Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 42 of 352
Found at i:13491767 original size:21 final size:21
Alignment explanation
Indices: 13491743--13491788 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
13491733 AGTTGCATAT
13491743 AAACTATCCCAATTAGTTTGG
1 AAACTATCCCAATTAGTTTGG
13491764 AAACTATCCCAATTAGTTTGG
1 AAACTATCCCAATTAGTTTGG
13491785 AAAC
1 AAAC
13491789 CTCAAATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (21 bp):
AAACTATCCCAATTAGTTTGG
Found at i:13492402 original size:49 final size:49
Alignment explanation
Indices: 13492348--13492447 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
13492338 GCAAAATTAC
13492348 ATAGTTTATCTGTTATTTATTTATTTATTATAAACATATAATAAAATAT
1 ATAGTTTATCTGTTATTTATTTATTTATTATAAACATATAATAAAATAT
13492397 ATAGTTTATCTGTTATTTATTTATTTATTATAAACATATAATAAAATAT
1 ATAGTTTATCTGTTATTTATTTATTTATTATAAACATATAATAAAATAT
13492446 AT
1 AT
13492448 CACGGGGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (49 bp):
ATAGTTTATCTGTTATTTATTTATTTATTATAAACATATAATAAAATAT
Found at i:13516099 original size:21 final size:18
Alignment explanation
Indices: 13516056--13516092 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
13516046 AATATAGGTT
*
13516056 TTTAAGTGTTAAAAGAAA
1 TTTAAGTGTTAAAAAAAA
13516074 TTTAAGTGGTTAAAAAAAA
1 TTTAAGT-GTTAAAAAAAA
13516093 ATGTTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.32
Consensus pattern (18 bp):
TTTAAGTGTTAAAAAAAA
Found at i:13516884 original size:19 final size:17
Alignment explanation
Indices: 13516846--13516924 Score: 70
Period size: 17 Copynumber: 4.4 Consensus size: 17
13516836 ACATGTGGGA
*
13516846 AAAAAGTAATAAAA-ATT
1 AAAAA-TAATAAAATTTT
13516863 AAAAATAAATAAAATTTAT
1 AAAAAT-AATAAAATTT-T
*
13516882 AAAAATAATTAAATTTT
1 AAAAATAATAAAATTTT
*
13516899 AAAAATTTATTAAAAATTTT
1 AAAAA--TAAT-AAAATTTT
13516919 AAAAAT
1 AAAAAT
13516925 TGTAAAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
16 1 0.02
17 18 0.35
18 11 0.21
19 10 0.19
20 12 0.23
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (17 bp):
AAAAATAATAAAATTTT
Found at i:13516910 original size:18 final size:19
Alignment explanation
Indices: 13516861--13516925 Score: 73
Period size: 20 Copynumber: 3.5 Consensus size: 19
13516851 GTAATAAAAA
*
13516861 TTAAAAA-TAAATAAAATT
1 TTAAAAATTAATTAAAATT
13516879 TATAAAAA-TAATT-AAATT
1 T-TAAAAATTAATTAAAATT
*
13516897 TTAAAAATTTATTAAAAATT
1 TTAAAAATTAATT-AAAATT
13516917 TTAAAAATT
1 TTAAAAATT
13516926 GTAAAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.15
18 11 0.27
19 10 0.24
20 14 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TTAAAAATTAATTAAAATT
Found at i:13516933 original size:20 final size:20
Alignment explanation
Indices: 13516892--13517042 Score: 82
Period size: 20 Copynumber: 7.7 Consensus size: 20
13516882 AAAAATAATT
* *
13516892 AAATTTTAAAAATT-TATTAA
1 AAATTATAAAAATTGTA-AAA
*
13516912 AAATTTTAAAAATTGT-AAA
1 AAATTATAAAAATTGTAAAA
* * *
13516931 AAATTAT-AAAA-TATATAC
1 AAATTATAAAAATTGTAAAA
** * *
13516949 AAA-TATAGAAAAAAGTTATA
1 AAATTATA-AAAATTGTAAAA
* * *
13516969 AAATTTTATAAAGTTGTAAGA
1 AAATTATA-AAAATTGTAAAA
* *
13516990 AAATTATAAAAAATGTAAAG
1 AAATTATAAAAATTGTAAAA
13517010 AAA-TAT-AAAATTCGTAAAA
1 AAATTATAAAAATT-GTAAAA
13517029 AAATTATAAAAATT
1 AAATTATAAAAATT
13517043 ATCGTACTAA
Statistics
Matches: 97, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
17 5 0.05
18 13 0.13
19 23 0.24
20 32 0.33
21 24 0.25
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.33
Consensus pattern (20 bp):
AAATTATAAAAATTGTAAAA
Found at i:13517039 original size:9 final size:9
Alignment explanation
Indices: 13516854--13517044 Score: 68
Period size: 9 Copynumber: 20.2 Consensus size: 9
13516844 GAAAAAAGTA
13516854 ATAAAAA-T
1 ATAAAAATT
*
13516862 -TAAAAATAA
1 ATAAAAAT-T
*
13516871 ATAAAATTT
1 ATAAAAATT
*
13516880 ATAAAAATA
1 ATAAAAATT
*
13516889 AT-TAAATT
1 ATAAAAATT
*
13516897 TTAAAAATTT
1 ATAAAAA-TT
13516907 ATTAAAAATT
1 A-TAAAAATT
*
13516917 TTAAAAATT
1 ATAAAAATT
*
13516926 GTAAAAAATT
1 AT-AAAAATT
13516936 AT-AAAATAT
1 ATAAAAAT-T
*
13516945 ATACAAATAT
1 ATAAAAAT-T
*
13516955 AGAAAAAAGTT
1 A-TAAAAA-TT
13516966 AT-AAAATT
1 ATAAAAATT
* *
13516974 TTATAAAGTT
1 ATA-AAAATT
*
13516984 GTAAGAAAATT
1 AT-A-AAAATT
*
13516995 ATAAAAAAT
1 ATAAAAATT
* *
13517004 GTAAAGAAAT
1 ATAAA-AATT
*
13517014 ATAAAATTCGT
1 ATAAAAAT--T
*
13517025 AAAAAAATT
1 ATAAAAATT
13517034 ATAAAAATT
1 ATAAAAATT
13517043 AT
1 AT
13517045 CGTACTAAAA
Statistics
Matches: 135, Mismatches: 31, Indels: 33
0.68 0.16 0.17
Matches are distributed among these distances:
7 6 0.04
8 13 0.10
9 49 0.36
10 40 0.30
11 26 0.19
12 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:13517039 original size:10 final size:10
Alignment explanation
Indices: 13516892--13517044 Score: 56
Period size: 10 Copynumber: 15.7 Consensus size: 10
13516882 AAAAATAATT
*
13516892 AAATTTTAAA
1 AAATTATAAA
* *
13516902 AATTTATTAA
1 AAATTATAAA
*
13516912 AAATT-TTAA
1 AAATTATAAA
*
13516921 AAATTGTAAA
1 AAATTATAAA
13516931 AAATTATAAA
1 AAATTATAAA
* *
13516941 ATA-TAT-AC
1 AAATTATAAA
*
13516949 AAATATAGAAA
1 AAAT-TATAAA
13516960 AAAGTTAT--A
1 AAA-TTATAAA
* *
13516969 AAATTTTATA
1 AAATTATAAA
* *
13516979 AAGTTGTAAGA
1 AAATTATAA-A
13516990 AAATTATAAA
1 AAATTATAAA
*
13517000 AAATGTA-AAG
1 AAAT-TATAAA
13517010 AAA-TAT--A
1 AAATTATAAA
*
13517017 AAATTCGTAAAA
1 AAATT-AT-AAA
13517029 AAATTAT-AA
1 AAATTATAAA
13517038 AAATTAT
1 AAATTAT
13517045 CGTACTAAAA
Statistics
Matches: 106, Mismatches: 22, Indels: 31
0.67 0.14 0.19
Matches are distributed among these distances:
7 3 0.03
8 9 0.08
9 26 0.25
10 44 0.42
11 17 0.16
12 7 0.07
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (10 bp):
AAATTATAAA
Found at i:13517256 original size:30 final size:30
Alignment explanation
Indices: 13517220--13517287 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
13517210 TCTTTTATAA
* * *
13517220 TTATTTATGATTTTATAAAATTTTAT-ATTT
1 TTATTTATAATTTAAT-AAATTTTATAACTT
* *
13517250 TTATTTAAAATTTAATAATTTTTATAACTT
1 TTATTTATAATTTAATAAATTTTATAACTT
13517280 TTATTTAT
1 TTATTTAT
13517288 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (30 bp):
TTATTTATAATTTAATAAATTTTATAACTT
Found at i:13517258 original size:20 final size:21
Alignment explanation
Indices: 13517235--13517274 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13517225 TATGATTTTA
*
13517235 TAAAATTTTAT-ATTTTTATT
1 TAAAATTTAATAATTTTTATT
13517255 TAAAATTTAATAATTTTTAT
1 TAAAATTTAATAATTTTTAT
13517275 AACTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TAAAATTTAATAATTTTTATT
Found at i:13517281 original size:10 final size:9
Alignment explanation
Indices: 13517212--13517307 Score: 56
Period size: 9 Copynumber: 10.4 Consensus size: 9
13517202 TTTTGATGTC
13517212 TTTTATAAT
1 TTTTATAAT
*
13517221 TATTTATGA-
1 T-TTTATAAT
*
13517230 TTTTATAAAA
1 TTTTAT-AAT
13517240 TTTTAT-AT
1 TTTTATAAT
*
13517248 TTTTATTTAAAA
1 TTTTA--T-AAT
*
13517260 TTTAATAAT
1 TTTTATAAT
*
13517269 TTTTATAAC
1 TTTTATAAT
*
13517278 TTTTATTTAT
1 TTTTA-TAAT
13517288 TTTTAT--T
1 TTTTATAAT
13517295 TTTTATAAT
1 TTTTATAAT
13517304 TTTT
1 TTTT
13517308 TGCCGCATGT
Statistics
Matches: 67, Mismatches: 10, Indels: 20
0.69 0.10 0.21
Matches are distributed among these distances:
7 7 0.10
8 11 0.16
9 23 0.34
10 21 0.31
12 5 0.07
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:13526323 original size:20 final size:19
Alignment explanation
Indices: 13526284--13526323 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
13526274 GGTTGAATTG
* *
13526284 AAAATTGCTCAAAATTAAT
1 AAAATTGCTAAAAATCAAT
13526303 AAAATTGCTTAAAAATCAAT
1 AAAATTGC-TAAAAATCAAT
13526323 A
1 A
13526324 GTTGAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAATTGCTAAAAATCAAT
Found at i:13530876 original size:38 final size:39
Alignment explanation
Indices: 13530814--13531025 Score: 149
Period size: 38 Copynumber: 5.1 Consensus size: 39
13530804 ACTTTTCAAA
* * *
13530814 TTAACATGTATAACTGTGGCATATCTACTTAGCACCACG
1 TTAACATGTATAACCGTGGTATATCCACTTAGCACCACG
* *
13530853 TT-ACATGTTTAACCGTGGTATATCCACTTAGCACCACAT
1 TTAACATGTATAACCGTGGTATATCCACTTAGCACCAC-G
* *
13530892 TAATGAATCGATATATGTAACCGTGGCATATCCACTTAGCACTACATTACATG
1 T--T-AA-C-ATGTA--TAACCGTGGTATATCCACTTAGCAC--C---AC--G
* * * *
13530945 TATCAATATGTGTAATCGTGGTATATCAACTTAGCACCACG
1 T-T-AACATGTATAACCGTGGTATATCCACTTAGCACCACG
*
13530986 TT-ACACGTATAACCGTGGTATATCCACTTAGCACCACG
1 TTAACATGTATAACCGTGGTATATCCACTTAGCACCACG
13531024 TT
1 TT
13531026 TTTCCATTCC
Statistics
Matches: 136, Mismatches: 22, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
38 64 0.47
39 3 0.02
40 1 0.01
41 3 0.02
43 3 0.02
44 1 0.01
45 3 0.02
46 1 0.01
47 24 0.18
48 22 0.16
49 1 0.01
50 3 0.02
52 6 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (39 bp):
TTAACATGTATAACCGTGGTATATCCACTTAGCACCACG
Found at i:13530978 original size:48 final size:48
Alignment explanation
Indices: 13530857--13530995 Score: 181
Period size: 48 Copynumber: 2.9 Consensus size: 48
13530847 ACCACGTTAC
* * *
13530857 ATGTTTAACCGTGGTATATCCACTTAGCACCACATTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAAT
* * *
13530904 ATATGTAACCGTGGCATATCCACTTAGCACTACATTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAAT
* * * *
13530952 ATGTGTAATCGTGGTATATCAACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACATTACATGTAT
13530996 AACCGTGGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 33 0.42
48 45 0.58
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACATTACATGTATCAAT
Found at i:13545394 original size:19 final size:19
Alignment explanation
Indices: 13545372--13545413 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
13545362 AAAAAAGCTG
13545372 AAAAAA-TTGAAAACTGAAA
1 AAAAAAGTTG-AAACTGAAA
*
13545391 AAAAAAGTTGAATCTGAAA
1 AAAAAAGTTGAAACTGAAA
13545410 AAAA
1 AAAA
13545414 TTTGAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.17
Consensus pattern (19 bp):
AAAAAAGTTGAAACTGAAA
Found at i:13547790 original size:22 final size:23
Alignment explanation
Indices: 13547765--13547810 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13547755 CAACCAAATC
13547765 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
13547787 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13547810 A
1 A
13547811 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13547816 original size:23 final size:23
Alignment explanation
Indices: 13547772--13547816 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13547762 ATCAATTCAA
*
13547772 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
13547795 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
13547817 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:13555537 original size:22 final size:23
Alignment explanation
Indices: 13555512--13555557 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13555502 CAACCAAATC
13555512 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
13555534 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
13555557 A
1 A
13555558 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:13555563 original size:23 final size:23
Alignment explanation
Indices: 13555519--13555563 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13555509 ATCAATTCAA
*
13555519 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
13555542 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
13555564 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:13558575 original size:72 final size:72
Alignment explanation
Indices: 13558458--13558602 Score: 236
Period size: 72 Copynumber: 2.0 Consensus size: 72
13558448 ATCTGCCTCT
*
13558458 TGACGAGACCGAGAAATAGTCATTGCCCGGCAAATCCGGATGATAAGAAGTATCAGCCGAATGTG
1 TGACGAGACCGAGAAATAGTCATTGCCCGGCAAATCCGGATGATAAGAAGTATCAGCCGAATATG
13558523 AATACGA
66 AATACGA
* * * * *
13558530 TGACGAGCCCGGGAAATTGTCATTGCTCTGCAAATCCGGATGATAAGAAGTATCAGCCGAATATG
1 TGACGAGACCGAGAAATAGTCATTGCCCGGCAAATCCGGATGATAAGAAGTATCAGCCGAATATG
13558595 AATACGA
66 AATACGA
13558602 T
1 T
13558603 CACTCAGACT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (72 bp):
TGACGAGACCGAGAAATAGTCATTGCCCGGCAAATCCGGATGATAAGAAGTATCAGCCGAATATG
AATACGA
Found at i:13561214 original size:151 final size:151
Alignment explanation
Indices: 13560709--13561694 Score: 1466
Period size: 151 Copynumber: 6.5 Consensus size: 151
13560699 ATTTTTTATT
* ** *
13560709 CCGTGATTTTGGCCCTTTGTTTGTATTTTTTGAATTTTTGGATTTTTATTTTTTAAAATATACTA
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTA
* *
13560774 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCATATTT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTT
13560839 TTTATATTAATTTAGTAAATAA
130 TTTATATTAATTTAGTAAATAA
*
13560861 CTGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* *
13560926 TTTCATACTTTATTTTTTTATATTATTTTAGTACATAATGTTTTAAATGTATTATTTTCGTGTTT
66 TTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTG-TT
13560991 TTTTATATTAATTTAGTAAATAA
129 TTTTATATTAATTTAGTAAATAA
* *
13561014 CCCTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* *
13561079 TGTCATATTTTATTTTTTATACTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
13561144 TTATATTAATTTAGTAAATAA
131 TTATATTAATTTAGTAAATAA
* * * **
13561165 CCGTGATGTTAGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAAATATACTA
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTT-AAAATATACTA
*
13561230 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATATTT-ATAATGTATTATTTTCGTG-T
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCA-AATGTATTATTTTCGTGTT
13561293 TTTTATATTAATTTAGTAAATAA
129 TTTTATATTAATTTAGTAAATAA
* *
13561316 ACGTGATTTTGGCCATTTGTTTGTATTTTTAAAAATTTT-AGATTTTATTTTTT-AAATATACTA
1 CCGTGATTTTGGCCATTTGTTTGTATTTTT-AAAATTTTCGGATTTTATTTTTTAAAATATACTA
* * * *
13561379 TTTTCGTATTTAATTTTTAATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCATGGGG
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTC---GTG
*
13561442 TTTTATATATT--TTTAGTAAATAA
127 TTTTTTATATTAATTTAGTAAATAA
* * * ** *
13561465 CCATGATTTTGGTCATTTGTTTGTACTTTTAAAATTTTCAAATTTTATTTTTTAAAATATATTAT
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
** *
13561530 TTTTTTATTTTATTTTTTATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTCGTGTTTT
66 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
*
13561595 TTATATTAATTTAATAAATAA
131 TTATATTAATTTAGTAAATAA
* * *
13561616 ACGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTTAAATTTACTAT
1 CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
*
13561681 TTTCGTACTTTTAT
66 TTTCATA-TTTTAT
13561695 ATTATTTTAG
Statistics
Matches: 758, Mismatches: 59, Indels: 34
0.89 0.07 0.04
Matches are distributed among these distances:
147 20 0.03
148 9 0.01
149 104 0.14
150 40 0.05
151 253 0.33
152 235 0.31
153 97 0.13
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (151 bp):
CCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTAT
TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
TTATATTAATTTAGTAAATAA
Found at i:13561262 original size:304 final size:302
Alignment explanation
Indices: 13560710--13561694 Score: 1482
Period size: 304 Copynumber: 3.3 Consensus size: 302
13560700 TTTTTTATTC
* ** *
13560710 CGTGATTTTGGCCCTTTGTTTGTATTTTTTGAATTTTTGGATTTTTATTTTTTAAAATATACTAT
1 CGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGA-TTTTATTTTTTAAAATATACTAT
* *
13560775 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCATATTTT
65 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTT
* *
13560840 TTATATTAATTTAGTAAATAACTGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATT
130 TTATATTAATTTAGTAAATAACCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAGATT
*
13560905 TTATTTTTTAAAATATACTATTTTCATACTTTATTTTTTTATATTATTTTAGTACATAATGTTTT
195 TTATTTTTTAAAATATACTATTTTCATATTTTA-TTTTTTATATTATTTTAGTACATAATGTTTT
*
13560970 AAATGTATTATTTTCGTGTTTTTTTATATTAATTTAGTAAATAAC
259 AAATGTATTATTTTCGTG-TTTTTTATATTAATTTAGTAAATAAA
* *
13561015 CCTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATT
1 CGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATT
* *
13561080 GTCATATTTTATTTTTTATACTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTT
66 TTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTT
* * * *
13561145 TATATTAATTTAGTAAATAACCGTGATGTTAGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTT
131 TATATTAATTTAGTAAATAACCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAGATTT
*
13561210 TATTTTTTAAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAAT-ATTTA
196 TATTTTTT-AAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTTA
13561274 TAATGTATTATTTTCGTG-TTTTTATATTAATTTAGTAAATAAA
260 -AATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
*
13561317 CGTGATTTTGGCCATTTGTTTGTATTTTTAAAAATTTT-AGATTTTATTTTTT-AAATATACTAT
1 CGTGATTTTGGCCATTTGTTTGTATTTTT-AAAATTTTCGGATTTTATTTTTTAAAATATACTAT
* * * *
13561380 TTTCGTATTTAATTTTTAATATTATTTTAGTAC--AATGTTTCAAATGTATTATTTTCATGGGGT
65 TTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTC---GTGT
* * * * *
13561443 TTTATATATT--TTTAGTAAATAACCATGATTTTGGTCATTTGTTTGTACTTTTAAAATTTTCAA
127 TTTTTATATTAATTTAGTAAATAACCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAG
* ** *
13561506 ATTTTATTTTTTAAAATATATTATTTTTTTATTTTATTTTTTATATTATTTTAGCACATAATGTT
192 ATTTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTT
* *
13561571 TCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAATAAATAAA
257 TTAAATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
* *
13561617 CGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTTAAATTTACTATT
1 CGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATT
*
13561682 TTCGTACTTTTAT
66 TTCATA-TTTTAT
13561695 ATTATTTTAG
Statistics
Matches: 624, Mismatches: 45, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
299 94 0.15
300 126 0.20
301 56 0.09
302 81 0.13
303 12 0.02
304 195 0.31
305 60 0.10
ACGTcount: A:0.28, C:0.06, G:0.09, T:0.57
Consensus pattern (302 bp):
CGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATT
TTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTT
TATATTAATTTAGTAAATAACCGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAGATTT
TATTTTTTAAAATATACTATTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTTAA
ATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATAAA
Found at i:13561544 original size:13 final size:13
Alignment explanation
Indices: 13561522--13561557 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
13561512 TTTTTTAAAA
13561522 TATATTATTTTTT
1 TATATTATTTTTT
*
13561535 TATTTTA-TTTTT
1 TATATTATTTTTT
13561547 TATATTATTTT
1 TATATTATTTT
13561558 AGCACATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TATATTATTTTTT
Found at i:13561556 original size:17 final size:17
Alignment explanation
Indices: 13561506--13561558 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
13561496 AAATTTTCAA
* *
13561506 ATTTTATTTTTTAAAAT
1 ATTTTATTTTTTATATT
*
13561523 ATATTA--TTTT-T-TT
1 ATTTTATTTTTTATATT
13561536 ATTTTATTTTTTATATT
1 ATTTTATTTTTTATATT
13561553 ATTTTA
1 ATTTTA
13561559 GCACATAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 6 0.21
15 8 0.29
16 1 0.04
17 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATTTTTTATATT
Found at i:13561558 original size:451 final size:453
Alignment explanation
Indices: 13560709--13561694 Score: 1511
Period size: 451 Copynumber: 2.2 Consensus size: 453
13560699 ATTTTTTATT
**
13560709 CCGTGATTTTGGCCCTTTGTTTGTATTTTTTGAATTTTTGGATTTTTATTTTTTAAAATATACTA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGA-TTTTATTTTTTAAAATATACTA
* *
13560774 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTTCATATTT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTCATAGTT
*
13560839 TTTATATTAATTTAGTAAATAACTGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGAT
130 TTTATATTAATTTAGTAAATAACTGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAGAT
* *
13560904 TTTATTTTTTAAAATATACTATTTTCATACTTTATTTTTTTATATTATTTTAGTACATAATGTTT
195 TTTATTTTTTAAAATATACTATTTTCATACTTTAATTTTTAATATTATTTTAGTACA-AATGTTT
* * * * * *
13560969 TAAATGTATTATTTTCGTGTTTTTTTATATTAATTTAGTAAATAACCCTGATTTTGGCCCTTTGT
259 CAAATGTATTATTTTCGGGGTTTTATATATT-ATTTAGTAAATAACCATGATTTTGGCCATTTGT
* **
13561034 TTGTATTTTTAAAATTTTCGGATTTTATTTTTTAAAATATACTATTGTCATATTTTATTTTTTAT
323 TTGTACTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTGTCATATTTTATTTTTTAT
* *
13561099 ACTATTTTAGTACATAATGTTTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAGTAAATA
388 ACTATTTTAGCACATAATGTTTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAATAAATA
13561164 A
453 A
* * *
13561165 CCGTGATGTTAGCCCTTTGTTTGTATTTTTAAAATTTTTAGATTTTATTTTTTAAAAATATACTA
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTT-AAAATATACTA
*
13561230 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATATTT-ATAATGTATTATTTTCGT-GT
65 TTTTCATATTTTATTTTTTATATTATTTTAGTACATAATATTTCA-AATGTATTATTTTCATAGT
13561293 TTTTATATTAATTTAGTAAATAAAC-GTGATTTTGGCCATTTGTTTGTATTTTTAAAAATTTT-A
129 TTTTATATTAATTTAGTAAAT-AACTGTGATTTTGGCCATTTGTTTGTATTTTT-AAAATTTTCA
*
13561356 GATTTTATTTTTT-AAATATACTATTTTCGTA-TTTAATTTTTAATATTATTTTAGTAC-AATGT
192 GATTTTATTTTTTAAAATATACTATTTTCATACTTTAATTTTTAATATTATTTTAGTACAAATGT
*
13561418 TTCAAATGTATTATTTTCATGGGGTTTTATATATT-TTTAGTAAATAACCATGATTTTGGTCATT
257 TTCAAATGTATTATTTTC--GGGGTTTTATATATTATTTAGTAAATAACCATGATTTTGGCCATT
* * **
13561482 TGTTTGTACTTTTAAAATTTTCAAATTTTATTTTTTAAAATATATTATTTTTTTATTTTATTTTT
320 TGTTTGTACTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTGTCATATTTTATTTTT
*
13561547 TATATTATTTTAGCACATAATGTTTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAATAA
385 TATACTATTTTAGCACATAATGTTTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAATAA
13561612 ATAA
450 ATAA
* * * * *
13561616 ACGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCGGATTTTATTTTTTTAAATTTACTAT
1 CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
*
13561681 TTTCGTACTTTTAT
66 TTTCATA-TTTTAT
13561695 ATTATTTTAG
Statistics
Matches: 485, Mismatches: 38, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
450 16 0.03
451 225 0.46
453 36 0.07
454 17 0.04
455 75 0.15
456 116 0.24
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.57
Consensus pattern (453 bp):
CCGTGATTTTGGCCCTTTGTTTGTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTAT
TTTCATATTTTATTTTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTTCATAGTTT
TTATATTAATTTAGTAAATAACTGTGATTTTGGCCATTTGTTTGTATTTTTAAAATTTTCAGATT
TTATTTTTTAAAATATACTATTTTCATACTTTAATTTTTAATATTATTTTAGTACAAATGTTTCA
AATGTATTATTTTCGGGGTTTTATATATTATTTAGTAAATAACCATGATTTTGGCCATTTGTTTG
TACTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTGTCATATTTTATTTTTTATACT
ATTTTAGCACATAATGTTTCAAATGTATTATTTTCGTGTTTTTTATATTAATTTAATAAATAA
Found at i:13562231 original size:9 final size:9
Alignment explanation
Indices: 13562217--13562252 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
13562207 CAACCGAATC
13562217 CTTCTCCTT
1 CTTCTCCTT
13562226 CTTCTCCTT
1 CTTCTCCTT
13562235 C-T-T-CTT
1 CTTCTCCTT
13562241 CTTCTCCTT
1 CTTCTCCTT
13562250 CTT
1 CTT
13562253 TCTTGTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
6 4 0.17
7 2 0.08
8 2 0.08
9 16 0.67
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (9 bp):
CTTCTCCTT
Found at i:13562252 original size:15 final size:15
Alignment explanation
Indices: 13562215--13562252 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
13562205 ACCAACCGAA
*
13562215 TCCTTCTCCTTCTTC
1 TCCTTCTTCTTCTTC
13562230 TCCTTCTTCTTCTTC
1 TCCTTCTTCTTCTTC
13562245 TCCTTCTT
1 TCCTTCTT
13562253 TCTTGTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (15 bp):
TCCTTCTTCTTCTTC
Found at i:13562453 original size:16 final size:15
Alignment explanation
Indices: 13562417--13562458 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
13562407 TTTCAGATTC
*
13562417 AGCTTTTTTT--TTT
1 AGCTTTTTTTACTAT
13562430 AGCTTTTTTTACTAT
1 AGCTTTTTTTACTAT
13562445 AGCTGTTTTTTACT
1 AGCT-TTTTTTACT
13562459 GTAATTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
15 6 0.24
16 9 0.36
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (15 bp):
AGCTTTTTTTACTAT
Found at i:13564767 original size:19 final size:19
Alignment explanation
Indices: 13564743--13564779 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13564733 ATTTTTTTCT
**
13564743 AAAAAAAGGGAAAGAAAAC
1 AAAAAAAGAAAAAGAAAAC
13564762 AAAAAAAGAAAAAGAAAA
1 AAAAAAAGAAAAAGAAAA
13564780 AGGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.81, C:0.03, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAAAAGAAAAAGAAAAC
Found at i:13567759 original size:42 final size:42
Alignment explanation
Indices: 13567709--13567884 Score: 178
Period size: 42 Copynumber: 4.0 Consensus size: 42
13567699 CTTCATTTTC
** *
13567709 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-A
*
13567752 T-GATGCCATAGCCCAACTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* * *
13567793 TCGATGCTATAGCCCAGCTGTGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC---AT---AT-TCACATA
*
13567842 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCACATA
13567883 TC
1 TC
13567885 TCACTGATGC
Statistics
Matches: 114, Mismatches: 11, Indels: 18
0.80 0.08 0.13
Matches are distributed among these distances:
41 11 0.10
42 61 0.54
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 35 0.31
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:13567854 original size:49 final size:48
Alignment explanation
Indices: 13567779--13567884 Score: 167
Period size: 49 Copynumber: 2.2 Consensus size: 48
13567769 TATGGTCTTA
* * *
13567779 CACATATTCATATATCGATGCTATAGCCCAGCTGTGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
13567829 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
13567877 CACATATC
1 CACATATC
13567885 TCACTGATGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 36 0.68
50 6 0.11
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.28
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:13570971 original size:31 final size:31
Alignment explanation
Indices: 13570936--13571053 Score: 200
Period size: 31 Copynumber: 3.8 Consensus size: 31
13570926 CTTGTCACTT
*
13570936 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13570967 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13570998 GTAGCTGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13571029 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13571054 TGTCATTGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13575337 original size:51 final size:51
Alignment explanation
Indices: 13575239--13575355 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
13575229 CTCAAACTTA
* * * * *
13575239 CTTCATACTTCATCCGGAATTATTACCTTGTTGTTCTAACTTCAACAAGAG
1 CTTCATATTTTATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * * *
13575290 CTTTATATTTTATCCAGAATAATTACTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTTATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
13575341 CTTCATATTTTATCC
1 CTTCATATTTTATCC
13575356 GGATAACTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (51 bp):
CTTCATATTTTATCCAGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:13579832 original size:37 final size:37
Alignment explanation
Indices: 13579760--13579833 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
13579750 ATGTTTTATA
* *
13579760 AAAAAAATTGTATACTAAATTTTATTATACCCACAAT
1 AAAAAAATTGTATACTAAATGTTATTATACACACAAT
*
13579797 AAAAAAATTGTATTCTAAATGTTATCT-TACACACAAT
1 AAAAAAATTGTATACTAAATGTTAT-TATACACACAAT
13579834 TTGGATGAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.97
38 1 0.03
ACGTcount: A:0.47, C:0.14, G:0.04, T:0.35
Consensus pattern (37 bp):
AAAAAAATTGTATACTAAATGTTATTATACACACAAT
Found at i:13580943 original size:12 final size:12
Alignment explanation
Indices: 13580926--13580953 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13580916 ACATCGACAA
13580926 AGAAAGTTAACG
1 AGAAAGTTAACG
13580938 AGAAAGTTAACG
1 AGAAAGTTAACG
13580950 AGAA
1 AGAA
13580954 GTAATCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.25, T:0.14
Consensus pattern (12 bp):
AGAAAGTTAACG
Found at i:13587972 original size:3 final size:3
Alignment explanation
Indices: 13587966--13587992 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13587956 ATCACCGTTA
13587966 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
13587993 TTTCCTTCAA
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:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:13601991 original size:6 final size:6
Alignment explanation
Indices: 13601967--13602001 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
13601957 CCGGGCGCTT
* *
13601967 CTTGTC CTTATC TTTGTC CTTGTC CTTGTC CTTGT
1 CTTGTC CTTGTC CTTGTC CTTGTC CTTGTC CTTGT
13602002 TAGCGGCGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.03, C:0.29, G:0.14, T:0.54
Consensus pattern (6 bp):
CTTGTC
Found at i:13604785 original size:21 final size:21
Alignment explanation
Indices: 13604759--13604798 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13604749 AACGGAACCA
13604759 CTGATGTGGCAAGTTAACTAG
1 CTGATGTGGCAAGTTAACTAG
*
13604780 CTGATGTGGCCAGTTAACT
1 CTGATGTGGCAAGTTAACT
13604799 TACCACGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCAAGTTAACTAG
Found at i:13605878 original size:36 final size:36
Alignment explanation
Indices: 13605830--13605907 Score: 147
Period size: 36 Copynumber: 2.1 Consensus size: 36
13605820 GGACGTCCTT
13605830 AAATGGAAATTAGACCATTGGTTAAGTTAGTGGACAA
1 AAAT-GAAATTAGACCATTGGTTAAGTTAGTGGACAA
13605867 AAATGAAATTAGACCATTGGTTAAGTTAGTGGACAA
1 AAATGAAATTAGACCATTGGTTAAGTTAGTGGACAA
13605903 AAATG
1 AAATG
13605908 GACATAGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (36 bp):
AAATGAAATTAGACCATTGGTTAAGTTAGTGGACAA
Found at i:13606692 original size:9 final size:9
Alignment explanation
Indices: 13606676--13606709 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
13606666 TTAATAATAA
13606676 AAAT-AAAG
1 AAATAAAAG
13606684 AAATAAAAG
1 AAATAAAAG
*
13606693 AAATGAAAG
1 AAATAAAAG
13606702 AAATAAAA
1 AAATAAAA
13606710 AAGAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (9 bp):
AAATAAAAG
Found at i:13606703 original size:18 final size:18
Alignment explanation
Indices: 13606676--13606728 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
13606666 TTAATAATAA
13606676 AAAT-AAAGAAATAAAAG
1 AAATGAAAGAAATAAAAG
13606693 AAATGAAAGAAATAAAA-
1 AAATGAAAGAAATAAAAG
13606710 AAGA-GAAA-AAA-AAAAG
1 AA-ATGAAAGAAATAAAAG
13606726 AAA
1 AAA
13606729 ACGAAACAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.15
16 5 0.15
17 10 0.30
18 13 0.39
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (18 bp):
AAATGAAAGAAATAAAAG
Found at i:13607994 original size:18 final size:18
Alignment explanation
Indices: 13607973--13608009 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13607963 TAAATAATTA
*
13607973 ACTGTTACAGAATAAATG
1 ACTGATACAGAATAAATG
*
13607991 ACTGATACTGAATAAATG
1 ACTGATACAGAATAAATG
13608009 A
1 A
13608010 ATATTACTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (18 bp):
ACTGATACAGAATAAATG
Found at i:13608017 original size:18 final size:19
Alignment explanation
Indices: 13607977--13608019 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
13607967 TAATTAACTG
* *
13607977 TTACAGAATAAATGACTGA
1 TTACTGAATAAATGAATGA
13607996 -TACTGAATAAATGAAT-A
1 TTACTGAATAAATGAATGA
13608013 TTACTGA
1 TTACTGA
13608020 TTAACCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (19 bp):
TTACTGAATAAATGAATGA
Found at i:13609926 original size:42 final size:42
Alignment explanation
Indices: 13609867--13610029 Score: 157
Period size: 42 Copynumber: 3.9 Consensus size: 42
13609857 TTAGGGTTAC
* * * *
13609867 TGAGATTACTTGTAAGACCATATCTGGGATATGGCATCTATA
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* **
13609909 TGAGATTTCGTGTAAGACCATATCTAGGATTTAACATCGATA
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* * * *
13609951 TGAGACTTCGTGTAAGACTATA-CTAGGCTATTGGCACCGATA
1 TGAGATTTCGTGTAAGACCATATCTAGGATA-TGGCATCGATA
* ** * * *
13609993 CGAGATTTTATGTAAAACCATATTTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCAT
13610030 TGGTATGGTA
Statistics
Matches: 95, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
41 6 0.06
42 84 0.88
43 5 0.05
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:13611726 original size:43 final size:43
Alignment explanation
Indices: 13611678--13611760 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 43
13611668 AGTATCAAGC
13611678 ACACGGGCCT-GAGACAC-AGTCGTGTGTCTCAGCCGTGTGAATG
1 ACAC-GGCCTCGAGACACGAG-CGTGTGTCTCAGCCGTGTGAATG
* **
13611721 ACACGGCCTCGGGACACGAGCGTGTGTCTTGGCCGTGTGA
1 ACACGGCCTCGAGACACGAGCGTGTGTCTCAGCCGTGTGA
13611761 TTTCAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 5 0.14
43 28 0.80
44 2 0.06
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (43 bp):
ACACGGCCTCGAGACACGAGCGTGTGTCTCAGCCGTGTGAATG
Found at i:13612415 original size:21 final size:21
Alignment explanation
Indices: 13612389--13612428 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13612379 CAATGTGGCA
13612389 AGTTAACTGGCCACATCAACC
1 AGTTAACTGGCCACATCAACC
* *
13612410 AGTTAACTTGTCACATCAA
1 AGTTAACTGGCCACATCAA
13612429 TGGTTCTGTT
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:0.35, C:0.28, G:0.12, T:0.25
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAACC
Found at i:13613795 original size:43 final size:43
Alignment explanation
Indices: 13613742--13613883 Score: 171
Period size: 43 Copynumber: 3.3 Consensus size: 43
13613732 CGAGATGTAT
* *
13613742 TTACATGTAAGACCATGTCTGGGACATTGGCATTA-TAT-TGAGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATAT--GA
13613785 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATATGA
* * * * *
13613828 TTTCGTGTAAGACCATGTCTGAGACATTGGTATCAATATGTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATATGA
* *
13613871 TAACATGTAAGAC
1 TTACGTGTAAGAC
13613884 TATATCTAGG
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 83 0.95
44 3 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATCATTATATGA
Found at i:13614294 original size:68 final size:68
Alignment explanation
Indices: 13614185--13614320 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
13614175 TTTCCACGTT
13614185 CAAGTCTCGTATTCAAGTCATCCGGATCTTTATAAAGAAATTTGATCGTCGTTTTCATTTATTTC
1 CAAGTCTCGTATTCAAGTCATCCGGATCTTTATAAAGAAATTTGATCGTCGTTTTCATTTATTTC
13614250 ATG
66 ATG
13614253 CAAGTCTCGTATTCAAGTCATCCGGATCTTTATAAAGAAATTTGATCGTCGTTTTCATTTATTTC
1 CAAGTCTCGTATTCAAGTCATCCGGATCTTTATAAAGAAATTTGATCGTCGTTTTCATTTATTTC
13614318 ATG
66 ATG
13614321 TTATAATACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (68 bp):
CAAGTCTCGTATTCAAGTCATCCGGATCTTTATAAAGAAATTTGATCGTCGTTTTCATTTATTTC
ATG
Found at i:13619550 original size:7 final size:7
Alignment explanation
Indices: 13619538--13619562 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13619528 CAAAGTGTTT
13619538 TGAATTG
1 TGAATTG
13619545 TGAATTG
1 TGAATTG
13619552 TGAATTG
1 TGAATTG
13619559 TGAA
1 TGAA
13619563 GACAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.28, T:0.40
Consensus pattern (7 bp):
TGAATTG
Found at i:13626673 original size:123 final size:123
Alignment explanation
Indices: 13626454--13626699 Score: 440
Period size: 123 Copynumber: 2.0 Consensus size: 123
13626444 AGGCATGTTC
13626454 CTGGGTTTTAAAAGTGATAAATCCTACTCTTTTAAATATTTTTGTATGTAATCTGATCTAGTAGA
1 CTGGGTTTTAAAAGTGATAAATCCTACTCTTTTAAATATTTTTGTATGTAATCTGATCTAGTAGA
13626519 CTACTAGCTTTTGTAATTCTCGTGTCCTTGATGTGG-AAATTTTCGTCCAGGTAAATAA
66 CTACTAGCTTTTGTAATTCTCGTGTCCTTGATGTGGAAAATTTT-GTCCAGGTAAATAA
* *
13626577 CTGGGTTTTAGAAGTGATAAATCCTACTCTTTTAAATATTTTTGTGTGTAATCTGATCTAGTAGA
1 CTGGGTTTTAAAAGTGATAAATCCTACTCTTTTAAATATTTTTGTATGTAATCTGATCTAGTAGA
* *
13626642 CTACTAGCTTTTGTAGTTCTTGTGTCCTTGATGTGGAAAATTTTGTCCAGGTAAATAA
66 CTACTAGCTTTTGTAATTCTCGTGTCCTTGATGTGGAAAATTTTGTCCAGGTAAATAA
13626700 AAATATCATT
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
123 111 0.94
124 7 0.06
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (123 bp):
CTGGGTTTTAAAAGTGATAAATCCTACTCTTTTAAATATTTTTGTATGTAATCTGATCTAGTAGA
CTACTAGCTTTTGTAATTCTCGTGTCCTTGATGTGGAAAATTTTGTCCAGGTAAATAA
Found at i:13635216 original size:148 final size:143
Alignment explanation
Indices: 13634948--13635227 Score: 443
Period size: 148 Copynumber: 1.9 Consensus size: 143
13634938 ATGGAAGTAA
**
13634948 CATTCCAAATGTTTTAAAACTCCCATTTTAAGTCTCATTAGTCTTTTTTGGAAGTTATAAATTAA
1 CATTCCAAATGTTTTAAAACTCCCATTTTAAGTCTCACCAGTCTTTTTTGGAAGTTATAAATTAA
* *
13635013 TGTGTTTACTATGAGAAATTATTTTATGGACTCTTTCCACCACATCATCCATAGTCCTGCCTAAT
66 TGTGTTTACCATGAGAAATTATTTTATGGACTCTTTCCACCACATCATCCATAGTCCTGCCCAAT
13635078 TTCATGAAAGTTG
131 TTCATGAAAGTTG
*
13635091 CATTCCAAATGTTTTAAAACTGCCATTTTAAGTCTCACCAGTCTTTTTTGGAAGTATAATTATAA
1 CATTCCAAATGTTTTAAAACTCCCATTTTAAGTCTCACCAGTCTTTTTTGGAAG-----TTATAA
* **
13635156 ATTAATGTGTTTACCATGAGAAATTATTTTATGGACTCTTTCCATCACATCATCTGTAGTCCTGC
61 ATTAATGTGTTTACCATGAGAAATTATTTTATGGACTCTTTCCACCACATCATCCATAGTCCTGC
13635221 CCAATTT
126 CCAATTT
13635228 AAAGAAGACA
Statistics
Matches: 124, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
143 51 0.41
148 73 0.59
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (143 bp):
CATTCCAAATGTTTTAAAACTCCCATTTTAAGTCTCACCAGTCTTTTTTGGAAGTTATAAATTAA
TGTGTTTACCATGAGAAATTATTTTATGGACTCTTTCCACCACATCATCCATAGTCCTGCCCAAT
TTCATGAAAGTTG
Found at i:13635288 original size:65 final size:65
Alignment explanation
Indices: 13635217--13635348 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
13635207 ATCTGTAGTC
13635217 CTGCCCAATTTAAAGAAGACATATTATCTCTTTTTCTTTTTGTCCATATCATATGTACATTTGGA
1 CTGCCCAATTTAAAGAAGACATATTATCTCTTTTTCTTTTTGTCCATATCATATGTACATTTGGA
13635282 CTGCCCAATTTAAAGAAGACATATTATCTCTTTTTCTTTTTGTCCATATCATATGTACATTTGGA
1 CTGCCCAATTTAAAGAAGACATATTATCTCTTTTTCTTTTTGTCCATATCATATGTACATTTGGA
13635347 CT
1 CT
13635349 AAGCTTTCAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (65 bp):
CTGCCCAATTTAAAGAAGACATATTATCTCTTTTTCTTTTTGTCCATATCATATGTACATTTGGA
Found at i:13636076 original size:30 final size:30
Alignment explanation
Indices: 13636040--13636106 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
13636030 GAACGCATCT
* * * *
13636040 CATGTGTTCCACACGAGCTGGACATACGCC
1 CATGTGTGCCACACGAGCTGAACACACACC
*
13636070 CATGTGTGCCACACGGGCTGAACACACACC
1 CATGTGTGCCACACGAGCTGAACACACACC
13636100 CATGTGT
1 CATGTGT
13636107 CAGCTTGTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (30 bp):
CATGTGTGCCACACGAGCTGAACACACACC
Found at i:13637324 original size:138 final size:139
Alignment explanation
Indices: 13637160--13637444 Score: 511
Period size: 139 Copynumber: 2.1 Consensus size: 139
13637150 TTAGGAACAC
*
13637160 TTTTT-TTTATTAATTTAACCAATTTTATTTTTATTATCTTTTTGTTTTCAGTTTAATATTTACA
1 TTTTTATTTATTAATTTAACCAATTTTATTTTGATTATCTTTTTGTTTTCAGTTTAATATTTACA
13637224 TTTACA-TTTTTTTCTTTTATTTACTTCTGGCAGATTCTTTTGGTTTATGACTAGAAGAAGGCCA
66 TTTACATTTTTTTTCTTTTATTTACTTCTGGCAGATTCTTTTGGTTTATGACTAGAAGAAGGCCA
13637288 TCGGGACCA
131 TCGGGACCA
* * *
13637297 TTTTTATTTATTAATTTAGCCATTTTTATTTTGATTATCTTTTTGTTTTCAGTTTAATATTTGCA
1 TTTTTATTTATTAATTTAACCAATTTTATTTTGATTATCTTTTTGTTTTCAGTTTAATATTTACA
13637362 TTTACATTTTTTTTCTTTTATTTACTTCTGGCAGATTCTTTTGGTTTATGACTAGAAGAAGGCCA
66 TTTACATTTTTTTTCTTTTATTTACTTCTGGCAGATTCTTTTGGTTTATGACTAGAAGAAGGCCA
13637427 TCGGGACCA
131 TCGGGACCA
*
13637436 TTGTTATTT
1 TTTTTATTT
13637445 GACAGTGAAA
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
137 5 0.04
138 61 0.43
139 75 0.53
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (139 bp):
TTTTTATTTATTAATTTAACCAATTTTATTTTGATTATCTTTTTGTTTTCAGTTTAATATTTACA
TTTACATTTTTTTTCTTTTATTTACTTCTGGCAGATTCTTTTGGTTTATGACTAGAAGAAGGCCA
TCGGGACCA
Found at i:13644799 original size:50 final size:48
Alignment explanation
Indices: 13644677--13645606 Score: 262
Period size: 46 Copynumber: 18.8 Consensus size: 48
13644667 CGGGTAAAGT
* * *
13644677 GCCGATGCCATGTCCCAGACATGGTTTTACACTGGCTATCATCTTCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCGA
*
13644725 GGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATAACCGTA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--CCG-A
13644777 -CCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-A-CATCT-CGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCCG-A
* *
13644822 GCCGATG-CATGTCCCAGACAT-GTCTTATACTGGCTTAT-ATC-CCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCATCTCCGA
** * *
13644867 GGTTGATG-CATGTCCCAGACAT-GTCTTACACTAG-TACTCGTCT-CAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCCGA
* * * * **
13644913 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CTCCGA
* * * * *
13644962 GCCTCAAT-CACGGGTAAAGTGCCGATGCCATATCCCAGACATGGTCTTACACTGGCTATCATCT
1 G-C-CGATGC-C-----ATGT-CCCA-G--A-C--------ATGGTCTTACACTAGCTATCATCT
*
13645026 TCGA
45 CCGA
* *
13645030 GGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATAACC-A
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--CCGA
*
13645080 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-CATCT-CGCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCG-A
* * * * *
13645127 ACCGATG-CATGTCCCAAACAT-GTCTTATACTGGCT-T-ATGTCCTGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCC-GA
** * *
13645172 GGTTGATG-CATGTCCCAGACAT-GTCTTACACTAG-TACTCGTCT-CAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCCGA
* * * **
13645218 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CTCCGA
* * * * *
13645267 GCCTCAAT-CACGGGTAAAGTGCCAATGCCATGTCCTAGACATGGTCTTACACTGGCTATCATCT
1 G-C-CGATGC-C-----ATGT-CCCA-G--A-C--------ATGGTCTTACACTAGCTATCATCT
*
13645331 TCGA
45 CCGA
** * * *
13645335 GGATGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCA-CATAACCGT
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATC-T--CCGA
*
13645386 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GAC-A-CATCT-TGTA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTATCATCTCCG-A
* * *
13645432 GCTGATG-CATGTCCCAGACAT-GTCTTATACTGGCTTAT-ATC-CCGA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC-TATCATCTCCGA
** * * *
13645477 GGTTGATG-CATGTCCCAGACAT-GTCTTGCACTAG-TACTCGTCT-CAA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCCGA
* * * * **
13645523 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG-
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CTCCGA
13645572 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
13645607 CACACAAATG
Statistics
Matches: 665, Mismatches: 109, Indels: 217
0.67 0.11 0.22
Matches are distributed among these distances:
44 37 0.06
45 56 0.08
46 154 0.23
47 59 0.09
48 63 0.09
49 95 0.14
50 106 0.16
51 5 0.01
52 1 0.00
55 6 0.01
56 6 0.01
57 2 0.00
58 2 0.00
59 2 0.00
60 2 0.00
61 6 0.01
62 6 0.01
67 9 0.01
68 46 0.07
69 2 0.00
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCCGA
Found at i:13645023 original size:305 final size:305
Alignment explanation
Indices: 13644426--13645574 Score: 1971
Period size: 305 Copynumber: 3.8 Consensus size: 305
13644416 TAAAGTACCA
* * * * *
13644426 ATGCCATGTCCTAAACATGGTCTTACACTGGCTATCATCTTTAA--G-GCCGATGCCATGTCCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-C-ATAACCGTGCCGATGCCATGTCCCA
13644488 GACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTT
64 GACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTT
* * *
13644553 ATGTCCCGGGGTTGATGCATGTCCCAGACATTTCTTACACTAGTACTCGTCTCAATGCCGATGCC
129 ATATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCC
*
13644618 ATGTCCCAGACATGGTTTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCGAT
194 ATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCGAT
* *
13644683 GCCATGTCCCAGACATGGTTTTACACTGGCTATCATCTTCGAGGCCG
259 GCCATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
*
13644730 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTACCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGA
13644795 CATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
66 CATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
*
13644860 ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCTGATGCCAT
131 ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCCAT
* *
13644925 GTCCCAGACATGGTCTTACACTGGCTCTCATAATATAGCCTCAATCACGGGTAAAGTGCCGATGC
196 GTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCGATGC
*
13644990 CATATCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
261 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
*
13645035 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCATGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGA
* * * *
13645100 CATGGTCTTACACTAACACATCTCGCAACCGATGCATGTCCCAAACATGTCTTATACTGGCTTAT
66 CATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
* *
13645165 GTCCTGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCCAT
131 ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCCAT
*
13645230 GTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCAATGC
196 GTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCGATGC
* *
13645295 CATGTCCTAGACATGGTCTTACACTGGCTATCATCTTCGAGGATG
261 CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
*
13645340 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGA
* *
13645405 CATGGTCTTACACTGACACATCTTGTAGCTGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
66 CATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
* *
13645470 ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTGCACTAGTACTCGTCTCAATGCTGATGCCAT
131 ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCCAT
*
13645535 GTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCC
196 GTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
13645575 GATGCATGTC
Statistics
Matches: 798, Mismatches: 44, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
302 3 0.00
303 1 0.00
304 34 0.04
305 760 0.95
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (305 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATAACCGTGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTATACTGGCTTAT
ATCCCGAGGTTGATGCATGTCCCAGACATGTCTTACACTAGTACTCGTCTCAATGCCGATGCCAT
GTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCTCAATCACGGGTAAAGTGCCGATGC
CATGTCCCAGACATGGTCTTACACTGGCTATCATCTTCGAGGCTG
Found at i:13645579 original size:94 final size:92
Alignment explanation
Indices: 13645338--13645604 Score: 269
Period size: 94 Copynumber: 2.8 Consensus size: 92
13645328 TCTTCGAGGA
* * *
13645338 TGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAACCGT-GCCGATGCCATGTCCC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CAT-A-TGTGGCCGATG-CATGTCCC
**
13645402 AGACATGGTCTTACACT-GACACATCTTGTAGC
61 AGACAT-GTCTTACACTAGACACATCTAATAGC
* * **
13645434 TGATG-CATGTCCCAGACAT-GTCTTATACTGGCT-T-ATATCCCGAGGTTGATGCATGTCCCAG
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT---GTGGCCGATGCATGTCCCAG
* * *
13645495 ACATGTCTTGCACTAGTACTCGTCTCAAT-GC
63 ACATGTCTTACACTAG-ACACATCT-AATAGC
13645526 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTGGCCGATGCATGTCCCAGAC
1 TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGTGGCCGATGCATGTCCCAGAC
13645591 ATGTCTTACACTAG
65 ATGTCTTACACTAG
13645605 CTCACACAAA
Statistics
Matches: 142, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
89 1 0.01
90 11 0.08
91 16 0.11
92 18 0.13
93 16 0.11
94 57 0.40
95 14 0.10
96 7 0.05
97 2 0.01
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (92 bp):
TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGACACATCTAATAGC
Found at i:13647208 original size:18 final size:17
Alignment explanation
Indices: 13647187--13647221 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13647177 ATTATGATTA
*
13647187 TTATTATTTTTAAGTTTC
1 TTATTATTCTT-AGTTTC
13647205 TTATTATTCTTAGTTTC
1 TTATTATTCTTAGTTTC
13647222 ATTCTCATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.20, C:0.09, G:0.06, T:0.66
Consensus pattern (17 bp):
TTATTATTCTTAGTTTC
Found at i:13647282 original size:15 final size:16
Alignment explanation
Indices: 13647262--13647299 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13647252 CTGTTTTGGC
13647262 TTATTATTA-TAGTTA
1 TTATTATTATTAGTTA
*
13647277 TTATTATTATTCGTTA
1 TTATTATTATTAGTTA
13647293 TT-TTATT
1 TTATTATT
13647300 TTTTTGTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (16 bp):
TTATTATTATTAGTTA
Found at i:13649018 original size:59 final size:59
Alignment explanation
Indices: 13648926--13649044 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
13648916 GGGATGTAAT
13648926 AGCCCAAATTTCAGCGATGTCGAAAATAGTGGTTCGAGACCACCAAATCTGACAAATGA
1 AGCCCAAATTTCAGCGATGTCGAAAATAGTGGTTCGAGACCACCAAATCTGACAAATGA
13648985 AGCCCAAATTTCAGCGATGTCGAAAATAGTGGTTCGAGACCACCAAATCTGACAAATGA
1 AGCCCAAATTTCAGCGATGTCGAAAATAGTGGTTCGAGACCACCAAATCTGACAAATGA
13649044 A
1 A
13649045 CTTGTATATT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (59 bp):
AGCCCAAATTTCAGCGATGTCGAAAATAGTGGTTCGAGACCACCAAATCTGACAAATGA
Found at i:13650288 original size:12 final size:13
Alignment explanation
Indices: 13650270--13650299 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
13650260 AGTCTATTTT
13650270 CAAGAGAAATAAG
1 CAAGAGAAATAAG
13650283 -AAGAGAAATAAG
1 CAAGAGAAATAAG
13650295 CAAGA
1 CAAGA
13650300 CATTATTCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.63, C:0.07, G:0.23, T:0.07
Consensus pattern (13 bp):
CAAGAGAAATAAG
Found at i:13654832 original size:32 final size:31
Alignment explanation
Indices: 13654795--13654854 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
13654785 AGGAATAAAT
*
13654795 TATACATAAATAAATTTAAAAGAATATATATA
1 TATACAT-AATAAATTTAAAAGAAAATATATA
*
13654827 TATACATAATAGATTTAAAAGAAAATAT
1 TATACATAATAAATTTAAAAGAAAATAT
13654855 TTACATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (31 bp):
TATACATAATAAATTTAAAAGAAAATATATA
Found at i:13654854 original size:27 final size:29
Alignment explanation
Indices: 13654782--13654866 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 29
13654772 AGGGTCCTTA
13654782 AAAAGGAATAAAT-TATACATAAATAAATTT
1 AAAA-GAATAAATATATACAT-AATAAATTT
*
13654812 AAAAGAATATATATATATACATAATAGATTT
1 AAAAGAATA-A-ATATATACATAATAAATTT
*
13654843 AAAAG-A-AAATATTTACATAA-AAAT
1 AAAAGAATAAATATATACATAATAAAT
13654867 CAATAATGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
26 3 0.06
27 11 0.22
28 1 0.02
29 6 0.12
30 6 0.12
31 15 0.31
32 7 0.14
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (29 bp):
AAAAGAATAAATATATACATAATAAATTT
Found at i:13656347 original size:20 final size:21
Alignment explanation
Indices: 13656322--13656360 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13656312 ACTGAAAAAT
*
13656322 TTTA-TTTTGGTTTTTTTAAA
1 TTTATTTTTGGTTTATTTAAA
13656342 TTTATTTTTGGTTTATTTA
1 TTTATTTTTGGTTTATTTA
13656361 TTGTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (21 bp):
TTTATTTTTGGTTTATTTAAA
Found at i:13657636 original size:16 final size:17
Alignment explanation
Indices: 13657611--13657643 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13657601 TTTCATGTTA
13657611 AATTAAATTG-AATGAG
1 AATTAAATTGAAATGAG
*
13657627 AATTATATTGAAATGAG
1 AATTAAATTGAAATGAG
13657644 TTAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
AATTAAATTGAAATGAG
Found at i:13657972 original size:25 final size:25
Alignment explanation
Indices: 13657944--13658016 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
13657934 TTCCCAATAA
13657944 TCAGCTTGCATGAGCTTCCCGTTAT
1 TCAGCTTGCATGAGCTTCCCGTTAT
**
13657969 TCAGCTCACATGAGCTTCCCGTTAT
1 TCAGCTTGCATGAGCTTCCCGTTAT
* * * *
13657994 TCAGTTTGGAGGAGCTTACCGTT
1 TCAGCTTGCATGAGCTTCCCGTT
13658017 TACAACTCGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
TCAGCTTGCATGAGCTTCCCGTTAT
Found at i:13662071 original size:48 final size:48
Alignment explanation
Indices: 13661998--13662272 Score: 254
Period size: 48 Copynumber: 5.7 Consensus size: 48
13661988 TATCTGAGCC
* * *
13661998 AGTGTAAGACCATGTTTGGAACATGGCATCAACATTTATATGAGACCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTATATATGAGACCT
* * *
13662046 AATGTAAGACCATGTTTGGGACATGGCATCAGCCTCGACATATGAG--CT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCT--ATATATGAGACCT
* * ** * **
13662094 AGTGTAAGACCATGTTTGGAACATGACATCGGTATTTATATGAGAGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTATATATGAGACCT
* ** * *
13662142 AGTGTAAGACCATGTCTAGG-ACATGGCATCAGCCTCGACATGTA-AGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCAGCCTATATATG-AGACCT
* * *
13662190 AGTGTAAGACCATGTTTGGAACATGGCATCGGAACCGATATACGAGAGCC-
1 AGTGTAAGACCATGTTTGGAACATGGCATC--AGCCTATATATGAGA-CCT
*
13662240 AGTGTAAGACCATGTTTGGGACATGGCATCAGC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAGC
13662273 ATCTTACCCT
Statistics
Matches: 182, Mismatches: 34, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
46 7 0.04
47 3 0.02
48 123 0.68
49 5 0.03
50 43 0.24
51 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAGCCTATATATGAGACCT
Found at i:13662156 original size:96 final size:96
Alignment explanation
Indices: 13661992--13662272 Score: 393
Period size: 96 Copynumber: 2.9 Consensus size: 96
13661982 TAAGGTTATC
* * * *
13661992 TGAGCCAGTGTAAGACCATGTTTGGAACATGGCATC-AACATTTATATGAGACCTAATGTAAGAC
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGA-ATTTATATGAGAGCTAGTGTAAGAC
13662056 CATGTTTGGGACATGGCATCAGCCTCGACATA
65 CATGTTTGGGACATGGCATCAGCCTCGACATA
* * *
13662088 TGAGCTAGTGTAAGACCATGTTTGGAACATGACATCGGTATTTATATGAGAGTTAGTGTAAGACC
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGAATTTATATGAGAGCTAGTGTAAGACC
* * *
13662153 ATGTCTAGGACATGGCATCAGCCTCGACATG
66 ATGTTTGGGACATGGCATCAGCCTCGACATA
* ** * *
13662184 TAAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGAACCGATATACGAGAGCCAGTGTAAGA
1 TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGAA--TTTATATGAGAGCTAGTGTAAGA
13662249 CCATGTTTGGGACATGGCATCAGC
64 CCATGTTTGGGACATGGCATCAGC
13662273 ATCTTACCCT
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
96 122 0.75
98 40 0.25
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (96 bp):
TGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGAATTTATATGAGAGCTAGTGTAAGACC
ATGTTTGGGACATGGCATCAGCCTCGACATA
Found at i:13669344 original size:9 final size:9
Alignment explanation
Indices: 13669326--13669367 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
13669316 GTGATAAAGA
*
13669326 AATAAGAGT
1 AATAATAGT
13669335 AATAATAGT
1 AATAATAGT
*
13669344 AATAATA-A
1 AATAATAGT
13669352 AATAATAGT
1 AATAATAGT
13669361 AATAATA
1 AATAATA
13669368 AAATGATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 7 0.24
9 22 0.76
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (9 bp):
AATAATAGT
Found at i:13669355 original size:17 final size:17
Alignment explanation
Indices: 13669335--13669371 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
13669325 AAATAAGAGT
13669335 AATAATAGTAATAATAA
1 AATAATAGTAATAATAA
13669352 AATAATAGTAATAATAA
1 AATAATAGTAATAATAA
13669369 AAT
1 AAT
13669372 GATTAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
AATAATAGTAATAATAA
Found at i:13669378 original size:26 final size:26
Alignment explanation
Indices: 13669325--13669387 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
13669315 AGTGATAAAG
* *
13669325 AAATAAGAGTAATAATAGTAATAATA
1 AAATAATAGTAATAATAGAAATAATA
*
13669351 AAATAATAGTAATAATA-AAATGATTA
1 AAATAATAGTAATAATAGAAAT-AATA
13669377 AAATAAT-GTAA
1 AAATAATAGTAA
13669388 AAGAGTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.21
26 26 0.79
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (26 bp):
AAATAATAGTAATAATAGAAATAATA
Found at i:13669455 original size:12 final size:10
Alignment explanation
Indices: 13669420--13669448 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
13669410 GAAATCGATA
13669420 GTGGTGGTCG
1 GTGGTGGTCG
13669430 GT-GTGGTCG
1 GTGGTGGTCG
13669439 GTGGTGGTCG
1 GTGGTGGTCG
13669449 CGATGGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.00, C:0.10, G:0.59, T:0.31
Consensus pattern (10 bp):
GTGGTGGTCG
Found at i:13676261 original size:42 final size:42
Alignment explanation
Indices: 13676202--13676287 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
13676192 AAGTTAGTAC
*
13676202 AATAATTTCGATGTGTCAATAATATATATACCATGATTGATG
1 AATAATTTCCATGTGTCAATAATATATATACCATGATTGATG
13676244 AATAATTTCCATGTGTCAATAATATATATACCATGATTGATG
1 AATAATTTCCATGTGTCAATAATATATATACCATGATTGATG
13676286 AA
1 AA
13676288 CTCATCAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (42 bp):
AATAATTTCCATGTGTCAATAATATATATACCATGATTGATG
Found at i:13676267 original size:20 final size:20
Alignment explanation
Indices: 13676202--13676267 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
13676192 AAGTTAGTAC
*
13676202 AATAATTTCGATGTGTCAAT
1 AATAATTTCCATGTGTCAAT
* *
13676222 AATATATATACCATGAT-T-GAT
1 AATA-AT-TTCCATG-TGTCAAT
13676243 GAATAATTTCCATGTGTCAAT
1 -AATAATTTCCATGTGTCAAT
13676264 AATA
1 AATA
13676268 TATATACCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 12
0.67 0.10 0.23
Matches are distributed among these distances:
19 1 0.03
20 15 0.43
21 8 0.23
22 10 0.29
23 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (20 bp):
AATAATTTCCATGTGTCAAT
Found at i:13676277 original size:22 final size:22
Alignment explanation
Indices: 13676212--13676278 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
13676202 AATAATTTCG
13676212 ATGTGTCAATAATATATATACC
1 ATGTGTCAATAATATATATACC
* *
13676234 ATGAT-T-GATGAATA-AT-TTCC
1 ATG-TGTCAAT-AATATATATACC
13676254 ATGTGTCAATAATATATATACC
1 ATGTGTCAATAATATATATACC
13676276 ATG
1 ATG
13676279 ATTGATGAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 1 0.03
20 11 0.31
21 8 0.23
22 14 0.40
23 1 0.03
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (22 bp):
ATGTGTCAATAATATATATACC
Found at i:13679960 original size:41 final size:41
Alignment explanation
Indices: 13679915--13680083 Score: 107
Period size: 40 Copynumber: 4.2 Consensus size: 41
13679905 GAGCTATAGT
* * * *
13679915 GGCGTTTGTGATAA-AAACGCCGTAAAAGGTCAAGAATTAGC
1 GGCGTTTATGA-AACAAACACCGCAAAAGATCAAGAATTAGC
* *
13679956 GGCGTTTATGAAACAAACACCGCAATAGATCGAGAATTAGC
1 GGCGTTTATGAAACAAACACCGCAAAAGATCAAGAATTAGC
* * * * *
13679997 GGCGCTTT-TTAGA-AAACGCCGCTAAAGAT-AAAACATTAGC
1 GGCG-TTTATGAAACAAACACCGCAAAAGATCAAGA-ATTAGC
** * * *
13680037 GGCGTTT-TCCCAA-AAGCACCGCTAAAGATCAAGCATTAGC
1 GGCGTTTAT-GAAACAAACACCGCAAAAGATCAAGAATTAGC
*
13680077 AGCGTTT
1 GGCGTTT
13680084 TCTGAAAAGC
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
39 6 0.06
40 52 0.51
41 41 0.40
42 3 0.03
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (41 bp):
GGCGTTTATGAAACAAACACCGCAAAAGATCAAGAATTAGC
Found at i:13680092 original size:40 final size:40
Alignment explanation
Indices: 13679939--13680098 Score: 130
Period size: 40 Copynumber: 4.0 Consensus size: 40
13679929 AAACGCCGTA
* * * *
13679939 AAAGGTCAAGAATTAGCGGCG-TTTATGAAACAAACACCGC-
1 AAAGATCAAGCATTAGCGGCGTTTTCTG-AA-AAGCACCGCT
* * *
13679979 AATAGATCGAGAATTAGCGGCGCTTTT-TAGAAAA-CGCCGCT
1 AA-AGATCAAGCATTAGCGGCG-TTTTCT-GAAAAGCACCGCT
* * **
13680020 AAAGATAAAACATTAGCGGCGTTTTCCCAAAAGCACCGCT
1 AAAGATCAAGCATTAGCGGCGTTTTCTGAAAAGCACCGCT
* *
13680060 AAAGATCAAGCATTAGCAGCGTTTTCTGAAAAGCGCCGC
1 AAAGATCAAGCATTAGCGGCGTTTTCTGAAAAGCACCGC
13680099 AAAAAAAGTT
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
39 8 0.08
40 61 0.63
41 21 0.22
42 3 0.03
43 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (40 bp):
AAAGATCAAGCATTAGCGGCGTTTTCTGAAAAGCACCGCT
Found at i:13681126 original size:18 final size:17
Alignment explanation
Indices: 13681094--13681127 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13681084 CAATTTGAAT
13681094 ATTATATTAAAATTATA
1 ATTATATTAAAATTATA
*
13681111 ATTATAGTTTAAATTAT
1 ATTATA-TTAAAATTAT
13681128 TTAAGAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTATATTAAAATTATA
Found at i:13681505 original size:82 final size:82
Alignment explanation
Indices: 13681319--13681706 Score: 336
Period size: 82 Copynumber: 4.8 Consensus size: 82
13681309 AAAACTAAGA
* * * * * *
13681319 GATTAGTGGCGTTTTTTTAAAAAACGCCGC-AAAAACATAGCAATTTAACGAAAACGGA-GTCGT
1 GATTAGCGGCG-TTTTTGAAAAAATGCCGCAAAAAACATAGTAGTTTAAAGAAAAC-GACGTCGT
*
13681382 TTTAATTGGATATTTAGGG
64 TTTAATTGGAGATTTAGGG
* * * * *
13681401 GAGTAGCGGCCTTTTTTTAAAAAATGCCGCAAAAAAGATAGTAGTTTAAAGGAAACGACGTCGTT
1 GATTAGCGG-CGTTTTTGAAAAAATGCCGCAAAAAACATAGTAGTTTAAAGAAAACGACGTCGTT
**
13681466 AAAATTGGAGATTTAGGG
65 TTAATTGGAGATTTAGGG
* * * **
13681484 GATTAGCGGCGTTTTTGAAAAAACGCCGCAAAAAACATAGCAGTTCAACA-AAAACGGTGTCGTT
1 GATTAGCGGCGTTTTTGAAAAAATGCCGCAAAAAACATAGTAGTTTAA-AGAAAACGACGTCGTT
*
13681548 TTAATTGGATATTTAGGG
65 TTAATTGGAGATTTAGGG
* * * * * * * *
13681566 GAGTAGCGGCGTTTTTTG-AAAAATCGCCACTAAAAACCAAAATAGTATAACGAAAACGGCGTCG
1 GATTAGCGGCG-TTTTTGAAAAAAT-GCCGC-AAAAAACATAGTAGTTTAAAGAAAACGACGTCG
*
13681630 TTTT-ATATAGAGATTTAGGG
63 TTTTAAT-TGGAGATTTAGGG
*
13681650 GATTAGCGGCG-TTTT-------T-CCGCAAAAAACATAGTAGTTTAAAGGAAACGACGTCGTTT
1 GATTAGCGGCGTTTTTGAAAAAATGCCGCAAAAAACATAGTAGTTTAAAGAAAACGACGTCGTTT
13681706 T
66 T
13681707 CATATATTTC
Statistics
Matches: 250, Mismatches: 47, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
73 30 0.12
74 3 0.01
76 1 0.00
82 104 0.42
83 63 0.25
84 49 0.20
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (82 bp):
GATTAGCGGCGTTTTTGAAAAAATGCCGCAAAAAACATAGTAGTTTAAAGAAAACGACGTCGTTT
TAATTGGAGATTTAGGG
Found at i:13681521 original size:165 final size:165
Alignment explanation
Indices: 13681319--13681665 Score: 457
Period size: 165 Copynumber: 2.1 Consensus size: 165
13681309 AAAACTAAGA
* * * *
13681319 GATTAGTGGCGTTTTTTTAAAAAACGCCGCAAAAACATAGCAATTTAACGAAAACGGAGTCGTTT
1 GATTAGCGGCG-TTTTTGAAAAAACGCCGCAAAAACATAGCAATTCAACAAAAACGGAGTCGTTT
* * * * * *
13681384 TAATTGGATATTTAGGGGAGTAGCGGCCTTTTTTTAAAAAAT-GCCGC-AAAAAAGATAGTAGTT
65 TAATTGGATATTTAGGGGAGTAGCGG-CGTTTTTTAAAAAATCGCCACTAAAAAACAAAATAGTA
* *
13681447 TAAAGGAAACGACGTCGTTAAA-ATTGGAGATTTAGGG
129 TAAAGAAAACGACGTCGTTAAATA-TAGAGATTTAGGG
* *
13681484 GATTAGCGGCGTTTTTGAAAAAACGCCGCAAAAAACATAGCAGTTCAACAAAAACGGTGTCGTTT
1 GATTAGCGGCGTTTTTGAAAAAACGCCGC-AAAAACATAGCAATTCAACAAAAACGGAGTCGTTT
* *
13681549 TAATTGGATATTTAGGGGAGTAGCGGCGTTTTTTGAAAAATCGCCACTAAAAACCAAAATAGTAT
65 TAATTGGATATTTAGGGGAGTAGCGGCGTTTTTTAAAAAATCGCCACTAAAAAACAAAATAGTAT
* * **
13681614 AACGAAAACGGCGTCGTTTTATATAGAGATTTAGGG
130 AAAGAAAACGACGTCGTTAAATATAGAGATTTAGGG
13681650 GATTAGCGGCGTTTTT
1 GATTAGCGGCGTTTTT
13681666 CCGCAAAAAA
Statistics
Matches: 158, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
164 30 0.19
165 71 0.45
166 56 0.35
167 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (165 bp):
GATTAGCGGCGTTTTTGAAAAAACGCCGCAAAAACATAGCAATTCAACAAAAACGGAGTCGTTTT
AATTGGATATTTAGGGGAGTAGCGGCGTTTTTTAAAAAATCGCCACTAAAAAACAAAATAGTATA
AAGAAAACGACGTCGTTAAATATAGAGATTTAGGG
Found at i:13684572 original size:46 final size:46
Alignment explanation
Indices: 13684505--13684727 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 46
13684495 TGTAACCCGC
* *
13684505 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * * *
13684551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
13684597 ACATTTCA-CGAACTCAGACTCAACTCAATGAGTTCGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * *
13684644 CCATAAGTGAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
*
13684694 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13684728 TGCCCAAATA
Statistics
Matches: 139, Mismatches: 28, Indels: 19
0.75 0.15 0.10
Matches are distributed among these distances:
45 2 0.01
46 66 0.47
47 59 0.42
48 4 0.03
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:13684620 original size:93 final size:93
Alignment explanation
Indices: 13684512--13684727 Score: 360
Period size: 93 Copynumber: 2.3 Consensus size: 93
13684502 CGCCCATAAG
* * *
13684512 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
13684577 ACGAGTTCGAATGCCTAGTTACATTTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
* *
13684605 CGAACTCAGACTCAACTCAATGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
* *
13684670 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
13684698 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
13684728 TGCCCAAATA
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 113 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:13684630 original size:47 final size:46
Alignment explanation
Indices: 13684559--13684731 Score: 188
Period size: 47 Copynumber: 3.7 Consensus size: 46
13684549 ATCCATAAGT
*
13684559 GAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-TTCAC
* * * * * * * * *
13684606 GAACTCAGACTCAACTCAATGAGTTCGGACG-TTCGCATCCA-TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATTCA-C
* *
13684652 GAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TCAC
13684699 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
13684732 CAAATATCCG
Statistics
Matches: 100, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 33 0.33
47 63 0.63
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTCAC
Found at i:13688432 original size:99 final size:99
Alignment explanation
Indices: 13688326--13688813 Score: 547
Period size: 99 Copynumber: 4.7 Consensus size: 99
13688316 TTTTGTTCTC
* * *
13688326 TTTTATTTTATTTTCAA-ATTACTTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATT
1 TTTTATTTTATTTT-AACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATT
* *
13688390 TTATTTTTTTTGAATCATGAAAAATAATTTTAATA
65 TTATTTTTTTTGAATCACGAAAAATAATTTCAATA
* ** * * *
13688425 TTTTATTTTATTTTAAATATTTCATTTTATTTTAACATTACCTAATT-AAATTAAATCGTATTTA
1 TTTTATTTTATTTT-AACA-TT-A-CCTA-ATTAA-ATTA---AATTGTATTTAAA--GT-TTT-
*
13688489 AAGTTTT--AT-TTTAAATATTTCATTTTTTAATCAC-AGAAAATAATTTCAATA
53 -A-TTTTAAATATTT---TATTT--TTTTTGAATCACGA-AAAATAATTTCAATA
13688540 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
* **
13688605 CATTTAATTTGAATCACGAAAAATAATTTCAATATTTTA
66 TATTTTTTTTGAATCACGAAAAATAATTTC-A-A---TA
13688644 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
13688709 TATTTTTTTTGAATCACGAAAAATAATTTCAATA
66 TATTTTTTTTGAATCACGAAAAATAATTTCAATA
*
13688743 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTC
1 TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
13688808 TATTTT
66 TATTTT
13688814 ATTTCACTTT
Statistics
Matches: 335, Mismatches: 23, Indels: 62
0.80 0.05 0.15
Matches are distributed among these distances:
99 108 0.32
100 3 0.01
101 11 0.03
102 3 0.01
103 6 0.02
104 104 0.31
105 6 0.02
106 4 0.01
107 12 0.04
108 4 0.01
109 6 0.02
110 9 0.03
111 4 0.01
112 2 0.01
113 11 0.03
114 4 0.01
115 38 0.11
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (99 bp):
TTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTTTTTGAATCACGAAAAATAATTTCAATA
Found at i:13688445 original size:19 final size:19
Alignment explanation
Indices: 13688416--13688459 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
13688406 ATGAAAAATA
*
13688416 ATTTT-AATATTTTATTTT
1 ATTTTAAATATTTCATTTT
13688434 ATTTTAAATATTTCATTTT
1 ATTTTAAATATTTCATTTT
13688453 ATTTTAA
1 ATTTTAA
13688460 CATTACCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTAAATATTTCATTTT
Found at i:13688465 original size:118 final size:115
Alignment explanation
Indices: 13688330--13688555 Score: 330
Period size: 118 Copynumber: 1.9 Consensus size: 115
13688320 GTTCTCTTTT
* * *
13688330 ATTTTATTTTCAAATTACTTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTTTATT
1 ATTTTATTTTCAAATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATTTCA--
* *
13688395 TTTTTTGAATCA-TGAAAAATAATTTTAATATTTTATTTTATTTTAAATATTTC
64 TTTTTT-AATCACAG-AAAATAATTTCAATATTTTATTTTATTTTAAATATTTC
* *
13688448 ATTTTATTTT-AACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATTTCAT
1 ATTTTATTTTCAA-ATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATTTCAT
13688512 TTTTTAATCACAGAAAATAATTTCAATATTTTATTTTATTTTAA
65 TTTTTAATCACAGAAAATAATTTCAATATTTTATTTTATTTTAA
13688556 CATTACCTAA
Statistics
Matches: 99, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
115 35 0.35
116 7 0.07
117 2 0.02
118 55 0.56
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.54
Consensus pattern (115 bp):
ATTTTATTTTCAAATTACCTAATTAAATTAAATCATATTTAAAGTTTCATTTTAAATATTTCATT
TTTTAATCACAGAAAATAATTTCAATATTTTATTTTATTTTAAATATTTC
Found at i:13688506 original size:62 final size:60
Alignment explanation
Indices: 13688330--13688514 Score: 177
Period size: 62 Copynumber: 3.1 Consensus size: 60
13688320 GTTCTCTTTT
* *
13688330 ATTTTATTTTCAA-ATTACTTAATTAAATTAAATTATATTTAAAGTTTCATTTTAAATATTTT
1 ATTTTATTTTCAACATTAC-TAATTAAATTAAA-T-TATTTAAAGTTTTATTTTAAATATTTC
* * * * * * *
13688392 ATTTT-TTTTGAATCATGA-AAAATAATTTTAA-TATTT-TA-TTTTATTTTAAATATTTC
1 ATTTTATTTTCAA-CATTACTAATTAAATTAAATTATTTAAAGTTTTATTTTAAATATTTC
13688448 ATTTTATTTT-AACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATTTC
1 ATTTTATTTTCAACATTA-CTAATTAAATTAAAT--TATTTAAAGTTTTATTTTAAATATTTC
13688510 ATTTT
1 ATTTT
13688515 TTAATCACAG
Statistics
Matches: 98, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
55 4 0.04
56 23 0.23
57 14 0.14
58 5 0.05
60 5 0.05
61 16 0.16
62 28 0.29
63 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (60 bp):
ATTTTATTTTCAACATTACTAATTAAATTAAATTATTTAAAGTTTTATTTTAAATATTTC
Found at i:13688664 original size:104 final size:97
Alignment explanation
Indices: 13688440--13688806 Score: 603
Period size: 104 Copynumber: 3.7 Consensus size: 97
13688430 TTTTATTTTA
* *
13688440 AATATTTCATTTTATTTTAACATTACCTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
13688505 ATTTCATTTTTT-AATCAC-AGAAAATAATTTC
66 ATTTCATTTTTTGAATCACGA-AAAATAATTTC
13688536 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
13688601 ATTTCATTTAATTTGAATCACGAAAAATAATTTC
66 ATTTCATTT--TTTGAATCACGAAAAATAATTTC
13688635 AATATTTTATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 -A-A---TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
*
13688700 TAAATATTTTATTTTTTTTGAATCACGAAAAATAATTTC
61 TAAATATTTCA--TTTTTTGAATCACGAAAAATAATTTC
13688739 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
1 AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
13688804 ATT
66 ATT
13688807 CTATTTTATT
Statistics
Matches: 257, Mismatches: 3, Indels: 19
0.92 0.01 0.07
Matches are distributed among these distances:
96 72 0.28
98 3 0.01
99 83 0.32
100 2 0.01
101 1 0.00
102 1 0.00
103 1 0.00
104 91 0.35
106 3 0.01
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (97 bp):
AATATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT
ATTTCATTTTTTGAATCACGAAAAATAATTTC
Found at i:13688898 original size:9 final size:9
Alignment explanation
Indices: 13688884--13688991 Score: 73
Period size: 9 Copynumber: 12.1 Consensus size: 9
13688874 CCAGCAACTC
13688884 ACATAATTT
1 ACATAATTT
13688893 ACATAATTT
1 ACATAATTT
13688902 ACATAA--T
1 ACATAATTT
*
13688909 ACATAACTT
1 ACATAATTT
13688918 ACATAATTT
1 ACATAATTT
*
13688927 ATAGTTCGAATTT
1 ACA--T--AATTT
*
13688940 -CATAACTT
1 ACATAATTT
*
13688948 AAATAATTT
1 ACATAATTT
* *
13688957 TCATAACTT
1 ACATAATTT
13688966 ACATAA--T
1 ACATAATTT
* *
13688973 ACATGACTT
1 ACATAATTT
13688982 ACATAATTT
1 ACATAATTT
13688991 A
1 A
13688992 AAGATCGAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
7 13 0.17
8 4 0.05
9 52 0.68
10 1 0.01
11 1 0.01
12 1 0.01
13 5 0.06
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.40
Consensus pattern (9 bp):
ACATAATTT
Found at i:13688913 original size:16 final size:16
Alignment explanation
Indices: 13688892--13688988 Score: 65
Period size: 16 Copynumber: 6.1 Consensus size: 16
13688882 TCACATAATT
*
13688892 TACATAATTTACATAA
1 TACATAACTTACATAA
13688908 TACATAACTTACATAA
1 TACATAACTTACATAA
** * *
13688924 TTTAT-AGTT-CGA-AT
1 TACATAACTTAC-ATAA
* *
13688938 TTCATAACTTAAATAA
1 TACATAACTTACATAA
*
13688954 TTTTCATAACTTACATAA
1 --TACATAACTTACATAA
*
13688972 TACATGACTTACATAA
1 TACATAACTTACATAA
13688988 T
1 T
13688989 TTAAAGATCG
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
14 6 0.10
15 8 0.13
16 34 0.54
18 15 0.24
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.39
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:13688946 original size:30 final size:30
Alignment explanation
Indices: 13688910--13689021 Score: 93
Period size: 30 Copynumber: 3.6 Consensus size: 30
13688900 TTACATAATA
13688910 CATAACTTACATAATTTATAGTTCGAATTT
1 CATAACTTACATAATTTATAGTTCGAATTT
* * * *
13688940 CATAACTTAAATAATTTTCATAACTTAC-ATAATA
1 CATAACTTACATAA-TTT-AT-AGTT-CGA-ATTT
* * *
13688974 CATGACTTACATAATTTAAAGATCGAATTT
1 CATAACTTACATAATTTATAGTTCGAATTT
13689004 CATAACTTGA-ATAATTTA
1 CATAACTT-ACATAATTTA
13689022 CATAAAATTA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
30 31 0.49
31 7 0.11
32 3 0.05
33 7 0.11
34 15 0.24
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (30 bp):
CATAACTTACATAATTTATAGTTCGAATTT
Found at i:13688954 original size:64 final size:64
Alignment explanation
Indices: 13688886--13689026 Score: 228
Period size: 64 Copynumber: 2.2 Consensus size: 64
13688876 AGCAACTCAC
* * *
13688886 ATAATTTACATAATTTACATAATACATAACTTACATAATTTATAGTTCGAATTTCATAACTTAA
1 ATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCGAATTTCATAACTTAA
* * *
13688950 ATAATTTTCATAACTTACATAATACATGACTTACATAATTTAAAGATCGAATTTCATAACTTGA
1 ATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCGAATTTCATAACTTAA
13689014 ATAATTTACATAA
1 ATAATTTACATAA
13689027 AATTAACACA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.39
Consensus pattern (64 bp):
ATAATTTACATAACTTACATAATACATAACTTACATAATTTAAAGATCGAATTTCATAACTTAA
Found at i:13689173 original size:9 final size:9
Alignment explanation
Indices: 13689159--13689230 Score: 69
Period size: 9 Copynumber: 8.2 Consensus size: 9
13689149 TCGTACATAA
13689159 TACATAACT
1 TACATAACT
*
13689168 TACATAATT
1 TACATAACT
13689177 TACATAACT
1 TACATAACT
13689186 TACATAA--
1 TACATAACT
*
13689193 TACATAA-A
1 TACATAACT
* * *
13689201 TATATATCA
1 TACATAACT
13689210 TATCATAACT
1 TA-CATAACT
13689220 TACATAACT
1 TACATAACT
13689229 TA
1 TA
13689231 ATTATACTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
7 7 0.13
8 5 0.09
9 35 0.66
10 6 0.11
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (9 bp):
TACATAACT
Found at i:13689190 original size:34 final size:34
Alignment explanation
Indices: 13689152--13689226 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
13689142 CTTTATGTCG
* *
13689152 TACATAATACATAACT-TACATAATTTACATAACT
1 TACATAATACATAAATATACATAATAT-CATAACT
* *
13689186 TACATAATACATAAATATATATCATATCATAACT
1 TACATAATACATAAATATACATAATATCATAACT
13689220 TACATAA
1 TACATAA
13689227 CTTAATTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
34 29 0.81
35 7 0.19
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (34 bp):
TACATAATACATAAATATACATAATATCATAACT
Found at i:13695280 original size:17 final size:17
Alignment explanation
Indices: 13695221--13695280 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
13695211 TAATAAATTT
13695221 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
13695240 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
13695254 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
13695272 AAAATATAA
1 AAAATATAA
13695281 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:13695816 original size:17 final size:18
Alignment explanation
Indices: 13695763--13695860 Score: 137
Period size: 18 Copynumber: 5.5 Consensus size: 18
13695753 AATCATATCT
*
13695763 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
13695782 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
13695800 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
13695817 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
13695835 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
13695852 TCTAAGATT
1 TCTAAGATT
13695861 ACATATCATT
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
17 30 0.42
18 31 0.44
19 10 0.14
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:13695821 original size:35 final size:35
Alignment explanation
Indices: 13695763--13695869 Score: 169
Period size: 35 Copynumber: 3.0 Consensus size: 35
13695753 AATCATATCT
13695763 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
13695800 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
13695835 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
13695870 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 52 0.78
36 5 0.07
37 10 0.15
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:13696732 original size:21 final size:21
Alignment explanation
Indices: 13696699--13696738 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13696689 TTAGAGCGGA
*
13696699 GGCAGCAGAGAGGGAGGCAGT
1 GGCAACAGAGAGGGAGGCAGT
*
13696720 GGCAACAGCGAGGGAGGCA
1 GGCAACAGAGAGGGAGGCA
13696739 AAACAGAGCA
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:0.30, C:0.17, G:0.50, T:0.03
Consensus pattern (21 bp):
GGCAACAGAGAGGGAGGCAGT
Found at i:13697023 original size:31 final size:31
Alignment explanation
Indices: 13696971--13697031 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
13696961 TTATATTTTT
*
13696971 ATGCTATATTTGCTATTTTTGGTTGGATTTC
1 ATGCTATATTTGCTATTTTTGGTTGAATTTC
*
13697002 ATGCTATATTTGCTGTTTTTGGTTGAATTT
1 ATGCTATATTTGCTATTTTTGGTTGAATTT
13697032 AATGTAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (31 bp):
ATGCTATATTTGCTATTTTTGGTTGAATTTC
Found at i:13704051 original size:46 final size:46
Alignment explanation
Indices: 13703978--13704289 Score: 326
Period size: 46 Copynumber: 7.0 Consensus size: 46
13703968 GTGTGCTATC
* *
13703978 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
13704024 TAATATGAAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
13704070 TGATATGAAATGTGTAAGACCATGGTTG--A-A-A--A---C--C-
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
13704104 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** ** * *
13704150 TGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* ** *
13704196 TGACATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
13704242 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
13704288 TG
1 TG
13704290 TCAAAGATAA
Statistics
Matches: 230, Mismatches: 23, Indels: 26
0.82 0.08 0.09
Matches are distributed among these distances:
34 28 0.12
35 1 0.00
36 1 0.00
37 2 0.01
38 1 0.00
40 2 0.01
42 1 0.00
43 2 0.01
44 1 0.00
45 2 0.01
46 189 0.82
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:13704106 original size:34 final size:34
Alignment explanation
Indices: 13704066--13704134 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
13704056 ATACCATGGC
13704066 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
13704100 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAA
13704134 A
1 A
13704135 GATACCATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (34 bp):
AACCTGATATGAAATGTGTAAGACCATGGTTGAA
Found at i:13704160 original size:80 final size:80
Alignment explanation
Indices: 13704020--13704272 Score: 281
Period size: 80 Copynumber: 3.0 Consensus size: 80
13704010 ATACCATAGC
* * * * * *
13704020 AACCTAATATGAAATGTGTAAGACCAAGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGT
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
13704085 AAGACCATGGTTGAA
66 AAGACCATGGTTGAA
* *
13704100 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAAT
1 AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
13704165 AAGACCATGGTTGAAA
66 AAGACCATGGTTG-AA
** *
13704181 GATACCATGGCAGCGTGACATGAAATGAATAAGACAATGGTTGAAAGATACCATGGCAACATGAC
1 -A-ACC-T-G-A---T---ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
13704246 AGAAAATGAGTAAGACCATAGTTGAA
55 AGGAAATGAGTAAGACCATGGTTGAA
13704272 A
1 A
13704273 GACACTATGG
Statistics
Matches: 146, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
80 70 0.48
81 2 0.01
82 1 0.01
83 3 0.02
84 1 0.01
85 1 0.01
86 1 0.01
89 1 0.01
90 1 0.01
91 2 0.01
92 63 0.43
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.21
Consensus pattern (80 bp):
AACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGT
AAGACCATGGTTGAA
Found at i:13704204 original size:126 final size:126
Alignment explanation
Indices: 13703977--13704226 Score: 365
Period size: 126 Copynumber: 2.0 Consensus size: 126
13703967 AGTGTGCTAT
* * * **
13703977 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTAATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
* ** *
13704042 ACCAAGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAAC
66 ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACAATGGTTGAAAAC
* * *
13704103 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
* * *
13704168 ACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACAATGGTTGAAA
66 ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACAATGGTTGAAA
13704227 GATACCATGG
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (126 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACATAACAGGAAATGAATAAG
ACCAAGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACAATGGTTGAAAAC
Found at i:13704591 original size:16 final size:17
Alignment explanation
Indices: 13704570--13704602 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13704560 ATGATGGTGC
13704570 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
13704586 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
13704603 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:13722626 original size:31 final size:31
Alignment explanation
Indices: 13722585--13722646 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
13722575 AAGGTAGGTG
*
13722585 TAAAATCCATATATGAATACACTGTATATAC
1 TAAAACCCATATATGAATACACTGTATATAC
*
13722616 TAAAACCCATATATGAATGCACTGTATATAC
1 TAAAACCCATATATGAATACACTGTATATAC
13722647 ACATTGGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (31 bp):
TAAAACCCATATATGAATACACTGTATATAC
Found at i:13723321 original size:17 final size:18
Alignment explanation
Indices: 13723287--13723325 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
13723277 TAAATTTTAA
*
13723287 ATTTACACATTAACTTTG
1 ATTTACACATGAACTTTG
*
13723305 ATTTA-ACATGAATTTTG
1 ATTTACACATGAACTTTG
13723322 ATTT
1 ATTT
13723326 GATGTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (18 bp):
ATTTACACATGAACTTTG
Found at i:13723902 original size:11 final size:11
Alignment explanation
Indices: 13723866--13723913 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
13723856 ATTGTGAATA
13723866 AATTATTAATTT
1 AATTATT-ATTT
*
13723878 AATTATAATTT
1 AATTATTATTT
*
13723889 AATTATTATGT
1 AATTATTATTT
*
13723900 AATT-TTTTTT
1 AATTATTATTT
13723910 AATT
1 AATT
13723914 CACACAACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 8 0.26
11 17 0.55
12 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
AATTATTATTT
Found at i:13726501 original size:24 final size:24
Alignment explanation
Indices: 13726474--13726521 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
13726464 ATACTGAAGT
13726474 AAAATTTTAATTTGCTGATGCAAC
1 AAAATTTTAATTTGCTGATGCAAC
13726498 AAAATTTTAATTTGCTGATGCAAC
1 AAAATTTTAATTTGCTGATGCAAC
13726522 CACAAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (24 bp):
AAAATTTTAATTTGCTGATGCAAC
Found at i:13728929 original size:5 final size:5
Alignment explanation
Indices: 13728921--13728951 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
13728911 TTACTATGAC
13728921 TATTT TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
13728952 TATGAGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:13729074 original size:48 final size:48
Alignment explanation
Indices: 13729018--13729114 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
13729008 AGATAAAGAC
*
13729018 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTTTGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
13729066 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
1 TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
13729114 T
1 T
13729115 TTGAGTATTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (48 bp):
TATGTTTTTCAAATGATTAAATTAGCAAATTCATGATTATGATTTGAA
Found at i:13740203 original size:132 final size:132
Alignment explanation
Indices: 13739961--13740227 Score: 356
Period size: 132 Copynumber: 2.0 Consensus size: 132
13739951 TTGCCTCGCC
* * * *
13739961 TTAGAAAACACGAGTGAAATTTCAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTGCAAC
1 TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
* * *
13740026 CCAGCACGATAGGGTACGACTCCCCGAATTGCCAAACATCAAACATTTCCTTCGTTTTAAAGAGT
66 CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
13740091 TT
131 TT
* * *
13740093 TTAGAAAACATGAGTGAAATTCTAAAAGG-ACATTCGATTATTTTGAGCAAACGAGAGATTGCAA
1 TTAGAAAACACGAGTGAAATT-TAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAA
* * * *** * *
13740157 CCTAGCATGATAGGGCACGATTTTGCGAATTGCCAAATATCGAACATTGCCTTCGTTTTAAAGAA
65 CCCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAA
13740222 TTT
130 TTT
13740225 TTA
1 TTA
13740228 AATGAATAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
132 110 0.95
133 6 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (132 bp):
TTAGAAAACACGAGTGAAATTTAAAAGGAACATTCGATTATTTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGGCACGACTCCCCGAATTGCCAAACATCAAACATTGCCTTCGTTTTAAAGAAT
TT
Found at i:13751672 original size:148 final size:148
Alignment explanation
Indices: 13751482--13751771 Score: 445
Period size: 148 Copynumber: 2.0 Consensus size: 148
13751472 GTATTCTTTT
* * *
13751482 AATTGGCCAGGACTATGGATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATGGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* *
13751547 ATTAATTTATAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAATTTTAAAACATTT
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAATTTTAAAACATTC
*
13751612 GAAATGTAACTTTCATGA
131 GAAATATAACTTTCATGA
* * * * *
13751630 AATTGGGCAGGACCATGAATGATGTGGTGGAAATAGTCCATAAAATAATTTCTCATAGTAAACAC
1 AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
* * * *
13751695 ATTAATTTACAATTATACTTCTAAAAAAGACTGGTGAGACTTAAAATGGCAGTTTTAAAACATTC
66 ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAATTTTAAAACATTC
13751760 GAAATATAACTT
131 GAAATATAACTT
13751772 CCATTAAAGT
Statistics
Matches: 127, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
148 127 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (148 bp):
AATTGGCCAGGACCATGAATAATGTGATAGAAAGAGTCCATAAAATAATTTCTCATAGTAAACAC
ATTAATTTACAACTATACTTCCAAAAAAGACTAGTGAGACTTAAAATGGCAATTTTAAAACATTC
GAAATATAACTTTCATGA
Found at i:13753092 original size:6 final size:6
Alignment explanation
Indices: 13753081--13753146 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
13753071 ATAAGTCTAA
* * * *
13753081 AAAAAT AAAAAT AAAACAACT AAGAAT AAAAAT AAACAT AAACAT AAACAT
1 AAAAAT AAAAAT -AAA-AA-T AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
13753132 -AAAAT AAAAAG AAAA
1 AAAAAT AAAAAT AAAA
13753147 CAAATAAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.08
6 37 0.73
7 5 0.10
8 4 0.08
9 1 0.02
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:13755232 original size:19 final size:17
Alignment explanation
Indices: 13755186--13755224 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
13755176 AAATTACATC
*
13755186 AAATCAAAATTCATGTT
1 AAATCAAAATTCAAGTT
13755203 AAATCAAAATTCAAGTGT
1 AAATCAAAATTCAAGT-T
13755221 AAAT
1 AAAT
13755225 TTAAAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (17 bp):
AAATCAAAATTCAAGTT
Found at i:13756671 original size:2 final size:2
Alignment explanation
Indices: 13756664--13756703 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
13756654 GCCATCTGTT
13756664 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
13756704 TAATATCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:13763393 original size:4 final size:4
Alignment explanation
Indices: 13763377--13763424 Score: 73
Period size: 4 Copynumber: 12.5 Consensus size: 4
13763367 TAATTACTTT
*
13763377 TTTA TTT- TTTA TTTA TTT- TTTG TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
13763423 TT
1 TT
13763425 ATTATTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
3 6 0.15
4 35 0.85
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:13763414 original size:12 final size:11
Alignment explanation
Indices: 13763377--13763424 Score: 69
Period size: 11 Copynumber: 4.2 Consensus size: 11
13763367 TAATTACTTT
13763377 TTTATTTTTTA
1 TTTATTTTTTA
*
13763388 TTTATTTTTTG
1 TTTATTTTTTA
13763399 TTTATTTATTTA
1 TTTATTT-TTTA
13763411 TTTATTTATTTA
1 TTTATTT-TTTA
13763423 TT
1 TT
13763425 ATTATTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 17 0.50
12 17 0.50
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:13764173 original size:19 final size:19
Alignment explanation
Indices: 13764151--13764252 Score: 86
Period size: 19 Copynumber: 5.3 Consensus size: 19
13764141 GCACATAAGT
*
13764151 GCTAAAGGGAAGCCCGAAG
1 GCTAAACGGAAGCCCGAAG
*
13764170 GCT-AACTGAAGCACAC-AAG
1 GCTAAACGGAAGC-C-CGAAG
*
13764189 TGCTAAAGGGAAGCCCGAAG
1 -GCTAAACGGAAGCCCGAAG
*
13764209 GCT-AACTGAAGCACAC-AAG
1 GCTAAACGGAAGC-C-CGAAG
13764228 TGCTAAACGGAAGCCCGAAG
1 -GCTAAACGGAAGCCCGAAG
13764248 GCTAA
1 GCTAA
13764253 CTGAAGCTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
18 14 0.21
19 21 0.32
20 16 0.24
21 15 0.23
ACGTcount: A:0.38, C:0.24, G:0.28, T:0.10
Consensus pattern (19 bp):
GCTAAACGGAAGCCCGAAG
Found at i:13764193 original size:39 final size:39
Alignment explanation
Indices: 13764121--13764259 Score: 244
Period size: 39 Copynumber: 3.6 Consensus size: 39
13764111 ATTGTAATCT
* *
13764121 GAAGCCCGAAGTCTAACT-AAGCACATAAGTGCTAAAGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
13764159 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
*
13764198 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
13764237 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
13764260 TCATCAGAGC
Statistics
Matches: 97, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
38 17 0.18
39 80 0.82
ACGTcount: A:0.38, C:0.24, G:0.27, T:0.12
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAAGG
Found at i:13766627 original size:3 final size:3
Alignment explanation
Indices: 13766619--13766681 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
13766609 ATGTTGCAAA
13766619 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
13766667 CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT
13766682 GCGCTGTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Done.