Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 114 of 343
Found at i:38477408 original size:41 final size:41
Alignment explanation
Indices: 38477346--38477470 Score: 205
Period size: 41 Copynumber: 3.0 Consensus size: 41
38477336 CTTAAAAGCC
*
38477346 ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTTA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCA
* * **
38477387 ATCGATGGATCCACGGTCGTCAAGAAACCATGCAATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCA
38477428 ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCA
1 ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCA
38477469 AT
1 AT
38477471 TTCTTCCTCC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (41 bp):
ATCGGTGGATCCACGGTCGTCAAGCAACCATGTGATCCTCA
Found at i:38477760 original size:27 final size:27
Alignment explanation
Indices: 38477728--38478050 Score: 217
Period size: 27 Copynumber: 12.0 Consensus size: 27
38477718 TTCGAAAATC
* *
38477728 TACAAACCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
38477755 TGCAAACCAAGGGTATTTCTA-TAATTT
1 TACAAATCAAGGGTATTTC-AGTAATTT
**
38477782 TTGAAAGTCAAGGGTATTTCTA-TAATTT
1 TACAAA-TCAAGGGTATTTC-AGTAATTT
** * *
38477810 TGTAAATCAATGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
38477837 TCCAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
38477864 TACAAATTAAGGATATTTCAAAAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* *
38477891 TATAATTCGAA-GGTATTTCAGTAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
* * * *
38477918 TATAAGTCAAAGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
38477945 CACAAATCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
* * **
38477972 TACTAATCGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCAGTAATTT
** *
38477999 TGTAAA-CAAAGGGTA-TTCAGCAATTT
1 TACAAATC-AAGGGTATTTCAGTAATTT
**
38478025 TGTAAA-CTAAGGGTATTTCAGTAATT
1 TACAAATC-AAGGGTATTTCAGTAATT
38478051 CTACCCTACA
Statistics
Matches: 237, Mismatches: 52, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 25 0.11
27 186 0.78
28 26 0.11
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCAGTAATTT
Found at i:38477989 original size:108 final size:108
Alignment explanation
Indices: 38477738--38477989 Score: 287
Period size: 108 Copynumber: 2.3 Consensus size: 108
38477728 TACAAACCAA
* * * * * * *
38477738 GGGTATTTCGGTAATTTTGCAAACCAAGGGTATTTCTATAATTTT-TGAAAGTC-AAGGGTATTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGATATTTCAAAAATTTTAT--AATTCGAA-GGTATTT
* * **
38477801 CTATAATTTTGTAAATCAATGGTATTTCTGTAATTTTCCAAATCAG
63 CTATAATTTTATAAATCAAAGGTATTTCAATAATTTTCCAAATCAG
*
38477847 GGGTATTTTGGTAATTTTACAAATTAAGGATATTTCAAAAATTTTATAATTCGAAGGTATTTC-A
1 GGGTATTTTGGTAATTTTACAAATCAAGGATATTTCAAAAATTTTATAATTCGAAGGTATTTCTA
*
38477911 GTAATTTTATAAGTCAAAGGTATTTCAATAA-TTTCACAAATCAG
66 -TAATTTTATAAATCAAAGGTATTTCAATAATTTTC-CAAATCAG
* * *
38477955 GGGTATTTTGGTAATTTTACTAATCGAGGGTATTT
1 GGGTATTTTGGTAATTTTACAAATCAAGGATATTT
38477990 TGGTAATTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
107 5 0.04
108 76 0.62
109 40 0.33
110 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (108 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGATATTTCAAAAATTTTATAATTCGAAGGTATTTCTA
TAATTTTATAAATCAAAGGTATTTCAATAATTTTCCAAATCAG
Found at i:38478027 original size:26 final size:27
Alignment explanation
Indices: 38477994--38478050 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
38477984 GTATTTTGGT
38477994 AATTTTGTAAACAAAGGGTA-TTCAGC
1 AATTTTGTAAACAAAGGGTATTTCAGC
* *
38478020 AATTTTGTAAACTAAGGGTATTTCAGT
1 AATTTTGTAAACAAAGGGTATTTCAGC
38478047 AATT
1 AATT
38478051 CTACCCTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 19 0.68
27 9 0.32
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTTTGTAAACAAAGGGTATTTCAGC
Found at i:38478069 original size:27 final size:27
Alignment explanation
Indices: 38478039--38478141 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
38478029 AACTAAGGGT
38478039 ATTTCAGTAATTCTACCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
38478066 ATTTCAGTAATTCAATCCTACAGGGGC
1 ATTTCAGTAATTCTACCCTACAGGGGC
* * * *
38478093 ATTTTAGTAACT-TACCCTACAAGGGT
1 ATTTCAGTAATTCTACCCTACAGGGGC
* *
38478119 ATTTCAGTAATACTAGCCTACAG
1 ATTTCAGTAATTCTACCCTACAG
38478142 ATATGAGATT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
26 19 0.31
27 43 0.69
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (27 bp):
ATTTCAGTAATTCTACCCTACAGGGGC
Found at i:38483210 original size:80 final size:80
Alignment explanation
Indices: 38483067--38483217 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
38483057 GCAAAACAGG
* *
38483067 TTTTTAGCGGCTTTTGAATGAAAAACACCGCTAAAGATCGAGCACTAGCGGCGCTTTTCAAAAAA
1 TTTTTAGCGGCTTTT-AATGAAAAACACCACTAAAGATCAAGCACTAGCGGCGCTTTTCAAAAAA
*
38483132 TGCCGCTATAGGTTCA
65 CGCCGCTATAGGTTCA
* * * *
38483148 TTTTTAGCGGCGTTTT-TTGAAAAGCACCACTAAAGATCAAGTATTAGCGGCGCCTTTT-AAAAA
1 TTTTTAGCGGC-TTTTAATGAAAAACACCACTAAAGATCAAGCACTAGCGGCG-CTTTTCAAAAA
38483211 ACGCCGC
64 ACGCCGC
38483218 AAAAAATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
80 41 0.67
81 16 0.26
82 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (80 bp):
TTTTTAGCGGCTTTTAATGAAAAACACCACTAAAGATCAAGCACTAGCGGCGCTTTTCAAAAAAC
GCCGCTATAGGTTCA
Found at i:38483585 original size:25 final size:26
Alignment explanation
Indices: 38483557--38483616 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
38483547 TATGGATTAT
*
38483557 GGTTTAAGGGTGGTTTAAGG-GTT-GG
1 GGTTTAAGGGTCGTTT-AGGTGTTAGG
38483582 GGTTTAA-GGTCGTTTAGGTGTTAGG
1 GGTTTAAGGGTCGTTTAGGTGTTAGG
38483607 GG-TTAAGGGT
1 GGTTTAAGGGT
38483617 TAAGGGTTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
23 3 0.10
24 14 0.45
25 14 0.45
ACGTcount: A:0.17, C:0.02, G:0.45, T:0.37
Consensus pattern (26 bp):
GGTTTAAGGGTCGTTTAGGTGTTAGG
Found at i:38483661 original size:14 final size:14
Alignment explanation
Indices: 38483642--38483698 Score: 51
Period size: 14 Copynumber: 4.0 Consensus size: 14
38483632 CATGGTTCAT
*
38483642 GATTTATGTTTTAG
1 GATTTATGGTTTAG
38483656 GATTTATGGTTTAG
1 GATTTATGGTTTAG
* * * *
38483670 GGTTTAGGGATTAA
1 GATTTATGGTTTAG
*
38483684 GAGTTTAAGGTTTAG
1 GA-TTTATGGTTTAG
38483699 ATTAATTAGT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
GATTTATGGTTTAG
Found at i:38483837 original size:21 final size:21
Alignment explanation
Indices: 38483797--38483838 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38483787 ATCTTTATAG
**
38483797 TTTAGGGTTTAGGGTATATGA
1 TTTAGGGTTTAAAGTATATGA
*
38483818 TTTAGGGTTTAAAGTGTATGA
1 TTTAGGGTTTAAAGTATATGA
38483839 GTTACTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (21 bp):
TTTAGGGTTTAAAGTATATGA
Found at i:38483872 original size:22 final size:21
Alignment explanation
Indices: 38483855--38483896 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
38483845 ATTTTAAGGT
* *
38483855 TTATGGATTATGGATTTAGGGA
1 TTATGGATTA-CGATTTAAGGA
38483877 TTATGGATTACGATTTAAGG
1 TTATGGATTACGATTTAAGG
38483897 GTTAGGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.40
Consensus pattern (21 bp):
TTATGGATTACGATTTAAGGA
Found at i:38483877 original size:15 final size:15
Alignment explanation
Indices: 38483854--38483885 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38483844 TATTTTAAGG
*
38483854 TTTATGGATTATGGA
1 TTTAGGGATTATGGA
38483869 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
38483884 TT
1 TT
38483886 ACGATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:38483909 original size:14 final size:14
Alignment explanation
Indices: 38483890--38483928 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
38483880 TGGATTACGA
38483890 TTTAAGGGTTAGGG
1 TTTAAGGGTTAGGG
38483904 TTTAAGGGTTAGGG
1 TTTAAGGGTTAGGG
*
38483918 GTTAAGGGTTA
1 TTTAAGGGTTA
38483929 AGTGTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.41, T:0.36
Consensus pattern (14 bp):
TTTAAGGGTTAGGG
Found at i:38483921 original size:7 final size:7
Alignment explanation
Indices: 38483891--38483935 Score: 56
Period size: 7 Copynumber: 6.4 Consensus size: 7
38483881 GGATTACGAT
38483891 TTAAGGG
1 TTAAGGG
38483898 TT-AGGG
1 TTAAGGG
38483904 TTTAAGGG
1 -TTAAGGG
*
38483912 TTAGGGG
1 TTAAGGG
38483919 TTAAGGG
1 TTAAGGG
*
38483926 TTAAGTG
1 TTAAGGG
38483933 TTA
1 TTA
38483936 GATTTTTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 4 0.12
7 25 0.76
8 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.36
Consensus pattern (7 bp):
TTAAGGG
Found at i:38483978 original size:309 final size:309
Alignment explanation
Indices: 38483399--38484033 Score: 804
Period size: 309 Copynumber: 2.1 Consensus size: 309
38483389 TATGACTAAT
* * *
38483399 TGTTTTTTAATTT-TATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
1 TGTTTTTTAATTTATATGATAAATATTTTCTTATATAATTATAAAAGAGATAGTATTAAGTTTAA
* * * * *
38483463 AATATTGAATTACTTATCATTATAGTTTATGGTTTACGGTATATGGTTAAGGGTTTAATGTTTAT
66 AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAAAGTGTAT
* * *
38483528 GAGTTACTATTTTAAGGTTTATGGATTATGGTTTAAGGGTGGTTTAAGGGTTGGGGTTTAAGGTC
131 GAGTTACTATTTTAAGGTTTATGGATTATGGTTTAAGGGTGGATTAAGAGTTAGGGTTTAAGG-C
* *
38483593 GTTTAGGTGTTAGGGGTTAAGGGTTAAGGGTTAGTGGTTCATGGTTCATGATTTATGTTTTAGGA
195 GTTTAGGTGTTAGGGGTTAAGGGTTAAGGGTTAGTGGTTCAGGGTTCATGAATTATGTTTTAGGA
* ** * *
38483658 TTTATGGTTTAGGGTTTAGGGATTAAGAGTTTAAGGTTTAGATTAATTAG
260 TTTAGGGTTTAGGGGGTAGGGATTAAGAGTTTAAGGCTTAGATTAATTAA
38483708 TGTTTTTTAATTTATATGATAAATATTTTCTT-TATAATTATAAAAGAGATAGTATTAAGTTTAA
1 TGTTTTTTAATTTATATGATAAATATTTTCTTATATAATTATAAAAGAGATAGTATTAAGTTTAA
* * * *
38483772 AATGTTGAATTAATTATCTTTATAGTTTAGGGTTTAGGGTATATGATTTAGGGTTTAAAGTGTAT
66 AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAAAGTGTAT
* *
38483837 GAGTTACTATTTTAAGGTTTATGGATTATGGATTT-AGGGATTATGGATTACGATTTAAGGG-TT
131 GAGTTACTATTTTAAGGTTTATGGATTATGG-TTTAAGGG----TGGATTAAGAGTT-AGGGTTT
* * * *
38483900 -AGG-GTTTAAGG-GTTAGGGGTTAAGGGTTAAGTGTTAGAT-TTTTAGGGTTTA-GAGATTATG
190 AAGGCGTTT-AGGTGTTAGGGGTTAAGGGTTAAGGGTTAG-TGGTTCAGGGTTCATGA-ATTATG
* * * *
38483960 -TTTATGATTTAGGGTTTAGGGGGTAGGGGTTAGGGGTTTAAGGCTTAGATTAATTAA
252 TTTTAGGATTTAGGGTTTAGGGGGTAGGGATTAAGAGTTTAAGGCTTAGATTAATTAA
* *
38484017 TATTTTGTAATTTATAT
1 TGTTTTTTAATTTATAT
38484034 ATTATATTGA
Statistics
Matches: 282, Mismatches: 34, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
309 199 0.71
310 62 0.22
311 4 0.01
312 3 0.01
313 11 0.04
314 3 0.01
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.45
Consensus pattern (309 bp):
TGTTTTTTAATTTATATGATAAATATTTTCTTATATAATTATAAAAGAGATAGTATTAAGTTTAA
AATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATATGATTAAGGGTTTAAAGTGTAT
GAGTTACTATTTTAAGGTTTATGGATTATGGTTTAAGGGTGGATTAAGAGTTAGGGTTTAAGGCG
TTTAGGTGTTAGGGGTTAAGGGTTAAGGGTTAGTGGTTCAGGGTTCATGAATTATGTTTTAGGAT
TTAGGGTTTAGGGGGTAGGGATTAAGAGTTTAAGGCTTAGATTAATTAA
Found at i:38484891 original size:3 final size:3
Alignment explanation
Indices: 38484865--38484928 Score: 67
Period size: 3 Copynumber: 21.0 Consensus size: 3
38484855 AATGGAAGTT
* * *
38484865 GAA G-A GAA GGA GAA TGAG GAA GAA GAA GAA GAA GAA GAA GAA GAG
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
38484910 GAG GAA GAA GAA GAGA GAA
1 GAA GAA GAA GAA GA-A GAA
38484929 AAGGATTATG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 45 0.87
4 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.41, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:38489036 original size:21 final size:21
Alignment explanation
Indices: 38488974--38489031 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 21
38488964 TACATGGTAA
38488974 AATATAATATGTAATA-A-AAT
1 AATATAA-ATGTAATATATAAT
*
38488994 -TTATAAATGTAATATATAAT
1 AATATAAATGTAATATATAAT
*
38489014 AATATAAATTGTATTATA
1 AATATAAA-TGTAATATA
38489032 GATAAAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 3 0.10
21 6 0.19
22 8 0.26
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
AATATAAATGTAATATATAAT
Found at i:38489335 original size:12 final size:12
Alignment explanation
Indices: 38489251--38489336 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
38489241 TGATACACAA
*
38489251 AAATAATATAAGG
1 AAAT-ATATAATG
38489264 AAATATATAATG
1 AAATATATAATG
38489276 AAATATATAAAAT-
1 AAATATAT--AATG
* *
38489289 ATAATTTATAGATA
1 A-AATATATA-ATG
*
38489303 AAATATACAAAT-
1 AAATATA-TAATG
38489315 AAATAATATAATG
1 AAAT-ATATAATG
38489328 AAATATATA
1 AAATATATA
38489337 TAAACAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 28 0.47
13 21 0.35
14 11 0.18
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (12 bp):
AAATATATAATG
Found at i:38489352 original size:27 final size:26
Alignment explanation
Indices: 38489264--38489352 Score: 76
Period size: 27 Copynumber: 3.3 Consensus size: 26
38489254 TAATATAAGG
*
38489264 AAATATATAATGAAATATATAAAATAT
1 AAATA-ATAATGAAATATATAAAATAA
* *
38489291 AATTTATAGAT-AAA-ATATACAAATAA
1 AAATAATA-ATGAAATATATA-AAATAA
*
38489317 ATAAT-ATAATGAAATATATATAAACAA
1 A-AATAATAATGAAATATATA-AAATAA
38489344 AAATAATAA
1 AAATAATAA
38489353 CTGATAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
25 7 0.14
26 21 0.42
27 22 0.44
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.30
Consensus pattern (26 bp):
AAATAATAATGAAATATATAAAATAA
Found at i:38491049 original size:131 final size:131
Alignment explanation
Indices: 38490814--38491109 Score: 475
Period size: 131 Copynumber: 2.3 Consensus size: 131
38490804 TAGTATTTTT
*
38490814 GATCTGCTCTCTGCTAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
* * *
38490879 AAGCCAAATCAGCTATGGCTTCGATCTGCTCTGCGCCAATACAAAGATGCCAAATATGTTATCTT
66 AAGCCAAATCAGCTATGGCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATATGGTATCTT
38490944 C
131 C
* * * *
38490945 GATCTGCTCTCCGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTTAATGTAAACACGTGA
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
* * * *
38491010 AAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCACCAATACAGAGATGTCAAATCTGGTATCTT
66 AAGCCAAATCAGCTATGGCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATATGGTATCTT
38491075 C
131 C
*
38491076 GATCTGCTCTCTGACAATACAGAGATGCCAAATC
1 GATCTGCTCTCTGCCAATACAGAGATGCCAAATC
38491110 TGCTATCTTC
Statistics
Matches: 150, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 150 1.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (131 bp):
GATCTGCTCTCTGCCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGA
AAGCCAAATCAGCTATGGCTTCGATCTGCTCTCCACCAATACAAAGATGCCAAATATGGTATCTT
C
Found at i:38491079 original size:44 final size:44
Alignment explanation
Indices: 38490881--38491119 Score: 156
Period size: 44 Copynumber: 5.4 Consensus size: 44
38490871 ACACGTGAAA
* * *
38490881 GCCAAATCAGCTATGGCTTCGATCTGCTCTGCGC-CAATACAAAGAT
1 GCCAAATCTGCTAT--CTTCGATCTGCTCT-CTCACAATACAGAGAT
* * * *
38490927 GCCAAATATGTTATCTTCGATCTGCTCTC-CGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTC-ACAATACAGAGAT
* * * * * *
38490971 GCCAAA--T-C-ATCTTAGATTTGCT-T-TAATGTAA-ACACGTGAAA
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTCA--CAATACA-GAG-AT
*
38491012 GCCAAATCAGCTATGTCTTCGATCTGCTCTC-CACCAATACAGAGAT
1 GCCAAATCTGCTA--TCTTCGATCTGCTCTCTCA-CAATACAGAGAT
* * *
38491058 GTCAAATCTGGTATCTTCGATCTGCTCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTCACAATACAGAGAT
38491102 GCCAAATCTGCTATCTTC
1 GCCAAATCTGCTATCTTC
38491120 AACTTGTTCC
Statistics
Matches: 149, Mismatches: 27, Indels: 36
0.70 0.13 0.17
Matches are distributed among these distances:
39 4 0.03
40 16 0.11
41 7 0.05
42 2 0.01
43 1 0.01
44 75 0.50
45 2 0.01
46 22 0.15
47 15 0.10
48 5 0.03
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTCACAATACAGAGAT
Found at i:38491165 original size:131 final size:129
Alignment explanation
Indices: 38491027--38491500 Score: 537
Period size: 132 Copynumber: 3.6 Consensus size: 129
38491017 ATCAGCTATG
** * * * *
38491027 TCTTCGATCTGCTCTCCACCAA-TACAGAGATGTCAAATCTGGTATCTTCGATCTGCTCTCTGAC
1 TCTTCGATCTGCT-TCCAGTAAGCACAGAGATGTCAAATCTGCTATCTTCGATCTGTTCCCT-A-
* *
38491091 AATACAGAGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
63 AAAACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGA
38491156 AA
128 AA
* * * *
38491158 TCCTCGATCTGCTT-CATTGTAAGCACA-AGAGTGTCAGATCTGTTATCTTCAATCTGTTCCCTA
1 TCTTCGATCTGCTTCCA--GTAAGCACAGAGA-TGTCAAATCTGCTATCTTCGATCTGTTCCCTA
*
38491221 TAAACATAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCT
63 -AAA-ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCT
38491286 GAAA
126 GAAA
** * *
38491290 TCTTTAATCTGCTTCGCTGTAAGCACAG-GAATGTCAAATCTGCTAT-TTTGATCTGTTCCCTAT
1 TCTTCGATCTGCTTC-CAGTAAGCACAGAG-ATGTCAAATCTGCTATCTTCGATCTGTTCCCTA-
* *
38491353 AAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACTCAAGGATGCCATGCTG
63 AAA-ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTG
38491418 AAA
127 AAA
* * * * *
38491421 TCTTCGATCTGCTTTGCTGTAAGCTCATGAG-TGTCAGATCTGCTATCTTTGATCTGTTCCCTAT
1 TCTTCGATCTGC-TTCCAGTAAGCACA-GAGATGTCAAATCTGCTATCTTCGATCTGTTCCCTA-
*
38491485 AAACATAGGGATGCCA
63 AAA-ACAGGGATGCCA
38491501 TGCTAAAATC
Statistics
Matches: 300, Mismatches: 30, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
129 2 0.01
130 1 0.00
131 134 0.45
132 160 0.53
133 2 0.01
134 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (129 bp):
TCTTCGATCTGCTTCCAGTAAGCACAGAGATGTCAAATCTGCTATCTTCGATCTGTTCCCTAAAA
ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAA
Found at i:38491222 original size:88 final size:88
Alignment explanation
Indices: 38491107--38491588 Score: 376
Period size: 88 Copynumber: 5.5 Consensus size: 88
38491097 GAGATGCCAA
*
38491107 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCT
**
38491171 TCATTGTAAGCACAAGAGTGTCAG
65 TCCCTGTAAGCACAAGAGTGTCAG
* * ** *
38491195 ATCTGTTATCTTCAATCTGTTCCCTATAAACATAGGGATGCCAAAT-CTGCTATCTTC-AACTTG
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC-TG
* * * *
38491258 -TTCCCTATAAACAC-AGGGATG-C-C
63 CTTCCCTGTAAGCACAAGAG-TGTCAG
** * * * * * * ** *
38491281 ATGCTGAAATCTTTAATCTGCTTCGCTGTAAGCACAGGAATGTCAAAT-CTGCTAT-TTTGATCT
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATG-C-CATGCTGAAATCTTCGATCT
* * * * *
38491344 G-TTCCCTATAAACAC-AGGGATGCCAA
62 GCTTCCCTGTAAGCACAAGAG-TGTCAG
* *
38491370 ATCTGCTATCTTCAA-CTTGTTCCCTATAAACTCAAGGATGCCATGCTGAAATCTTCGATCTGCT
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCT
** * *
38491434 TTGCTGTAAGCTCATGAGTGTCAG
65 TCCCTGTAAGCACAAGAGTGTCAG
** * *
38491458 ATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCATGCTAAAATCTTCGATCTGCTT
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
* * * *
38491523 CGCTGTAAGCATAGGAATGTCAG
66 CCCTGTAAGCACAAGAGTGTCAG
** *
38491546 ATCTGCTATCTTTGATCTGTTCCCTATAAAAACAGGGATGCCA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCA
38491589 AATCTGCTAT
Statistics
Matches: 317, Mismatches: 59, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
85 2 0.01
86 8 0.03
87 67 0.21
88 221 0.70
89 17 0.05
90 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (88 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTT
CCCTGTAAGCACAAGAGTGTCAG
Found at i:38491235 original size:132 final size:132
Alignment explanation
Indices: 38491099--38491500 Score: 644
Period size: 132 Copynumber: 3.1 Consensus size: 132
38491089 ACAATACAGA
*
38491099 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCCTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
** * **
38491164 ATCTGCTTCATTGTAAGCACAAGAGTGTCAGATCTGTTATCTTCAATCTGTTCCCTATAAACATA
66 ATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATA
38491229 GG
131 GG
**
38491231 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTA
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * * *
38491296 ATCTGCTTCGCTGTAAGCACAGGAATGTCAAATCTGCTAT-TTTGATCTGTTCCCTATAAACACA
66 ATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATA
38491360 GG
131 GG
* *
38491362 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACTCAAGGATGCCATGCTGAAATCTTCG
1 GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
* * *
38491427 ATCTGCTTTGCTGTAAGCTCATGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATA
66 ATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATA
38491492 GG
131 GG
38491494 GATGCCA
1 GATGCCA
38491501 TGCTAAAATC
Statistics
Matches: 247, Mismatches: 22, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 119 0.48
132 128 0.52
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (132 bp):
GATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCG
ATCTGCTTCGCTGTAAGCACAAGAGTGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAACATA
GG
Found at i:38491594 original size:132 final size:132
Alignment explanation
Indices: 38491458--38491739 Score: 417
Period size: 132 Copynumber: 2.1 Consensus size: 132
38491448 TGAGTGTCAG
* *
38491458 ATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCATGCTAAAATCTTCGATCTGCTT
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTACTT
* * *
38491523 CGCTGTAAGCATAGGAATGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAAAACAGGGATGCC
66 CGCTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAAACAGGGATGCC
38491588 AA
131 AA
* * *
38491590 ATCTGCTAT-TCTCGA-CTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTAC
1 ATCTGCTATCT-TTGATC-TGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTAC
* *
38491653 TTCGCTGTAAGCACAAGAGTGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATG
64 TTCGCTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAAACAGGGATG
38491718 CCAA
129 CCAA
*
38491722 ATCTTG-TTTCTTTGATCT
1 ATC-TGCTATCTTTGATCT
38491740 ACATTGTCCC
Statistics
Matches: 133, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
131 2 0.02
132 127 0.95
133 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (132 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCGATCTACTT
CGCTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAAAACAGGGATGCC
AA
Found at i:38491662 original size:220 final size:219
Alignment explanation
Indices: 38491239--38491720 Score: 761
Period size: 220 Copynumber: 2.2 Consensus size: 219
38491229 GGGATGCCAA
* * * *
38491239 ATCTGCTATC-TTCAACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTAATCTGCT
1 ATCTGCTATCTTTGATC-TGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCT
*
38491303 TCGCTGTAAGCACAGGAATGTCAAATCTGCTATTTTGATCTGTTCCCTATAAACACAGGGATGCC
65 TCGCTGTAAGCACAGGAATGTCAAATCTGCTATTTTGATCTGTTCCCTATAAAAACAGGGATGCC
* *
38491368 AAATCTGCTATCTTCAACTTGTTCCCTATAAACTCAAGGATGCCATGCTGAAATCTTCGATCTGC
130 AAATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCGATCTAC
* * *
38491433 TTTGCTGTAAGCTCATGAGTGTCAG
195 TTCGCTGTAAGCACAAGAGTGTCAG
* *
38491458 ATCTGCTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCATGCTAAAATCTTCGATCTGCTT
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCTT
* *
38491523 CGCTGTAAGCATAGGAATGTCAGATCTGCTATCTTTGATCTGTTCCCTATAAAAACAGGGATGCC
66 CGCTGTAAGCACAGGAATGTCAAATCTGCTAT-TTTGATCTGTTCCCTATAAAAACAGGGATGCC
* * *
38491588 AAATCTGCTAT-TCTCGACTTGTTCCCTATAAACACAGGGATGCCATGCTGAAATCTTTGATCTA
130 AAATCTGCTATCT-TCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCGATCTA
38491652 CTTCGCTGTAAGCACAAGAGTGTCAG
194 CTTCGCTGTAAGCACAAGAGTGTCAG
*
38491678 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCA
1 ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCA
38491721 AATCTTGTTT
Statistics
Matches: 241, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
219 85 0.35
220 156 0.65
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (219 bp):
ATCTGCTATCTTTGATCTGTTCCCTATAAACACAGGGATGCCATGCTAAAATCTTCAATCTGCTT
CGCTGTAAGCACAGGAATGTCAAATCTGCTATTTTGATCTGTTCCCTATAAAAACAGGGATGCCA
AATCTGCTATCTTCAACTTGTTCCCTATAAACACAAGGATGCCATGCTGAAATCTTCGATCTACT
TCGCTGTAAGCACAAGAGTGTCAG
Found at i:38492638 original size:8 final size:8
Alignment explanation
Indices: 38492614--38492684 Score: 65
Period size: 8 Copynumber: 8.6 Consensus size: 8
38492604 GCCTCTCCAG
38492614 TTTC-CTT
1 TTTCTCTT
38492621 TTATCT-TT
1 TT-TCTCTT
38492629 TTTCTCTT
1 TTTCTCTT
38492637 TTTCTCTT
1 TTTCTCTT
*
38492645 TTTCTTTT
1 TTTCTCTT
*
38492653 TTTTTCTT
1 TTTCTCTT
38492661 TTTCATTTCTT
1 TTTC---TCTT
*
38492672 TTTCCCTT
1 TTTCTCTT
38492680 TTTCT
1 TTTCT
38492685 TTTCTTTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 5 0.10
8 39 0.75
11 8 0.15
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTCTCTT
Found at i:38492645 original size:24 final size:23
Alignment explanation
Indices: 38492614--38492703 Score: 68
Period size: 24 Copynumber: 4.1 Consensus size: 23
38492604 GCCTCTCCAG
38492614 TTTCCTTTTATC-TTTTTTCTCTT
1 TTTCCTTTT-TCTTTTTTTCTCTT
*
38492637 TTTCTCTTTTTCTTTTTTTTTCTT
1 TTTC-CTTTTTCTTTTTTTCTCTT
* *
38492661 TTT-C-ATTTC--TTTTTCCCTT
1 TTTCCTTTTTCTTTTTTTCTCTT
* *
38492680 TTT-C-TTTTCTTTTTTCCTTTT
1 TTTCCTTTTTCTTTTTTTCTCTT
38492701 TTT
1 TTT
38492704 TTGAAATAGA
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
19 16 0.29
21 14 0.25
22 1 0.02
23 6 0.11
24 18 0.33
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTCCTTTTTCTTTTTTTCTCTT
Found at i:38492652 original size:6 final size:6
Alignment explanation
Indices: 38492636--38492693 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 6
38492626 TTTTTTCTCT
*
38492636 TTTTCTC TTTTTC -TTTT- TTTTTC TTTTTC -ATTTC TTTTTCCC TTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT--C TTTTTC
38492684 -TTTTC TTTTT
1 TTTTTC TTTTT
38492694 TCCTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
5 17 0.40
6 16 0.37
7 4 0.09
8 6 0.14
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:38492663 original size:11 final size:11
Alignment explanation
Indices: 38492643--38492705 Score: 56
Period size: 11 Copynumber: 5.4 Consensus size: 11
38492633 TCTTTTTCTC
38492643 TTTTTC-TTTT
1 TTTTTCTTTTT
38492653 TTTTTCTTTTT
1 TTTTTCTTTTT
**
38492664 CATTTCTTTTT
1 TTTTTCTTTTT
38492675 CCCTTTTTCTTTTCT
1 ---TTTTTCTTTT-T
38492690 TTTTTCCTTTTT
1 TTTTT-CTTTTT
38492702 TTTT
1 TTTT
38492706 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 6 0.14
11 13 0.30
12 10 0.23
13 5 0.12
14 8 0.19
15 1 0.02
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:38492682 original size:20 final size:19
Alignment explanation
Indices: 38492633--38492701 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
38492623 ATCTTTTTTC
*
38492633 TCTTTTTCTCTTTTTC-TT
1 TCTTTTTCCCTTTTTCATT
*
38492651 T-TTTTT-TCTTTTTCATT
1 TCTTTTTCCCTTTTTCATT
*
38492668 TCTTTTTCCCTTTTTCTTT
1 TCTTTTTCCCTTTTTCATT
*
38492687 TCTTTTTTCCTTTTT
1 TCTTTTTCCCTTTTT
38492702 TTTTGAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
16 8 0.18
17 8 0.18
18 6 0.13
19 23 0.51
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.78
Consensus pattern (19 bp):
TCTTTTTCCCTTTTTCATT
Found at i:38492699 original size:8 final size:7
Alignment explanation
Indices: 38492618--38492702 Score: 61
Period size: 7 Copynumber: 12.0 Consensus size: 7
38492608 CTCCAGTTTC
*
38492618 CTTTTAT
1 CTTTTTT
38492625 CTTTTTT
1 CTTTTTT
38492632 CTCTTTTT
1 CT-TTTTT
38492640 CTCTTTTT
1 CT-TTTTT
38492648 CTTTTTT
1 CTTTTTT
38492655 -TTTCTTT
1 CTTT-TTT
*
38492662 -TTCATTT
1 CTT-TTTT
*
38492669 CTTTTTC
1 CTTTTTT
*
38492676 CCTTTTT
1 CTTTTTT
38492683 C--TTTT
1 CTTTTTT
38492688 CTTTTTT
1 CTTTTTT
38492695 CCTTTTTT
1 -CTTTTTT
38492703 TTTGAAATAG
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
5 5 0.08
6 3 0.05
7 33 0.51
8 24 0.37
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (7 bp):
CTTTTTT
Found at i:38495258 original size:16 final size:14
Alignment explanation
Indices: 38495217--38495269 Score: 65
Period size: 14 Copynumber: 3.7 Consensus size: 14
38495207 TTTATAATCT
38495217 TGAATGCAAATG-A
1 TGAATGCAAATGCA
38495230 TGCAATG-AAATGCTA
1 TG-AATGCAAATGC-A
38495245 TGAGATGCAAATGCA
1 TGA-ATGCAAATGCA
38495260 TGAATGCAAA
1 TGAATGCAAA
38495270 AGGTATCGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
13 7 0.20
14 12 0.34
15 10 0.29
16 6 0.17
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (14 bp):
TGAATGCAAATGCA
Found at i:38497484 original size:46 final size:46
Alignment explanation
Indices: 38497431--38497606 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
38497421 TATTTGGGCA
38497431 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38497477 TCCGAACTCGTTGAGTTGAGTCCTAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
38497522 CATGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38497570 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38497607 GCGGGTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38497586 original size:93 final size:93
Alignment explanation
Indices: 38497427--38497598 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
38497417 GGGATATTTG
* *
38497427 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
38497492 TTGAGTCCTAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
38497520 GGCATGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38497585 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38497599 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:38500548 original size:15 final size:15
Alignment explanation
Indices: 38500530--38500564 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38500520 ATCTTGGGTT
38500530 TCTTTATCCTGGATC
1 TCTTTATCCTGGATC
* *
38500545 TCTTTATTCTGGATT
1 TCTTTATCCTGGATC
38500560 TCTTT
1 TCTTT
38500565 CTTCCAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.11, C:0.20, G:0.11, T:0.57
Consensus pattern (15 bp):
TCTTTATCCTGGATC
Found at i:38502592 original size:46 final size:46
Alignment explanation
Indices: 38502525--38502700 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
38502515 TATTTGGGCA
38502525 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38502571 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
38502616 CATGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38502664 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38502701 GCGGGTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.58
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38502680 original size:93 final size:93
Alignment explanation
Indices: 38502521--38502692 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
38502511 GGGATATTTG
* * *
38502521 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38502586 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
38502614 GGCATGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38502679 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38502693 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:38505965 original size:27 final size:26
Alignment explanation
Indices: 38505921--38506049 Score: 87
Period size: 25 Copynumber: 5.2 Consensus size: 26
38505911 TAATATAAGG
*
38505921 AAAT-ATATAATGAAATATATAAAAT
1 AAATAATATAATAAAATATATAAAAT
* *
38505946 ATAAT-TTATAGATAAAATATA-CAAAT
1 A-AATAATATA-ATAAAATATATAAAAT
*
38505972 AAATAATATAATGAAATATATATAAAT
1 AAATAATATAATAAAATATATA-AAAT
*
38505999 AAAT-A-A-AAT-AACTA-ATAAAAAT
1 AAATAATATAATAAAATATAT-AAAAT
* * *
38506021 AAATGATATAA-AAAGTATTTAAAAT
1 AAATAATATAATAAAATATATAAAAT
38506046 AAAT
1 AAAT
38506050 TTAAAAAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
22 10 0.12
23 6 0.07
24 4 0.05
25 29 0.35
26 18 0.21
27 17 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATAATATAATAAAATATATAAAAT
Found at i:38505992 original size:12 final size:12
Alignment explanation
Indices: 38505908--38505993 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
38505898 TGATACACAA
*
38505908 AAATAATATAAGG
1 AAAT-ATATAATG
38505921 AAATATATAATG
1 AAATATATAATG
38505933 AAATATATAAAAT-
1 AAATATAT--AATG
* *
38505946 ATAATTTATAGATA
1 A-AATATATA-ATG
*
38505960 AAATATACAAAT-
1 AAATATA-TAATG
38505972 AAATAATATAATG
1 AAAT-ATATAATG
38505985 AAATATATA
1 AAATATATA
38505994 TAAATAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 28 0.47
13 21 0.35
14 11 0.18
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (12 bp):
AAATATATAATG
Found at i:38506030 original size:64 final size:65
Alignment explanation
Indices: 38505889--38506030 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 65
38505879 TTACAAATTC
*
38505889 AATAAATGATGATACACAAAAATAATATAAGGAAATATATAATGAAATATATAAAATATAATTTA
1 AATAAATGAT-ATACACAAAAATAATATAAGGAAATATATAATGAAATAAATAAAATATAA-TTA
*
38505954 TA
64 AA
* *
38505956 GATAAA--ATATACA-AATAAATAATATAATGAAATATAT-AT-AAATAAATAAAATAACTAA-T
1 AATAAATGATATACACAA-AAATAATATAAGGAAATATATAATGAAATAAATAAAAT-A-TAATT
38506015 AAA
63 AAA
38506018 AATAAATGATATA
1 AATAAATGATATA
38506031 AAAAGTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
62 20 0.31
63 5 0.08
64 33 0.51
65 2 0.03
67 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (65 bp):
AATAAATGATATACACAAAAATAATATAAGGAAATATATAATGAAATAAATAAAATATAATTAAA
Found at i:38510202 original size:28 final size:28
Alignment explanation
Indices: 38510162--38510218 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38510152 TTTTCAGAAT
38510162 TAAGACATCTGTCTCCAATCTTGAACAA
1 TAAGACATCTGTCTCCAATCTTGAACAA
38510190 TAAGACATCTGTCTCCAATCTTGAACAA
1 TAAGACATCTGTCTCCAATCTTGAACAA
38510218 T
1 T
38510219 CTTGAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
TAAGACATCTGTCTCCAATCTTGAACAA
Found at i:38511415 original size:19 final size:19
Alignment explanation
Indices: 38511392--38511438 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
38511382 ATTTAATCTA
*
38511392 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
38511410 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
38511430 ATTTTTATT
1 ATTTTTATT
38511439 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:38512749 original size:38 final size:38
Alignment explanation
Indices: 38512697--38512774 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
38512687 TTAATGCAGA
*
38512697 GAAGAAAAGAGTTAAAGGAAATGGAGAGGATTAGAAAT
1 GAAGAAAAGAGTTAAAGGAAATGGAGAGAATTAGAAAT
** *
38512735 GAAGAAAATTGTTAAGGGAAATGGAGAGAATTAGAAAT
1 GAAGAAAAGAGTTAAAGGAAATGGAGAGAATTAGAAAT
38512773 GA
1 GA
38512775 TCCAAACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.51, C:0.00, G:0.31, T:0.18
Consensus pattern (38 bp):
GAAGAAAAGAGTTAAAGGAAATGGAGAGAATTAGAAAT
Found at i:38513697 original size:29 final size:29
Alignment explanation
Indices: 38513641--38513699 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
38513631 CCTTACAAGC
38513641 TTTGATTTTTCTATTTTCATGATCATTCAT
1 TTTGATTTTTCTATTTTCATGA-CATTCAT
38513671 TTTGATTTTTATCTA-TTTCATG-CATTCAT
1 TTTGA-TTTT-TCTATTTTCATGACATTCAT
38513700 GTAGCTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 7 0.26
30 5 0.19
31 11 0.41
32 4 0.15
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.59
Consensus pattern (29 bp):
TTTGATTTTTCTATTTTCATGACATTCAT
Found at i:38517957 original size:62 final size:62
Alignment explanation
Indices: 38517870--38517994 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
38517860 ATATGTTAGC
* * * * * *
38517870 ACACTAGGTGTGAGCTTCCCGTGTATATGATATTATTCTAAATGGTTCAACGGGCATGTAAA
1 ACACTAAGTGTAAGCTTCCCATGTATATAATATTATTCAAAATGGTTCAACAGGCATGTAAA
*
38517932 ACACTAAGTGTAAGCTTTCCATGTATATAATATTATTCAAAATGGTTCAACAGGCATGTAAA
1 ACACTAAGTGTAAGCTTCCCATGTATATAATATTATTCAAAATGGTTCAACAGGCATGTAAA
38517994 A
1 A
38517995 GATGAACCTG
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32
Consensus pattern (62 bp):
ACACTAAGTGTAAGCTTCCCATGTATATAATATTATTCAAAATGGTTCAACAGGCATGTAAA
Found at i:38520576 original size:25 final size:25
Alignment explanation
Indices: 38520544--38520615 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
38520534 CTCTTTTAAT
* *
38520544 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAATGCCCTTTTCGGTA
38520569 AACTGGGGCAATGCCCTTTTCGGTA
1 AACTGGGGCAATGCCCTTTTCGGTA
*
38520594 AACTGAGGCAATGCCCTTTTCG
1 AACTGGGGCAATGCCCTTTTCG
38520616 CACTTCCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAATGCCCTTTTCGGTA
Found at i:38520688 original size:21 final size:21
Alignment explanation
Indices: 38520661--38520721 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
38520651 TATAATGAGT
38520661 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
38520682 ATCTCATA-AAGTATCATGTGC
1 ATATCATAGCA-TATCATGTGC
*
38520703 ATATTAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
38520722 ATAACAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:38521494 original size:40 final size:40
Alignment explanation
Indices: 38521434--38521608 Score: 314
Period size: 40 Copynumber: 4.4 Consensus size: 40
38521424 CGGATGTAAC
*
38521434 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38521474 AACTCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38521514 AACCCGTACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
38521554 AACCCACACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
38521594 AACCCGCACGAATGC
1 AACCCGCACGAATGC
38521609 TATGCACATA
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 128 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:38523921 original size:40 final size:41
Alignment explanation
Indices: 38523877--38523956 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
38523867 AAGGTTTTTA
*
38523877 GACACGGGCTA-GGACACGGGT-GTGTCATGGCCGTGTGAGG
1 GACACGGGCCATGGACACGGGTAGTGTCA-GGCCGTGTGAGG
* *
38523917 GACACGGGCCATGGACATGGGTAAGTGTCAGGCTGTGTGA
1 GACACGGGCCATGGACACGGGT-AGTGTCAGGCCGTGTGA
38523957 AAACCCCTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 10 0.29
41 9 0.26
42 9 0.26
43 6 0.18
ACGTcount: A:0.20, C:0.19, G:0.42, T:0.19
Consensus pattern (41 bp):
GACACGGGCCATGGACACGGGTAGTGTCAGGCCGTGTGAGG
Found at i:38528920 original size:55 final size:53
Alignment explanation
Indices: 38528812--38529065 Score: 207
Period size: 55 Copynumber: 4.8 Consensus size: 53
38528802 ATTAGGGTTT
* * * *
38528812 AAGGATACCATGTAAGACCATGCCAAGGCATGACATTTGGTAAGGTTTC-TAAGGA
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCA-TTGGTAA-G-TTCATAAGGA
* * *
38528867 AAGGAAATCACGTAAGACCATGTCAAGACATGGCATTGATAAGTTACCATAAGGCA
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT--CATAAGG-A
** * * ** *
38528923 AAGG-CCCCATGTAAGACCATGCCAAGGCATGGCATTGGTTGGTTCATAAGGC
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
* * *
38528975 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCA--A
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
* * * * *
38529024 AA-GAATCCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
38529066 GTACCCGCGT
Statistics
Matches: 163, Mismatches: 31, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
48 35 0.21
49 2 0.01
51 2 0.01
52 6 0.04
53 41 0.25
54 7 0.04
55 65 0.40
56 5 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGAAACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGGA
Found at i:38529018 original size:108 final size:110
Alignment explanation
Indices: 38528819--38529019 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
38528809 TTTAAGGATA
*
38528819 CCATGTAAGACCATGCCAAGGCATGACATTTGGTAAGGTTTCTAAGGAAAGGAAATCACGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACATTTGGTAAGGTTTCTAAGGAAAGGAAACCACGTAAGA
*
38528884 CCATGTCAAGACATGGCATTGATAAGTTACCATAAGGCAAAGGCC
66 CCATGTCAAGACATGGCAATGATAAGTTACCATAAGGCAAAGGCC
* * * * *
38528929 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGT-TGG-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGACATTTGGTAAGGTTTC-TAAGGAAAGGAAACCACGTAAG
*
38528991 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
38529020 TCAAAAGAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 5 0.06
110 27 0.33
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACATTTGGTAAGGTTTCTAAGGAAAGGAAACCACGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACCATAAGGCAAAGGCC
Found at i:38532001 original size:15 final size:15
Alignment explanation
Indices: 38531981--38532042 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
38531971 TACCTGGATC
38531981 CTTTATTCTGGATTT
1 CTTTATTCTGGATTT
* *
38531996 CTTTATTCCGGGTTT
1 CTTTATTCTGGATTT
*
38532011 CTCTA-TCTTGGATTT
1 CTTTATTC-TGGATTT
*
38532026 CTTTATTC-GGTTTT
1 CTTTATTCTGGATTT
38532040 CTT
1 CTT
38532043 GTTATCTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
14 10 0.26
15 26 0.68
16 2 0.05
ACGTcount: A:0.10, C:0.18, G:0.15, T:0.58
Consensus pattern (15 bp):
CTTTATTCTGGATTT
Found at i:38534004 original size:46 final size:45
Alignment explanation
Indices: 38533954--38534123 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
38533944 TATTTGGGCA
38533954 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38534000 TCCGAACTCGTTGAGTTGAGTTCGTGAGATGTAAC-TA--G--GC--A-
1 TCCGAACTCGTTGAGTTGAG-TC-CGAG-T-TCACTTATGGATGCGAAG
*
38534041 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
38534087 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38534124 CGGGTTCATG
Statistics
Matches: 105, Mismatches: 6, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 3 0.03
40 3 0.03
41 19 0.18
42 2 0.02
43 1 0.01
44 1 0.01
45 2 0.02
46 56 0.53
47 3 0.03
48 3 0.03
49 3 0.03
50 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:38537073 original size:15 final size:15
Alignment explanation
Indices: 38537034--38537113 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
38537024 GTATCTTGGG
*
38537034 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
38537049 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
38537064 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
38537079 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
38537094 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
38537108 TTTCTT
1 TTTCTT
38537114 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38537103 original size:30 final size:30
Alignment explanation
Indices: 38537025--38537112 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
38537015 CATAGTATCG
* * *
38537025 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
38537055 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
38537085 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
38537113 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:38539095 original size:46 final size:46
Alignment explanation
Indices: 38539028--38539203 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
38539018 TATTTGGGCA
*
38539028 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
38539074 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
38539121 TGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
38539167 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38539204 GCGGGTTTCA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.60
47 25 0.24
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38539183 original size:93 final size:93
Alignment explanation
Indices: 38539024--38539195 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
38539014 GGGATATTTG
* * *
38539024 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
38539089 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * *
38539117 GGCATGCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
38539182 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
38539196 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:38542160 original size:21 final size:20
Alignment explanation
Indices: 38542117--38542182 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
38542107 TAATTAATTA
* *
38542117 ATAATAAAATAATGTATTTT
1 ATAATAAAATAATGTAATAT
38542137 ATAATAAAATAGATGTAATAT
1 ATAATAAAATA-ATGTAATAT
* *
38542158 ATAATAATATAATATAATAAT
1 ATAATAAAATAATGTAAT-AT
38542179 ATAA
1 ATAA
38542183 ATGTAATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.43
21 23 0.57
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
ATAATAAAATAATGTAATAT
Found at i:38542174 original size:34 final size:34
Alignment explanation
Indices: 38542136--38542203 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
38542126 TAATGTATTT
*
38542136 TATAATAAAATAGATGTAATATATAATAATATAA
1 TATAATAAAATAAATGTAATATATAATAATATAA
*
38542170 TATAATAATATAAATGTAATATATAATAATATAA
1 TATAATAAAATAAATGTAATATATAATAATATAA
38542204 ATTTTATTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (34 bp):
TATAATAAAATAAATGTAATATATAATAATATAA
Found at i:38542492 original size:27 final size:26
Alignment explanation
Indices: 38542448--38542576 Score: 87
Period size: 25 Copynumber: 5.2 Consensus size: 26
38542438 TAATATAAGG
*
38542448 AAAT-ATATAATGAAATATATAAAAT
1 AAATAATATAATAAAATATATAAAAT
* *
38542473 ATAAT-TTATAGATAAAATATA-CAAAT
1 A-AATAATATA-ATAAAATATATAAAAT
*
38542499 AAATAATATAATGAAATATATATAAAT
1 AAATAATATAATAAAATATATA-AAAT
*
38542526 AAAT-A-A-AAT-AACTA-ATAAAAAT
1 AAATAATATAATAAAATATAT-AAAAT
* * *
38542548 AAATGATATAA-AAAGTATTTAAAAT
1 AAATAATATAATAAAATATATAAAAT
38542573 AAAT
1 AAAT
38542577 TTAAAAAATA
Statistics
Matches: 84, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
22 10 0.12
23 6 0.07
24 4 0.05
25 29 0.35
26 18 0.21
27 17 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (26 bp):
AAATAATATAATAAAATATATAAAAT
Found at i:38542519 original size:12 final size:12
Alignment explanation
Indices: 38542435--38542520 Score: 59
Period size: 12 Copynumber: 6.8 Consensus size: 12
38542425 TGATACACAA
*
38542435 AAATAATATAAGG
1 AAAT-ATATAATG
38542448 AAATATATAATG
1 AAATATATAATG
38542460 AAATATATAAAAT-
1 AAATATAT--AATG
* *
38542473 ATAATTTATAGATA
1 A-AATATATA-ATG
*
38542487 AAATATACAAAT-
1 AAATATA-TAATG
38542499 AAATAATATAATG
1 AAAT-ATATAATG
38542512 AAATATATA
1 AAATATATA
38542521 TAAATAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
12 28 0.47
13 21 0.35
14 11 0.18
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (12 bp):
AAATATATAATG
Found at i:38542557 original size:64 final size:65
Alignment explanation
Indices: 38542416--38542557 Score: 161
Period size: 64 Copynumber: 2.2 Consensus size: 65
38542406 TTACAAATTC
*
38542416 AATAAATGATGATACACAAAAATAATATAAGGAAATATATAATGAAATATATAAAATATAATTTA
1 AATAAATGAT-ATACACAAAAATAATATAAGGAAATATATAATGAAATAAATAAAATATAA-TTA
*
38542481 TA
64 AA
* *
38542483 GATAAA--ATATACA-AATAAATAATATAATGAAATATAT-AT-AAATAAATAAAATAACTAA-T
1 AATAAATGATATACACAA-AAATAATATAAGGAAATATATAATGAAATAAATAAAAT-A-TAATT
38542542 AAA
63 AAA
38542545 AATAAATGATATA
1 AATAAATGATATA
38542558 AAAAGTATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
62 20 0.31
63 5 0.08
64 33 0.51
65 2 0.03
67 5 0.08
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (65 bp):
AATAAATGATATACACAAAAATAATATAAGGAAATATATAATGAAATAAATAAAATATAATTAAA
Found at i:38546636 original size:28 final size:28
Alignment explanation
Indices: 38546596--38546652 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
38546586 TTTTCAGAAT
38546596 TAAGACATCTGTCTCCAATCTTGAACAA
1 TAAGACATCTGTCTCCAATCTTGAACAA
38546624 TAAGACATCTGTCTCCAATCTTGAACAA
1 TAAGACATCTGTCTCCAATCTTGAACAA
38546652 T
1 T
38546653 CTTGAACAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.25, G:0.11, T:0.30
Consensus pattern (28 bp):
TAAGACATCTGTCTCCAATCTTGAACAA
Found at i:38547849 original size:19 final size:19
Alignment explanation
Indices: 38547826--38547872 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
38547816 ATTTAATCTA
*
38547826 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
38547844 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
38547864 ATTTTTATT
1 ATTTTTATT
38547873 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:38549192 original size:38 final size:38
Alignment explanation
Indices: 38549141--38549218 Score: 111
Period size: 38 Copynumber: 2.1 Consensus size: 38
38549131 TTAAGGCAGA
* * *
38549141 GAAGAAAAGAGTTATGGGAAATGTAGAGGATTAGAAAT
1 GAAGAAAAGAGTTAAGGGAAATGGAGAGAATTAGAAAT
* *
38549179 GAAGAAAATAGTTAAGGGAAATGGAGATAATTAGAAAT
1 GAAGAAAAGAGTTAAGGGAAATGGAGAGAATTAGAAAT
38549217 GA
1 GA
38549219 TCCAAACATA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (38 bp):
GAAGAAAAGAGTTAAGGGAAATGGAGAGAATTAGAAAT
Found at i:38554749 original size:62 final size:62
Alignment explanation
Indices: 38554662--38554786 Score: 196
Period size: 62 Copynumber: 2.0 Consensus size: 62
38554652 ATATGTTAGC
* * * * *
38554662 ACACTAGGTGTGAGCTTCCCGTGTATATGATATTATTCTAAATGGTTCAACGGGCATGTAAA
1 ACACTAAGTGTGAACTTCCCATGTATATAATATTATTCAAAATGGTTCAACGGGCATGTAAA
*
38554724 ACACTAAGTGTGAACTTTCCATGTATATAATATTATTCAAAATGGTTCAACGGGCATGTAAA
1 ACACTAAGTGTGAACTTCCCATGTATATAATATTATTCAAAATGGTTCAACGGGCATGTAAA
38554786 A
1 A
38554787 GATGAACCTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (62 bp):
ACACTAAGTGTGAACTTCCCATGTATATAATATTATTCAAAATGGTTCAACGGGCATGTAAA
Found at i:38564815 original size:21 final size:21
Alignment explanation
Indices: 38564791--38564830 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
38564781 ATGAGTATAT
*
38564791 CATAGCATATCATGTGCATCC
1 CATAACATATCATGTGCATCC
38564812 CATAACATATCATGTGCAT
1 CATAACATATCATGTGCAT
38564831 ATTATGTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (21 bp):
CATAACATATCATGTGCATCC
Found at i:38566369 original size:11 final size:11
Alignment explanation
Indices: 38566355--38566379 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38566345 TCCAACAGAG
38566355 TTCCATTCGAC
1 TTCCATTCGAC
38566366 TTCCATTCGAC
1 TTCCATTCGAC
38566377 TTC
1 TTC
38566380 AAACTCCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCCATTCGAC
Found at i:38579769 original size:25 final size:25
Alignment explanation
Indices: 38579704--38579769 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
38579694 CATGAGCTTC
* *
38579704 AGCTCATATGAGTTTACCGGTTACA
1 AGCTCATATGAGTATACCGATTACA
*
38579729 A-CTCATAAGAGTATACCGATT-CA
1 AGCTCATATGAGTATACCGATTACA
*
38579752 GAGCTCATATGAGCATAC
1 -AGCTCATATGAGTATAC
38579770 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 14 0.41
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (25 bp):
AGCTCATATGAGTATACCGATTACA
Found at i:38586768 original size:46 final size:46
Alignment explanation
Indices: 38586718--38586890 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
38586708 TGGTTGAGCA
38586718 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
38586764 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
38586809 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
38586857 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
38586891 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:38586874 original size:93 final size:93
Alignment explanation
Indices: 38586715--38586885 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
38586705 GGATGGTTGA
* *
38586715 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38586780 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
38586808 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38586873 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38586886 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38589864 original size:15 final size:15
Alignment explanation
Indices: 38589844--38589899 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
38589834 GTATCTTGGG
38589844 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
38589859 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
38589874 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
38589889 TTTCTTTATTC
1 TTTCTTTATTC
38589900 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:38592348 original size:46 final size:46
Alignment explanation
Indices: 38592298--38592465 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
38592288 TGAGCATCCA
38592298 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * * *
38592344 AACTCGTTGAGTTGAGT-CGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* *
38592390 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
*
38592436 AGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
38592466 GGGGCGGGTT
Statistics
Matches: 101, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
44 3 0.03
45 7 0.07
46 70 0.69
47 7 0.07
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:38592448 original size:92 final size:93
Alignment explanation
Indices: 38592291--38592460 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 93
38592281 GGATGGTTGA
* *
38592291 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38592356 TGAGT-CGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
38592383 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
38592448 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
38592461 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 66 0.90
93 7 0.10
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:38600356 original size:32 final size:32
Alignment explanation
Indices: 38600320--38600384 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
38600310 CGTAGATTTA
* * *
38600320 ACTAATTAAACTATGTAAAAGAAATAGAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
38600352 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
1 ACTAATTAAACTATGCAAAAGAAACAAAGTGT
38600384 A
1 A
38600385 AATTGATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (32 bp):
ACTAATTAAACTATGCAAAAGAAACAAAGTGT
Found at i:38601959 original size:28 final size:28
Alignment explanation
Indices: 38601924--38601977 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
38601914 GTAAGGTTTT
38601924 AAAACATTATATTTAAAGGGGAATGTCA
1 AAAACATTATATTTAAAGGGGAATGTCA
*
38601952 AAAACATTGTATTTAAAGGGGAATGT
1 AAAACATTATATTTAAAGGGGAATGT
38601978 TAACACACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (28 bp):
AAAACATTATATTTAAAGGGGAATGTCA
Found at i:38602284 original size:15 final size:15
Alignment explanation
Indices: 38602260--38602292 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
38602250 AAGTGATCTT
38602260 TAGATGT-AAAACTA
1 TAGATGTAAAAACTA
38602274 TAGATTGTAAAAACTA
1 TAGA-TGTAAAAACTA
38602290 TAG
1 TAG
38602293 TAAACTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 3 0.18
16 10 0.59
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (15 bp):
TAGATGTAAAAACTA
Found at i:38605092 original size:15 final size:16
Alignment explanation
Indices: 38605049--38605104 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
38605039 TGTCTACTTC
*
38605049 TATTTAAATTATGATTA
1 TATTT-AATTATGATTT
*
38605066 TATGAATAATTAT-ATTT
1 TAT--TTAATTATGATTT
*
38605083 TATTTAATTATGTTTT
1 TATTTAATTATGATTT
38605099 TATTTA
1 TATTTA
38605105 TTTGTAGGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 7 0.22
16 9 0.28
17 9 0.28
18 6 0.19
19 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
TATTTAATTATGATTT
Found at i:38607193 original size:56 final size:56
Alignment explanation
Indices: 38607107--38607223 Score: 234
Period size: 56 Copynumber: 2.1 Consensus size: 56
38607097 TGTGTGAAGA
38607107 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
1 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
38607163 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
1 CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
38607219 CCTCT
1 CCTCT
38607224 TGTAATAAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44
Consensus pattern (56 bp):
CCTCTCTTCTCATTCTCAACAAAAAGTCTCTCATTCTAATTCCTTCTTGTATTCTT
Found at i:38609194 original size:54 final size:54
Alignment explanation
Indices: 38609091--38609257 Score: 189
Period size: 54 Copynumber: 3.1 Consensus size: 54
38609081 TTAGTTTACC
* *
38609091 AAATTACTAAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTCAGTTTATA
1 AAATTACTAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCAGTTTATA
** *
38609144 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTCAGTTT-TCA
1 AAATTACTAAAATATCCTCGACTTGTAAAATTATC-AAAGTACCCTCAGTTTAT-A
* * * * *
38609198 AAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC-GATTTACA
1 AAATTACTAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCAG-TTTATA
38609252 AAATTA
1 AAATTA
38609258 TCATTTTACC
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
53 22 0.23
54 72 0.74
55 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACTAAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTCAGTTTATA
Found at i:38609244 original size:27 final size:26
Alignment explanation
Indices: 38609112--38609275 Score: 127
Period size: 27 Copynumber: 6.1 Consensus size: 26
38609102 ATATCCTCAG
*
38609112 TTGTAAAATTACCAAAGTACCCTC-AGT
1 TTGTAAAATTATCAAA-TACCCTCGA-T
* * *
38609139 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTA-TCAAATACCCTCGAT
38609166 TTGTAAAATTATCGAAATACCCTC-AGT
1 TTGTAAAATTATC-AAATACCCTCGA-T
* *
38609193 TT-TCAAAATTATTGAAATACCCTCGAC
1 TTGT-AAAATTA-TCAAATACCCTCGAT
*
38609220 ATGTAAAATTATCAAAGTACCCTCGAT
1 TTGTAAAATTATCAAA-TACCCTCGAT
** **
38609247 TTACAAAATTATCATTTTACCCTCGAT
1 TTGTAAAATTATCA-AATACCCTCGAT
38609274 TT
1 TT
38609276 ACAGAATTAC
Statistics
Matches: 112, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
26 7 0.06
27 96 0.86
28 9 0.08
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (26 bp):
TTGTAAAATTATCAAATACCCTCGAT
Found at i:38609276 original size:27 final size:26
Alignment explanation
Indices: 38609237--38609339 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 26
38609227 ATTATCAAAG
38609237 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
38609264 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
38609291 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
38609318 TACCCTCGATTTAGAAAATTAC
1 TACCCTCGATTTACAAAATTAC
38609340 TAAAATACCC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
26 2 0.03
27 68 0.96
28 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:38609348 original size:27 final size:27
Alignment explanation
Indices: 38609091--38609376 Score: 126
Period size: 27 Copynumber: 10.6 Consensus size: 27
38609081 TTAGTTTACC
* *
38609091 AAATTACTAAAATATCCTC-AGTT-GTA
1 AAATTACTAAAATACCCTCGATTTAG-A
* * *
38609117 AAATTACCAAAGTACCCTC-AGTTTATA
1 AAATTACTAAAATACCCTCGA-TTTAGA
** *
38609144 AAATTACCCAAATATCCTCGATTT-GTA
1 AAATTACTAAAATACCCTCGATTTAG-A
* **
38609171 AAATTA-TCGAAATACCCTC-AGTTTTCA
1 AAATTACT-AAAATACCCTCGA-TTTAGA
* * **
38609198 AAATTATTGAAATACCCTCGACAT-GTA
1 AAATTACTAAAATACCCTCGATTTAG-A
* *
38609225 AAATTA-TCAAAGTACCCTCGATTTACA
1 AAATTACT-AAAATACCCTCGATTTAGA
*** *
38609252 AAATTA-TCATTTTACCCTCGATTTACA
1 AAATTACT-AAAATACCCTCGATTTAGA
* ***
38609279 GAATTACTATTTTACCCTCGATTTAGA
1 AAATTACTAAAATACCCTCGATTTAGA
* * ***
38609306 GAATTACCATTTTACCCTCGATTTAGA
1 AAATTACTAAAATACCCTCGATTTAGA
*
38609333 AAATTACTAAAATACCC-CTGGTTT-GTA
1 AAATTACTAAAATACCCTC-GATTTAG-A
38609360 AAATTACTAAAATACCC
1 AAATTACTAAAATACCC
38609377 CTATAAGGTA
Statistics
Matches: 212, Mismatches: 33, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
26 21 0.10
27 187 0.88
28 4 0.02
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTAGA
Found at i:38609366 original size:54 final size:54
Alignment explanation
Indices: 38609224--38609349 Score: 155
Period size: 54 Copynumber: 2.3 Consensus size: 54
38609214 CTCGACATGT
* * *
38609224 AAAATTA-TCAAAGTACCCTCGATTTACAAAATTATCATTTTACCCTCGATTTAC
1 AAAATTACT-AAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
* *** * *
38609278 AGAATTACTATTTTACCCTCGATTTAGAGAATTACCATTTTACCCTCGATTTAG
1 AAAATTACTAAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
38609332 AAAATTACTAAAATACCC
1 AAAATTACTAAAATACCC
38609350 CTGGTTTGTA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCGATTTAGAAAATTACCATTTTACCCTCGATTTAC
Found at i:38609391 original size:27 final size:27
Alignment explanation
Indices: 38609334--38609689 Score: 439
Period size: 27 Copynumber: 13.2 Consensus size: 27
38609324 CGATTTAGAA
* ** *
38609334 AATTACTAAAATACCCCTGGT-TTGTAA
1 AATTACTGAAATACCCCT-GTAGGGTAG
* * *
38609361 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38609388 AATTACTG-AATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
38609414 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38609441 AATTACCGAAATATCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
38609468 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
38609495 AATTACCGAAATACCCCTATAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38609522 AATTACCGAAATACCCCTGTAGGGTAT
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38609549 AATTACTGAAATACCCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
38609576 AATTACTGAAATAACCCTATAGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
38609603 AATTA-TCGCAATACCCCTATAGGTTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
38609630 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38609657 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
38609684 AATTAC
1 AATTAC
38609690 CTAGATACCT
Statistics
Matches: 293, Mismatches: 32, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
26 27 0.09
27 266 0.91
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:38609948 original size:27 final size:26
Alignment explanation
Indices: 38609910--38609992 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
38609900 CGGAGGAAGC
*
38609910 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
38609937 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
38609963 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
38609990 GTT
1 GTT
38609993 GACCGATTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:38610325 original size:27 final size:27
Alignment explanation
Indices: 38610303--38610376 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
38610293 TAGGTGGGTT
*
38610303 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
38610330 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
38610357 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
38610377 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:38610511 original size:6 final size:6
Alignment explanation
Indices: 38610494--38610671 Score: 116
Period size: 6 Copynumber: 28.8 Consensus size: 6
38610484 TTGCATTCAC
* * *
38610494 ATTCTA ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
38610544 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * *
38610593 ATTCTG -TTACCTA ATTCTA ATTCT- AGTTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG A-TTCTG ATTCTG ATTCTG AT--TCTG
*
38610643 ATTTTG ATTCTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCT
38610672 AGTTATGATA
Statistics
Matches: 137, Mismatches: 18, Indels: 34
0.72 0.10 0.18
Matches are distributed among these distances:
5 10 0.07
6 106 0.77
7 14 0.10
8 7 0.05
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:38610527 original size:19 final size:19
Alignment explanation
Indices: 38610522--38610676 Score: 115
Period size: 19 Copynumber: 7.9 Consensus size: 19
38610512 TTACCTGATA
38610522 CTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGTTAC
*
38610541 CTAATTCTGATTCTGGTT--
1 CTGATTCTGATTCT-GTTAC
38610559 CTGATTCTGATTCTGTTACC
1 CTGATTCTGATTCTGTTA-C
*
38610579 TGATACTGATTCTAATTCTGTTAC
1 -----CTGATTCTGATTCTGTTAC
* *
38610603 CTAATTCTAATTCTAGTT--
1 CTGATTCTGATTCT-GTTAC
* *
38610621 CTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGTTAC
*
38610640 CTGATTTTGATTCTGATT--
1 CTGATTCTGATTCTG-TTAC
38610658 CTGATTCTGATTCTAGTTA
1 CTGATTCTGATTCT-GTTA
38610677 TGATAATGTT
Statistics
Matches: 111, Mismatches: 10, Indels: 30
0.74 0.07 0.20
Matches are distributed among these distances:
17 5 0.05
18 39 0.35
19 42 0.38
20 7 0.06
24 1 0.01
25 17 0.15
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.48
Consensus pattern (19 bp):
CTGATTCTGATTCTGTTAC
Found at i:38610528 original size:25 final size:25
Alignment explanation
Indices: 38610500--38610561 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
38610490 TCACATTCTA
*
38610500 ATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGTTACCTAATACTG
*
38610525 ATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGTTACCTAATACTG
*
38610550 ATTCTGGTTCTG
1 ATTCTGATTCTG
38610562 ATTCTGATTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGTTACCTAATACTG
Found at i:38610597 original size:62 final size:62
Alignment explanation
Indices: 38610495--38610660 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 62
38610485 TGCATTCACA
* * *
38610495 TTCTAATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
*
38610557 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTAATTCTGTTACCTAATTCTAATTCTAG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
* * **
38610619 TTCTGATTTTGATTCTGTCACCTGATTTTGATTCTGATTCTG
1 TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTG
38610661 ATTCTGATTC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTAG
Found at i:38610598 original size:37 final size:37
Alignment explanation
Indices: 38610522--38610598 Score: 118
Period size: 37 Copynumber: 2.1 Consensus size: 37
38610512 TTACCTGATA
* **
38610522 CTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTT
1 CTGATTCTGATTCTGTTACCTAATACTGATTCTAATT
*
38610559 CTGATTCTGATTCTGTTACCTGATACTGATTCTAATT
1 CTGATTCTGATTCTGTTACCTAATACTGATTCTAATT
38610596 CTG
1 CTG
38610599 TTACCTAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGTTACCTAATACTGATTCTAATT
Found at i:38610615 original size:25 final size:25
Alignment explanation
Indices: 38610557--38610623 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
38610547 CTGATTCTGG
* *
38610557 TTCTGATTCTGATTCTGTTACCTGA
1 TTCTGATTCTAATTCTGTTACCTAA
*
38610582 TACTGATTCTAATTCTGTTACCTAA
1 TTCTGATTCTAATTCTGTTACCTAA
* *
38610607 TTCTAATTCTAGTTCTG
1 TTCTGATTCTAATTCTG
38610624 ATTTTGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (25 bp):
TTCTGATTCTAATTCTGTTACCTAA
Found at i:38610625 original size:37 final size:37
Alignment explanation
Indices: 38610578--38610676 Score: 110
Period size: 37 Copynumber: 2.6 Consensus size: 37
38610568 ATTCTGTTAC
* *
38610578 CTGATACTGATTCTAATTCTGTTACCTAATTCTAATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATTCTAATT
* * * * *
38610615 CT-AGTTCTGATTTTGATTCTGTCACCTGATTTTGATT
1 CTGA-TTCTGATTCTGATTCTGTTACCTAATTCTAATT
38610652 CTGATTCTGATTCTGATTCTAGTTA
1 CTGATTCTGATTCTGATTCT-GTTA
38610677 TGATAATGTT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
36 1 0.02
37 45 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATTCTAATT
Found at i:38622310 original size:56 final size:56
Alignment explanation
Indices: 38622191--38622313 Score: 151
Period size: 56 Copynumber: 2.2 Consensus size: 56
38622181 CCATGGCATC
* * * *
38622191 AATATATG-GTACGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGATATT
1 AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
** *
38622246 GGTATATGTGTGCGGGTAAAACCACATTTAATACGTTGGCATCGATATGTGAT-TT
1 AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
*
38622301 CAATTTATGTGTG
1 -AATATATGTGTG
38622314 TGAGTAAGAC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
55 8 0.14
56 48 0.86
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (56 bp):
AATATATGTGTGCGGGTAAAACCACATTTAATACATTGGCATCGATATGTGATATT
Found at i:38649445 original size:13 final size:13
Alignment explanation
Indices: 38649427--38649453 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
38649417 AAGAAAGCAT
38649427 AAAACAAAACAAA
1 AAAACAAAACAAA
38649440 AAAACAAAACAAA
1 AAAACAAAACAAA
38649453 A
1 A
38649454 TCTTCATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAACAAAACAAA
Found at i:38656979 original size:46 final size:46
Alignment explanation
Indices: 38656912--38657085 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
38656902 TTTGGGCATT
38656912 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCC
*
38656958 CGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAT--ATGT-AACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--GC--C
* * * * * *
38657005 CGAAATCTTTGAGTTGAGTCCAATTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCC
* * *
38657051 CGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38657086 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 57 0.55
47 25 0.24
48 5 0.05
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCC
Found at i:38657065 original size:93 final size:93
Alignment explanation
Indices: 38656906--38657077 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
38656896 CAAATATTTG
* * * * *
38656906 GGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAACTCGTTGAG
1 GGCATCCGAAATCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
38656971 TTGAGTCCGAGTTCATGATATGTAACTA
66 TTGAGTCCGAGTTCATGATATGTAACTA
* * *
38656999 GGCATCCGAAATCTTTGAGTTGAGTCCAATTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAAATCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
38657064 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
38657078 GCTTATGGGC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (93 bp):
GGCATCCGAAATCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGATATGTAACTA
Found at i:38664907 original size:19 final size:19
Alignment explanation
Indices: 38664883--38664921 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
38664873 TCTTCAGCCT
38664883 TAAGTCAAAACTTGTACTA
1 TAAGTCAAAACTTGTACTA
38664902 TAAGTCAAAACTTGTACTA
1 TAAGTCAAAACTTGTACTA
38664921 T
1 T
38664922 CTATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (19 bp):
TAAGTCAAAACTTGTACTA
Found at i:38667235 original size:54 final size:54
Alignment explanation
Indices: 38667153--38667284 Score: 255
Period size: 54 Copynumber: 2.4 Consensus size: 54
38667143 TCGCTGTAAA
38667153 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
*
38667207 GGATTTAGCCTGGATTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
1 GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
38667261 GGATTTAGCCTGGACTGGTAATCC
1 GGATTTAGCCTGGACTGGTAATCC
38667285 TGCCATATAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
GGATTTAGCCTGGACTGGTAATCCCGACATCATCTTATGAGTTCATGAAATAGG
Found at i:38686100 original size:8 final size:8
Alignment explanation
Indices: 38686064--38686107 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
38686054 GGCAAAAGCG
38686064 GAAATGCC
1 GAAATGCC
* *
38686072 AAAATGTC
1 GAAATGCC
*
38686080 GAAAAGCC
1 GAAATGCC
38686088 GAAATGCC
1 GAAATGCC
*
38686096 GAAATACC
1 GAAATGCC
38686104 GAAA
1 GAAA
38686108 GTTTGGCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.48, C:0.20, G:0.20, T:0.11
Consensus pattern (8 bp):
GAAATGCC
Found at i:38686106 original size:24 final size:24
Alignment explanation
Indices: 38686057--38686107 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
38686047 ATGAATCGGC
* **
38686057 AAAAGCGGAAATGCCAAAATGTCG
1 AAAAGCCGAAATGCCAAAATACCG
*
38686081 AAAAGCCGAAATGCCGAAATACCG
1 AAAAGCCGAAATGCCAAAATACCG
38686105 AAA
1 AAA
38686108 GTTTGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.20, G:0.22, T:0.10
Consensus pattern (24 bp):
AAAAGCCGAAATGCCAAAATACCG
Found at i:38686357 original size:28 final size:28
Alignment explanation
Indices: 38686316--38686390 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
38686306 GTGAGCATGA
*
38686316 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATGAATATGACTGGGCCTAACAGGCC
* * **
38686344 ATATTAATATGACTTTGGCCTAATGGGCC
1 ATATGAATATGAC-TGGGCCTAACAGGCC
*
38686373 ATATGAATATGATTGGGC
1 ATATGAATATGACTGGGC
38686391 TTAATGGGCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
ATATGAATATGACTGGGCCTAACAGGCC
Found at i:38686372 original size:29 final size:28
Alignment explanation
Indices: 38686316--38686399 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
38686306 GTGAGCATGA
* * **
38686316 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
38686344 ATATTAATATGACTTTGGCCTAATGGGCC
1 ATATGAATATGA-TTGGGCCTAATGGGCC
*
38686373 ATATGAATATGATTGGGCTTAATGGGC
1 ATATGAATATGATTGGGCCTAATGGGC
38686400 TATCACATAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
28 23 0.50
29 23 0.50
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:38690545 original size:31 final size:31
Alignment explanation
Indices: 38690502--38690734 Score: 354
Period size: 31 Copynumber: 7.7 Consensus size: 31
38690492 TTTATCTTGA
38690502 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
38690532 TATATCACTGGGCCGAAGCCATTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
38690563 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
38690594 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* *
38690625 CATATCACT------AGGCCTTTTCGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
38690650 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
38690681 CATATCACTGGGCCGAAGCCTTTTCGTAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
38690712 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
38690735 ACTGTAAACG
Statistics
Matches: 184, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.12
30 4 0.02
31 157 0.85
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:38690640 original size:25 final size:25
Alignment explanation
Indices: 38690611--38690663 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
38690601 CTGGGCCGAA
38690611 GCCTTTTCATAAATCATATCACTAG
1 GCCTTTTCATAAATCATATCACTAG
* *
38690636 GCCTTTTCGTAAATCATATCACTGG
1 GCCTTTTCATAAATCATATCACTAG
38690661 GCC
1 GCC
38690664 GAAGCCTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (25 bp):
GCCTTTTCATAAATCATATCACTAG
Found at i:38690678 original size:87 final size:88
Alignment explanation
Indices: 38690502--38690721 Score: 327
Period size: 87 Copynumber: 2.5 Consensus size: 88
38690492 TTTATCTTGA
*
38690502 CATAT-ACTGGGCCGAAGCCTTTTCATAAATTATATCACTGGGCCGAAGCCATTTCATAAATCAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACT-----GAAGCCATTTCATAAATCAT
38690566 ATCACTAGGCCGAAGCCTTTTCATAAAT
61 ATCACTAGGCCGAAGCCTTTTCATAAAT
* * *
38690594 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACT-AGGCCTTTTCGTAAATCATATCAC
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGAAGCCATTTCATAAATCATATCAC
*
38690658 TGGGCCGAAGCCTTTTCATAAAT
66 TAGGCCGAAGCCTTTTCATAAAT
*
38690681 CATATCACTGGGCCGAAGCCTTTTCGTAAATCATATCACTG
1 CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTG
38690722 GGTCGAAGCC
Statistics
Matches: 120, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
87 82 0.68
92 5 0.04
93 33 0.28
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (88 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGAAGCCATTTCATAAATCATATCAC
TAGGCCGAAGCCTTTTCATAAAT
Found at i:38690695 original size:118 final size:118
Alignment explanation
Indices: 38690518--38690734 Score: 380
Period size: 118 Copynumber: 1.8 Consensus size: 118
38690508 CTGGGCCGAA
*
38690518 GCCTTTTCATAAATTATATCACTGGGCCGAAGCCATTTCATAAATCATATCACTAGGCCGAAGCC
1 GCCTTTTCATAAATCATATCACTGGGCCGAAGCCATTTCATAAATCATATCACTAGGCCGAAGCC
38690583 TTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAG
66 TTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAG
* * *
38690636 GCCTTTTCGTAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTGGGCCGAAGCC
1 GCCTTTTCATAAATCATATCACTGGGCCGAAGCCATTTCATAAATCATATCACTAGGCCGAAGCC
* *
38690701 TTTTCGTAAATCATATCACTGGGTCGAAGCCTTT
66 TTTTCATAAATCATATCACTGGGCCGAAGCCTTT
38690735 ACTGTAAACG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 93 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (118 bp):
GCCTTTTCATAAATCATATCACTGGGCCGAAGCCATTTCATAAATCATATCACTAGGCCGAAGCC
TTTTCATAAATCATATCACTGGGCCGAAGCCTTTTCATAAATCATATCACTAG
Found at i:38690817 original size:42 final size:42
Alignment explanation
Indices: 38690758--38690849 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
38690748 TGGCCCTTAG
38690758 GCCCATTTCAACATCACATATAATGTCAATGAATGTATGCAA
1 GCCCATTTCAACATCACATATAATGTCAATGAATGTATGCAA
* * *
38690800 GCCCATTTCAATATCACATGTAATGTTAATGAATGTATGCAA
1 GCCCATTTCAACATCACATATAATGTCAATGAATGTATGCAA
38690842 GCCCATTT
1 GCCCATTT
38690850 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAACATCACATATAATGTCAATGAATGTATGCAA
Found at i:38691025 original size:25 final size:25
Alignment explanation
Indices: 38690997--38691066 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
38690987 CTCTTTTAAT
38690997 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
38691022 AACTGGGGCAAAGCCCTTTTCGCTA
1 AACTGGGGCAAAGCCCTTTTCGATA
**
38691047 AACTGGGGCGGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
38691067 AGCACTTTCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 37 0.90
26 4 0.10
ACGTcount: A:0.23, C:0.26, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:38691940 original size:27 final size:27
Alignment explanation
Indices: 38691880--38691942 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
38691870 GTATATTCGA
*
38691880 CATTTTACCATACAGGGGTATTACGGT
1 CATTTTACCATACAGGGCTATTACGGT
* *
38691907 CACTTTACCCTACAAGGGCT-TTACGGT
1 CATTTTACCATAC-AGGGCTATTACGGT
*
38691934 CTTTTTACC
1 CATTTTACC
38691943 TATTAGAGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
CATTTTACCATACAGGGCTATTACGGT
Found at i:38692026 original size:27 final size:27
Alignment explanation
Indices: 38691973--38692103 Score: 113
Period size: 27 Copynumber: 4.8 Consensus size: 27
38691963 TTTCATCCTA
* * **
38691973 CAAGGGTATTTTAGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAC
*
38692000 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAC
* *
38692027 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTT-TAGTAATTTTGT--AAA-C
* *
38692056 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAC
* *
38692083 CAGGGGTATTTTTGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
38692104 ACAAATTGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.01
27 60 0.69
28 8 0.09
29 17 0.20
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:38692065 original size:56 final size:54
Alignment explanation
Indices: 38691973--38692129 Score: 154
Period size: 56 Copynumber: 2.9 Consensus size: 54
38691963 TTTCATCCTA
* * *
38691973 CAAGGGTATTT-TAGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCTA-TAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
* * ** *
38692027 CAATGGTATTTCTATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTCTATAA-TTTTACAAA-TCAAGGGTATTTCAGTAATTTTGTAAAC
* * * ** *
38692083 CAGGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGGTAATTT
1 CAAGGGTATTTCTATAATTTTACAAATCAAGGGTATTTCAGTAATTT
38692130 CACAAACTAG
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
54 30 0.36
55 16 0.19
56 37 0.45
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (54 bp):
CAAGGGTATTTCTATAATTTTACAAATCAAGGGTATTTCAGTAATTTTGTAAAC
Found at i:38692094 original size:26 final size:26
Alignment explanation
Indices: 38691976--38692181 Score: 94
Period size: 27 Copynumber: 7.6 Consensus size: 26
38691966 CATCCTACAA
* * * * *
38691976 GGGTATTTTAGTAAATCTACAAACCAA
1 GGGTATTTT-GTAATTTTATAAATCAG
* * * *
38692003 GGGTATTTCAGTAATTTTGTAAACCAA
1 GGGTATTT-TGTAATTTTATAAATCAG
* * * *
38692030 TGGTATTTCTATAATTTTTAGAAAGTCAA
1 GGGTATTT-TGTAA-TTTTATAAA-TCAG
*
38692059 GGGTATTTTTGTAATTTTGTAAATCAG
1 GGGTA-TTTTGTAATTTTATAAATCAG
* *
38692086 GGGTATTTTTGTAATTTTACAAAT-TG
1 GGGTA-TTTTGTAATTTTATAAATCAG
* * *
38692112 AGGGTATTTCGGTAATTTCACAAA-CTAG
1 -GGGTATTT-TGTAATTTTATAAATC-AG
* *
38692140 TGGTATTTTGGTAATTTTATAACT-AG
1 GGGTATTTT-GTAATTTTATAAATCAG
38692166 GGGTATTTTGGTAATT
1 GGGTATTTT-GTAATT
38692182 CTACCCTATA
Statistics
Matches: 141, Mismatches: 28, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
26 21 0.15
27 91 0.65
28 15 0.11
29 11 0.08
30 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (26 bp):
GGGTATTTTGTAATTTTATAAATCAG
Found at i:38692109 original size:27 final size:27
Alignment explanation
Indices: 38692045--38692181 Score: 118
Period size: 27 Copynumber: 5.1 Consensus size: 27
38692035 TTTCTATAAT
* * *
38692045 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
** *
38692073 TTTTGTAAATCAGGGGTATTTTTGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
38692100 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* *
38692127 TTTCACAAA-CTAGTGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
* *
38692154 TTTTATAACT-AGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
38692180 TT
1 TT
38692182 CTACCCTATA
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
26 18 0.20
27 63 0.71
28 8 0.09
ACGTcount: A:0.28, C:0.06, G:0.21, T:0.45
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:38692197 original size:80 final size:81
Alignment explanation
Indices: 38692060--38692210 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 81
38692050 GAAAGTCAAG
* * * * * *
38692060 GGTATTTTTGTAATTTTGTAAATCAGGGGTATTTTTGTAATTTTACAAATTGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTATAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
38692125 AATTTCACAAACTAGT
66 AATTTCACAAACTAGT
* **
38692141 GGTATTTTGGTAATTTTATAACT-AGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGGTAATTTTATAAATCAGGGGTATTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
38692204 TAATTTC
65 TAATTTC
38692211 TTAGTCGAGG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
80 36 0.60
81 24 0.40
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTATAAATCAGGGGTATTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCACAAACTAGT
Found at i:38692245 original size:27 final size:27
Alignment explanation
Indices: 38692215--38692304 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
38692205 AATTTCTTAG
*
38692215 TCGAGGGTAAAAC-GTTAATTTTGTAAA
1 TCGAGGGTAAAACAG-TAATTCTGTAAA
*
38692242 TCGAGGGTAAAACAGCAATTCTGTAAA
1 TCGAGGGTAAAACAGTAATTCTGTAAA
* * *
38692269 TCAAGTGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACAGTAATTCTGTAAA
38692296 TCGAGGGTA
1 TCGAGGGTA
38692305 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (27 bp):
TCGAGGGTAAAACAGTAATTCTGTAAA
Found at i:38696582 original size:22 final size:22
Alignment explanation
Indices: 38696556--38696600 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
38696546 AATGCAAGGG
38696556 TATGAGGCTAATGCCGAAATCT
1 TATGAGGCTAATGCCGAAATCT
*
38696578 TATGAGGTTAATGCCGAAATCT
1 TATGAGGCTAATGCCGAAATCT
38696600 T
1 T
38696601 TTTCTCGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (22 bp):
TATGAGGCTAATGCCGAAATCT
Found at i:38697333 original size:16 final size:16
Alignment explanation
Indices: 38697307--38697361 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
38697297 TATGAATCGA
38697307 CAAAA-GCCGAAACGC
1 CAAAATGCCGAAACGC
* **
38697322 CGAAATGCCGAAACTT
1 CAAAATGCCGAAACGC
* *
38697338 CAAAATGCCGAAAAGT
1 CAAAATGCCGAAACGC
38697354 CAAAATGC
1 CAAAATGC
38697362 AAGAATGCCG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 4 0.12
16 29 0.88
ACGTcount: A:0.45, C:0.25, G:0.18, T:0.11
Consensus pattern (16 bp):
CAAAATGCCGAAACGC
Found at i:38697640 original size:29 final size:29
Alignment explanation
Indices: 38697585--38697699 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
38697575 GTGAGCATGA
*
38697585 ATATGAATGTGAC-TGGGCATAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
*
38697613 ATATAAATGTGACTTGGGCCTAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
** * *
38697642 ATATTCAGGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
* * *
38697671 ACATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGACTTGGGCCTAATGGGCC
38697699 A
1 A
38697700 GATACATGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 28 0.38
29 46 0.62
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGACTTGGGCCTAATGGGCC
Done.