTAAATTCAGCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCA
* *
96701157 ACCTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
128 TCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
*
96701202 TCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCACTACT
1 --TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACT
*
96701267 GCTTAGGGGGTTAAGAT-T-TAGAAGTTCAGCCTGTTACCCTACTATTTAGGGGTTTAAGGCCCT
63 GCTTAGGGGGTTAAGATCTGTA-AA-TTCAG-CTGTTACCCTACTGTTTAGGGGTTTAAGGCCCT
* * *
96701330 TCATCTTTGATCTG-TTCCACTACTGCTTAGGGAGATAAGATCTGT-AA
125 TCATCTTCGATCTGTTTCC-CTACTGCTTAGGGGGTTAAGATCTGTAAA
* * * *
96701377 TTCGGTCTGTTACCCTACTGCTTAGAGGTTTAAGACCCTTCGTCTTCAATCTGTTTCCCTATTGC
1 TTCAG-CTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGC
* * * *
96701442 TTAGGGGGTTAAGATCTGTAAATTTAGTCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGT
65 TTAGGGGGTTAAGATCTGTAAATTCAG-CTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCAT
96701507 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
129 CTTCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
* *
96701551 TTCAGCGTGTTACCCTACTGCTTAGGGATTTAAGGCCCTT
1 TTCAGC-TGTTACCCTACTGCTTAGGGGTTTAAGACCCTT
96701591 GTGAGTTCAT
Statistics
Matches: 344, Mismatches: 32, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
173 147 0.43
174 46 0.13
175 13 0.04
176 136 0.40
177 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (172 bp):
TTCAGCTGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCT
TAGGGGGTTAAGATCTGTAAATTCAGCTGTTACCCTACTGTTTAGGGGTTTAAGGCCCTTCATCT
TCGATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAA
Found at i:96701542 original size:44 final size:44
Alignment explanation
Indices: 96701035--96701542 Score: 328
Period size: 44 Copynumber: 11.6 Consensus size: 44
96701025 ATTTTCAGCT
* * * *
96701035 TGTTACCCTACTGCATAGGGGTTTAAGGCCCATC-TCCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGT-CTTCGATC
* * * *
96701079 TGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTT-GTAAATTC-AGC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGT--CTTCGATC
** * * * * ** *
96701122 CATTACCCTACTGTTTAGGGGTTTAAGGCCCATCAACCTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
* * ** *
96701166 TGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTGTAAATCTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCT-T-CGTCTTCGA-TC
*
96701211 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
* * * * ** *
96701255 TGTTTCACTACTGCTTAGGGGGTTAAGA--TTTAGAAGTTC-AGCC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCG-TCTTCGA-TC
** * * * *
96701298 TGTTACCCTACTATTTAGGGGTTTAAGGCCCTTCATCTTTGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
* * * * *
96701342 TGTT-CCACTACTGCTTAGGGAGATAAGA-TC-T-GTAATTCGGTC
1 TGTTACC-CTACTGCTTAGGGGGTTAAGACCCTTCGT-CTTCGATC
* * *
96701384 TGTTACCCTACTGCTTAGAGGTTTAAGACCCTTCGTCTTCAATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
* * * ** *
96701428 TGTTTCCCTATTGCTTAGGGGGTTAAGA-TCTGTAAAT-TTAG-TC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCT-T-CGTCTTCGATC
*
96701471 TGTTACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATC
1 TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
*
96701515 TGTTTCCCTACTGCTTAGGGGGTTAAGA
1 TGTTACCCTACTGCTTAGGGGGTTAAGA
96701543 TCTGTAAATT
Statistics
Matches: 340, Mismatches: 98, Indels: 52
0.69 0.20 0.11
Matches are distributed among these distances:
41 1 0.00
42 32 0.09
43 95 0.28
44 171 0.50
45 39 0.11
46 2 0.01
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (44 bp):
TGTTACCCTACTGCTTAGGGGGTTAAGACCCTTCGTCTTCGATC
Found at i:96714139 original size:10 final size:11
Alignment explanation
Indices: 96714066--96714156 Score: 71
Period size: 11 Copynumber: 8.0 Consensus size: 11
96714056 TATTAAAAGC
96714066 ATATACATAAT
1 ATATACATAAT
96714077 ATATACATAAT
1 ATATACATAAT
* *
96714088 ATACAAAACAAAAT
1 AT---ATACATAAT
*
96714102 ATACACATAAT
1 ATATACATAAT
96714113 ATATTA-A-AAT
1 ATA-TACATAAT
96714123 ATATACATAAT
1 ATATACATAAT
96714134 AT-TACATAGAAT
1 ATATACAT--AAT
*
96714146 ATATATATAAT
1 ATATACATAAT
96714157 GTTTAAAAAG
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
9 2 0.03
10 12 0.18
11 32 0.49
12 6 0.09
13 4 0.06
14 9 0.14
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (11 bp):
ATATACATAAT
Found at i:96714146 original size:23 final size:21
Alignment explanation
Indices: 96714074--96714156 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 21
96714064 GCATATACAT
*
96714074 AATATATACATAATATACAAAACAA
1 AATATATACATAATAT----AATAA
* *
96714099 AATATACACATAATATATTAA
1 AATATATACATAATATAATAA
*
96714120 AATATATACATAATATTACATAG
1 AATATATACATAATA-TA-ATAA
*
96714143 AATATATATATAAT
1 AATATATACATAAT
96714157 GTTTAAAAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 17 0.35
22 2 0.04
23 15 0.31
25 15 0.31
ACGTcount: A:0.58, C:0.08, G:0.01, T:0.33
Consensus pattern (21 bp):
AATATATACATAATATAATAA
Found at i:96724368 original size:23 final size:23
Alignment explanation
Indices: 96724338--96724386 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
96724328 ATTGAAACAA
96724338 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
96724361 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
96724384 CAT
1 CAT
96724387 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:96728727 original size:9 final size:9
Alignment explanation
Indices: 96728713--96728744 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
96728703 AACTTGGTGC
96728713 ATTTTGTTT
1 ATTTTGTTT
96728722 ATTTTGTTT
1 ATTTTGTTT
96728731 ATTTTGTTT
1 ATTTTGTTT
96728740 ATTTT
1 ATTTT
96728745 TAATATTTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.78
Consensus pattern (9 bp):
ATTTTGTTT
Found at i:96728852 original size:23 final size:23
Alignment explanation
Indices: 96728822--96728870 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
96728812 ATTGAAACAA
96728822 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
96728845 CATAATGATAGCTAATATGCTTT
1 CATAATGATAGCTAATATGCTTT
96728868 CAT
1 CAT
96728871 CTTTTTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (23 bp):
CATAATGATAGCTAATATGCTTT
Found at i:96747923 original size:22 final size:22
Alignment explanation
Indices: 96747898--96747945 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
96747888 AGGTACTTAA
96747898 TCTTCATTTTTTAGCTTTAATC
1 TCTTCATTTTTTAGCTTTAATC
* * *
96747920 TCTTCGTTTTTTATCTTTAATT
1 TCTTCATTTTTTAGCTTTAATC
96747942 TCTT
1 TCTT
96747946 GGGTTCCTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.65
Consensus pattern (22 bp):
TCTTCATTTTTTAGCTTTAATC
Found at i:96752280 original size:21 final size:19
Alignment explanation
Indices: 96752230--96752280 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
96752220 TTTTTTGTTT
96752230 TCCA-TTCTTTTCTACTTC
1 TCCATTTCTTTTCTACTTC
*
96752248 TCTC-TTTGTTTTCCTACCTTC
1 TC-CATTTCTTTT-CTA-CTTC
96752269 TCCATTTCTTTT
1 TCCATTTCTTTT
96752281 AACGTATTAG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
18 2 0.08
19 7 0.27
20 4 0.15
21 13 0.50
ACGTcount: A:0.08, C:0.31, G:0.02, T:0.59
Consensus pattern (19 bp):
TCCATTTCTTTTCTACTTC
Found at i:96754083 original size:42 final size:41
Alignment explanation
Indices: 96754024--96754145 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
96754014 TAGGGTTATT
96754024 TGAGATTACGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGACATCGATA
* * *
96754066 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGACATCGATA
* *
96754109 TGAGATCCCATGTAAGACCATATCTGGGATATGACAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGACAT
96754146 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGACATCGATA
Found at i:96757589 original size:31 final size:29
Alignment explanation
Indices: 96757529--96757591 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
96757519 TAACGTAATG
* *
96757529 GACTAAAATGTAACATTATAAACATAAGT
1 GACTAAAATGTAACATAATAAACAAAAGT
*
96757558 GACTAAAATGTAACCTAAAGTAAACAAAAGT
1 GACTAAAATGTAACAT-AA-TAAACAAAAGT
96757589 GAC
1 GAC
96757592 CATGGGTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 15 0.52
30 1 0.03
31 13 0.45
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (29 bp):
GACTAAAATGTAACATAATAAACAAAAGT
Found at i:96761438 original size:38 final size:38
Alignment explanation
Indices: 96761395--96761471 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
96761385 TTTCAAGTTA
96761395 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* * *
96761433 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
96761471 A
1 A
96761472 ATGAATCGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:96761549 original size:48 final size:48
Alignment explanation
Indices: 96761435--96761573 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
96761425 ACCACGTTAC
* * * *
96761435 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * * *
96761482 ATATGTAATCGTGGCATATCTACTTAGTACCACATTACATGTATCAAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
*
96761530 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTAT
96761574 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 30 0.39
48 46 0.61
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (48 bp):
ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:96764161 original size:7 final size:6
Alignment explanation
Indices: 96764119--96764157 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
96764109 AATACAATAA
96764119 AATTTC AATTTC AATTTC AATTTC ATATTTC ATATTTC A
1 AATTTC AATTTC AATTTC AATTTC A-ATTTC A-ATTTC A
96764158 TATTGAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
AATTTC
Found at i:96777722 original size:40 final size:40
Alignment explanation
Indices: 96777678--96777794 Score: 155
Period size: 40 Copynumber: 2.9 Consensus size: 40
96777668 TTAAGTTACC
* *
96777678 ATAGTGAATCAGGAACAAATCCTATCCACTTT-ATATATTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAAT-TATTT
*
96777718 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTTTTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTATTT
* * *
96777758 TTAGTGACTCATGAATAAATCCTATTCACTTTTAATT
1 ATAGTGAATCAGGAATAAATCCTATTCAC-TTTAATT
96777795 CTCGAGAAGG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 60 0.87
41 9 0.13
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (40 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATTATTT
Found at i:96778743 original size:28 final size:27
Alignment explanation
Indices: 96778700--96778805 Score: 81
Period size: 28 Copynumber: 3.7 Consensus size: 27
96778690 GAAATCAGAG
96778700 TTAAT-TGGGCCTTAGCCCATATCAATA
1 TTAATCTGGGCC-TAGCCCATATCAATA
*
96778727 TTAATCTGGGCCATAGCCCCT-TACAATA
1 TTAATCTGGGCC-TAGCCCATAT-CAATA
* *
96778755 TCAGAGTATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAATA
*
96778787 TCAATCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
96778806 TATAACAACT
Statistics
Matches: 64, Mismatches: 6, Indels: 17
0.74 0.07 0.20
Matches are distributed among these distances:
27 13 0.20
28 27 0.42
30 2 0.03
32 14 0.22
33 8 0.12
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAATA
Found at i:96778793 original size:60 final size:60
Alignment explanation
Indices: 96778705--96778844 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
96778695 CAGAGTTAAT
*
96778705 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-T-ACAATATC-AGAGTATAC
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAG-CCCTATAACAA-ATCGAGA-TATAC
* * * *
96778766 TGGGCCTAGCCCATATCAGTATCAATCTGGGCCGTAGCCCTATAACAACTCGAGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATAACAAATCGAGATATAC
*
96778826 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
96778845 CACAGTTGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
59 4 0.06
60 52 0.75
61 13 0.19
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCTATAACAAATCGAGATATAC
Found at i:96781771 original size:30 final size:31
Alignment explanation
Indices: 96781690--96781772 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
96781680 TAAGTCTCGA
96781690 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
96781720 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
96781751 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
96781773 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:96782025 original size:26 final size:26
Alignment explanation
Indices: 96781992--96782062 Score: 101
Period size: 25 Copynumber: 2.8 Consensus size: 26
96781982 CTCTTTTAAT
**
96781992 AACTGGGGCAAAGCCCTTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
96782018 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
96782043 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
96782063 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 2 0.05
25 23 0.56
26 16 0.39
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:96783020 original size:27 final size:27
Alignment explanation
Indices: 96782990--96783041 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
96782980 GTAAATGTAC
96782990 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
96783017 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAGGGTATTTCTATAATTTT
96783042 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:96783103 original size:27 final size:27
Alignment explanation
Indices: 96783054--96783175 Score: 95
Period size: 27 Copynumber: 4.6 Consensus size: 27
96783044 GAAAGTCAAT
* * ** *
96783054 GGTATTTTTGTAATTGTGTAAATTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
96783081 GGTATTTTGGTAATTTTACAAA-TTGAG
1 GGTATTTTGGTAATTTTACAAACTAG-G
** * * * **
96783108 GGTATTTCAGTAATTTCATAAACCACT
1 GGTATTTTGGTAATTTTACAAACTAGG
*
96783135 AGTATTTT-GTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
96783161 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
96783176 CTACCCTATA
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
26 22 0.31
27 49 0.69
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.44
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:96783226 original size:26 final size:26
Alignment explanation
Indices: 96783196--96783298 Score: 82
Period size: 27 Copynumber: 3.8 Consensus size: 26
96783186 GGGGTATTTC
96783196 AGTAATTT-CACAATCGAGGGTAAAAT
1 AGTAATTTGCA-AATCGAGGGTAAAAT
* * *
96783222 GGTAATTTTGTAAATTGAGGGTAAAAT
1 AGTAA-TTTGCAAATCGAGGGTAAAAT
** * *
96783249 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATT-TGCAAATCGAGGGTAAAAT
**
96783276 AGTAATTCTATAAATCGAGGGTA
1 AGTAATT-TGCAAATCGAGGGTA
96783299 CTTTGGTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
26 6 0.09
27 58 0.89
28 1 0.02
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (26 bp):
AGTAATTTGCAAATCGAGGGTAAAAT
Found at i:96783241 original size:27 final size:27
Alignment explanation
Indices: 96783207--96783298 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
96783197 GTAATTTCAC
* * *
96783207 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
*
96783234 AATTGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
* *
96783261 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
96783288 AATCGAGGGTA
1 AATCGAGGGTA
96783299 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:96784756 original size:60 final size:60
Alignment explanation
Indices: 96784629--96784770 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
96784619 ATCAGAGTTA
* * * *
96784629 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCTTTACAATATTAGAGTAT
1 ACTGGGCC-GAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATAGTAGAGTAT
* * * *
96784690 ACTGGGCCGAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATAACAAGTCGT-GA-TAT
1 ACTGGGCCGAGCCCATATCAATATCAATCTGGGCCATAGCCCT-TAACAA-TAGTAGAGTAT
* **
96784750 ATTGGGCCTTGCCCATATCAA
1 ACTGGGCCGAGCCCATATCAA
96784771 CACAGTTGGT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
60 50 0.75
61 15 0.22
62 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (60 bp):
ACTGGGCCGAGCCCATATCAATATCAATCTGGGCCATAGCCCTTAACAATAGTAGAGTAT
Found at i:96787934 original size:4 final size:4
Alignment explanation
Indices: 96787925--96787954 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
96787915 TTGTATGTCT
96787925 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
96787955 ATACTAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:96790408 original size:29 final size:30
Alignment explanation
Indices: 96790365--96790425 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 30
96790355 TTAGTGGTTA
*
96790365 GTTAGAAAAAGAAATTATTGAAGAAATTGG
1 GTTAGAAAAAGAAATTATTAAAGAAATTGG
96790395 GTTAG-AAAAGAAATTATTAAAGAAATTGG
1 GTTAGAAAAAGAAATTATTAAAGAAATTGG
96790424 GT
1 GT
96790426 AAAAATAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.49, C:0.00, G:0.23, T:0.28
Consensus pattern (30 bp):
GTTAGAAAAAGAAATTATTAAAGAAATTGG
Found at i:96793136 original size:13 final size:13
Alignment explanation
Indices: 96793118--96793143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96793108 CACTTGATAA
96793118 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
96793131 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
96793144 TACTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:96797802 original size:13 final size:13
Alignment explanation
Indices: 96797784--96797814 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
96797774 AGCTTCTGCC
*
96797784 AAAATCGATACGT
1 AAAATCGAGACGT
96797797 AAAATCGAGACGT
1 AAAATCGAGACGT
96797810 AAAAT
1 AAAAT
96797815 GATGACTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (13 bp):
AAAATCGAGACGT
Found at i:96800416 original size:13 final size:13
Alignment explanation
Indices: 96800398--96800423 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96800388 CACTTGATAA
96800398 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
96800411 GGTTTCCTAAAAG
1 GGTTTCCTAAAAG
96800424 TACTCTCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GGTTTCCTAAAAG
Found at i:96800615 original size:25 final size:25
Alignment explanation
Indices: 96800585--96800675 Score: 112
Period size: 25 Copynumber: 3.6 Consensus size: 25
96800575 TAAATTGTCA
*
96800585 AAGCTCACACGAGCTGAGAATCGAT
1 AAGCTCACACGAGCTGAGAATCGGT
**
96800610 AAGCTCTTACGAGCTGAGAATCGGT
1 AAGCTCACACGAGCTGAGAATCGGT
*
96800635 AAGCTCTCACGAGCTGCA-AATCGGT
1 AAGCTCACACGAGCTG-AGAATCGGT
* *
96800660 AAGCTCATACAAGCTG
1 AAGCTCACACGAGCTG
96800676 TGGTGTGTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 57 0.98
26 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
AAGCTCACACGAGCTGAGAATCGGT
Found at i:96800999 original size:16 final size:17
Alignment explanation
Indices: 96800972--96801004 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
96800962 AATGAATTTA
96800972 TCTCATTTCAATATAAT
1 TCTCATTTCAATATAAT
*
96800989 TCTCA-TTCAATTTAAT
1 TCTCATTTCAATATAAT
96801005 CCAACATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TCTCATTTCAATATAAT
Found at i:96802773 original size:12 final size:12
Alignment explanation
Indices: 96802756--96802780 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
96802746 CGATATCTCA
96802756 ATTTCAATTCAT
1 ATTTCAATTCAT
96802768 ATTTCAATTCAT
1 ATTTCAATTCAT
96802780 A
1 A
96802781 ATTTTACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTCAATTCAT
Found at i:96803241 original size:44 final size:44
Alignment explanation
Indices: 96803150--96803241 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
96803140 TCGAAGTAAC
*
96803150 AGTAACAGTACGACACACAATGTGCCTCATCGACTTAAAGTCAA
1 AGTAACAGTACGACACACAATGTGCCTCATCGACTCAAAGTCAA
** * * *
96803194 AGTAACAGTACGACAC-TTATAGTGCCTTATCGACTCAAGGTCGA
1 AGTAACAGTACGACACACAAT-GTGCCTCATCGACTCAAAGTCAA
96803238 AGTA
1 AGTA
96803242 TCCCTGAACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (44 bp):
AGTAACAGTACGACACACAATGTGCCTCATCGACTCAAAGTCAA
Found at i:96807137 original size:3 final size:3
Alignment explanation
Indices: 96807129--96807203 Score: 116
Period size: 3 Copynumber: 25.3 Consensus size: 3
96807119 GGCTTCATTT
96807129 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
96807176 TAG TTA TAC TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
96807204 TAAATCTACT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:96808107 original size:146 final size:147
Alignment explanation
Indices: 96807841--96808160 Score: 392
Period size: 146 Copynumber: 2.2 Consensus size: 147
96807831 ATTCATATGC
* * * * * ** * *
96807841 CACATGGCCTGGACACACGCTCATATCCTTACCTGTGTGGCTCACACGGCCTGGGCATATGCCCA
1 CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
* * ** * * *
96807906 TGTCGTTTTCCCATATGGTTCGAAATTATAAACAGTGAGTTACACGGCCTGGACACATGCTCATG
66 TGTCGCTTGCCCATATGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
96807971 TCCTTGCCCGT-ATGGCT
131 TCCTTGCCCGTGA-GGCT
* * * *
96807988 TACATGGCCTGGGCACAAGCCCATGTCCTTGCCCGCGTGGTTCACACGAACTGAGCACATGCCCA
1 CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
* * *
96808053 TGTC-CTTGGCCATGTGGTTCTAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
66 TGTCGCTTGCCCATATGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
*
96808117 TCCTTGCTCGTGAGGCT
131 TCCTTGCCCGTGAGGCT
*
96808134 CACACGGCCTGGGCACACGCCCATGTC
1 CACATGGCCTGGGCACACGCCCATGTC
96808161 TCTAGTCGTG
Statistics
Matches: 145, Mismatches: 27, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
146 88 0.61
147 57 0.39
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (147 bp):
CACATGGCCTGGGCACACGCCCATGTCCTTACCCGCGTGGCTCACACGAACTGAGCACATGCCCA
TGTCGCTTGCCCATATGGTTCGAAAGCATAAACAGTGAGTTACACAGCCTGGACACAAGCCCATG
TCCTTGCCCGTGAGGCT
Done.