Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 107 of 126
Found at i:32084134 original size:22 final size:22
Alignment explanation
Indices: 32084109--32084150 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32084099 TCTAATCTAA
*
32084109 TTGAAAAAAATGCATTAATTTC
1 TTGAAAAAAATACATTAATTTC
*
32084131 TTGAAAGAAATACATTAATT
1 TTGAAAAAAATACATTAATT
32084151 ATATCCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
TTGAAAAAAATACATTAATTTC
Found at i:32088922 original size:14 final size:15
Alignment explanation
Indices: 32088894--32088922 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32088884 TATATTTCAG
32088894 AAATAAAGAATTAAA
1 AAATAAAGAATTAAA
32088909 AAATAAAG-ATTAAA
1 AAATAAAGAATTAAA
32088923 TCTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (15 bp):
AAATAAAGAATTAAA
Found at i:32089343 original size:19 final size:20
Alignment explanation
Indices: 32089321--32089359 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
32089311 AATCAAGTTA
32089321 AAATTAATT-AAATTAATCG
1 AAATTAATTAAAATTAATCG
32089340 AAATTAATTAAAATTAATCG
1 AAATTAATTAAAATTAATCG
32089360 TATTGGTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (20 bp):
AAATTAATTAAAATTAATCG
Found at i:32100519 original size:6 final size:6
Alignment explanation
Indices: 32100508--32100548 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
32100498 ACACCTCTCT
32100508 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
1 TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTCA TCTTC
32100549 TTCTCTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.15, C:0.34, G:0.00, T:0.51
Consensus pattern (6 bp):
TCTTCA
Found at i:32102552 original size:10 final size:10
Alignment explanation
Indices: 32102539--32102564 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
32102529 ATATATTTTC
32102539 AAAAAAATAA
1 AAAAAAATAA
32102549 AAAAAAATAA
1 AAAAAAATAA
32102559 AAAAAA
1 AAAAAA
32102565 TAACATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:32103100 original size:10 final size:10
Alignment explanation
Indices: 32103085--32103123 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
32103075 TCAGTACATG
32103085 TTTTAATTTT
1 TTTTAATTTT
32103095 TTTTAATTATAT
1 TTTTAATT-T-T
32103107 GTTTTAATTTT
1 -TTTTAATTTT
32103118 TTTTAA
1 TTTTAA
32103124 AAGAAACCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 14 0.54
11 2 0.08
12 2 0.08
13 8 0.31
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (10 bp):
TTTTAATTTT
Found at i:32108150 original size:6 final size:6
Alignment explanation
Indices: 32108124--32108168 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
32108114 TTAAATCTAT
* *
32108124 TTTAAA -TTCAA TTTAAG TTTAAA TTTAAA TTT-AA TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
32108169 TATCATTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:32108166 original size:11 final size:11
Alignment explanation
Indices: 32108114--32108169 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
32108104 TACTTTGAAA
* *
32108114 TTAAATCTATT
1 TTAAATTTAAT
*
32108125 TTAAATTCAAT
1 TTAAATTTAAT
*
32108136 TTAAGTTTAAAT
1 TTAAATTT-AAT
32108148 TTAAATTTAAT
1 TTAAATTTAAT
32108159 TTAAATTTAAT
1 TTAAATTTAAT
32108170 ATCATTGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:32108166 original size:17 final size:17
Alignment explanation
Indices: 32108096--32108168 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
32108086 CTCAAACCTT
*
32108096 TTTAAATTTACTTTGAAA
1 TTTAAATTTAATTT-AAA
* *
32108114 -TTAAATCTATTTTAAA
1 TTTAAATTTAATTTAAA
*
32108130 -TTCAATTTAAGTTTAAA
1 TTTAAATTTAA-TTTAAA
32108147 TTTAAATTTAATTTAAA
1 TTTAAATTTAATTTAAA
32108164 TTTAA
1 TTTAA
32108169 TATCATTGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
16 10 0.21
17 28 0.60
18 9 0.19
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAATTTAAA
Found at i:32108223 original size:13 final size:13
Alignment explanation
Indices: 32108205--32108229 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32108195 ATTAAATAAA
32108205 GTCCAATTTACAT
1 GTCCAATTTACAT
32108218 GTCCAATTTACA
1 GTCCAATTTACA
32108230 AGCCTAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (13 bp):
GTCCAATTTACAT
Found at i:32111393 original size:21 final size:21
Alignment explanation
Indices: 32111367--32111407 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
32111357 CCAAAATACT
*
32111367 GATACTTGTTTTTA-AGGTATG
1 GATACTT-TTTATATAGGTATG
32111388 GATACTTTTTATATAGGTAT
1 GATACTTTTTATATAGGTAT
32111408 CAATGCCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (21 bp):
GATACTTTTTATATAGGTATG
Found at i:32121981 original size:61 final size:61
Alignment explanation
Indices: 32121905--32122053 Score: 151
Period size: 61 Copynumber: 2.4 Consensus size: 61
32121895 TTAGCCTTCT
* * * * *
32121905 AATGTTTACATATTTTATCAATTT-GATTTTAAATATAAAAAATTCAATAAATTT-AGTCCTC
1 AATGTTTATAAATTTTGTCAATTTAG-TTCTAAATATAAAAAATTCAATAAATTTGA-CCCTC
* * * *
32121966 AGTGTTTATAAATTTTGTC-ATGTTAGTTCTAATTCTAAAAATTTCAATAAATTTGACCCTC
1 AATGTTTATAAATTTTGTCAAT-TTAGTTCTAAATATAAAAAATTCAATAAATTTGACCCTC
* *
32122027 AATATTTATAAAATTTGTCAATTTAGT
1 AATGTTTATAAATTTTGTCAATTTAGT
32122054 CTTAACTCTA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
60 2 0.03
61 66 0.92
62 4 0.06
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (61 bp):
AATGTTTATAAATTTTGTCAATTTAGTTCTAAATATAAAAAATTCAATAAATTTGACCCTC
Found at i:32122064 original size:61 final size:61
Alignment explanation
Indices: 32121940--32122070 Score: 160
Period size: 61 Copynumber: 2.1 Consensus size: 61
32121930 ATTTTAAATA
* * * * * *
32121940 TAAAAAATTCAATAAATTTAGTCCTCAGTGTTTATAAATTTTGTCATGTTAGTTCTAATTC
1 TAAAAATTTCAATAAATTTAGCCCTCAATATTTATAAAATTTGTCATGTTAGTTCTAACTC
32122001 TAAAAATTTCAATAAATTT-GACCCTCAATATTTATAAAATTTGTCAAT-TTAG-TCTTAACTC
1 TAAAAATTTCAATAAATTTAG-CCCTCAATATTTATAAAATTTGTC-ATGTTAGTTC-TAACTC
32122062 TAAAAATTT
1 TAAAAATTT
32122071 TAAATATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
60 3 0.05
61 56 0.92
62 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (61 bp):
TAAAAATTTCAATAAATTTAGCCCTCAATATTTATAAAATTTGTCATGTTAGTTCTAACTC
Found at i:32122901 original size:13 final size:13
Alignment explanation
Indices: 32122883--32122907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32122873 GGCAGTAATG
32122883 CAATCAATTATTC
1 CAATCAATTATTC
32122896 CAATCAATTATT
1 CAATCAATTATT
32122908 TCAAATAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
CAATCAATTATTC
Found at i:32126905 original size:17 final size:16
Alignment explanation
Indices: 32126883--32126930 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
32126873 ATATAAAGCC
32126883 CATCACCACTCAGTTTT
1 CATCACC-CTCAGTTTT
*
32126900 CATCACCTTCAGTTTT
1 CATCACCCTCAGTTTT
*
32126916 CATCACCTTCAGTTT
1 CATCACCCTCAGTTT
32126931 CAAGTCTCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 23 0.77
17 7 0.23
ACGTcount: A:0.21, C:0.33, G:0.06, T:0.40
Consensus pattern (16 bp):
CATCACCCTCAGTTTT
Found at i:32126913 original size:16 final size:16
Alignment explanation
Indices: 32126892--32126930 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
32126882 CCATCACCAC
32126892 TCAGTTTTCATCACCT
1 TCAGTTTTCATCACCT
32126908 TCAGTTTTCATCACCT
1 TCAGTTTTCATCACCT
32126924 TCAGTTT
1 TCAGTTT
32126931 CAAGTCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.28, G:0.08, T:0.46
Consensus pattern (16 bp):
TCAGTTTTCATCACCT
Found at i:32131853 original size:22 final size:22
Alignment explanation
Indices: 32131806--32131853 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
32131796 TGATCTAAGG
* *
32131806 AAAAATAAAAGAAACTGAATTA
1 AAAAATAAAAGAAAATGAACTA
32131828 AAAAATAAAAGAAAATAGAACTA
1 AAAAATAAAAGAAAAT-GAACTA
32131851 AAA
1 AAA
32131854 GAAGTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATGAACTA
Found at i:32132693 original size:19 final size:19
Alignment explanation
Indices: 32132669--32132711 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32132659 AAATATAAAT
32132669 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
32132688 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
32132707 TAAAT
1 TAAAT
32132712 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:32134168 original size:4 final size:4
Alignment explanation
Indices: 32134159--32134223 Score: 71
Period size: 4 Copynumber: 15.8 Consensus size: 4
32134149 TCCTGGACAA
*
32134159 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAGAT AGAA- AAAT AAAAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AA-AT A-AAT AAAT -AAAT
32134210 AAAT AAA- AAAT AAA
1 AAAT AAAT AAAT AAA
32134224 AATAATTGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
3 5 0.09
4 36 0.68
5 11 0.21
6 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.18
Consensus pattern (4 bp):
AAAT
Found at i:32134225 original size:16 final size:17
Alignment explanation
Indices: 32134157--32134225 Score: 81
Period size: 16 Copynumber: 4.1 Consensus size: 17
32134147 TTTCCTGGAC
32134157 AAAAATAAATAAAT-AA
1 AAAAATAAATAAATAAA
*
32134173 ATAAATAAATAAATAAA
1 AAAAATAAATAAATAAA
*
32134190 ATAAGATAGAA-AAATAAA
1 A-AAAATA-AATAAATAAA
32134208 AAAAATAAA-AAATAAA
1 AAAAATAAATAAATAAA
32134224 AA
1 AA
32134226 TAATTGGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
16 24 0.52
17 8 0.17
18 12 0.26
19 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAATAAATAAATAAA
Found at i:32136356 original size:21 final size:21
Alignment explanation
Indices: 32136330--32136369 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32136320 ATAGATGCCT
*
32136330 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTGCTTTTGAAAATCCA
*
32136351 CAGTTTGCTTTTGGAAATC
1 CAGTTTGCTTTTGAAAATC
32136370 TATAGATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.42
Consensus pattern (21 bp):
CAGTTTGCTTTTGAAAATCCA
Found at i:32136379 original size:21 final size:21
Alignment explanation
Indices: 32136337--32136380 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
32136327 CCTCAGTTTT
*
32136337 CTTTTGAAAATCCACAGTTTG
1 CTTTTGAAAATCCACAGATTG
* * *
32136358 CTTTTGGAAATCTATAGATTG
1 CTTTTGAAAATCCACAGATTG
32136379 CT
1 CT
32136381 GCTGAAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (21 bp):
CTTTTGAAAATCCACAGATTG
Found at i:32137967 original size:22 final size:22
Alignment explanation
Indices: 32137920--32137976 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
32137910 TGATCTAAGG
* *
32137920 AAAAATAAAAGAAACTGAATTA
1 AAAAATAAAAGAAAATGAACTA
32137942 AAAAATAAAAGAAAATAGAACTA
1 AAAAATAAAAGAAAAT-GAACTA
32137965 AAAGAAGTAAAA
1 AAA-AA-TAAAA
32137977 AATAGGGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 15 0.50
23 8 0.27
24 2 0.07
25 5 0.17
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.14
Consensus pattern (22 bp):
AAAAATAAAAGAAAATGAACTA
Found at i:32138808 original size:19 final size:19
Alignment explanation
Indices: 32138784--32138826 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32138774 AAATATAAAT
32138784 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
32138803 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
32138822 TAAAT
1 TAAAT
32138827 CCTAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:32139921 original size:48 final size:48
Alignment explanation
Indices: 32139794--32139926 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
32139784 TTAGATGCGG
* * * * * * *
32139794 TGGTGCTGGTCTGCTAGAGATGCACCTGCTGACTCCTTCAATCGATGG
1 TGGTGCTGGTCTGCTGGAGATGCACCTGCTGGCTGCTCCAACCGACGA
*
32139842 TGGTGCTAGTCTGCTGGAGATGCACCTGCTGGCTGCTCCAACCGACGA
1 TGGTGCTGGTCTGCTGGAGATGCACCTGCTGGCTGCTCCAACCGACGA
**
32139890 TGGTGCTGGTCTATTGGAGATGCACCTGCTGGCTGCT
1 TGGTGCTGGTCTGCTGGAGATGCACCTGCTGGCTGCT
32139927 GCCGAGGCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.28
Consensus pattern (48 bp):
TGGTGCTGGTCTGCTGGAGATGCACCTGCTGGCTGCTCCAACCGACGA
Found at i:32140936 original size:85 final size:86
Alignment explanation
Indices: 32140726--32140928 Score: 243
Period size: 87 Copynumber: 2.3 Consensus size: 86
32140716 GCCCCTGCCT
* * * * ***
32140726 TTTTTTTTTGCACTTAATTGGATACTTGAATTTTC-AAAATGCATAAAAAAAAACCCTCAAACTT
1 TTTTTTTTTACACTCAATTGG-TACTTGAACTTTCAAAAATACATAAAAAAAAACCCTCAAAAAA
*
32140790 TTCAAGAAAAACAATTAAGCTC
65 TTCAAAAAAAACAATTAAGCTC
* *
32140812 TTTCTTTTTTATACTCAATTGAGTACTTGAGCTTTCAAAAATACATAAAAAAAAACCCT-AAAAA
1 TTT-TTTTTTACACTCAATTG-GTACTTGAACTTTCAAAAATACATAAAAAAAAACCCTCAAAAA
32140876 ATT-AAAAAAAATCAATTAAG-TC
64 ATTCAAAAAAAA-CAATTAAGCTC
32140898 TTTTTTTTTACACTCAATTCGGTACTTGAAC
1 TTTTTTTTTACACTCAATT-GGTACTTGAAC
32140929 GGTCAAAATG
Statistics
Matches: 100, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
85 24 0.24
86 16 0.16
87 38 0.38
88 22 0.22
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (86 bp):
TTTTTTTTTACACTCAATTGGTACTTGAACTTTCAAAAATACATAAAAAAAAACCCTCAAAAAAT
TCAAAAAAAACAATTAAGCTC
Found at i:32141156 original size:19 final size:19
Alignment explanation
Indices: 32141112--32141176 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
32141102 TTTAATAAAA
32141112 TATAAAAATATTAAAAATT
1 TATAAAAATATTAAAAATT
* * *
32141131 AAAAAAAAT-TGTAAAATTT
1 TATAAAAATAT-TAAAAATT
* *
32141150 TATAAAAATCATAAAAAAAT
1 TATAAAAAT-ATTAAAAATT
32141170 TATAAAA
1 TATAAAA
32141177 TGCATCAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 1 0.03
19 21 0.60
20 12 0.34
21 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TATAAAAATATTAAAAATT
Found at i:32141382 original size:10 final size:10
Alignment explanation
Indices: 32141367--32141470 Score: 56
Period size: 10 Copynumber: 10.6 Consensus size: 10
32141357 TGTATGGTAT
32141367 TTTTTTATAA
1 TTTTTTATAA
*
32141377 TTTTTTACAA
1 TTTTTTATAA
**
32141387 -AGTTTAT-A
1 TTTTTTATAA
* *
32141395 TTTCTTTACAT
1 TTT-TTTATAA
32141406 TTTTTTATAA
1 TTTTTTATAA
*
32141416 TTTTCTTACAA
1 TTTT-TTATAA
32141427 --TTTTATAA
1 TTTTTTATAA
**
32141435 AATTTTATAA
1 TTTTTTATAA
*
32141445 TTTTTTATCA
1 TTTTTTATAA
*
32141455 -TTGTTATAAA
1 TTTTTTAT-AA
32141465 TTTTTT
1 TTTTTT
32141471 TCTAATTTTA
Statistics
Matches: 68, Mismatches: 18, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
8 6 0.09
9 12 0.18
10 38 0.56
11 12 0.18
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:32141432 original size:19 final size:19
Alignment explanation
Indices: 32141369--32141434 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
32141359 TATGGTATTT
32141369 TTTTATAATTTT-TTACAAA
1 TTTTATAATTTTCTTAC-AA
* *
32141388 GTTTAT-A-TTTCTTTACATTT
1 TTTTATAATTTTC-TTACA--A
32141408 TTTTATAATTTTCTTACAA
1 TTTTATAATTTTCTTACAA
32141427 TTTTATAA
1 TTTTATAA
32141435 AATTTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
17 3 0.08
18 2 0.05
19 17 0.46
20 5 0.14
21 6 0.16
22 4 0.11
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTCTTACAA
Found at i:32141440 original size:29 final size:29
Alignment explanation
Indices: 32141408--32141469 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
32141398 CTTTACATTT
32141408 TTTTATAATTTTCTTA-CAATT-TTATAAAA
1 TTTTATAATTTT-TTATC-ATTGTTATAAAA
*
32141437 TTTTATAATTTTTTATCATTGTTATAAAT
1 TTTTATAATTTTTTATCATTGTTATAAAA
32141466 TTTT
1 TTTT
32141470 TTCTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 6 0.20
29 24 0.80
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TTTTATAATTTTTTATCATTGTTATAAAA
Found at i:32141449 original size:19 final size:19
Alignment explanation
Indices: 32141427--32141510 Score: 57
Period size: 20 Copynumber: 4.4 Consensus size: 19
32141417 TTTCTTACAA
32141427 TTTTATAAAATTTTATAAT
1 TTTTATAAAATTTTATAAT
**
32141446 TTTT-TATCATTGTTATAAAT
1 TTTTATAAAATT-TTAT-AAT
* **
32141466 TTTTTTCTAATTTTAT-A-
1 TTTTATAAAATTTTATAAT
* *
32141483 TTTTATTAAAAATTAATAAT
1 TTTTA-TAAAATTTTATAAT
32141503 TTTTATAA
1 TTTTATAA
32141511 TTTTTTTTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
17 4 0.08
18 13 0.26
19 12 0.24
20 16 0.32
21 5 0.10
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (19 bp):
TTTTATAAAATTTTATAAT
Found at i:32141449 original size:39 final size:39
Alignment explanation
Indices: 32141367--32141452 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
32141357 TGTATGGTAT
** *
32141367 TTTTTTATAATTTTTTACAAAGTTTATATTTCTTTACAT
1 TTTTTTATAATTTTTTACAAAGTTTATAAATCTTTACAA
* *
32141406 TTTTTTATAATTTTCTTAC-AATTTTATAAAAT-TTTATAA
1 TTTTTTATAATTTT-TTACAAAGTTTAT-AAATCTTTACAA
32141445 TTTTTTAT
1 TTTTTTAT
32141453 CATTGTTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.85
40 6 0.15
ACGTcount: A:0.30, C:0.06, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTTATAATTTTTTACAAAGTTTATAAATCTTTACAA
Found at i:32142096 original size:57 final size:59
Alignment explanation
Indices: 32142006--32142195 Score: 215
Period size: 57 Copynumber: 3.2 Consensus size: 59
32141996 TTAATATAAC
* * * * *
32142006 ATTTGGTACTTGAACATGACAGTTTTTCTTAATTTGGTACTTAAACTTTTTTA-CCT-A
1 ATTTGGTACCTGAACTTGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTAGACTCA
32142063 ATTTGGTACCTGAACTTGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTAGACTCA
1 ATTTGGTACCTGAACTTGACACTTTTTCCTAATTTGGTACTTAAAC-TTTTTTAGACTCA
* * * * *
32142123 ATTTGATACCTAAACTTAGACAAC-TTTTCCTAATTTGGTACCTAAGCTTTTTTTTAGATTCA
1 ATTTGGTACCTGAACTT-GAC-ACTTTTTCCTAATTTGGTACTTAAAC--TTTTTTAGACTCA
*
32142185 ATTTGATACCT
1 ATTTGGTACCT
32142196 AAATTTATTA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
57 42 0.36
58 7 0.06
59 2 0.02
60 16 0.14
61 24 0.21
62 26 0.22
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.45
Consensus pattern (59 bp):
ATTTGGTACCTGAACTTGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTAGACTCA
Found at i:32142110 original size:31 final size:30
Alignment explanation
Indices: 32142006--32142110 Score: 110
Period size: 31 Copynumber: 3.6 Consensus size: 30
32141996 TTAATATAAC
* * *
32142006 ATTTGGTACTTGAACATGACAGTTTTTCTTA
1 ATTTGGTACTTAAACTTGACA-TTTTTCCTA
*
32142037 ATTTGGTACTTAAACTT----TTTTACCTA
1 ATTTGGTACTTAAACTTGACATTTTTCCTA
* *
32142063 ATTTGGTACCTGAACTTGACACTTTTTCCTA
1 ATTTGGTACTTAAACTTGACA-TTTTTCCTA
32142094 ATTTGGTACTTAAACTT
1 ATTTGGTACTTAAACTT
32142111 TTTTTAGACT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
26 22 0.37
31 38 0.63
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.46
Consensus pattern (30 bp):
ATTTGGTACTTAAACTTGACATTTTTCCTA
Found at i:32142173 original size:61 final size:60
Alignment explanation
Indices: 32142022--32142198 Score: 227
Period size: 62 Copynumber: 3.0 Consensus size: 60
32142012 TACTTGAACA
* * * * *
32142022 TGACAGTTTTTCTTAATTTGGTACTTAAAC-TTTTTTA-CCT-AATTTGGTACCTGAACT
1 TGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTAGACTCAATTTGATACCTAAACT
32142079 TGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTAGACTCAATTTGATACCTAAACT
1 TGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTAGACTCAATTTGATACCTAAACT
* * *
32142139 TAGACAAC-TTTTCCTAATTTGGTACCTAAGCTTTTTTTTAGATTCAATTTGATACCTAAA
1 T-GAC-ACTTTTTCCTAATTTGGTACTTAAAC-TTTTTTTAGACTCAATTTGATACCTAAA
32142199 TTTATTAAAA
Statistics
Matches: 106, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
57 28 0.26
58 7 0.07
59 2 0.02
60 16 0.15
61 24 0.23
62 29 0.27
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (60 bp):
TGACACTTTTTCCTAATTTGGTACTTAAACTTTTTTTAGACTCAATTTGATACCTAAACT
Found at i:32142486 original size:61 final size:60
Alignment explanation
Indices: 32142349--32142509 Score: 193
Period size: 60 Copynumber: 2.7 Consensus size: 60
32142339 AAAAAAATAG
* * ***
32142349 GTACCAAATTAGAAAAAAGAGT-T-AAGTTCAGGTACCAAATTGGACTTCAAAAAGTTTAA
1 GTACCAAATTAGAAAAAA-AGTGTCAAGTTTAGATACCAAATTGGACAAAAAAAAGTTTAA
* * *
32142408 GTATCAACTTTAAAAAAAAAGTGTCAAGTTTAGATACCAAATTGGACCAAAAAAAAGTTTAA
1 GTACCAA-ATTAGAAAAAAAGTGTCAAGTTTAGATACCAAATTGGA-CAAAAAAAAGTTTAA
*
32142470 GTACCAAATTAGAAAAAAA-TGTCAAATTTAGATACCAAAT
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTTAGATACCAAAT
32142510 GCTATATTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
59 9 0.10
60 30 0.35
61 29 0.34
62 18 0.21
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (60 bp):
GTACCAAATTAGAAAAAAAGTGTCAAGTTTAGATACCAAATTGGACAAAAAAAAGTTTAA
Found at i:32142488 original size:29 final size:29
Alignment explanation
Indices: 32142433--32142488 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
32142423 AAAAAGTGTC
* **
32142433 AAGTTTAGATACCAAATTGGACCAAAAAA
1 AAGTTTAGATACCAAATTAGAAAAAAAAA
32142462 AAGTTTA-AGTACCAAATTAGAAAAAAA
1 AAGTTTAGA-TACCAAATTAGAAAAAAA
32142489 TGTCAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.04
29 22 0.96
ACGTcount: A:0.55, C:0.11, G:0.12, T:0.21
Consensus pattern (29 bp):
AAGTTTAGATACCAAATTAGAAAAAAAAA
Found at i:32142500 original size:60 final size:59
Alignment explanation
Indices: 32142349--32142509 Score: 189
Period size: 61 Copynumber: 2.7 Consensus size: 59
32142339 AAAAAAATAG
* * * ***
32142349 GTACCAAATTAGAAAAAAGA-GTTAAGTTCAGGTACCAAATTGGACTTCAAAAAGTTTAA
1 GTACCAAATTAGAAAAAA-ATGTCAAGTTTAGATACCAAATTGGACAAAAAAAAGTTTAA
* * *
32142408 GTATCAACTTTAAAAAAAAAGTGTCAAGTTTAGATACCAAATTGGACCAAAAAAAAGTTTAA
1 GTACCAA-ATTAGAAAAAAA-TGTCAAGTTTAGATACCAAATTGGA-CAAAAAAAAGTTTAA
*
32142470 GTACCAAATTAGAAAAAAATGTCAAATTTAGATACCAAAT
1 GTACCAAATTAGAAAAAAATGTCAAGTTTAGATACCAAAT
32142510 GCTATATTAA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
59 7 0.08
60 29 0.34
61 31 0.36
62 18 0.21
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (59 bp):
GTACCAAATTAGAAAAAAATGTCAAGTTTAGATACCAAATTGGACAAAAAAAAGTTTAA
Found at i:32148425 original size:299 final size:300
Alignment explanation
Indices: 32147876--32148473 Score: 905
Period size: 299 Copynumber: 2.0 Consensus size: 300
32147866 GTTAGTGAGG
* *
32147876 TACCTCGCCCTAACATTGTTAATTGATTGTAAGTTTTCCAACATTTCATGGAAACGATGTTTGAT
1 TACCTCGCCCTAACATTATTAATTGATTGTAAGTTTTCCAACATTTCATGGAAACGATGTTTAAT
*
32147941 GAGCTCATTCCATGTCCAGAAAAGTGAATAGTTTATCCATAATTCCCAACATTTTTTGACCGGTT
66 GAGCTCATACCATGTCCAGAAAAGTGAATAGTTTATCCATAATTCCCAACATTTTTTGACCGGTT
**
32148006 AAATATCAAACAATTGAAATAGTGGTAATTATATACCCATGTTGATCACTTATGCTCGCTGAGCA
131 AAATATCAAACAATTGAAATAGTGACAATTATATACCCATGTTGATCACTTATGCTCGCTGAGCA
* **
32148071 GAAGAATCGTGTTGTCCATGGTAGTTCACCGTAATGTGTCTTAAACAGTACCTATGATGTGTGCG
196 GAAGAATCGTGTTGTCCATGGTAGTTCACCGTAACGTGTCTTAAACAACACCTATGATGTGTGCG
* * *
32148136 GTCCCAAAGGCTTCTCTACCATTCAATTGCGGCCAATATC
261 GTCCCAAAGGATTCTCTACCATTCAATTACAGCCAATATC
* *
32148176 TACCTCGCCCTAAC-TCTATTAATTGTTTGTAATTTTTCCAACATTTCATGGAAACGATGTTTAA
1 TACCTCGCCCTAACAT-TATTAATTGATTGTAAGTTTTCCAACATTTCATGGAAACGATGTTTAA
* * *
32148240 TTAGCT-AGTACCATGTCTAGAAAAGTGAATAGTTTATCCATAATTCCCAAC-TTTTTTGACTGG
65 TGAGCTCA-TACCATGTCCAGAAAAGTGAATAGTTTATCCATAATTCCCAACATTTTTTGACCGG
* * * *
32148303 TTAAATATCAAATAATTGAAATAGTGACAATTATATACCCATGTTTATCACTTGTGCTCGTTGAG
129 TTAAATATCAAACAATTGAAATAGTGACAATTATATACCCATGTTGATCACTTATGCTCGCTGAG
** * *
32148368 CAGAAGAATCGTGTTGTCTGTGGTAGTTCATCGTAACGTGTCTTAAATAACACCTATGATGTGTG
194 CAGAAGAATCGTGTTGTCCATGGTAGTTCACCGTAACGTGTCTTAAACAACACCTATGATGTGTG
* * * *
32148433 TGGTCCCAAAGGATTCTTTACCGTTTAATTACAGCCAATAT
259 CGGTCCCAAAGGATTCTCTACCATTCAATTACAGCCAATAT
32148474 TCTAGGTCCC
Statistics
Matches: 268, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
299 164 0.61
300 104 0.39
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (300 bp):
TACCTCGCCCTAACATTATTAATTGATTGTAAGTTTTCCAACATTTCATGGAAACGATGTTTAAT
GAGCTCATACCATGTCCAGAAAAGTGAATAGTTTATCCATAATTCCCAACATTTTTTGACCGGTT
AAATATCAAACAATTGAAATAGTGACAATTATATACCCATGTTGATCACTTATGCTCGCTGAGCA
GAAGAATCGTGTTGTCCATGGTAGTTCACCGTAACGTGTCTTAAACAACACCTATGATGTGTGCG
GTCCCAAAGGATTCTCTACCATTCAATTACAGCCAATATC
Found at i:32151189 original size:715 final size:716
Alignment explanation
Indices: 32149795--32151217 Score: 2213
Period size: 715 Copynumber: 2.0 Consensus size: 716
32149785 CCCTTTCAAA
** *
32149795 TTTTCTTGGGAATTGTTTTTACTGTGATTTCTCGAGAAGAGTAGCACCAATTGAGTTCCATCTTC
1 TTTTCTTGGGAATTGTTCCTACTGTGATTTCTCGAGAAGAGCAGCACCAATTGAGTTCCATCTTC
* * * *
32149860 CATATTCGGGTGTACGAATATCAAAGGACTGTGTTAAACTTGGGGGACGACGTCTACTACGTGAT
66 CATATTCAGGTGTACGAATATCAAAGGACTGTGTTAAACTTGGGAGACGAAGTCTACTACGCGAT
* * * * * * *
32149925 TACACCGATCAGGGTGAATTCATTTTTAAGGGAGTAGATTTATCACGGCACAGGAATTTTTGATT
131 TACACCGATCAAGGTGAATTCATTTCTAAGGCAATAGATTTACCACGACACAGGAATTTCTGATT
* * *
32149990 TTATATTTAATTCTTGATCTTTCCTAAGCAGTACTAACAGACGTGTTTTGCATCAGATTATATTT
196 TTATATTTAATTCTTGATCTTTCCCAAGCAATACTAACAGACGTGTTTTGCAACAGATTATATTT
* * * * * *
32150055 CCAATAAGTATATCTTGAATAGTGGATTTTCTTTGGCATCTTCGTCCAGACTTCCACTATCTAAA
261 CCAACAAGAACACCTTGAATAGTGGATTTTCTTCGACATCTTCGTCCAGACTTCCACTATCTAAA
* * *
32150120 CCTCCATCTTATGGTTCATTTGAAATTAACGCCGGTTCATAAAATAATGTAATTTTTGATTTATC
326 CCTCCATCTTATGGTTCATTTGAAACTAACGCCGGTTCAGAAAATAATGTAATTTTTGATCTATC
* * *
32150185 TGTACCGAGTTCTCGGATTGGATCGACATTGAATTCAGTGCCCTCTTCGTTCTCAACCCCACCAA
391 TGCACCGAGCTCTCGGATTGGATCGACATTGAATTCAGTGCCCTCTTCATTCTCAACCCCACCAA
* * * *
32150250 TATCTTCAAGGTTGGATGTCCCTTTACCGGTGGATATCGTAAGGAGTACATAATCACTTTTTGTA
456 CATCTTCAAGGTTGGATATCCCTTTACCGGTGGACATCGTAAGGAGTACATAATCACTTCTTGTA
*
32150315 TAGTTGTTAAAACAACTAAAATCAATTGTTGAAGATTGCCAACCGCTAAAACTTGATATCATTCC
521 TAGTTGTTAAAACAACTAAAATCAATTGTTAAAGATTGCCAACCGCTAAAACTTGATATCATTCC
* *
32150380 CCTGTAAGTGTTCCCAACATTAAACATCGGTTGATCCAAGTTTAAATCAAAACAACCAACTGAGG
586 CCTGTAAGTGTTCCCAACATTAAAAATCGGTTGATCCAAGTTCAAATCAAAACAACCAACTGAGG
* * * *
32150445 GTCGTACAAAGGTCCAGTATTTTGTGTTACTACCAAACCTCAATTGTTCGGTGTTCCCTTCTAAG
651 GTCGTACAAAAGTCCAGTATTTCGTGTTACTACCAAACCTCAATTGCTCGATGTTCCCTTCTAAG
32150510 C
716 C
* *
32150511 TTTT-TTGGGAATTGTTCCTATTGTGATTTCTCGATAAGAGCAGCACCAATTGAGTTCCATCCTT
1 TTTTCTTGGGAATTGTTCCTACTGTGATTTCTCGAGAAGAGCAGCACCAATTGAGTTCCAT-CTT
* *
32150575 -CATATTTAGGTGTACGAATATCAAAGGACTGTGTTAAACTTGGGAGACGAAGT-TCACTATGCG
65 CCATATTCAGGTGTACGAATATCAAAGGACTGTGTTAAACTTGGGAGACGAAGTCT-ACTACGCG
* * *
32150638 ATTACACCGATTAAGGTGAATTCGTTTCTAAGGCAATAGATTTACCACGACATAGGAATTTCTGA
129 ATTACACCGATCAAGGTGAATTCATTTCTAAGGCAATAGATTTACCACGACACAGGAATTTCTGA
* *
32150703 TTTTATATTTAATTCTTGATCTTTCCCAAGCAATGCTAACATACGTGTTTTGCAACAGATTATAT
194 TTTTATATTTAATTCTTGATCTTTCCCAAGCAATACTAACAGACGTGTTTTGCAACAGATTATAT
* *
32150768 TTCCAACAAGAACACCTTGAATAGTGGATTTTCTTCGACATCTTCGTCCAGACTTCCACTGTTTA
259 TTCCAACAAGAACACCTTGAATAGTGGATTTTCTTCGACATCTTCGTCCAGACTTCCACTATCTA
* * * *
32150833 AACCTCCATCTTATGGTTCATTTGGAACTGACTCCGGTTCAGAAAATAATGTAATTTTTTATCTA
324 AACCTCCATCTTATGGTTCATTTGAAACTAACGCCGGTTCAGAAAATAATGTAATTTTTGATCTA
* *
32150898 TCTGCACCGGGCTCTCGGATTGGATCGACATTGAATTCAGTGCCCTCTTCATTCTCAACCCTACC
389 TCTGCACCGAGCTCTCGGATTGGATCGACATTGAATTCAGTGCCCTCTTCATTCTCAACCCCACC
32150963 AACATCTTCAAGGTTGGATATCCCTTTACCGGTGGACATCGTAAGGAGTACATAATCACTTCTTG
454 AACATCTTCAAGGTTGGATATCCCTTTACCGGTGGACATCGTAAGGAGTACATAATCACTTCTTG
*
32151028 TATAGTTGTTAAAACAACTAAAATCAATTGTTAAAGATTGCCAATCGCTAAAACTTGATATCATT
519 TATAGTTGTTAAAACAACTAAAATCAATTGTTAAAGATTGCCAACCGCTAAAACTTGATATCATT
* * * * *
32151093 CCCCTGTAAGTGTTCCCAGCATTAAAAATTGGTTGATCGAAGTTCAAATCAGAACAACCAATTGA
584 CCCCTGTAAGTGTTCCCAACATTAAAAATCGGTTGATCCAAGTTCAAATCAAAACAACCAACTGA
* * *
32151158 GGGTCGTACAAAAGTCTAGTGTTTCGTGTTACTACCAAACCTCGATTGCTCGATGTTCCC
649 GGGTCGTACAAAAGTCCAGTATTTCGTGTTACTACCAAACCTCAATTGCTCGATGTTCCC
32151218 CTATCGCGGT
Statistics
Matches: 639, Mismatches: 66, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
714 1 0.00
715 631 0.99
716 7 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (716 bp):
TTTTCTTGGGAATTGTTCCTACTGTGATTTCTCGAGAAGAGCAGCACCAATTGAGTTCCATCTTC
CATATTCAGGTGTACGAATATCAAAGGACTGTGTTAAACTTGGGAGACGAAGTCTACTACGCGAT
TACACCGATCAAGGTGAATTCATTTCTAAGGCAATAGATTTACCACGACACAGGAATTTCTGATT
TTATATTTAATTCTTGATCTTTCCCAAGCAATACTAACAGACGTGTTTTGCAACAGATTATATTT
CCAACAAGAACACCTTGAATAGTGGATTTTCTTCGACATCTTCGTCCAGACTTCCACTATCTAAA
CCTCCATCTTATGGTTCATTTGAAACTAACGCCGGTTCAGAAAATAATGTAATTTTTGATCTATC
TGCACCGAGCTCTCGGATTGGATCGACATTGAATTCAGTGCCCTCTTCATTCTCAACCCCACCAA
CATCTTCAAGGTTGGATATCCCTTTACCGGTGGACATCGTAAGGAGTACATAATCACTTCTTGTA
TAGTTGTTAAAACAACTAAAATCAATTGTTAAAGATTGCCAACCGCTAAAACTTGATATCATTCC
CCTGTAAGTGTTCCCAACATTAAAAATCGGTTGATCCAAGTTCAAATCAAAACAACCAACTGAGG
GTCGTACAAAAGTCCAGTATTTCGTGTTACTACCAAACCTCAATTGCTCGATGTTCCCTTCTAAG
C
Found at i:32164131 original size:15 final size:15
Alignment explanation
Indices: 32164112--32164141 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
32164102 TTAATTTTTT
32164112 AAAAACAGAAAAAAAG
1 AAAAA-AGAAAAAAAG
32164128 AAAAAAGAAAAAAA
1 AAAAAAGAAAAAAA
32164142 TATATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAG
Found at i:32164400 original size:19 final size:20
Alignment explanation
Indices: 32164369--32164406 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32164359 AGTTATTTAT
32164369 ATATTTATTTATTTACTAAC
1 ATATTTATTTATTTACTAAC
*
32164389 ATATTT-TTTATTTTCTAA
1 ATATTTATTTATTTACTAA
32164407 TACTAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTATTTATTTACTAAC
Found at i:32166041 original size:17 final size:18
Alignment explanation
Indices: 32166021--32166058 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
32166011 TATTTAAAAA
*
32166021 AAATTATTAA-GTTAGAT
1 AAATTATAAATGTTAGAT
*
32166038 AAATTATAAATGTTAGTT
1 AAATTATAAATGTTAGAT
32166056 AAA
1 AAA
32166059 AAACCAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (18 bp):
AAATTATAAATGTTAGAT
Found at i:32169768 original size:52 final size:52
Alignment explanation
Indices: 32169685--32169984 Score: 476
Period size: 52 Copynumber: 5.8 Consensus size: 52
32169675 GCCATAAATG
32169685 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
32169737 AAGAGGTCCGATGACTAAGTGTCATCATGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* *
32169789 AAGAGGTTCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
*
32169841 AAGAGGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
** * *
32169893 AAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCCTTGCGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * *
32169945 ATA-AGGTTCGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 A-AGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAAT
32169985 GAAGTGCAAT
Statistics
Matches: 231, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
52 230 1.00
53 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (52 bp):
AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:32177089 original size:52 final size:52
Alignment explanation
Indices: 32177001--32177248 Score: 361
Period size: 52 Copynumber: 4.8 Consensus size: 52
32176991 GCCATAAACG
* * *
32177001 AAGAAGTCCGATGATTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
** * * *
32177053 AAGAGGTCTAATGATTAAGTGTCATTGTGAGTATATGAATCCTTCACGGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* *
32177105 AAGAGATCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACAGATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * *
32177157 AAGAGGTCCGATGACTAAGTGTCATTGTAAGTATATGAATCCTTTACGAATT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
**
32177209 AAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAAT
1 AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAAT
32177249 GAAGTGAAAT
Statistics
Matches: 174, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 174 1.00
ACGTcount: A:0.31, C:0.13, G:0.23, T:0.33
Consensus pattern (52 bp):
AAGAGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:32179303 original size:291 final size:291
Alignment explanation
Indices: 32178779--32179357 Score: 1158
Period size: 291 Copynumber: 2.0 Consensus size: 291
32178769 GTACTACAGT
32178779 AATTCTTTATTGTTTATTGCTGGTAGATCATACTAGAAGCAAGAGGAAAACCTATTCTGACCATG
1 AATTCTTTATTGTTTATTGCTGGTAGATCATACTAGAAGCAAGAGGAAAACCTATTCTGACCATG
32178844 ATGGAAACAGTAAGGACCAAGCTGATGTTACTTATTATGAAGATGAAAGAAGAAGCTGAAAAATG
66 ATGGAAACAGTAAGGACCAAGCTGATGTTACTTATTATGAAGATGAAAGAAGAAGCTGAAAAATG
32178909 GAATGAAATCTTATGTCTAAAGATAAGGAAAAAGTTGGATGTGAATACCAAAAATTCTTTGAGGT
131 GAATGAAATCTTATGTCTAAAGATAAGGAAAAAGTTGGATGTGAATACCAAAAATTCTTTGAGGT
32178974 TAAGTTACCCTAAACCTATTCTGACTTGTATGTTTTTTTAATATTATTTTGTATGTTATTCTTTG
196 TAAGTTACCCTAAACCTATTCTGACTTGTATGTTTTTTTAATATTATTTTGTATGTTATTCTTTG
32179039 TTTTGTTTTGTATGTTATTTTTAATACCAAA
261 TTTTGTTTTGTATGTTATTTTTAATACCAAA
32179070 AATTCTTTATTGTTTATTGCTGGTAGATCATACTAGAAGCAAGAGGAAAACCTATTCTGACCATG
1 AATTCTTTATTGTTTATTGCTGGTAGATCATACTAGAAGCAAGAGGAAAACCTATTCTGACCATG
32179135 ATGGAAACAGTAAGGACCAAGCTGATGTTACTTATTATGAAGATGAAAGAAGAAGCTGAAAAATG
66 ATGGAAACAGTAAGGACCAAGCTGATGTTACTTATTATGAAGATGAAAGAAGAAGCTGAAAAATG
32179200 GAATGAAATCTTATGTCTAAAGATAAGGAAAAAGTTGGATGTGAATACCAAAAATTCTTTGAGGT
131 GAATGAAATCTTATGTCTAAAGATAAGGAAAAAGTTGGATGTGAATACCAAAAATTCTTTGAGGT
32179265 TAAGTTACCCTAAACCTATTCTGACTTGTATGTTTTTTTAATATTATTTTGTATGTTATTCTTTG
196 TAAGTTACCCTAAACCTATTCTGACTTGTATGTTTTTTTAATATTATTTTGTATGTTATTCTTTG
32179330 TTTTGTTTTGTATGTTATTTTTAATACC
261 TTTTGTTTTGTATGTTATTTTTAATACC
32179358 CTAAACCTAT
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
291 288 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (291 bp):
AATTCTTTATTGTTTATTGCTGGTAGATCATACTAGAAGCAAGAGGAAAACCTATTCTGACCATG
ATGGAAACAGTAAGGACCAAGCTGATGTTACTTATTATGAAGATGAAAGAAGAAGCTGAAAAATG
GAATGAAATCTTATGTCTAAAGATAAGGAAAAAGTTGGATGTGAATACCAAAAATTCTTTGAGGT
TAAGTTACCCTAAACCTATTCTGACTTGTATGTTTTTTTAATATTATTTTGTATGTTATTCTTTG
TTTTGTTTTGTATGTTATTTTTAATACCAAA
Found at i:32180143 original size:21 final size:21
Alignment explanation
Indices: 32180116--32180164 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
32180106 GTGAGGACCC
*
32180116 CAACTCAGCAAGTGAGCAGCA
1 CAACTCAGCAAGTGAGCAACA
* *
32180137 CATCTCAGCAATTGAGCAACA
1 CAACTCAGCAAGTGAGCAACA
32180158 CAACTCA
1 CAACTCA
32180165 ATTGCAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.31, G:0.16, T:0.14
Consensus pattern (21 bp):
CAACTCAGCAAGTGAGCAACA
Found at i:32181313 original size:3 final size:3
Alignment explanation
Indices: 32181305--32181365 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
32181295 AATCTCCATT
*
32181305 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC -TC TTC TT- TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
32181351 TTC -TC TTC TT- TTC TT
1 TTC TTC TTC TTC TTC TT
32181366 TTTAAACCTT
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 8 0.15
3 44 0.85
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:32188318 original size:15 final size:16
Alignment explanation
Indices: 32188286--32188319 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
32188276 AAATGTTACC
*
32188286 ATATGTGATTTGTATT
1 ATATGTAATTTGTATT
32188302 ATATGTAATTT-TATT
1 ATATGTAATTTGTATT
32188317 ATA
1 ATA
32188320 AATGGACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (16 bp):
ATATGTAATTTGTATT
Found at i:32189102 original size:18 final size:18
Alignment explanation
Indices: 32189081--32189133 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
32189071 TTAATATTAA
32189081 TATTAATATTAATTATTT
1 TATTAATATTAATTATTT
* *
32189099 TATT-TTCATTAATTAATT
1 TATTAAT-ATTAATTATTT
*
32189117 TATTAATTTTAA-TATTT
1 TATTAATATTAATTATTT
32189134 AGTTTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
17 5 0.18
18 22 0.79
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTAATATTAATTATTT
Found at i:32189266 original size:12 final size:12
Alignment explanation
Indices: 32189233--32189281 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
32189223 ATAAAAAATA
*
32189233 TAATATAATATT
1 TAATTTAATATT
*
32189245 TAA-ATAATATT
1 TAATTTAATATT
*
32189256 TATTTTAATATT
1 TAATTTAATATT
*
32189268 AAATTTAATATT
1 TAATTTAATATT
32189280 TA
1 TA
32189282 CCATAAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTTAATATT
Found at i:32189341 original size:26 final size:25
Alignment explanation
Indices: 32189284--32189346 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
32189274 AATATTTACC
* *
32189284 ATAAATATAATTAATATTATAAAAA
1 ATAAATATTATTAATATCATAAAAA
*
32189309 ATAAATATTATTGAATTATCAT-AAAG
1 ATAAATATTATT-AA-TATCATAAAAA
32189335 ATAAATATTATT
1 ATAAATATTATT
32189347 TCTCTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.33
26 17 0.52
27 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (25 bp):
ATAAATATTATTAATATCATAAAAA
Found at i:32197121 original size:59 final size:58
Alignment explanation
Indices: 32196940--32197130 Score: 211
Period size: 60 Copynumber: 3.2 Consensus size: 58
32196930 TTAATATAAT
* * * * * *
32196940 ATTTGGTACTTAAACTTGACATTTGTTCTTAATTTGGTACTTAAATTTTTTTGACTCA
1 ATTTGATACCTAAAGTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTTGACTCA
* * * * *
32196998 ATTTGAAACCTGAAGTTGACAATTTTTCCTAATTTGGTACCTAAAAATTTTTTGGACCCA
1 ATTTGATACCTAAAGTTGACATTTTTTCCTAATTTGGTACCT--AAATTTTTTTGACTCA
* * * *
32197058 ATTTGGTACCTAAAGTTGGCATTTTTTCCTAATTTGGTACCTAAGTTTTTTTAGATTCA
1 ATTTGATACCTAAAGTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTT-GACTCA
*
32197117 ATTTGATACGTAAA
1 ATTTGATACCTAAA
32197131 TTTATTAAAT
Statistics
Matches: 108, Mismatches: 22, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
58 41 0.38
59 16 0.15
60 51 0.47
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (58 bp):
ATTTGATACCTAAAGTTGACATTTTTTCCTAATTTGGTACCTAAATTTTTTTGACTCA
Found at i:32197399 original size:30 final size:32
Alignment explanation
Indices: 32197350--32197418 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
32197340 CCAACTTTTA
*
32197350 AAAAAAGTGTCAAGTTTTG-ATGCCAAATTAG
1 AAAAAAGTGTCAAGTTTTGAATACCAAATTAG
* *
32197381 AAAAACGTGTCAAG-TTTGAATATCAAATTAG
1 AAAAAAGTGTCAAGTTTTGAATACCAAATTAG
32197412 ACAAAAA
1 A-AAAAA
32197419 AAAAAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 4 0.12
31 24 0.75
32 4 0.12
ACGTcount: A:0.48, C:0.10, G:0.16, T:0.26
Consensus pattern (32 bp):
AAAAAAGTGTCAAGTTTTGAATACCAAATTAG
Found at i:32197408 original size:31 final size:31
Alignment explanation
Indices: 32197350--32197469 Score: 86
Period size: 31 Copynumber: 3.9 Consensus size: 31
32197340 CCAACTTTTA
*
32197350 AAAAAAGTGTCAAGTTTTGATGCCAAATTAG
1 AAAAAAGTGTCAAGTTTTGATACCAAATTAG
* *
32197381 AAAAACGTGTCAAG-TTTGAATATCAAATTAG
1 AAAAAAGTGTCAAGTTTTG-ATACCAAATTAG
*** *
32197412 ACAAAAA--AAAAAGTTTAGATACCAAATTA-
1 A-AAAAAGTGTCAAGTTTTGATACCAAATTAG
* * **
32197441 ATAAAAAATGTCAAATTCAGATACCAAAT
1 A-AAAAAGTGTCAAGTTTTGATACCAAAT
32197470 ATTATATTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
29 6 0.09
30 17 0.25
31 42 0.61
32 4 0.06
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.26
Consensus pattern (31 bp):
AAAAAAGTGTCAAGTTTTGATACCAAATTAG
Found at i:32197765 original size:6 final size:6
Alignment explanation
Indices: 32197756--32197800 Score: 83
Period size: 6 Copynumber: 7.7 Consensus size: 6
32197746 AGGCGGGGCT
32197756 GGGGTC GGGGTC -GGGTC GGGGTC GGGGTC GGGGTC GGGGTC GGGG
1 GGGGTC GGGGTC GGGGTC GGGGTC GGGGTC GGGGTC GGGGTC GGGG
32197801 CGTTGGGGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.00, C:0.16, G:0.69, T:0.16
Consensus pattern (6 bp):
GGGGTC
Found at i:32200510 original size:3 final size:3
Alignment explanation
Indices: 32200502--32200528 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
32200492 TTTGCATTAA
32200502 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
32200529 GGTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:32223109 original size:44 final size:44
Alignment explanation
Indices: 32223061--32223227 Score: 219
Period size: 44 Copynumber: 3.8 Consensus size: 44
32223051 TGCTGTATAA
* * * * *
32223061 AAATGGCATAATAGCTAACATTGAT-CATAATACCTACTAAATAT
1 AAATGGCA-CATAGCCAACATAGATACATAGTACCTGCTAAATAT
**
32223105 AAATGGCACATAGCCAACACCGATACATAGTACCTGCTAAATAT
1 AAATGGCACATAGCCAACATAGATACATAGTACCTGCTAAATAT
32223149 AAATGGCACATAGCCAACATAGATACATAGTACCTGCTAAATAT
1 AAATGGCACATAGCCAACATAGATACATAGTACCTGCTAAATAT
* * **
32223193 AACTAGCACATAGCCAACACCGATACATAGTACCT
1 AAATGGCACATAGCCAACATAGATACATAGTACCT
32223228 ATTGAATATA
Statistics
Matches: 110, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
43 12 0.11
44 98 0.89
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (44 bp):
AAATGGCACATAGCCAACATAGATACATAGTACCTGCTAAATAT
Found at i:32223210 original size:88 final size:88
Alignment explanation
Indices: 32223061--32223227 Score: 255
Period size: 88 Copynumber: 1.9 Consensus size: 88
32223051 TGCTGTATAA
* * *
32223061 AAATGGCATAATAGCTAACATTGATCATAATACCTACTAAATATAAATGGCACATAGCCAACACC
1 AAATGGCATAATAGCCAACATAGATCATAATACCTACTAAATATAAATAGCACATAGCCAACACC
32223126 GATACATAGTACCTGCTAAATAT
66 GATACATAGTACCTGCTAAATAT
* * * *
32223149 AAATGGCA-CATAGCCAACATAGATACATAGTACCTGCTAAATATAACTAGCACATAGCCAACAC
1 AAATGGCATAATAGCCAACATAGAT-CATAATACCTACTAAATATAAATAGCACATAGCCAACAC
32223213 CGATACATAGTACCT
65 CGATACATAGTACCT
32223228 ATTGAATATA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
87 13 0.18
88 58 0.82
ACGTcount: A:0.43, C:0.23, G:0.12, T:0.23
Consensus pattern (88 bp):
AAATGGCATAATAGCCAACATAGATCATAATACCTACTAAATATAAATAGCACATAGCCAACACC
GATACATAGTACCTGCTAAATAT
Found at i:32223236 original size:44 final size:44
Alignment explanation
Indices: 32223086--32223239 Score: 227
Period size: 44 Copynumber: 3.5 Consensus size: 44
32223076 TAACATTGAT
*
32223086 CATAATACCTACTAAATATAAATGGCACATAGCCAACACCGATA
1 CATAGTACCTACTAAATATAAATGGCACATAGCCAACACCGATA
* **
32223130 CATAGTACCTGCTAAATATAAATGGCACATAGCCAACATAGATA
1 CATAGTACCTACTAAATATAAATGGCACATAGCCAACACCGATA
* * *
32223174 CATAGTACCTGCTAAATATAACTAGCACATAGCCAACACCGATA
1 CATAGTACCTACTAAATATAAATGGCACATAGCCAACACCGATA
* *
32223218 CATAGTACCTATTGAATATAAA
1 CATAGTACCTACTAAATATAAA
32223240 CCTTAATGAC
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 98 1.00
ACGTcount: A:0.44, C:0.23, G:0.11, T:0.23
Consensus pattern (44 bp):
CATAGTACCTACTAAATATAAATGGCACATAGCCAACACCGATA
Found at i:32224731 original size:12 final size:12
Alignment explanation
Indices: 32224710--32224821 Score: 94
Period size: 12 Copynumber: 9.8 Consensus size: 12
32224700 ATAACATCCA
*
32224710 AACAAAAAAAAT
1 AACAACAAAAAT
32224722 AACAACAAAAAT
1 AACAACAAAAAT
*
32224734 AGCAACAAAAAT
1 AACAACAAAAAT
*
32224746 GACAAC----A-
1 AACAACAAAAAT
*
32224753 AACAACATTAAA-
1 AACAACA-AAAAT
*
32224765 AACAACTAAAAT
1 AACAACAAAAAT
*
32224777 AGCAACAAAAAT
1 AACAACAAAAAT
*
32224789 AACAACAAAAAC
1 AACAACAAAAAT
32224801 AAC-ACAAAAAT
1 AACAACAAAAAT
32224812 AACAATCAAA
1 AACAA-CAAA
32224822 GCAGTAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
7 5 0.06
8 1 0.01
11 13 0.16
12 57 0.71
13 4 0.05
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:32224755 original size:43 final size:44
Alignment explanation
Indices: 32224696--32224821 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 44
32224686 AAAACGCATA
*
32224696 AAAAATAACATCCAAACAA-AAAAAATAACAACAAAAATAGCAAC
1 AAAAATAACA-ACAAACAACAAAAAATAACAACAAAAATAGCAAC
* ** *
32224740 AAAAATGACAACAAACAACATTAAA-AACAACTAAAATAGCAAC
1 AAAAATAACAACAAACAACAAAAAATAACAACAAAAATAGCAAC
32224783 AAAAATAACAACAAAAACAACACAAAAATAACAATCAAA
1 AAAAATAACAAC--AAACAACA-AAAAATAACAA-CAAA
32224822 GCAGTAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
43 35 0.52
44 13 0.19
45 8 0.12
46 3 0.04
47 5 0.07
48 3 0.04
ACGTcount: A:0.70, C:0.18, G:0.02, T:0.10
Consensus pattern (44 bp):
AAAAATAACAACAAACAACAAAAAATAACAACAAAAATAGCAAC
Found at i:32227680 original size:10 final size:10
Alignment explanation
Indices: 32227662--32227700 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
32227652 TTTCTTATCT
*
32227662 ATTTAATTTA
1 ATTTTATTTA
32227672 ATTTTATTTA
1 ATTTTATTTA
*
32227682 ATTTTACTTA
1 ATTTTATTTA
*
32227692 TTTTTATTT
1 ATTTTATTT
32227701 TATATTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTATTTA
Found at i:32228636 original size:30 final size:31
Alignment explanation
Indices: 32228567--32228639 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
32228557 CACATCAATT
* *
32228567 TTAGTGACTGTTTTGTCACTTTTTGATAACG
1 TTAGTGACTGTTTTGTCACATTTTCATAACG
32228598 TTAGTGACTGTTTTGTCACATTTTCA-AA-G
1 TTAGTGACTGTTTTGTCACATTTTCATAACG
32228627 TTGAGTGACTGTT
1 TT-AGTGACTGTT
32228640 GTGTTAAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 3 0.08
30 12 0.31
31 24 0.62
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.47
Consensus pattern (31 bp):
TTAGTGACTGTTTTGTCACATTTTCATAACG
Found at i:32229095 original size:17 final size:17
Alignment explanation
Indices: 32229065--32229102 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
32229055 ATGTGTAATT
* *
32229065 TAAT-TTCAATATTTTG
1 TAATATTCAAAATTTTA
32229081 TAATATTCAAAATTTTA
1 TAATATTCAAAATTTTA
32229098 TAATA
1 TAATA
32229103 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (17 bp):
TAATATTCAAAATTTTA
Found at i:32238961 original size:24 final size:24
Alignment explanation
Indices: 32238931--32238985 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
32238921 CTGTGGAGAT
* *
32238931 TGATGATGCTT-TGGTGATTGAAGA
1 TGATGATACTTCTGATGA-TGAAGA
*
32238955 TGATGATATTTCTGATGATGAAGA
1 TGATGATACTTCTGATGATGAAGA
32238979 TGATGAT
1 TGATGAT
32238986 CATGAAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (24 bp):
TGATGATACTTCTGATGATGAAGA
Found at i:32250346 original size:12 final size:12
Alignment explanation
Indices: 32250311--32250348 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
32250301 CACTAAGAAC
*
32250311 CCCAATGATGAA
1 CCCAATGATGAT
32250323 CCCAATGATGAT
1 CCCAATGATGAT
32250335 CCCAATGATGAT
1 CCCAATGATGAT
32250347 CC
1 CC
32250349 ACTAAAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (12 bp):
CCCAATGATGAT
Found at i:32251519 original size:123 final size:119
Alignment explanation
Indices: 32251160--32251521 Score: 688
Period size: 119 Copynumber: 3.0 Consensus size: 119
32251150 TATTTAAAAT
32251160 AATAATATTTTATAAGTAATAATATATATATATATATTTCTTCTTCATATATTTTTCTTTCAAAT
1 AATAATATTTTATAAGTAATAATATATATATATATATTTCTTCTTCATATATTTTTCTTTCAAAT
32251225 TCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
66 TCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
32251279 AATAATATTTTATAAGTAATAATATATATATATATATTTCTTCTTCATATATTTTTCTTTCAAAT
1 AATAATATTTTATAAGTAATAATATATATATATATATTTCTTCTTCATATATTTTTCTTTCAAAT
32251344 TCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
66 TCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
32251398 AATAATATTTTATAAGTAATAATATATATATATATATATATTTCTTCTTCATATATTTTTCTTTC
1 AATAATATTTTATAAG---TAATA-ATATATATATATATATTTCTTCTTCATATATTTTTCTTTC
32251463 AAATTCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
62 AAATTCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
32251521 A
1 A
32251522 GTTTGTTTTA
Statistics
Matches: 239, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
119 135 0.56
122 5 0.02
123 99 0.41
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (119 bp):
AATAATATTTTATAAGTAATAATATATATATATATATTTCTTCTTCATATATTTTTCTTTCAAAT
TCTAAGTATAAGGTATGTTTTTCTTCAAACTTTTAATAGATTTTGAATTTTTGA
Found at i:32254583 original size:32 final size:33
Alignment explanation
Indices: 32254547--32254615 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
32254537 CTATTTTGAT
32254547 TTTATTAATTCTTATCAATGAAAAAATTTAA-G
1 TTTATTAATTCTTATCAATGAAAAAATTTAAGG
32254579 TTTATTAATTCTTATCAATGAAAAAATTTAAGG
1 TTTATTAATTCTTATCAATGAAAAAATTTAAGG
32254612 TTTA
1 TTTA
32254616 AATATATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 31 0.86
33 5 0.14
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.45
Consensus pattern (33 bp):
TTTATTAATTCTTATCAATGAAAAAATTTAAGG
Found at i:32254631 original size:32 final size:31
Alignment explanation
Indices: 32254547--32254635 Score: 99
Period size: 32 Copynumber: 2.8 Consensus size: 31
32254537 CTATTTTGAT
*
32254547 TTTATTAATTCTTATCAATGAAAAAATTTAAG
1 TTTA-TAATTATTATCAATGAAAAAATTTAAG
*
32254579 TTTATTAATTCTTATCAATGAAAAAATTTAAGG
1 TTTA-TAATTATTATCAATGAAAAAATTTAA-G
* *
32254612 TTTA-AATATATTTTGAATGAAAAA
1 TTTATAAT-TATTATCAATGAAAAA
32254636 TGAAGGAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
31 3 0.06
32 44 0.85
33 5 0.10
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (31 bp):
TTTATAATTATTATCAATGAAAAAATTTAAG
Found at i:32255756 original size:43 final size:43
Alignment explanation
Indices: 32255701--32255912 Score: 171
Period size: 43 Copynumber: 4.9 Consensus size: 43
32255691 GCTTTTGTGG
* **
32255701 GAAAAA-CACTGCTAAAGATTATGTTCTTTAGCGGCGTTTGTA
1 GAAAAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCGTTTGTA
* ** * * *
32255743 -AGAAAAGTGCTGCTAAAGACCATGTTCTACAACGACGTTTGTG
1 GA-AAAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCGTTTGTA
* * * * * *
32255786 GTAAAAGCACCGATAAAAACCATGTTCTTTAGCGGCGTTTTTTA
1 GAAAAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCG-TTTGTA
* * *
32255830 -TAAAAGCGCTGCTAAAGACCATGCTCTTTAGTGGCGTTTGTGA
1 GAAAAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCGTTTGT-A
* * *
32255873 GAAAAAGTGCCT-CTAAAGATCATTTTCTTTAGCGGCGTTT
1 GAAAAAGCG-CTGCTAAAGACCATGTTCTTTAGCGGCGTTT
32255913 TTGGGACAGC
Statistics
Matches: 129, Mismatches: 34, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 84 0.65
44 34 0.26
45 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (43 bp):
GAAAAAGCGCTGCTAAAGACCATGTTCTTTAGCGGCGTTTGTA
Found at i:32255868 original size:86 final size:87
Alignment explanation
Indices: 32255721--32255914 Score: 219
Period size: 86 Copynumber: 2.2 Consensus size: 87
32255711 GCTAAAGATT
* * *
32255721 ATGTTCTTTAGCGGCGTTTGTAAGAAAAGTGCTGCTAAAGACCATGTTCTACAACGACGTTTGTG
1 ATGTTCTTTAGCGGCGTTTTTAAGAAAAGCGCTGCTAAAGACCATGCTCTACAACGACGTTTGTG
*
32255786 -GTAAAAGCACCGATAAAAACC
66 AGAAAAAGCACCGATAAAAACC
* * ** ** *
32255807 ATGTTCTTTAGCGGCGTTTTTTATAAAAGCGCTGCTAAAGACCATGCTCTTTAGTGGCGTTTGTG
1 ATGTTCTTTAGCGGCGTTTTTAAGAAAAGCGCTGCTAAAGACCATGCTCTACAACGACGTTTGTG
** ** * *
32255872 AGAAAAAGTGCCTCTAAAGATC
66 AGAAAAAGCACCGATAAAAACC
*
32255894 ATTTTCTTTAGCGGCGTTTTT
1 ATGTTCTTTAGCGGCGTTTTT
32255915 GGGACAGCGC
Statistics
Matches: 89, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
86 55 0.62
87 34 0.38
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (87 bp):
ATGTTCTTTAGCGGCGTTTTTAAGAAAAGCGCTGCTAAAGACCATGCTCTACAACGACGTTTGTG
AGAAAAAGCACCGATAAAAACC
Found at i:32255992 original size:15 final size:15
Alignment explanation
Indices: 32255972--32256001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32255962 AAACGTCACG
*
32255972 ATTTTTAGTGGCGTT
1 ATTTTTAGCGGCGTT
32255987 ATTTTTAGCGGCGTT
1 ATTTTTAGCGGCGTT
32256002 TACAAGCGCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.27, T:0.50
Consensus pattern (15 bp):
ATTTTTAGCGGCGTT
Found at i:32256215 original size:18 final size:19
Alignment explanation
Indices: 32256192--32256231 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
32256182 ATGTGAAATG
*
32256192 TTTTTTTTTAATTATT-AA
1 TTTTTTGTTAATTATTCAA
32256210 TTTTTTGTTAATTATTCAA
1 TTTTTTGTTAATTATTCAA
32256229 TTT
1 TTT
32256232 CAAATACCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (19 bp):
TTTTTTGTTAATTATTCAA
Found at i:32263113 original size:10 final size:10
Alignment explanation
Indices: 32263067--32263112 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
32263057 GGTCCCTATA
32263067 ATTTTATTTC
1 ATTTTATTTC
32263077 ATTTTTAATTTC
1 A-TTTT-ATTTC
*
32263089 ATTTCATTTC
1 ATTTTATTTC
32263099 ATTTTATTTC
1 ATTTTATTTC
32263109 -TTTT
1 ATTTT
32263113 TTAATTCGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 7 0.22
12 6 0.19
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:32263247 original size:12 final size:12
Alignment explanation
Indices: 32263221--32263289 Score: 56
Period size: 11 Copynumber: 5.9 Consensus size: 12
32263211 ATTTCCTGTT
32263221 TTTATATGCTTTA
1 TTTATATG-TTTA
32263234 TTTATATGTTTA
1 TTTATATGTTTA
* *
32263246 TTTGT-TTTTTA
1 TTTATATGTTTA
*
32263257 TTT-TATTTTCTA
1 TTTATATGTT-TA
*
32263269 TTTA-ATTTTTA
1 TTTATATGTTTA
32263280 TTTAT-TGTTT
1 TTTATATGTTT
32263290 TCTATTTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
10 1 0.02
11 22 0.45
12 18 0.37
13 8 0.16
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (12 bp):
TTTATATGTTTA
Found at i:32263256 original size:23 final size:23
Alignment explanation
Indices: 32263230--32263289 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
32263220 TTTTATATGC
**
32263230 TTTATTTATATGTTTATTTGTTT
1 TTTATTTATATGTTTATTTAATT
*
32263253 TTTATTT-TATTTTCTATTTAATT
1 TTTATTTATATGTT-TATTTAATT
32263276 TTTATTTAT-TGTTT
1 TTTATTTATATGTTT
32263290 TCTATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 6 0.19
23 24 0.77
24 1 0.03
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTATTTATATGTTTATTTAATT
Found at i:32263285 original size:4 final size:4
Alignment explanation
Indices: 32263230--32263479 Score: 62
Period size: 4 Copynumber: 61.5 Consensus size: 4
32263220 TTTTATATGC
* * * * *
32263230 TTTA TTTA TATG TTTA TTTG TTT- TTTA TTTTA TTT- TCTA TTTA ATT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA
* * *
32263276 TTTA TTTA TTGTT TTCTA TTTA -TTA TTCA TTTA TATTA TTCA TTT- TTT-
1 TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA
* * * *
32263324 TTT- TGTTA TTTA CATTC TTGCT- TTTA TTGA TTGT- TTTA TGTA TTTTA
1 TTTA T-TTA TTTA -TTTA TT--TA TTTA TTTA TT-TA TTTA TTTA -TTTA
* * *
32263371 TTTA TTT- GTTA TCTCTA TTGT- TTTA TTGT- TTATA TTTG TTTG TTTA
1 TTTA TTTA TTTA T-T-TA TT-TA TTTA TT-TA TT-TA TTTA TTTA TTTA
* * *
32263417 -TT- TTTA TTTA TTCA TTTA TTT- TTTA TTTT TTTA TGTTA TTTA CTTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA -TTTA
32263464 TTTAA TTTTA TTTA TT
1 TTT-A -TTTA TTTA TT
32263480 CATTGATATT
Statistics
Matches: 182, Mismatches: 35, Indels: 58
0.66 0.13 0.21
Matches are distributed among these distances:
3 29 0.16
4 109 0.60
5 37 0.20
6 7 0.04
ACGTcount: A:0.19, C:0.05, G:0.06, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:32263290 original size:12 final size:12
Alignment explanation
Indices: 32263202--32263290 Score: 55
Period size: 12 Copynumber: 7.8 Consensus size: 12
32263192 AATTAGACCC
32263202 TATTGTTTTATT
1 TATTGTTTTATT
** *
32263214 TCCTGTTTT-TA
1 TATTGTTTTATT
*
32263225 TA-TGCTTTATT
1 TATTGTTTTATT
32263236 TATATG-TTTATT
1 TAT-TGTTTTATT
*
32263248 TGTT-TTTTATTT
1 TATTGTTTTA-TT
*
32263260 TATT-TTCTATT
1 TATTGTTTTATT
*
32263271 TAAT-TTTTATT
1 TATTGTTTTATT
32263282 TATTGTTTT
1 TATTGTTTT
32263291 CTATTTATTA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
10 5 0.08
11 24 0.41
12 28 0.47
13 2 0.03
ACGTcount: A:0.17, C:0.04, G:0.07, T:0.72
Consensus pattern (12 bp):
TATTGTTTTATT
Found at i:32263297 original size:14 final size:14
Alignment explanation
Indices: 32263259--32263302 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
32263249 GTTTTTTATT
32263259 TTATTTTCTATTTA
1 TTATTTTCTATTTA
32263273 --ATTTT-TATTTA
1 TTATTTTCTATTTA
*
32263284 TTGTTTTCTATTTA
1 TTATTTTCTATTTA
32263298 TTATT
1 TTATT
32263303 CATTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.24
12 5 0.20
13 4 0.16
14 10 0.40
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (14 bp):
TTATTTTCTATTTA
Found at i:32263307 original size:25 final size:25
Alignment explanation
Indices: 32263262--32263309 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
32263252 TTTTATTTTA
*
32263262 TTTTCTATTTAATTTTTATTTATTG
1 TTTTCTATTTAATTTTCATTTATTG
32263287 TTTTCTATTT-ATTATTCATTTAT
1 TTTTCTATTTAATT-TTCATTTAT
32263310 ATTATTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (25 bp):
TTTTCTATTTAATTTTCATTTATTG
Found at i:32263441 original size:19 final size:18
Alignment explanation
Indices: 32263413--32263496 Score: 79
Period size: 18 Copynumber: 4.7 Consensus size: 18
32263403 TATTTGTTTG
32263413 TTTATTTTTATTTATTCA
1 TTTATTTTTATTTATTCA
32263431 TTTATTTTT-TATT-TT--
1 TTTATTTTTAT-TTATTCA
*
32263446 TTTA-TGTTATTTACTTCA
1 TTTATTTTTATTTA-TTCA
*
32263464 TTTAATTTTATTTATTCA
1 TTTATTTTTATTTATTCA
32263482 TTGATATTTTTATTT
1 TT--TATTTTTATTT
32263497 CTTACCTATT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.09
15 5 0.09
16 2 0.04
17 3 0.06
18 21 0.39
19 8 0.15
20 10 0.19
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTATTTTTATTTATTCA
Found at i:32263490 original size:33 final size:32
Alignment explanation
Indices: 32263421--32263490 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
32263411 TGTTTATTTT
* * * *
32263421 TATTTATTCATTTATTTTTTATTTTTTTATGT
1 TATTTATTCATTTATATTTTATTTATTCATGA
32263453 TATTTACTTCATTTA-ATTTTATTTATTCATTGA
1 TATTTA-TTCATTTATATTTTATTTATTCA-TGA
32263486 TATTT
1 TATTT
32263491 TTATTTCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.69
Consensus pattern (32 bp):
TATTTATTCATTTATATTTTATTTATTCATGA
Found at i:32264566 original size:16 final size:17
Alignment explanation
Indices: 32264545--32264584 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
32264535 AAGAACCTAT
*
32264545 AAAAATTAAA-AAAAAG
1 AAAAATTAAATAAAAAC
32264561 AAAAATTAAATTAAAAAC
1 AAAAATTAAA-TAAAAAC
32264579 AAAAAT
1 AAAAAT
32264585 ATTAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
18 11 0.52
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAAATTAAATAAAAAC
Found at i:32264571 original size:21 final size:20
Alignment explanation
Indices: 32264547--32264590 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
32264537 GAACCTATAA
32264547 AAATTAAAAAAAAGAAAAATT
1 AAATTAAAAAAAA-AAAAATT
* *
32264568 AAATTAAAAACAAAAATATT
1 AAATTAAAAAAAAAAAAATT
32264588 AAA
1 AAA
32264591 ACAAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATTAAAAAAAAAAAAATT
Found at i:32264588 original size:20 final size:20
Alignment explanation
Indices: 32264547--32264615 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
32264537 GAACCTATAA
*
32264547 AAATTAAAAAAAAGAAAAATT
1 AAATTAAAAAAAA-AAATATT
*
32264568 AAATTAAAAACAAAAATATT
1 AAATTAAAAAAAAAAATATT
** * *
32264588 AAAACAAAAATAAAAATGGTT
1 AAATTAAAAAAAAAAAT-ATT
32264609 AAATTAA
1 AAATTAA
32264616 TAGAAATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 20 0.51
21 19 0.49
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATTAAAAAAAAAAATATT
Found at i:32275412 original size:24 final size:23
Alignment explanation
Indices: 32275348--32275413 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
32275338 ATTTGAGAAA
*
32275348 TAATCTTTTAGTTAAACTCTGTT
1 TAATTTTTTAGTTAAACTCTGTT
* *
32275371 TAATTGTTTCAATTAAACTCTGTT
1 TAATT-TTTTAGTTAAACTCTGTT
* *
32275395 TATTTTTTTGAGTCAAACT
1 TAATTTTTT-AGTTAAACT
32275414 TTTATTAGTC
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (23 bp):
TAATTTTTTAGTTAAACTCTGTT
Found at i:32277431 original size:24 final size:24
Alignment explanation
Indices: 32277353--32277421 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
32277343 AATCTTTTAG
*
32277353 TTAAACTCTGTTTAATTGTTTCAA
1 TTAAACTCTGTTTATTTGTTTCAA
32277377 TTAAACT-TCGTTTATTTGTTTCAA
1 TTAAACTCT-GTTTATTTGTTTCAA
32277401 TTAAACTCTGTTTATTTGTTT
1 TTAAACTCTGTTTATTTGTTT
32277422 GAGTCAAACT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 40 0.95
25 1 0.02
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.55
Consensus pattern (24 bp):
TTAAACTCTGTTTATTTGTTTCAA
Found at i:32278988 original size:18 final size:18
Alignment explanation
Indices: 32278967--32279008 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
32278957 AGTTGTGAGG
*
32278967 ATAAAATTA-AATATTATA
1 ATAAAATTATAATA-TAAA
*
32278985 ATAATATTATAATATAAA
1 ATAAAATTATAATATAAA
32279003 ATAAAA
1 ATAAAA
32279009 AATAAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAAAATTATAATATAAA
Found at i:32279241 original size:2 final size:2
Alignment explanation
Indices: 32279236--32279269 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
32279226 TCATAAAATA
32279236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32279270 GTCACAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32281337 original size:56 final size:55
Alignment explanation
Indices: 32281271--32281436 Score: 160
Period size: 55 Copynumber: 3.0 Consensus size: 55
32281261 TTCTTCTTAA
*
32281271 TTGTTGGAATATTGTTTCTTTTGAATATATACTTTTATATGTTTAAATCAATTGTT
1 TTGTTGGAATATTGTTTCTTTTGAATATATA-TTTTATATATTTAAATCAATTGTT
** * *
32281327 TTGTTGGAATATTACTTCTTTTGAATCGAT-TA-TTTATATTTTTAAAT-ATATTATT
1 TTGTTGGAATATTGTTTCTTTTGAAT--ATATATTTTATATATTTAAATCA-ATTGTT
* ** * * *
32281382 ATGTTAAAATAATGTTTCTTTTGAATAGA-ATGTTTATATATTTAAATCGATTGTT
1 TTGTTGGAATATTGTTTCTTTTGAATATATAT-TTTATATATTTAAATCAATTGTT
32281437 ACATAACACA
Statistics
Matches: 89, Mismatches: 14, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
53 2 0.02
54 1 0.01
55 58 0.65
56 24 0.27
57 2 0.02
58 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (55 bp):
TTGTTGGAATATTGTTTCTTTTGAATATATATTTTATATATTTAAATCAATTGTT
Found at i:32287581 original size:29 final size:28
Alignment explanation
Indices: 32287549--32287741 Score: 123
Period size: 29 Copynumber: 6.7 Consensus size: 28
32287539 TGGACTTGCA
*
32287549 GGGGCAAAATGGTAATTTTTGGTGAAATC
1 GGGGTAAAATGGTAA-TTTTGGTGAAATC
* *
32287578 GGGGTTGAAAATGG-AATTTTGG-AAAATTTG
1 GGGG-T-AAAATGGTAATTTTGGTGAAA--TC
*
32287608 GGGGTAAAATGGTGATTTTGGTGAAATC
1 GGGGTAAAATGGTAATTTTGGTGAAATC
*
32287636 GGGGTTAAAAATAG-AATTTT-G-GAAAGTTC
1 GGGG-T-AAAATGGTAATTTTGGTGAAA--TC
*
32287665 GGGGGTAAAATGGTAATTTTTGGTGAAATT
1 -GGGGTAAAATGGTAA-TTTTGGTGAAATC
* * *
32287695 AGGTTAAAATGG-AATTTT--AGAAAGTTC
1 GGGGTAAAATGGTAATTTTGGTGAAA--TC
32287722 GGGGGTAAAATGGTAATTTT
1 -GGGGTAAAATGGTAATTTT
32287742 TGGATAGTCC
Statistics
Matches: 129, Mismatches: 16, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
25 4 0.03
27 9 0.07
28 34 0.26
29 45 0.35
30 25 0.19
31 8 0.06
32 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTGGTGAAATC
Found at i:32287728 original size:57 final size:59
Alignment explanation
Indices: 32287549--32287744 Score: 290
Period size: 58 Copynumber: 3.4 Consensus size: 59
32287539 TGGACTTGCA
* * * *
32287549 GGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAATTTG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
* *
32287608 GGGGTAAAATGGTGA-TTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
** *
32287666 GGGGTAAAATGGTAATTTTTGGTGAAAT-TAGGTT-AAAATGGAATTTTAGAAAGTTCG
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
32287723 GGGGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
32287745 ATAGTCCAAG
Statistics
Matches: 125, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 43 0.34
58 57 0.46
59 25 0.20
ACGTcount: A:0.33, C:0.03, G:0.32, T:0.33
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCG
Found at i:32287995 original size:162 final size:162
Alignment explanation
Indices: 32287818--32288149 Score: 565
Period size: 162 Copynumber: 2.0 Consensus size: 162
32287808 CATCCAGAAA
* *
32287818 TCAAAGGACTAATTTACAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGA
1 TCAAAGGAATAATTTACAAATCTTGAAAAATTCTGGGGCCAATTTTGTAATTAAATAAAAGTTGA
* ** * *
32287883 TTTAATGATTAAATTAAAACAAATTAAAAATGGCATGGACTAGATACATAAATAAGCCAAAAGAT
66 TTTAAGGATTAAATTAAAACAAATTAAAAATAACAGGGACTAGATACATAAATAAGCCAAAAAAT
32287948 GACACGTGGCAGCCTCTGGTGCAGTCAAACAG
131 GACACGTGGCAGCCTCTGGTGCAGTCAAACAG
*
32287980 TCAAAGGAATAATTTATAAATCTTGAAAAATTCTGGGGCCAATTTTGTAATTAAATAAAAGTTGA
1 TCAAAGGAATAATTTACAAATCTTGAAAAATTCTGGGGCCAATTTTGTAATTAAATAAAAGTTGA
* * *
32288045 TTTAAGGATTAAATTAAGATAAATTAAAAATAACAGGGACTGGATACATAAATAAGCCAAAAAAT
66 TTTAAGGATTAAATTAAAACAAATTAAAAATAACAGGGACTAGATACATAAATAAGCCAAAAAAT
32288110 GACACGTGGCAGCCTCTGGTGCAGTCAAACAG
131 GACACGTGGCAGCCTCTGGTGCAGTCAAACAG
32288142 TCAAAGGA
1 TCAAAGGA
32288150 TTAAATCGAA
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
162 159 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (162 bp):
TCAAAGGAATAATTTACAAATCTTGAAAAATTCTGGGGCCAATTTTGTAATTAAATAAAAGTTGA
TTTAAGGATTAAATTAAAACAAATTAAAAATAACAGGGACTAGATACATAAATAAGCCAAAAAAT
GACACGTGGCAGCCTCTGGTGCAGTCAAACAG
Found at i:32289574 original size:11 final size:11
Alignment explanation
Indices: 32289558--32289631 Score: 71
Period size: 11 Copynumber: 6.8 Consensus size: 11
32289548 TTATAATAAT
32289558 ATTAAATTTAA
1 ATTAAATTTAA
*
32289569 ATTAAATTCAA
1 ATTAAATTTAA
*
32289580 ATTAAAATTAA
1 ATTAAATTTAA
*
32289591 ATTTAAA-ATAA
1 A-TTAAATTTAA
* *
32289602 ATTTAAGTTAA
1 ATTAAATTTAA
*
32289613 AATAAA-TTAA
1 ATTAAATTTAA
32289623 ATTAAATTT
1 ATTAAATTT
32289632 CAAAGTAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
10 13 0.25
11 33 0.65
12 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:32289589 original size:28 final size:28
Alignment explanation
Indices: 32289558--32289641 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
32289548 TTATAATAAT
32289558 ATTAAATTTAAATTAAATTCAAATTAAA
1 ATTAAATTTAAATTAAATTCAAATTAAA
* * *
32289586 ATTAAATTTAAAATAAATTTAAGTTAAA
1 ATTAAATTTAAATTAAATTCAAATTAAA
*
32289614 A-TAAA-TTAAATTAAATTTCAAAGTAAA
1 ATTAAATTTAAATTAAA-TTCAAATTAAA
32289641 A
1 A
32289642 AATGGTTTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.19
27 13 0.27
28 26 0.54
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
ATTAAATTTAAATTAAATTCAAATTAAA
Found at i:32289603 original size:16 final size:16
Alignment explanation
Indices: 32289566--32289625 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
32289556 ATATTAAATT
* *
32289566 TAAATTAAATTCAAAT
1 TAAATTAAATTTAAAA
32289582 TAAAATTAAATTTAAAA
1 T-AAATTAAATTTAAAA
* *
32289599 TAAATTTAAGTTAAAA
1 TAAATTAAATTTAAAA
32289615 TAAATTAAATT
1 TAAATTAAATT
32289626 AAATTTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
16 23 0.62
17 14 0.38
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAATTAAATTTAAAA
Found at i:32289619 original size:4 final size:5
Alignment explanation
Indices: 32289558--32289630 Score: 74
Period size: 5 Copynumber: 13.6 Consensus size: 5
32289548 TTATAATAAT
*
32289558 ATTAA ATTTAA ATTAA ATTCAA ATTAAA ATTAA ATTTAA AATAA ATTTAA
1 ATTAA A-TTAA ATTAA ATT-AA ATT-AA ATTAA A-TTAA ATTAA A-TTAA
* *
32289608 GTTAA AATAA ATTAA ATTAA ATT
1 ATTAA ATTAA ATTAA ATTAA ATT
32289631 TCAAAGTAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
5 34 0.60
6 23 0.40
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:32289992 original size:38 final size:37
Alignment explanation
Indices: 32289945--32290300 Score: 116
Period size: 38 Copynumber: 9.3 Consensus size: 37
32289935 ATCCAACTCC
32289945 ACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 ACTTCAATTTCAAGAGGAT-GGAAACGATCTTGCTCTT
* * * *
32289983 ACTTCAATTTC-AGA-GAT-AAAGACTTGAT-ATCCAACTCT
1 ACTTCAATTTCAAGAGGATGGAA-AC--GATCTTGC-TCT-T
*
32290021 ACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 ACTTCAATTTCAAGAGGAT-GGAAACGATCTTGCTCTT
* * * * * *
32290059 GCTCCAATTTC-AGA-GAT-AAAGACG-TGTTATCCAACTCT
1 ACTTCAATTTCAAGAGGATGGAA-ACGAT-CT-TGC-TCT-T
* *
32290097 ACTTCAATTTCAAGCGGATAGGAAATGA-CGTTGCTCTT
1 ACTTCAATTTCAAGAGGAT-GGAAACGATC-TTGCTCTT
* * * *
32290135 ACTTCAATTTC-AGA-GAT-AAAGACG-TGTTATTCAACTCT
1 ACTTCAATTTCAAGAGGATGGAA-ACGAT-CT-TGC-TCT-T
* *
32290173 ACTTCAATTTCAAGCGGATAGGAAATGA-CGTTGCTCTT
1 ACTTCAATTTCAAGAGGAT-GGAAACGATC-TTGCTCTT
* * * *
32290211 ACTTCAATTTC-AGAGAGAT-AAAGACTTGAT-ATCCAACTCT
1 ACTTCAATTTCAAGAG-GATGGAA-AC--GATCTTGC-TCT-T
* *
32290251 ACTTCAATTTCAAGAGGATAGGAAATGATCTTACTCTT
1 ACTTCAATTTCAAGAGGAT-GGAAACGATCTTGCTCTT
32290289 ACTTCAATTTCA
1 ACTTCAATTTCA
32290301 GAGATAAAGA
Statistics
Matches: 227, Mismatches: 47, Indels: 88
0.63 0.13 0.24
Matches are distributed among these distances:
34 7 0.03
35 8 0.04
36 17 0.07
37 21 0.09
38 97 0.43
39 25 0.11
40 32 0.14
41 12 0.05
42 8 0.04
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (37 bp):
ACTTCAATTTCAAGAGGATGGAAACGATCTTGCTCTT
Found at i:32290035 original size:76 final size:76
Alignment explanation
Indices: 32289907--32290515 Score: 882
Period size: 76 Copynumber: 7.9 Consensus size: 76
32289897 TCATCTTGCT
* * * *
32289907 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCCACTTCAATTTCAAGAGGATGGGAAACG
1 TTCAATTTC--AGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
32289972 ATCTTGCTCTTAC
64 ATCTTGCTCTTAC
*
32289985 TTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
1 TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
*
32290050 CTTGCTCTTGC
66 CTTGCTCTTAC
* * *
32290061 TCCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATGA-
1 TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
32290125 CGTTGCTCTTAC
66 C-TTGCTCTTAC
* * *
32290137 TTCAATTTCAGAGATAAAGACGTGTTATTCAACTCTACTTCAATTTCAAGCGGATAGGAAATGA-
1 TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
32290201 CGTTGCTCTTAC
66 C-TTGCTCTTAC
*
32290213 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
1 TTCAATTTC--AGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
*
32290278 ATCTTACTCTTAC
64 ATCTTGCTCTTAC
* *
32290291 TTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATGA-
1 TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
32290355 CGTTGCTCTTAC
66 C-TTGCTCTTAC
* * * * *
32290367 TTCAATTTTAGAGAGATAAGGACTTGATATCCAACTCTACTTCAATTTCAAGAGGACAGGGAATG
1 TTCAA-TTT-CAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
*
32290432 ACCTTGCTCTTAC
64 ATCTTGCTCTTAC
* * * *
32290445 TTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAGTTTCAAGAGGATGGGGAATGAT
1 TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
32290510 CTTGCT
66 CTTGCT
32290516 GCGATTTGAT
Statistics
Matches: 488, Mismatches: 35, Indels: 18
0.90 0.06 0.03
Matches are distributed among these distances:
75 2 0.00
76 336 0.69
77 6 0.01
78 142 0.29
79 2 0.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (76 bp):
TTCAATTTCAGAGATAAAGACGTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAT
CTTGCTCTTAC
Found at i:32290309 original size:154 final size:154
Alignment explanation
Indices: 32289907--32290508 Score: 960
Period size: 154 Copynumber: 3.9 Consensus size: 154
32289897 TCATCTTGCT
* * *
32289907 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCCACTTCAATTTCAAGAGGATGGGAAACG
1 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
* *
32289972 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
66 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAG
*
32290037 GATAGGAAATGATC-TTGCTCTTGC
131 GATAGGAAATGA-CGTTGCTCTTAC
* * * *
32290061 TCCAATTTC--AGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCGGATAGGAAATG
1 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
* *
32290124 A-CGTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATTCAACTCTACTTCAATTTCAAGC
66 ATC-TTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGA
32290188 GGATAGGAAATGACGTTGCTCTTAC
130 GGATAGGAAATGACGTTGCTCTTAC
32290213 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
1 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
* *
32290278 ATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGCG
66 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAG
32290343 GATAGGAAATGACGTTGCTCTTAC
131 GATAGGAAATGACGTTGCTCTTAC
* * * *
32290367 TTCAATTTTAGAGAGATAAGGACTTGATATCCAACTCTACTTCAATTTCAAGAGGACAGGGAATG
1 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
* *
32290432 ACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAGTTTCAAGAG
66 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAG
* *
32290497 GATGGGGAATGA
131 GATAGGAAATGA
32290509 TCTTGCTGCG
Statistics
Matches: 415, Mismatches: 28, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
151 2 0.00
152 136 0.33
154 276 0.67
155 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (154 bp):
TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATGACGTTGCTCTTAC
Found at i:32290310 original size:230 final size:227
Alignment explanation
Indices: 32289907--32290512 Score: 960
Period size: 230 Copynumber: 2.6 Consensus size: 227
32289897 TCATCTTGCT
* * *
32289907 TTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCCACTTCAATTTCAAGAGGATGGGAAACG
1 TTCAATTTC--AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
32289972 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
64 A-CTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
* *
32290037 GATAGGAAATGATCTTGCTCTTGCTCCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTC
128 GATAGGAAATGATCTTACTCTTACTCCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTC
32290102 AATTTCAAGCGGATAGGAAATGACGTTGCTCTTAC
193 AATTTCAAGCGGATAGGAAATGACGTTGCTCTTAC
* * * *
32290137 TTCAATTTCAGAGATAAAGACGTGTTATTCAACTCTACTTCAATTTCAAGCGGATAGGAAATGAC
1 TTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAC
32290202 GTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
66 -TTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
*
32290267 GATAGGAAATGATCTTACTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTC
128 GATAGGAAATGATCTTACTCTTACTCCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTC
32290332 AATTTCAAGCGGATAGGAAATGACGTTGCTCTTAC
193 AATTTCAAGCGGATAGGAAATGACGTTGCTCTTAC
* * * *
32290367 TTCAATTTTAGAGAGATAAGGACTTGATATCCAACTCTACTTCAATTTCAAGAGGACAGGGAATG
1 TTCAA-TTT-CAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATG
* * *
32290432 ACCTTGCTCTTACTTCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAGTTTCAAGAG
64 A-CTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAG
* *
32290497 GATGGGGAATGATCTT
128 GATAGGAAATGATCTT
32290513 GCTGCGATTT
Statistics
Matches: 347, Mismatches: 23, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
227 1 0.00
228 67 0.19
230 208 0.60
231 3 0.01
232 67 0.19
233 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (227 bp):
TTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGAC
TTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGAT
AGGAAATGATCTTACTCTTACTCCAATTTCAGAGATAAAGACGTGTTATCCAACTCTACTTCAAT
TTCAAGCGGATAGGAAATGACGTTGCTCTTAC
Found at i:32302511 original size:59 final size:59
Alignment explanation
Indices: 32302383--32302696 Score: 485
Period size: 59 Copynumber: 5.4 Consensus size: 59
32302373 ATAAAATGCA
* * *
32302383 GGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTGGAAAGTTA
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
32302441 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
* * * *
32302500 GGAGGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAGAAATGGAATTTTGGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
** *
32302559 -GGGGTAAAATGGTAATTTTTGGTGAAAACG-GAGTTAAAAATGGAATTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAG-GTTAAAAATGGAATTTTGGAAAGTTC
*
32302617 GGGGGTAAAATGGTAATTTTTGGTGAAATT-AGGTT-AAAATGGAATTTTAGAAAGTTC
1 GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
32302674 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
32302697 ATAGTCCAAG
Statistics
Matches: 235, Mismatches: 17, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
57 44 0.19
58 87 0.37
59 104 0.44
ACGTcount: A:0.34, C:0.02, G:0.31, T:0.34
Consensus pattern (59 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:32302595 original size:117 final size:116
Alignment explanation
Indices: 32302386--32302696 Score: 491
Period size: 117 Copynumber: 2.7 Consensus size: 116
32302376 AAATGCAGGG
* *
32302386 GGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGGAATTTTGGAAAGTTAGGGGGTAAAA
1 GGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTT-CGGGGTAAAA
**
32302451 TGGTAATTTTTGGTGAAATTGAGGTTAAAAATGGAATTTTGGAAAGTTCGGA
65 TGGTAATTTTTGGTGAAACGGAGGTTAAAAATGGAATTTTGGAAAGTTCGGA
*
32302503 GGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAGAAATGGAATTTTGGAAAGTTCGGGGTAAAA
1 GGTAAAATGGTAATTTTTGGTGAAATTGGGGTTA-AAATGGAATTTTGGAAAGTTCGGGGTAAAA
* *
32302568 TGGTAATTTTTGGTGAAAACGGA-GTTAAAAATGGAATTTTGGAAAGTTTGGG
65 TGGTAATTTTTGGTG-AAACGGAGGTTAAAAATGGAATTTTGGAAAGTTCGGA
* *
32302620 GGTAAAATGGTAATTTTTGGTGAAATT-AGGTTAAAATGGAATTTTAGAAAGTTCGGGGGTAAAA
1 GGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTC-GGGGTAAAA
32302684 TGGTAATTTTTGG
65 TGGTAATTTTTGG
32302697 ATAGTCCAAG
Statistics
Matches: 181, Mismatches: 10, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
115 20 0.11
116 27 0.15
117 109 0.60
118 25 0.14
ACGTcount: A:0.34, C:0.02, G:0.30, T:0.34
Consensus pattern (116 bp):
GGTAAAATGGTAATTTTTGGTGAAATTGGGGTTAAAATGGAATTTTGGAAAGTTCGGGGTAAAAT
GGTAATTTTTGGTGAAACGGAGGTTAAAAATGGAATTTTGGAAAGTTCGGA
Found at i:32303037 original size:162 final size:161
Alignment explanation
Indices: 32302770--32303100 Score: 554
Period size: 162 Copynumber: 2.0 Consensus size: 161
32302760 CATCCAGAAA
* *
32302770 TCAAAGGACTAATTTACAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTTGA
1 TCAAAGGACTAATTTACAAATATTGAAAAATTCTTAGGCCAATTTTGTAATTAAATAAAAGTTGA
* ** * *
32302835 TTTAAGGATTAAATTAAAACAAATTAAAAATGGCAGGGACTAGATACATAATTAAGCCAATAGAT
66 TTTAAGGATTAAATTAAAACAAATAAAAAATAACAGGGACTAGATACATAAATAAGCCAA-AAAT
32302900 GACACATGGCAGCCTCTGGTGCAGTCAAACAG
130 GACACATGGCAGCCTCTGGTGCAGTCAAACAG
*
32302932 TCAAAGGACTAATTTATAAATATTGAAAAATTCTTAGGCCAATTTTGTAATTAAATAAAAGTTGA
1 TCAAAGGACTAATTTACAAATATTGAAAAATTCTTAGGCCAATTTTGTAATTAAATAAAAGTTGA
* *
32302997 TTTAAGGATTAAATTAAAACAAATAAAAAATAACAGGGACTGGATACATAAATAAGCTAAAAATG
66 TTTAAGGATTAAATTAAAACAAATAAAAAATAACAGGGACTAGATACATAAATAAGCCAAAAATG
*
32303062 ACACGTGGCAGCCTCTGGTGCAGTCAAACAG
131 ACACATGGCAGCCTCTGGTGCAGTCAAACAG
32303093 TCAAAGGA
1 TCAAAGGA
32303101 TTAAATCGAA
Statistics
Matches: 158, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
161 42 0.27
162 116 0.73
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (161 bp):
TCAAAGGACTAATTTACAAATATTGAAAAATTCTTAGGCCAATTTTGTAATTAAATAAAAGTTGA
TTTAAGGATTAAATTAAAACAAATAAAAAATAACAGGGACTAGATACATAAATAAGCCAAAAATG
ACACATGGCAGCCTCTGGTGCAGTCAAACAG
Found at i:32303253 original size:5 final size:5
Alignment explanation
Indices: 32303243--32303270 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32303233 GATCCCAGAG
32303243 CGGGT CGGGT CGGGT CGGGT CGGGT CGG
1 CGGGT CGGGT CGGGT CGGGT CGGGT CGG
32303271 ATTGGTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.21, G:0.61, T:0.18
Consensus pattern (5 bp):
CGGGT
Found at i:32304675 original size:6 final size:6
Alignment explanation
Indices: 32304664--32304712 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
32304654 TATAATAATA
* *
32304664 TTAAAT TTAAA- TTAAAT TTAAA- TTAAAA TTAAAT TTAAA- ATAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
32304709 TTAA
1 TTAA
32304713 GTTAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
5 14 0.38
6 23 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
TTAAAT
Found at i:32304679 original size:11 final size:11
Alignment explanation
Indices: 32304663--32304698 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
32304653 TTATAATAAT
32304663 ATTAAATTTAA
1 ATTAAATTTAA
32304674 ATTAAATTTAA
1 ATTAAATTTAA
*
32304685 ATTAAAATTAA
1 ATTAAATTTAA
32304696 ATT
1 ATT
32304699 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:32304680 original size:5 final size:5
Alignment explanation
Indices: 32304663--32304730 Score: 55
Period size: 5 Copynumber: 12.6 Consensus size: 5
32304653 TTATAATAAT
*
32304663 ATTAA ATTTAA ATTAA ATTTAA ATTAAA ATTAA ATTTAA AATAA ATTTAA
1 ATTAA A-TTAA ATTAA A-TTAA ATT-AA ATTAA A-TTAA ATTAA A-TTAA
* * *
32304713 GTTAA AATAA AATAA ATT
1 ATTAA ATTAA ATTAA ATT
32304731 TTAAAATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 29 0.56
6 23 0.44
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (5 bp):
ATTAA
Found at i:32304684 original size:17 final size:17
Alignment explanation
Indices: 32304664--32304741 Score: 79
Period size: 17 Copynumber: 4.6 Consensus size: 17
32304654 TATAATAATA
*
32304664 TTAAATTTAAATTAAAT
1 TTAAATTAAAATTAAAT
32304681 TTAAATTAAAATTAAAT
1 TTAAATTAAAATTAAAT
* * *
32304698 TTAAAAT-AAATTTAAG
1 TTAAATTAAAATTAAAT
*
32304714 TTAAAATAAAA-TAAATT
1 TTAAATTAAAATTAAA-T
*
32304731 TTAAAATAAAA
1 TTAAATTAAAA
32304742 AATGATTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
16 17 0.32
17 36 0.68
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (17 bp):
TTAAATTAAAATTAAAT
Found at i:32304694 original size:28 final size:28
Alignment explanation
Indices: 32304650--32304725 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
32304640 TTTTTTTTTT
* *
32304650 AATTTATAA-TAATATTAAATTTAAATTA
1 AATTTA-AATTAAAATTAAATTTAAAATA
32304678 AATTTAAATTAAAATTAAATTTAAAATA
1 AATTTAAATTAAAATTAAATTTAAAATA
* *
32304706 AATTTAAGTTAAAATAAAAT
1 AATTTAAATTAAAATTAAAT
32304726 AAATTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 2 0.05
28 41 0.95
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (28 bp):
AATTTAAATTAAAATTAAATTTAAAATA
Found at i:32312349 original size:39 final size:39
Alignment explanation
Indices: 32312291--32312383 Score: 150
Period size: 39 Copynumber: 2.4 Consensus size: 39
32312281 TTGACGTGTC
*
32312291 GCACTATGGTAGAGTTGATGGTTCTTTTCAATTTGGGCA
1 GCACTATGGTAGAGTTGATGGTTCTTTTCAACTTGGGCA
* *
32312330 GCATTATGGTGGAGTTGATGGTTCTTTTCAACTTGGGCA
1 GCACTATGGTAGAGTTGATGGTTCTTTTCAACTTGGGCA
*
32312369 GCACTATGCTAGAGT
1 GCACTATGGTAGAGT
32312384 GACGGTGGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.20, C:0.14, G:0.29, T:0.37
Consensus pattern (39 bp):
GCACTATGGTAGAGTTGATGGTTCTTTTCAACTTGGGCA
Found at i:32316013 original size:28 final size:28
Alignment explanation
Indices: 32315973--32316030 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
32315963 GTTGAGAGAG
32315973 ATTGATGAGTATTAGAGAATATAATATT
1 ATTGATGAGTATTAGAGAATATAATATT
*
32316001 ATTGGTGAGTATTAGAGAATATAATATT
1 ATTGATGAGTATTAGAGAATATAATATT
32316029 AT
1 AT
32316031 AACTCAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.40
Consensus pattern (28 bp):
ATTGATGAGTATTAGAGAATATAATATT
Found at i:32316087 original size:15 final size:15
Alignment explanation
Indices: 32316059--32316094 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
32316049 GCTAAGCTGT
* *
32316059 GAAGTAACAGAATAG
1 GAAGTTACAAAATAG
32316074 GAAGTTACAAAATAG
1 GAAGTTACAAAATAG
32316089 GAAGTT
1 GAAGTT
32316095 GTTAGCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.06, G:0.25, T:0.19
Consensus pattern (15 bp):
GAAGTTACAAAATAG
Found at i:32316297 original size:3 final size:3
Alignment explanation
Indices: 32316289--32316322 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
32316279 ACGTTAAGAT
32316289 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
32316323 AGTGTCAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:32316692 original size:12 final size:12
Alignment explanation
Indices: 32316675--32316705 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
32316665 AACTCGAACT
*
32316675 TTAATTATTTAA
1 TTAATTATATAA
32316687 TTAATTATATAA
1 TTAATTATATAA
32316699 TTAATTA
1 TTAATTA
32316706 AATTGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TTAATTATATAA
Found at i:32317646 original size:2 final size:2
Alignment explanation
Indices: 32317639--32317677 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
32317629 ATCCTTTATG
*
32317639 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32317678 TTATTAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:32317678 original size:12 final size:12
Alignment explanation
Indices: 32317643--32317681 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
32317633 TTTATGTATA
*
32317643 TATATATATATA
1 TATATATATATT
32317655 TATATATATATT
1 TATATATATATT
32317667 TATATATATATT
1 TATATATATATT
32317679 TAT
1 TAT
32317682 TAAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATATATATT
Found at i:32320064 original size:27 final size:27
Alignment explanation
Indices: 32320016--32320070 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
32320006 TGCTTTTGAA
*
32320016 TAATATTTTTATTAAATAATTATTATT
1 TAATATTTTTATTAAATAATTAGTATT
32320043 TAATA-TTTTATTTAAA-ATATTAGTATT
1 TAATATTTTTA-TTAAATA-ATTAGTATT
32320070 T
1 T
32320071 TATTAATTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TAATATTTTTATTAAATAATTAGTATT
Found at i:32322757 original size:29 final size:28
Alignment explanation
Indices: 32322727--32323153 Score: 137
Period size: 29 Copynumber: 14.7 Consensus size: 28
32322717 ATCGGGGTTA
*
32322727 AAAATGGGATTTTGGAAAGTTTGAGGGT
1 AAAATGGAATTTTGGAAAGTTTGAGGGT
*
32322755 AAAATGGTAATTTTTGGTGAAA--CT-AGGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTTGAGGG-T
* * * *
32322785 AAAATGGGATTTTAG-AAGATTCAGGGGT
1 AAAATGGAATTTTGGAAAGTTTGA-GGGT
32322813 AAAATGGTAATTTTGG-AAGTTTTG-GGGT
1 AAAATGG-AATTTTGGAAAG-TTTGAGGGT
* *
32322841 CAAAAATGGAATTTTGGAAGGTTCG-GGGT
1 --AAAATGGAATTTTGGAAAGTTTGAGGGT
*
32322870 AAAATGGTAATTTTTGGTGAAA--TCG-GGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTTGAGGG-T
* *
32322900 AAAAATAGG-ATTTTGGAATGTTTGGGGGT
1 -AAAAT-GGAATTTTGGAAAGTTTGAGGGT
*
32322929 AAAATGGTAATTTTTGG-AAGTTTTAGGGTT
1 AAAATGG-AA-TTTTGGAAAGTTTGAGGG-T
*
32322959 AAAATGGAATTTTAG-AAGATTT-AGGGGT
1 AAAATGGAATTTTGGAAAG-TTTGA-GGGT
**
32322987 AAAATGGTAATTTTTAGTGAAA--CCG-GGGTT
1 AAAATGG-AA-TTTT-G-GAAAGTTTGAGGG-T
* * *
32323017 AAAAATGGGATTTTGGAACA-TTCGGGGGT
1 -AAAATGGAATTTTGGAA-AGTTTGAGGGT
32323046 AAAATGGTAATTTTGGGTGAAA--TT-AGGGTT
1 AAAATGG-AATTTT--G-GAAAGTTTGAGGG-T
* *
32323076 AAAATGGAATTTTAGAACGTTT-AGGGGT
1 AAAATGGAATTTTGGAAAGTTTGA-GGGT
*
32323104 AAAATGGTAATTTT-TAGAAGTTTCG-GGGT
1 AAAATGG-AATTTTGGA-AAGTTT-GAGGGT
32323133 CAAAAATGGAATTTTGGAAAG
1 --AAAATGGAATTTTGGAAAG
32323154 CTTGGGGATT
Statistics
Matches: 312, Mismatches: 31, Indels: 110
0.69 0.07 0.24
Matches are distributed among these distances:
25 2 0.01
26 4 0.01
27 16 0.05
28 70 0.22
29 111 0.36
30 71 0.23
31 26 0.08
32 10 0.03
33 2 0.01
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.34
Consensus pattern (28 bp):
AAAATGGAATTTTGGAAAGTTTGAGGGT
Done.