Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 77 of 163
Found at i:20411990 original size:15 final size:15
Alignment explanation
Indices: 20411950--20411995 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
20411940 AAGGATGACG
* *
20411950 AAGAAGACGCTAAGA
1 AAGAAGATGCTGAGA
20411965 AAGAAGATGCTGAGA
1 AAGAAGATGCTGAGA
**
20411980 AAGAATCTGCTGAGA
1 AAGAAGATGCTGAGA
20411995 A
1 A
20411996 CACTATCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.48, C:0.11, G:0.28, T:0.13
Consensus pattern (15 bp):
AAGAAGATGCTGAGA
Found at i:20422961 original size:88 final size:89
Alignment explanation
Indices: 20422859--20423044 Score: 252
Period size: 89 Copynumber: 2.1 Consensus size: 89
20422849 ACAATCAGAG
*
20422859 GCTTAATTACTTTTT-TGAAAAAA-TTTAAGGATTTTTTTATGCATTTTGAAAGTTTAAGTA-CT
1 GCTTAATTACTTTTTCT-AAAAAAGTTTAAGGATTTTTTTATGCATTTTAAAAGTTTAAGTATC-
** *
20422921 CAATTGAATGTAAAATAAAAGCAAGA
64 CAAGCGAATGCAAAATAAAAGCAAGA
* *
20422947 GCTTAATTACTTTTTCTAAAAAAGTTTTAGGGTTTTTTTATGCATTTTAAAAGTTTAAGTATCCA
1 GCTTAATTACTTTTTCTAAAAAAGTTTAAGGATTTTTTTATGCATTTTAAAAGTTTAAGTATCCA
* * *
20423012 AGCGAGTGCAAAATAAAAGCAGGG
66 AGCGAATGCAAAATAAAAGCAAGA
20423036 GCTTAATTA
1 GCTTAATTA
20423045 TTATGTTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
88 21 0.24
89 64 0.74
90 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (89 bp):
GCTTAATTACTTTTTCTAAAAAAGTTTAAGGATTTTTTTATGCATTTTAAAAGTTTAAGTATCCA
AGCGAATGCAAAATAAAAGCAAGA
Found at i:20423663 original size:30 final size:31
Alignment explanation
Indices: 20423603--20423665 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
20423593 GAACTCAAAT
*
20423603 TTGATACTTTTTTCTAATTTGATACCTAAAC
1 TTGATACTTTTTTCTAAGTTGATACCTAAAC
* * *
20423634 TTGATA-TTTTTTTTAAGTTGGTACTTAAAC
1 TTGATACTTTTTTCTAAGTTGATACCTAAAC
20423664 TT
1 TT
20423666 TTTGGGATCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 22 0.79
31 6 0.21
ACGTcount: A:0.27, C:0.11, G:0.10, T:0.52
Consensus pattern (31 bp):
TTGATACTTTTTTCTAAGTTGATACCTAAAC
Found at i:20424044 original size:58 final size:59
Alignment explanation
Indices: 20423905--20424050 Score: 159
Period size: 58 Copynumber: 2.5 Consensus size: 59
20423895 ATCAGATTAG
* * * * * *
20423905 GAAAAAATGCCAAGTTCAAGTACCAAATTGGGTCCAAAAATAGTTTAGATACCAAATTAA
1 GAAAAAATGTCAAGTTCAAGTATCAAATTGGAT-CAAAAACAGTTTAAATACCAAATCAA
* * * *
20423965 AAAAAAATGTCAAGTTTAAGTATCAAATTGGAT-TAAAACAGTTTAAATACTAAATCAA
1 GAAAAAATGTCAAGTTCAAGTATCAAATTGGATCAAAAACAGTTTAAATACCAAATCAA
* * *
20424023 GAAAAAATATCAAATTCAAGTATTAAAT
1 GAAAAAATGTCAAGTTCAAGTATCAAAT
20424051 ATTATATTAA
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
58 43 0.61
60 28 0.39
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.27
Consensus pattern (59 bp):
GAAAAAATGTCAAGTTCAAGTATCAAATTGGATCAAAAACAGTTTAAATACCAAATCAA
Found at i:20426925 original size:30 final size:31
Alignment explanation
Indices: 20426891--20426954 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
20426881 ATATAAGGGT
*
20426891 AAATAACAACAT-AGT-C-ACTCAACTTTCAAA
1 AAATAACAA-ATCAGTCCTACT-AACTTTAAAA
20426921 AAATAACAAATCAGTCCTACTAACTTTAAAA
1 AAATAACAAATCAGTCCTACTAACTTTAAAA
20426952 AAA
1 AAA
20426955 CCAAACACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 2 0.07
30 12 0.40
31 13 0.43
32 3 0.10
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.23
Consensus pattern (31 bp):
AAATAACAAATCAGTCCTACTAACTTTAAAA
Found at i:20426953 original size:31 final size:30
Alignment explanation
Indices: 20426891--20426954 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
20426881 ATATAAGGGT
*
20426891 AAATAACAACATAGTCACTCAACTTTCAAA
1 AAATAACAACATAGTCACTCAACTTTAAAA
20426921 AAATAACAA-ATCAGTC-CTACTAACTTTAAAA
1 AAATAACAACAT-AGTCACT-C-AACTTTAAAA
20426952 AAA
1 AAA
20426955 CCAAACACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 4 0.13
30 14 0.47
31 12 0.40
ACGTcount: A:0.53, C:0.20, G:0.03, T:0.23
Consensus pattern (30 bp):
AAATAACAACATAGTCACTCAACTTTAAAA
Found at i:20429379 original size:24 final size:24
Alignment explanation
Indices: 20429352--20429499 Score: 107
Period size: 24 Copynumber: 5.8 Consensus size: 24
20429342 AACTAATATG
*
20429352 CGTTTACGCTCGCCAGCTTGCACA
1 CGTTTACGCTCGTCAGCTTGCACA
** *
20429376 CGTTTACGCTCGTCAGCATTATAAATA
1 CGTTTACGCTCGTCAGC--T-TGCACA
* *
20429403 TGAGTTTACGCTCGCCAGCTTGCACA
1 --CGTTTACGCTCGTCAGCTTGCACA
* ** *
20429429 CGTTTACGCTCATCAGCTTATAAATATA
1 CGTTTACGCTCGTCAGC-T-T--GCACA
* *
20429457 CGTTTATGCTCGTCAGCTGGCACA
1 CGTTTACGCTCGTCAGCTTGCACA
20429481 CGTTTACGCTCGTCAGCTT
1 CGTTTACGCTCGTCAGCTT
20429500 ATAAATATGC
Statistics
Matches: 92, Mismatches: 23, Indels: 18
0.69 0.17 0.14
Matches are distributed among these distances:
24 49 0.53
25 1 0.01
26 5 0.05
27 5 0.05
28 17 0.18
29 15 0.16
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (24 bp):
CGTTTACGCTCGTCAGCTTGCACA
Found at i:20429472 original size:28 final size:28
Alignment explanation
Indices: 20429375--20429520 Score: 103
Period size: 24 Copynumber: 5.5 Consensus size: 28
20429365 CAGCTTGCAC
20429375 ACGTTTACGCTCGTCAGCATTATAAATAT
1 ACGTTTACGCTCGTCAGC-TTATAAATAT
* ** *
20429404 GA-GTTTACGCTCGCCAGC-T-T--GCAC
1 -ACGTTTACGCTCGTCAGCTTATAAATAT
*
20429428 ACGTTTACGCTCATCAGCTTATAAATAT
1 ACGTTTACGCTCGTCAGCTTATAAATAT
* *** *
20429456 ACGTTTATGCTCGTCAGC---T-GGCAC
1 ACGTTTACGCTCGTCAGCTTATAAATAT
20429480 ACGTTTACGCTCGTCAGCTTATAAATAT
1 ACGTTTACGCTCGTCAGCTTATAAATAT
* *
20429508 GCGTTTATGCTCG
1 ACGTTTACGCTCG
20429521 CCAGTTTTTC
Statistics
Matches: 85, Mismatches: 22, Indels: 20
0.67 0.17 0.16
Matches are distributed among these distances:
23 1 0.01
24 33 0.39
25 2 0.02
26 2 0.02
27 2 0.02
28 29 0.34
29 15 0.18
30 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (28 bp):
ACGTTTACGCTCGTCAGCTTATAAATAT
Found at i:20429474 original size:52 final size:52
Alignment explanation
Indices: 20429346--20429524 Score: 270
Period size: 52 Copynumber: 3.4 Consensus size: 52
20429336 CTCACCAACT
*
20429346 AATATGCGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCATTATA
1 AATATACGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGC-TTATA
*
20429399 AATATGA-GTTTACGCTCGCCAGCTTGCACACGTTTACGCTCATCAGCTTATA
1 AATAT-ACGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTATA
* * *
20429451 AATATACGTTTATGCTCGTCAGCTGGCACACGTTTACGCTCGTCAGCTTATA
1 AATATACGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTATA
* *
20429503 AATATGCGTTTATGCTCGCCAG
1 AATATACGTTTACGCTCGCCAG
20429525 TTTTTCAGAT
Statistics
Matches: 116, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
51 1 0.01
52 71 0.61
53 44 0.38
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.31
Consensus pattern (52 bp):
AATATACGTTTACGCTCGCCAGCTTGCACACGTTTACGCTCGTCAGCTTATA
Found at i:20430433 original size:21 final size:20
Alignment explanation
Indices: 20430395--20430433 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
20430385 TTTCATAGCT
* *
20430395 TCAAAATCTAACACTTTCTA
1 TCAAAATCAAACAATTTCTA
20430415 TCAAAACTCAAACAATTTC
1 TCAAAA-TCAAACAATTTC
20430434 ACTCTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAAAATCAAACAATTTCTA
Found at i:20435090 original size:24 final size:24
Alignment explanation
Indices: 20435027--20435170 Score: 90
Period size: 24 Copynumber: 5.7 Consensus size: 24
20435017 GTTCAGTACA
* * *
20435027 TTTACGCTTGTCAGCAAACATACG
1 TTTATGCTCGTCAGCTAACATACG
* *
20435051 TTTATGCTCGCCAGCTAATATACG
1 TTTATGCTCGTCAGCTAACATACG
20435075 TTTATGCTCGTCAGCTTATACATATGCG
1 TTTATGCTCGTCAGC-TA-ACATA--CG
* * *
20435103 TTTACGCTCGCCAACTTATACATATGCG
1 TTTATGCTCGTCAGC-TA-ACATA--CG
* * ** *
20435131 TTTACGCTCGCCAGCTTGCACACG
1 TTTATGCTCGTCAGCTAACATACG
*
20435155 TTTACGCTCGTCAGCT
1 TTTATGCTCGTCAGCT
20435171 TATAAATATG
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
24 50 0.50
25 2 0.02
26 7 0.07
27 1 0.01
28 41 0.41
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (24 bp):
TTTATGCTCGTCAGCTAACATACG
Found at i:20435111 original size:28 final size:28
Alignment explanation
Indices: 20435049--20435251 Score: 151
Period size: 28 Copynumber: 7.7 Consensus size: 28
20435039 AGCAAACATA
* *
20435049 CGTTTATGCTCGCCAGC---TA-ATATA
1 CGTTTACGCTCGCCAGCTTATACATATG
* *
20435073 CGTTTATGCTCGTCAGCTTATACATATG
1 CGTTTACGCTCGCCAGCTTATACATATG
*
20435101 CGTTTACGCTCGCCAACTTATACATATG
1 CGTTTACGCTCGCCAGCTTATACATATG
* *
20435129 CGTTTACGCTCGCCAGC-T-TGCACA--
1 CGTTTACGCTCGCCAGCTTATACATATG
* *
20435153 CGTTTACGCTCGTCAGCTTATAAATATG
1 CGTTTACGCTCGCCAGCTTATACATATG
* * * * *
20435181 TGTTTACGGTCGCTAGC-T-TGCACAT-
1 CGTTTACGCTCGCCAGCTTATACATATG
** * *
20435206 -GTTTAATCTCGTCAGCTTATAAATATG
1 CGTTTACGCTCGCCAGCTTATACATATG
*
20435233 CGTTTACACTCGCCAGCTT
1 CGTTTACGCTCGCCAGCTT
20435252 TTCAGATAAA
Statistics
Matches: 137, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
24 43 0.31
25 2 0.01
26 15 0.11
27 4 0.03
28 73 0.53
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (28 bp):
CGTTTACGCTCGCCAGCTTATACATATG
Found at i:20435157 original size:52 final size:52
Alignment explanation
Indices: 20435101--20435251 Score: 212
Period size: 52 Copynumber: 2.9 Consensus size: 52
20435091 TATACATATG
* * *
20435101 CGTTTACGCTCGCCAACTTATACATATGCGTTTACGCTCGCCAGCTTGCACA
1 CGTTTACGCTCGTCAGCTTATAAATATGCGTTTACGCTCGCCAGCTTGCACA
* * *
20435153 CGTTTACGCTCGTCAGCTTATAAATATGTGTTTACGGTCGCTAGCTTGCACA
1 CGTTTACGCTCGTCAGCTTATAAATATGCGTTTACGCTCGCCAGCTTGCACA
* ** *
20435205 TGTTTAATCTCGTCAGCTTATAAATATGCGTTTACACTCGCCAGCTT
1 CGTTTACGCTCGTCAGCTTATAAATATGCGTTTACGCTCGCCAGCTT
20435252 TTCAGATAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 86 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (52 bp):
CGTTTACGCTCGTCAGCTTATAAATATGCGTTTACGCTCGCCAGCTTGCACA
Found at i:20436161 original size:21 final size:20
Alignment explanation
Indices: 20436123--20436161 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
20436113 TTTTATAGCT
* *
20436123 TCAAAATCTAACACTTTCTA
1 TCAAAATCAAACAATTTCTA
20436143 TCAAAACTCAAACAATTTC
1 TCAAAA-TCAAACAATTTC
20436162 ACTCTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAAAATCAAACAATTTCTA
Found at i:20442272 original size:52 final size:52
Alignment explanation
Indices: 20442194--20442309 Score: 196
Period size: 52 Copynumber: 2.2 Consensus size: 52
20442184 AGCCTTTACC
*
20442194 AAAACCCAAATTTTATTTATTATTTATTTATAAATAAATAAATGAATAAAAT
1 AAAACCAAAATTTTATTTATTATTTATTTATAAATAAATAAATGAATAAAAT
* *
20442246 AAAACCAAAATTTTATTTGTTATTTATTTATAAATAAATGAATGAATAAAAT
1 AAAACCAAAATTTTATTTATTATTTATTTATAAATAAATAAATGAATAAAAT
20442298 AAAACCCAAAAT
1 AAAA-CCAAAAT
20442310 AAAAGTCCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
52 53 0.88
53 7 0.12
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (52 bp):
AAAACCAAAATTTTATTTATTATTTATTTATAAATAAATAAATGAATAAAAT
Found at i:20444968 original size:39 final size:39
Alignment explanation
Indices: 20444882--20445019 Score: 152
Period size: 39 Copynumber: 3.5 Consensus size: 39
20444872 CAGTAATCTA
* *
20444882 GCAATGTTTACAGTGTCACTGCTAGTTCA-TTGTAGTGTC
1 GCAATGTTTACAGTGTCACTGCAAGTTCAGTTGTAAT-TC
* * *
20444921 GTAGTGTTTACAGTGTCACTGCCAGTTCAGTTGTAATTC
1 GCAATGTTTACAGTGTCACTGCAAGTTCAGTTGTAATTC
* * * *
20444960 ACAATGTTTATAGTATCACTGCAAGTTCAGTTGTAATAC
1 GCAATGTTTACAGTGTCACTGCAAGTTCAGTTGTAATTC
* *
20444999 TGCAGTGTTTACAATGTCACT
1 -GCAATGTTTACAGTGTCACT
20445020 ATCAGTTTAG
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 60 0.74
40 21 0.26
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (39 bp):
GCAATGTTTACAGTGTCACTGCAAGTTCAGTTGTAATTC
Found at i:20445019 original size:40 final size:39
Alignment explanation
Indices: 20444886--20445061 Score: 133
Period size: 39 Copynumber: 4.5 Consensus size: 39
20444876 AATCTAGCAA
* * *
20444886 TGTTTACAGTGTCACTGCTAGTTCA-TTGTAGT-GTCGTAG
1 TGTTTACAGTGTCACTGC-AGTTCAGTTGTAATACT-GCAG
* * *
20444925 TGTTTACAGTGTCACTGCCAGTTCAGTTGTAATTC-ACAA
1 TGTTTACAGTGTCACTG-CAGTTCAGTTGTAATACTGCAG
* *
20444964 TGTTTATAGTATCACTGCAAGTTCAGTTGTAATACTGCAG
1 TGTTTACAGTGTCACTGC-AGTTCAGTTGTAATACTGCAG
* * * * *** *
20445004 TGTTTACAATGTCACTATCAGTTTAGTTATGGCATTGCAG
1 TGTTTACAGTGTCACT-GCAGTTCAGTTGTAATACTGCAG
*
20445044 TGTTTACAATGTCACTGC
1 TGTTTACAGTGTCACTGC
20445062 CAATTCATAC
Statistics
Matches: 110, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
38 1 0.01
39 55 0.50
40 53 0.48
41 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (39 bp):
TGTTTACAGTGTCACTGCAGTTCAGTTGTAATACTGCAG
Found at i:20445026 original size:79 final size:78
Alignment explanation
Indices: 20444883--20445031 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 78
20444873 AGTAATCTAG
* * * * * * *
20444883 CAATGTTTACAGTGTCACTGCTAGTTCATTGTAGTGTCGTAGTGTTTACAGTGTCACTGCCAGTT
1 CAATGTTTACAGTATCACTGCAAGTTCATTGTAATCTCGCAGTGTTTACAATGTCACTACCAGTT
20444948 CAGTTGTAATTCA
66 CAGTTGTAATTCA
* *
20444961 CAATGTTTATAGTATCACTGCAAGTTCAGTTGTAATACT-GCAGTGTTTACAATGTCACTATCAG
1 CAATGTTTACAGTATCACTGCAAGTTCA-TTGTAAT-CTCGCAGTGTTTACAATGTCACTACCAG
*
20445025 TTTAGTT
64 TTCAGTT
20445032 ATGGCATTGC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
78 25 0.42
79 33 0.56
80 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (78 bp):
CAATGTTTACAGTATCACTGCAAGTTCATTGTAATCTCGCAGTGTTTACAATGTCACTACCAGTT
CAGTTGTAATTCA
Found at i:20452173 original size:13 final size:13
Alignment explanation
Indices: 20452155--20452192 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
20452145 AACTAGCCAC
20452155 TAAAATTTTATAA
1 TAAAATTTTATAA
*
20452168 TAAAATTTGA-AA
1 TAAAATTTTATAA
*
20452180 TCAAATTTTATAA
1 TAAAATTTTATAA
20452193 GACTAAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (13 bp):
TAAAATTTTATAA
Found at i:20458330 original size:13 final size:13
Alignment explanation
Indices: 20458314--20458338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20458304 GTGTGAAGGA
20458314 TATTAATCTAAAG
1 TATTAATCTAAAG
20458327 TATTAATCTAAA
1 TATTAATCTAAA
20458339 CTAAATTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
TATTAATCTAAAG
Found at i:20472859 original size:19 final size:19
Alignment explanation
Indices: 20472835--20472871 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20472825 AAAGAATTTT
20472835 GAAATGGTCCCATAAAGTG
1 GAAATGGTCCCATAAAGTG
*
20472854 GAAATGGTCCTATAAAGT
1 GAAATGGTCCCATAAAGT
20472872 TTATACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (19 bp):
GAAATGGTCCCATAAAGTG
Found at i:20499376 original size:20 final size:20
Alignment explanation
Indices: 20499353--20499391 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20499343 ACTTAAGTCC
20499353 AAACACTTTCTCAAG-GTTAA
1 AAACACTTT-TCAAGAGTTAA
*
20499373 AAACTCTTTTCAAGAGTTA
1 AAACACTTTTCAAGAGTTA
20499392 TCACTCTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (20 bp):
AAACACTTTTCAAGAGTTAA
Found at i:20519115 original size:16 final size:16
Alignment explanation
Indices: 20519094--20519124 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20519084 TGTTTTGACG
*
20519094 TTTATTTTATGAGGTA
1 TTTATTTCATGAGGTA
20519110 TTTATTTCATGAGGT
1 TTTATTTCATGAGGT
20519125 TTAGGACTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.19, T:0.55
Consensus pattern (16 bp):
TTTATTTCATGAGGTA
Found at i:20520231 original size:67 final size:67
Alignment explanation
Indices: 20520109--20520241 Score: 196
Period size: 67 Copynumber: 2.0 Consensus size: 67
20520099 GGAAAAGATA
* * * *
20520109 TGATTTGTCATTCCACTATCGGAAAGGGATAGAGATGACGTGAAATTATAGTTTCATACAATCCT
1 TGATTTGTCATTCCACTATCGGAAAGGAATAGAGATGACGTGAAATCACAATTTCATACAATCCT
20520174 TC
66 TC
* *
20520176 TGATTTGTCATTCC-CTTATCGGAAAGGAATAGAGATGACGTGAAATCGCAATTTCATACCATCC
1 TGATTTGTCATTCCAC-TATCGGAAAGGAATAGAGATGACGTGAAATCACAATTTCATACAATCC
20520240 TT
65 TT
20520242 TCTCTAGTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
66 1 0.02
67 58 0.98
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (67 bp):
TGATTTGTCATTCCACTATCGGAAAGGAATAGAGATGACGTGAAATCACAATTTCATACAATCCT
TC
Found at i:20520396 original size:96 final size:96
Alignment explanation
Indices: 20520232--20520425 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
20520222 CGCAATTTCA
20520232 TACCATCCTTTCTCTAGTATATTGAAATAATTTATATAATGTTTGACAAGTTTAGGTAGTAAATT
1 TACCATCCTTTCTCTAGTATATTGAAATAATTTATATAATGTTTGACAAGTTTAGGTAGTAAATT
20520297 AGAGCAAAAAAACTTAAGTACCAATTTTTTT
66 AGAGCAAAAAAACTTAAGTACCAATTTTTTT
20520328 TACCATCCTTTCTCTAGTATATTGAAATAATTTATATAATGTTTGACAAGTTTAGGTAGTAAATT
1 TACCATCCTTTCTCTAGTATATTGAAATAATTTATATAATGTTTGACAAGTTTAGGTAGTAAATT
20520393 AGAGCAAAAAAACTTAAGTACCAATTTTTTT
66 AGAGCAAAAAAACTTAAGTACCAATTTTTTT
20520424 TA
1 TA
20520426 AAAAAAATCA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (96 bp):
TACCATCCTTTCTCTAGTATATTGAAATAATTTATATAATGTTTGACAAGTTTAGGTAGTAAATT
AGAGCAAAAAAACTTAAGTACCAATTTTTTT
Found at i:20523064 original size:34 final size:36
Alignment explanation
Indices: 20523004--20523084 Score: 87
Period size: 34 Copynumber: 2.3 Consensus size: 36
20522994 AAAACATATG
* *
20523004 AAAAATAA-ATTATATAAAAAAATTT-AATAAA-TA
1 AAAAATAATATAATATAAAAAAATTTAAAAAAATTA
* **
20523037 AAAAATAATATAATATAAATATTTTTAAAAAAAATTA
1 AAAAATAATATAATATAAAAAAATTT-AAAAAAATTA
20523074 AAAAATAATAT
1 AAAAATAATAT
20523085 GATCGAGCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 8 0.21
34 13 0.33
36 5 0.13
37 13 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (36 bp):
AAAAATAATATAATATAAAAAAATTTAAAAAAATTA
Found at i:20523463 original size:8 final size:8
Alignment explanation
Indices: 20523452--20523484 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
20523442 ATATTAAAAA
20523452 TATTATTT
1 TATTATTT
20523460 TATTATTT
1 TATTATTT
*
20523468 TATTAGTT
1 TATTATTT
20523476 TA-TATTT
1 TATTATTT
20523483 TA
1 TA
20523485 AAAGGATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (8 bp):
TATTATTT
Found at i:20523506 original size:45 final size:45
Alignment explanation
Indices: 20523426--20523517 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 45
20523416 ATAAAAATTA
* * *
20523426 AGTTGTATATTTTAACATATTAAAAATATTATTTTATTATTTTATT
1 AGTTGTATATTTTAAAAGATTAAAAATATTATTTTATAATTTT-TT
* *
20523472 AGTT-TATATTTTAAAAGGATT-AAATTATTTTTTTATAATTTTTT
1 AGTTGTATATTTTAAAA-GATTAAAAATATTATTTTATAATTTTTT
20523516 AG
1 AG
20523518 GTCAATATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 4 0.10
45 29 0.73
46 7 0.17
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.57
Consensus pattern (45 bp):
AGTTGTATATTTTAAAAGATTAAAAATATTATTTTATAATTTTTT
Found at i:20525478 original size:28 final size:28
Alignment explanation
Indices: 20525438--20525504 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
20525428 TATTAATTAA
* *
20525438 ACCATTTGGTGTCGTCTCTTACATAGGT
1 ACCATTTGGTGTCGCCTCTTACATAGGC
*
20525466 ACCATTTGGTGTCGCCTCTTACATGGGC
1 ACCATTTGGTGTCGCCTCTTACATAGGC
20525494 ACCA-TTGGTGT
1 ACCATTTGGTGT
20525505 TTACTGTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 7 0.19
28 29 0.81
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (28 bp):
ACCATTTGGTGTCGCCTCTTACATAGGC
Found at i:20526074 original size:13 final size:11
Alignment explanation
Indices: 20526036--20526067 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
20526026 TTTTTTAATA
20526036 TAAAATTA--T
1 TAAAATTATTT
20526045 TAAAATTATTT
1 TAAAATTATTT
20526056 TAAAATTATTT
1 TAAAATTATTT
20526067 T
1 T
20526068 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 8 0.38
11 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:20526080 original size:40 final size:38
Alignment explanation
Indices: 20526008--20526098 Score: 132
Period size: 40 Copynumber: 2.4 Consensus size: 38
20525998 ACAAATGACT
*
20526008 TTAAAATTA--TTAAAATATTTTTTTAATATAAAATTA
1 TTAAAATTATTTTAAAATATTTTTTAAATATAAAATTA
*
20526044 TTAAAATTATTTTAAAATTATTTTTTAAAATATAAAATTG
1 TTAAAATTATTTTAAAA-TATTTTTT-AAATATAAAATTA
20526084 TTAAAATTATTTTAA
1 TTAAAATTATTTTAA
20526099 TATTTTAATC
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
36 9 0.18
38 6 0.12
39 8 0.16
40 26 0.53
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (38 bp):
TTAAAATTATTTTAAAATATTTTTTAAATATAAAATTA
Found at i:20527100 original size:9 final size:9
Alignment explanation
Indices: 20527086--20527169 Score: 67
Period size: 9 Copynumber: 9.8 Consensus size: 9
20527076 GATGATGATG
20527086 ATTTTAATA
1 ATTTTAATA
20527095 ATTTT-AT-
1 ATTTTAATA
20527102 ATTTTAAATTA
1 ATTTT-AA-TA
20527113 ATTTTAAAATA
1 ATTTT--AATA
20527124 ATTTTAATA
1 ATTTTAATA
20527133 ATTTT-ATA
1 ATTTTAATA
*
20527141 TTTTTAA-A
1 ATTTTAATA
20527149 A----AATA
1 ATTTTAATA
20527154 ATTTTAATA
1 ATTTTAATA
20527163 ATTTTAA
1 ATTTTAA
20527170 AATCATTTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
7 5 0.08
8 10 0.16
9 27 0.44
10 1 0.02
11 12 0.19
12 3 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTTAATA
Found at i:20527128 original size:38 final size:38
Alignment explanation
Indices: 20527086--20527169 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
20527076 GATGATGATG
*
20527086 ATTTTAATAATTTTATA-TTTT-AAATTAATTTTAAAATA
1 ATTTTAATAATTTTATATTTTTAAAAATAATTTT--AATA
20527124 ATTTTAATAATTTTATATTTTTAAAAAATAATTTTAATA
1 ATTTTAATAATTTTATATTTTT-AAAAATAATTTTAATA
20527163 ATTTTAA
1 ATTTTAA
20527170 AATCATTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
38 17 0.40
39 15 0.36
41 10 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (38 bp):
ATTTTAATAATTTTATATTTTTAAAAATAATTTTAATA
Found at i:20527155 original size:21 final size:22
Alignment explanation
Indices: 20527129--20527171 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
20527119 AAATAATTTT
*
20527129 AATAATTTT-ATATTTTTAAAA
1 AATAATTTTAATAATTTTAAAA
20527150 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
20527172 TCATTTACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:20530263 original size:43 final size:43
Alignment explanation
Indices: 20530200--20530324 Score: 178
Period size: 43 Copynumber: 2.9 Consensus size: 43
20530190 AAAACATGAT
* * **
20530200 ACATGATCTTTAGCGGCGCTTTTCCCACAAACGCCTCTATAGG
1 ACATGATCTTTAGCGACGCTTTTCCCACAAACGCCACTATAAA
*
20530243 ACATGATATTTAGCGACGCTTTTCCCACAAACGCCACTATAAA
1 ACATGATCTTTAGCGACGCTTTTCCCACAAACGCCACTATAAA
* **
20530286 ATATGATCTTTAGCGACGCTTTTCTTACAAACGCCACTA
1 ACATGATCTTTAGCGACGCTTTTCCCACAAACGCCACTA
20530325 ACATATATAG
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (43 bp):
ACATGATCTTTAGCGACGCTTTTCCCACAAACGCCACTATAAA
Found at i:20531571 original size:42 final size:42
Alignment explanation
Indices: 20531512--20531596 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
20531502 GGACAAAAAG
20531512 AAAGACATTCCCAGCTGGGATTCAAAACTTTGGGAGGATTGC
1 AAAGACATTCCCAGCTGGGATTCAAAACTTTGGGAGGATTGC
20531554 AAAGACATTCCCAGCTGGGATTCAAAACTTTGGGAGGATTGC
1 AAAGACATTCCCAGCTGGGATTCAAAACTTTGGGAGGATTGC
20531596 A
1 A
20531597 TTTATTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (42 bp):
AAAGACATTCCCAGCTGGGATTCAAAACTTTGGGAGGATTGC
Found at i:20532816 original size:42 final size:42
Alignment explanation
Indices: 20532753--20532858 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
20532743 TATCAGGATA
*
20532753 TGTTTTTACCTTTTACGGCGTTTTTC-CATAAACGTCGTTAT
1 TGTTTTTACCTTTTACGGCGTTTTTCTCATAAACGTCGCTAT
** *
20532794 TGTTCTTTACCTTTTGTGGCGTTTTTCTCATAAATGTCGCTAT
1 TGTT-TTTACCTTTTACGGCGTTTTTCTCATAAACGTCGCTAT
* *
20532837 TG-TTTTATCTTTTACGACGTTT
1 TGTTTTTACCTTTTACGGCGTTT
20532859 ATGGGAAAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 19 0.35
42 21 0.38
43 15 0.27
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.52
Consensus pattern (42 bp):
TGTTTTTACCTTTTACGGCGTTTTTCTCATAAACGTCGCTAT
Found at i:20532876 original size:40 final size:39
Alignment explanation
Indices: 20532825--20532938 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 39
20532815 TTTTTCTCAT
* * *
20532825 AAATGTCGCTATTGTTTTATCTTTTACGACGTTTATGGGA
1 AAATGTCGCTATTGCTTTACCTTTTGCGACGTTTAT-GGA
* * *
20532865 AAATGTTGCTATTGCTTTACCTTTTGTGGCGTTTATGGA
1 AAATGTCGCTATTGCTTTACCTTTTGCGACGTTTATGGA
* *
20532904 AAAGCGTCGCTATTGCTTTACCTTTTGCGTCGTTT
1 AAA-TGTCGCTATTGCTTTACCTTTTGCGACGTTT
20532939 TCGATCCAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
39 6 0.10
40 57 0.90
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (39 bp):
AAATGTCGCTATTGCTTTACCTTTTGCGACGTTTATGGA
Found at i:20544802 original size:52 final size:52
Alignment explanation
Indices: 20544727--20544833 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
20544717 AGCGGAAAGA
*
20544727 AATGTTAGTCATCTTAATATAAGATAGGCTATATTTTCTTGATAATACCAAG
1 AATGTCAGTCATCTTAATATAAGATAGGCTATATTTTCTTGATAATACCAAG
*
20544779 AATGTCAGTCATCTTAATATAAGATAGGCTATATTTTCTTGATAATACTAAG
1 AATGTCAGTCATCTTAATATAAGATAGGCTATATTTTCTTGATAATACCAAG
20544831 AAT
1 AAT
20544834 TTTTCTGCAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.38
Consensus pattern (52 bp):
AATGTCAGTCATCTTAATATAAGATAGGCTATATTTTCTTGATAATACCAAG
Found at i:20548036 original size:17 final size:17
Alignment explanation
Indices: 20548007--20548040 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
20547997 ACCTTTTACC
20548007 TTTATTTTCTAGTTTAT
1 TTTATTTTCTAGTTTAT
20548024 TTTATATTT-TAGTTTAT
1 TTTAT-TTTCTAGTTTAT
20548041 GATCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTATTTTCTAGTTTAT
Found at i:20551261 original size:27 final size:27
Alignment explanation
Indices: 20551146--20551268 Score: 174
Period size: 27 Copynumber: 4.5 Consensus size: 27
20551136 TGAGGAGTAA
*
20551146 TCTGTTTCTGGCTCAAAAGAGCGTTAT
1 TCTGATTCTGGCTCAAAAGAGCGTTAT
* * *
20551173 TCTAATTTTAGCTCAAAAGAGCGTTAT
1 TCTGATTCTGGCTCAAAAGAGCGTTAT
* *
20551200 TCTGATTTTAGCTCAAAAGAGCGTTAT
1 TCTGATTCTGGCTCAAAAGAGCGTTAT
*
20551227 TCTGATTCTGGCTCAAAAGAGCATTAT
1 TCTGATTCTGGCTCAAAAGAGCGTTAT
20551254 TCTGATTCTAGGCTC
1 TCTGATTCT-GGCTC
20551269 CTAAGAGCTA
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
27 82 0.94
28 5 0.06
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGATTCTGGCTCAAAAGAGCGTTAT
Found at i:20551374 original size:24 final size:24
Alignment explanation
Indices: 20551258--20551367 Score: 148
Period size: 24 Copynumber: 4.6 Consensus size: 24
20551248 CATTATTCTG
*
20551258 ATTCTAGGCTCCTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
*
20551282 ATTCTAGGCTCATAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
20551306 ATTCTAGGCTCGTAAGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
* * * *
20551330 GTTTTAAGCTCGTAGGAGCTAACC
1 ATTCTAGGCTCGTAAGAGCTAACC
* *
20551354 ATTCTGGGTTCGTA
1 ATTCTAGGCTCGTA
20551368 TGGGCTACAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 75 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATTCTAGGCTCGTAAGAGCTAACC
Found at i:20555234 original size:101 final size:102
Alignment explanation
Indices: 20555066--20555297 Score: 337
Period size: 101 Copynumber: 2.3 Consensus size: 102
20555056 TGGACAAAAG
*
20555066 AGTTACTTAATGCATGAT-TTTATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATG
1 AGTTACTTAATGCATG-TCTTTATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATG
* *
20555130 CATGAT-ATAATTTATGATGCATATTTAACTAAAATGTA
65 CATG-TCATAATTTATGATGCATACTTAACTAAAATGAA
20555168 AGTTACTTAATGCATGTCTTTATTT-ATGATGCAAAC-TTAACTAATCATGAGAGTTACATAATG
1 AGTTACTTAATGCATGTCTTTATTTAATGATGCAAACTTTAACTAA-CATGAGAGTTACATAATG
* *
20555231 CATGTCATTATTTATGATGCATACTTAACTAACATGAA
65 CATGTCATAATTTATGATGCATACTTAACTAAAATGAA
* * *
20555269 AGTTACATAATGCATGACTTTATTAAATG
1 AGTTACTTAATGCATGTCTTTATTTAATG
20555298 CAGAACACAT
Statistics
Matches: 118, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
100 9 0.08
101 83 0.70
102 26 0.22
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (102 bp):
AGTTACTTAATGCATGTCTTTATTTAATGATGCAAACTTTAACTAACATGAGAGTTACATAATGC
ATGTCATAATTTATGATGCATACTTAACTAAAATGAA
Found at i:20555292 original size:50 final size:50
Alignment explanation
Indices: 20555066--20555292 Score: 276
Period size: 50 Copynumber: 4.5 Consensus size: 50
20555056 TGGACAAAAG
* * **
20555066 AGTTACTTAATGCATGATTTTATTTAATGATGCAAACTTTAACTAACATGGG
1 AGTTACATAATGCATGACTTTATTT-ATGATGCAAAC-TTAACTAACATGAA
* * * * *
20555118 AGTTACATAATGCATGA-TATAATTTATGATGCATATTTAACTAAAATGTA
1 AGTTACATAATGCATGACT-TTATTTATGATGCAAACTTAACTAACATGAA
* * *
20555168 AGTTACTTAATGCATGTCTTTATTTATGATGCAAACTTAACTAATCATGAG
1 AGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACTAA-CATGAA
* * *
20555219 AGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAACATGAA
1 AGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACTAACATGAA
20555269 AGTTACATAATGCATGACTTTATT
1 AGTTACATAATGCATGACTTTATT
20555293 AAATGCAGAA
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
50 75 0.50
51 55 0.36
52 21 0.14
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (50 bp):
AGTTACATAATGCATGACTTTATTTATGATGCAAACTTAACTAACATGAA
Found at i:20560480 original size:21 final size:22
Alignment explanation
Indices: 20560454--20560495 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20560444 AATCAAAAAG
20560454 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
20560475 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
20560496 AAATGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:20562700 original size:41 final size:41
Alignment explanation
Indices: 20562619--20562701 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
20562609 AACATATATA
*
20562619 TAGGGAGATAGGTAATTAAAATAAAATTGCTAACCAAGGTT
1 TAGGGAGATAGGTAATTAAAATAAAATTGCCAACCAAGGTT
* *
20562660 TAGGGAGATAGGTAATTAAAATAAAATTGCCAGCCGAGGTT
1 TAGGGAGATAGGTAATTAAAATAAAATTGCCAACCAAGGTT
20562701 T
1 T
20562702 CATGGTTCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (41 bp):
TAGGGAGATAGGTAATTAAAATAAAATTGCCAACCAAGGTT
Found at i:20563445 original size:25 final size:26
Alignment explanation
Indices: 20563408--20563458 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
20563398 GTTGTAAATG
* *
20563408 AAAAAAATGTCTTTAGAG-ATTTTCT
1 AAAAAAATCTCTTCAGAGAATTTTCT
*
20563433 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAAAAATCTCTTCAGAGAATTTTCT
20563459 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (26 bp):
AAAAAAATCTCTTCAGAGAATTTTCT
Found at i:20564303 original size:16 final size:16
Alignment explanation
Indices: 20564282--20564312 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20564272 CTATGCATGC
*
20564282 AAAATATGAAAGACAA
1 AAAATATAAAAGACAA
20564298 AAAATATAAAAGACA
1 AAAATATAAAAGACA
20564313 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAA
Found at i:20576596 original size:29 final size:29
Alignment explanation
Indices: 20576559--20576681 Score: 77
Period size: 29 Copynumber: 4.2 Consensus size: 29
20576549 TTGTTTTCAA
* * **
20576559 TTTTTAAGGGACTCAAATTTTTTTTTAAC
1 TTTTAAAGGGACACAAATTTTTTACTAAC
* * * *
20576588 TTTTAAA-GGTCAAAAAATTACTTTACCAAC
1 TTTTAAAGGGAC-ACAAATT-TTTTACTAAC
* *** **
20576618 TTTTAAGGGGGTTCAAATTTTTTTTTAAC
1 TTTTAAAGGGACACAAATTTTTTACTAAC
**
20576647 TTTTAAAGGCCCACAAATTTTTTACTAAC
1 TTTTAAAGGGACACAAATTTTTTACTAAC
20576676 TTTTAA
1 TTTTAA
20576682 GAGACCTTAA
Statistics
Matches: 67, Mismatches: 24, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
28 3 0.04
29 45 0.67
30 17 0.25
31 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.45
Consensus pattern (29 bp):
TTTTAAAGGGACACAAATTTTTTACTAAC
Found at i:20576651 original size:59 final size:58
Alignment explanation
Indices: 20576571--20576682 Score: 170
Period size: 59 Copynumber: 1.9 Consensus size: 58
20576561 TTTAAGGGAC
*
20576571 TCAAATTTTTTTTTAACTTTTAAAGGTCAAAAAATTACTTTACCAACTTTTAAGGGGGT
1 TCAAATTTTTTTTTAACTTTTAAAGGCCAAAAAATT-CTTTACCAACTTTTAAGGGGGT
* * * *
20576630 TCAAATTTTTTTTTAACTTTTAAAGGCCCACAAATTTTTTACTAACTTTTAAG
1 TCAAATTTTTTTTTAACTTTTAAAGGCCAAAAAATTCTTTACCAACTTTTAAG
20576683 AGACCTTAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 15 0.31
59 33 0.69
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (58 bp):
TCAAATTTTTTTTTAACTTTTAAAGGCCAAAAAATTCTTTACCAACTTTTAAGGGGGT
Found at i:20578075 original size:564 final size:563
Alignment explanation
Indices: 20576991--20578105 Score: 1659
Period size: 564 Copynumber: 2.0 Consensus size: 563
20576981 AATTACAGCT
* *
20576991 CCATTGAATATGCATAAATTGTTAGTTTAATTACTAATATTATTGGGTCTCCATTGTCAACCTCT
1 CCATTAAATATGCAAAAATTGTTAGTTTAATTACTAATATTATTGGGTCTCCATTGTCAACCTCT
**
20577056 TCTTTATTATCGATGATATCATTTAAGAATACGATGCATCTAATGAGATGGTTGTTAGAGGATCA
66 TCTTTATTATCGATGATATCATTTAAGAATACGATGCATCTAATGAGATGGTCATTAGAGGATCA
* * * * *
20577121 ACATTTGTGTTTTTGATTAATGAGTATTTGGTGGAAAAGATGTTGGAAAGTATGAACATCACGTA
131 ACATTTGTGTTCTTGATTAATGAGTATTTGGAGGAAAAGA-GTAGGAAAATATGAACATCACATA
*
20577186 TATAATAAGAGTAATTACATGTTATTATTTACTATCATAAAAGGTTAACCCAAATTAAAAATGAT
195 TATAAGAAGAGTAATTACATGTTATTATTTACTATCATAAAAGGTTAACCCAAATTAAAAATGAT
*
20577251 CTAATTTGGTTAAGTTTATTGGACTTTAGTTGTTAATAAAGTATGGGTCAAATATGTGTAAATAC
260 CTAATTTGGTTAAGTTTATTGGACTTTAGTTATTAATAAAGTATGGGTCAAATATGTGTAAATAC
* * * * * *
20577316 TTTAGTAGCTAATTTTTAATTGATGATGGGATGATTAGAAATTAGGTTTAATGTAAAAATGTTAT
325 TCTAGTAACTAATTTCTAATTGATAACGGGATGATTAGAAATTAGGGTTAATGTAAAAATGTTAT
* *
20577381 ATATTAGGGCTATGGTCCCCAAATTACACATAATGTAACTTTTTTAATAGCCCATCTTTAGAAAA
390 ATATTAGGGCTATGCTCCCCAAATTACACATAACGTAACTTTTTTAATAGCCCATCTTTAGAAAA
* * * * *
20577446 GAGAGTCACCTTCTCAAAATTACTTGTGTGTTAATTTGGAATATCAAAACAATAAGATCAGAAGA
455 GAGAATCACCTTCTCAAAATTACTTCTGTGCTAATTTGAAAGATCAAAACAATAAGATCAGAAGA
*
20577511 TTTCAAGAAA-TCAATGGATTCTGGCACGCTTTCACATTTGATTA
520 TTTCAAGAAATTC-ATGGATTCAGGCACGCTTTCACATTTGATTA
* *
20577555 CCATTAAATATGCAAAAATTGTTAGTTTAATTACTAATCTTATTGGGTCTCCGTTGTCAACCTCT
1 CCATTAAATATGCAAAAATTGTTAGTTTAATTACTAATATTATTGGGTCTCCATTGTCAACCTCT
* * *
20577620 TCTTTATTATCGATGATATCATTTAAGAATATGATGTATCTAATGAGGTGGTCATTAGAGGA-CT
66 TCTTTATTATCGATGATATCATTTAAGAATACGATGCATCTAATGAGATGGTCATTAGAGGATC-
*
20577684 GACATTTGTGTTCTTGATTAATGAGTATTTGGAGG-AAAG-G-AGGAAAATATGAACATCACATA
130 AACATTTGTGTTCTTGATTAATGAGTATTTGGAGGAAAAGAGTAGGAAAATATGAACATCAC--A
* *
20577746 TATATAAGAAGAGTAATTACATGTTATTATTTACTATCATAAAATGTTAGCCCAAATT-AAAATG
193 TATATAAGAAGAGTAATTACATGTTATTATTTACTATCATAAAAGGTTAACCCAAATTAAAAATG
* * **
20577810 ATCTAATTTGGTTAAGTTTTATTGGGCTTTAGTTATTAATAAAGTATGGGTTAAATATGTGTTGA
258 ATCTAATTTGGTTAAG-TTTATTGGACTTTAGTTATTAATAAAGTATGGGTCAAATATGTGTAAA
* * *
20577875 TACTCTAGTAACTAATTTCTAATTGATAACGGGTTGATTAGAAATTAGGGTTATTGTGCAAAA-G
322 TACTCTAGTAACTAATTTCTAATTGATAACGGGATGATTAGAAATTAGGGTTAATGT-AAAAATG
* * * * *
20577939 TTATATATTAGGGTTATGCTCCCTAAATTACACATCACGTAACTTTTTTACTATCCCATCTTTAG
386 TTATATATTAGGGCTATGCTCCCCAAATTACACATAACGTAACTTTTTTAATAGCCCATCTTTAG
* * *
20578004 AAAATAGAGAATCACCTTCTTAAAATTACTTCTGTGCTAATTTGAAAGATCAAAACCATAAGATT
451 -AAA-AGAGAATCACCTTCTCAAAATTACTTCTGTGCTAATTTGAAAGATCAAAACAATAAGATC
*
20578069 AGAAGATTTCAAGAAATTCATGGATTCAGGCATGCTT
514 AGAAGATTTCAAGAAATTCATGGATTCAGGCACGCTT
20578106 CCATATCTAA
Statistics
Matches: 494, Mismatches: 49, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
560 17 0.03
561 23 0.05
562 206 0.42
563 12 0.02
564 234 0.47
565 2 0.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (563 bp):
CCATTAAATATGCAAAAATTGTTAGTTTAATTACTAATATTATTGGGTCTCCATTGTCAACCTCT
TCTTTATTATCGATGATATCATTTAAGAATACGATGCATCTAATGAGATGGTCATTAGAGGATCA
ACATTTGTGTTCTTGATTAATGAGTATTTGGAGGAAAAGAGTAGGAAAATATGAACATCACATAT
ATAAGAAGAGTAATTACATGTTATTATTTACTATCATAAAAGGTTAACCCAAATTAAAAATGATC
TAATTTGGTTAAGTTTATTGGACTTTAGTTATTAATAAAGTATGGGTCAAATATGTGTAAATACT
CTAGTAACTAATTTCTAATTGATAACGGGATGATTAGAAATTAGGGTTAATGTAAAAATGTTATA
TATTAGGGCTATGCTCCCCAAATTACACATAACGTAACTTTTTTAATAGCCCATCTTTAGAAAAG
AGAATCACCTTCTCAAAATTACTTCTGTGCTAATTTGAAAGATCAAAACAATAAGATCAGAAGAT
TTCAAGAAATTCATGGATTCAGGCACGCTTTCACATTTGATTA
Found at i:20579886 original size:26 final size:27
Alignment explanation
Indices: 20579857--20579912 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
20579847 AGCTCATACA
*
20579857 AGCCCAAT-CAATAAATCACTCTTACG
1 AGCCCAATACAATAAATCACCCTTACG
**
20579883 AG-CCAATACAATATGTCACCCTTACG
1 AGCCCAATACAATAAATCACCCTTACG
20579909 AGCC
1 AGCC
20579913 AGTATCGCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 5 0.20
26 19 0.76
27 1 0.04
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.21
Consensus pattern (27 bp):
AGCCCAATACAATAAATCACCCTTACG
Found at i:20579931 original size:19 final size:19
Alignment explanation
Indices: 20579898--20579955 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
20579888 ATACAATATG
* *
20579898 TCACCCTTACGAGCCAGTA
1 TCACCCTTTCAAGCCAGTA
*
20579917 TCGCCCTTTCAAGCCAGTA
1 TCACCCTTTCAAGCCAGTA
*
20579936 TCACTCTTTCAAGCCAGTA
1 TCACCCTTTCAAGCCAGTA
20579955 T
1 T
20579956 TCTCTTATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (19 bp):
TCACCCTTTCAAGCCAGTA
Found at i:20584718 original size:36 final size:36
Alignment explanation
Indices: 20584667--20584778 Score: 143
Period size: 36 Copynumber: 3.1 Consensus size: 36
20584657 TCGCTCTTTT
**
20584667 GAGCCAATATTGCTCAAATGAGCCAATATGCTTAAAC
1 GAGCCAATA-TGCTCAAACAAGCCAATATGCTTAAAC
* * *
20584704 AAGCCAGTATGCTCAAACAAGCTAATATGCTTAAAC
1 GAGCCAATATGCTCAAACAAGCCAATATGCTTAAAC
* * *
20584740 GAGCCAATATGCTTAAACAAGCCAGTATGCTCAAAC
1 GAGCCAATATGCTCAAACAAGCCAATATGCTTAAAC
20584776 GAG
1 GAG
20584779 ACAGTAATGC
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
36 57 0.89
37 7 0.11
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.21
Consensus pattern (36 bp):
GAGCCAATATGCTCAAACAAGCCAATATGCTTAAAC
Found at i:20584748 original size:54 final size:55
Alignment explanation
Indices: 20584672--20584775 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 55
20584662 CTTTTGAGCC
*
20584672 AATATTGCTCAAATGAGCCAATATGCTTAAACAAGCCAGTATGCTCAAACAAGCT
1 AATATTGCTCAAACGAGCCAATATGCTTAAACAAGCCAGTATGCTCAAACAAGCT
*
20584727 AATA-TGCTTAAACGAGCCAATATGCTTAAACAAGCCAGTATGCTCAAAC
1 AATATTGCTCAAACGAGCCAATATGCTTAAACAAGCCAGTATGCTCAAAC
20584776 GAGACAGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 43 0.91
55 4 0.09
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.23
Consensus pattern (55 bp):
AATATTGCTCAAACGAGCCAATATGCTTAAACAAGCCAGTATGCTCAAACAAGCT
Found at i:20584784 original size:18 final size:18
Alignment explanation
Indices: 20584668--20584775 Score: 126
Period size: 18 Copynumber: 5.9 Consensus size: 18
20584658 CGCTCTTTTG
**
20584668 AGCCAATATTGCTCAAATG
1 AGCCAATA-TGCTCAAACA
*
20584687 AGCCAATATGCTTAAACA
1 AGCCAATATGCTCAAACA
*
20584705 AGCCAGTATGCTCAAACA
1 AGCCAATATGCTCAAACA
* * *
20584723 AGCTAATATGCTTAAACG
1 AGCCAATATGCTCAAACA
*
20584741 AGCCAATATGCTTAAACA
1 AGCCAATATGCTCAAACA
*
20584759 AGCCAGTATGCTCAAAC
1 AGCCAATATGCTCAAAC
20584776 GAGACAGTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
18 68 0.89
19 8 0.11
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.22
Consensus pattern (18 bp):
AGCCAATATGCTCAAACA
Found at i:20603034 original size:24 final size:23
Alignment explanation
Indices: 20602997--20603042 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
20602987 TGGTTCGACG
* *
20602997 GATAAAAAAGGAAGAGGCACAAA
1 GATAAAAAAAGAAGAAGCACAAA
20603020 GATAAAAAGAAGAAGAAGCACAA
1 GATAAAAA-AAGAAGAAGCACAA
20603043 GGAAGAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.63, C:0.09, G:0.24, T:0.04
Consensus pattern (23 bp):
GATAAAAAAAGAAGAAGCACAAA
Found at i:20606038 original size:18 final size:18
Alignment explanation
Indices: 20605954--20606048 Score: 95
Period size: 18 Copynumber: 5.3 Consensus size: 18
20605944 CTGATACCAC
* *
20605954 TATGCTCAAACAAGCCAA
1 TATGCTCAAACGAGCCAG
*
20605972 TATGCTCAAAAGAGCCAG
1 TATGCTCAAACGAGCCAG
*
20605990 TATGCTCAAATGAG-C-G
1 TATGCTCAAACGAGCCAG
* * * *
20606006 TATGTTGAAATGAGCTAG
1 TATGCTCAAACGAGCCAG
20606024 TATGCTCAAACGAGCCAG
1 TATGCTCAAACGAGCCAG
20606042 TAATGCT
1 T-ATGCT
20606049 ATTCCTTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
16 13 0.21
17 1 0.02
18 44 0.70
19 5 0.08
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (18 bp):
TATGCTCAAACGAGCCAG
Found at i:20610819 original size:19 final size:19
Alignment explanation
Indices: 20610764--20610833 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
20610754 TAGTATGTCG
*
20610764 CTCTTACGAGCCAGTATCA
1 CTCTTACGAGCCAGTATTA
* *
20610783 CTCTTTCGAGCCAATATTA
1 CTCTTACGAGCCAGTATTA
*
20610802 CTCTTACGAGCCAGTATTG
1 CTCTTACGAGCCAGTATTA
**
20610821 CTCAAACGAGCCA
1 CTCTTACGAGCCA
20610834 ATATGCTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (19 bp):
CTCTTACGAGCCAGTATTA
Found at i:20610866 original size:36 final size:36
Alignment explanation
Indices: 20610789--20610905 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 36
20610779 ATCACTCTTT
* ** *
20610789 CGAGCCAATATTACTCTTACGAGCCAGTATTGCTCAAA
1 CGAGCCAATA-TGCTCAAACGAGCCAG-AATGCTCAAA
* *
20610827 CGAGCCAATATGCTCAAACGAGCTAGAATGCTCAGA
1 CGAGCCAATATGCTCAAACGAGCCAGAATGCTCAAA
* *
20610863 CGAGCCAATATGCTCAAATGAGCCAGTATGCTCAAA
1 CGAGCCAATATGCTCAAACGAGCCAGAATGCTCAAA
*
20610899 CAAGCCA
1 CGAGCCA
20610906 GTAATGCTAT
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 46 0.68
37 12 0.18
38 10 0.15
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (36 bp):
CGAGCCAATATGCTCAAACGAGCCAGAATGCTCAAA
Found at i:20610880 original size:54 final size:56
Alignment explanation
Indices: 20610807--20610913 Score: 155
Period size: 54 Copynumber: 1.9 Consensus size: 56
20610797 TATTACTCTT
* * *
20610807 ACGAGCCAGTATTGCTCAAACGAGCCAATATGCTCAAACGAGCTAG-AATGCTCAG
1 ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCAGTAATGCTCAG
* *
20610862 ACGAGCCAATA-TGCTCAAATGAGCCAGTATGCTCAAACAAGCCAGTAATGCT
1 ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCAGTAATGCT
20610914 ATTCCTTCCG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 30 0.65
55 16 0.35
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (56 bp):
ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCAGTAATGCTCAG
Found at i:20610906 original size:18 final size:18
Alignment explanation
Indices: 20610807--20610913 Score: 133
Period size: 18 Copynumber: 5.8 Consensus size: 18
20610797 TATTACTCTT
20610807 ACGAGCCAGTATTGCTCAA
1 ACGAGCCAGTA-TGCTCAA
*
20610826 ACGAGCCAATATGCTCAA
1 ACGAGCCAGTATGCTCAA
* * *
20610844 ACGAGCTAGAATGCTCAG
1 ACGAGCCAGTATGCTCAA
*
20610862 ACGAGCCAATATGCTCAA
1 ACGAGCCAGTATGCTCAA
*
20610880 ATGAGCCAGTATGCTCAA
1 ACGAGCCAGTATGCTCAA
*
20610898 ACAAGCCAGTAATGCT
1 ACGAGCCAGT-ATGCT
20610914 ATTCCTTCCG
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
18 59 0.80
19 15 0.20
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (18 bp):
ACGAGCCAGTATGCTCAA
Found at i:20612636 original size:20 final size:20
Alignment explanation
Indices: 20612581--20612628 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
20612571 TTTATGGTTG
20612581 TTGATGATTGGAAGGACAAA
1 TTGATGATTGGAAGGACAAA
20612601 TTGATGATTGGAAGGACAAA
1 TTGATGATTGGAAGGACAAA
20612621 TTGATGAT
1 TTGATGAT
20612629 GTGAAGGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.04, G:0.29, T:0.29
Consensus pattern (20 bp):
TTGATGATTGGAAGGACAAA
Found at i:20618123 original size:19 final size:19
Alignment explanation
Indices: 20618044--20618214 Score: 91
Period size: 19 Copynumber: 9.2 Consensus size: 19
20618034 ACAGTATGTC
* *
20618044 GCTCTTACGA-CCTAATATC
1 GCTCTTACGAGCC-AGTATT
* *
20618063 GCTATTATGAGCCAGTATT
1 GCTCTTACGAGCCAGTATT
* * * *
20618082 GTTCTTACGAGTCAATATC
1 GCTCTTACGAGCCAGTATT
** *
20618101 GCTCTTTTGAGCCATTATT
1 GCTCTTACGAGCCAGTATT
20618120 GCTCTTACGAGCCAGTATT
1 GCTCTTACGAGCCAGTATT
** *
20618139 GCTCCAACGAGCCAATA-T
1 GCTCTTACGAGCCAGTATT
** *
20618157 GCTCAAACAAGCCAGTA-T
1 GCTCTTACGAGCCAGTATT
** *
20618175 GCTCAAACGAGCCAATA-T
1 GCTCTTACGAGCCAGTATT
** *
20618193 GCTCAAACGAGCTAGTA-T
1 GCTCTTACGAGCCAGTATT
20618211 GCTC
1 GCTC
20618215 AAATAAGCCA
Statistics
Matches: 122, Mismatches: 29, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
18 52 0.43
19 68 0.56
20 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (19 bp):
GCTCTTACGAGCCAGTATT
Found at i:20618130 original size:38 final size:39
Alignment explanation
Indices: 20618035--20618132 Score: 119
Period size: 38 Copynumber: 2.5 Consensus size: 39
20618025 TGAGCCTGTA
20618035 CAGTATGTCGCTCTTACGA-CCTAATATCGCTATTATGAGC
1 CAGTAT-T-GCTCTTACGAGCCTAATATCGCTATTATGAGC
* * * *
20618075 CAGTATTGTTCTTACGAGTC-AATATCGCTCTTTTGAGC
1 CAGTATTGCTCTTACGAGCCTAATATCGCTATTATGAGC
*
20618113 CATTATTGCTCTTACGAGCC
1 CAGTATTGCTCTTACGAGCC
20618133 AGTATTGCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 42 0.84
39 2 0.04
40 6 0.12
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (39 bp):
CAGTATTGCTCTTACGAGCCTAATATCGCTATTATGAGC
Found at i:20618169 original size:18 final size:18
Alignment explanation
Indices: 20618126--20618232 Score: 124
Period size: 18 Copynumber: 5.9 Consensus size: 18
20618116 TATTGCTCTT
* *
20618126 ACGAGCCAGTATTGCTCCA
1 ACGAGCCAATA-TGCTCAA
20618145 ACGAGCCAATATGCTCAA
1 ACGAGCCAATATGCTCAA
* *
20618163 ACAAGCCAGTATGCTCAA
1 ACGAGCCAATATGCTCAA
20618181 ACGAGCCAATATGCTCAA
1 ACGAGCCAATATGCTCAA
* *
20618199 ACGAGCTAGTATGCTCAA
1 ACGAGCCAATATGCTCAA
** *
20618217 ATAAGCCACTATGCTC
1 ACGAGCCAATATGCTC
20618233 CAATGACCCA
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
18 66 0.87
19 10 0.13
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (18 bp):
ACGAGCCAATATGCTCAA
Found at i:20618185 original size:36 final size:36
Alignment explanation
Indices: 20618129--20618232 Score: 145
Period size: 36 Copynumber: 2.9 Consensus size: 36
20618119 TGCTCTTACG
*
20618129 AGCCAGTATTGCTCCAACGAGCCAATATGCTCAAACA
1 AGCCAGTA-TGCTCAAACGAGCCAATATGCTCAAACA
*
20618166 AGCCAGTATGCTCAAACGAGCCAATATGCTCAAACG
1 AGCCAGTATGCTCAAACGAGCCAATATGCTCAAACA
* ** *
20618202 AGCTAGTATGCTCAAATAAGCCACTATGCTC
1 AGCCAGTATGCTCAAACGAGCCAATATGCTC
20618233 CAATGACCCA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 53 0.87
37 8 0.13
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (36 bp):
AGCCAGTATGCTCAAACGAGCCAATATGCTCAAACA
Found at i:20618212 original size:54 final size:55
Alignment explanation
Indices: 20618126--20618232 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 55
20618116 TATTGCTCTT
* * *
20618126 ACGAGCCAGTATTGCTCCAACGAGCCAATATGCTCAAACAAGCCAGTATGCTCAA
1 ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCACTATGCTCAA
* * *
20618181 ACGAGCCAATA-TGCTCAAACGAGCTAGTATGCTCAAATAAGCCACTATGCTC
1 ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCACTATGCTC
20618233 CAATGACCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 36 0.78
55 10 0.22
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.20
Consensus pattern (55 bp):
ACGAGCCAATATTGCTCAAACGAGCCAATATGCTCAAACAAGCCACTATGCTCAA
Found at i:20622671 original size:19 final size:19
Alignment explanation
Indices: 20622649--20622732 Score: 89
Period size: 19 Copynumber: 4.4 Consensus size: 19
20622639 GCTCTTTCCT
*
20622649 GCCAATATCGCTCTCACGA
1 GCCAGTATCGCTCTCACGA
*
20622668 GCCAGTATCGCTCTTC-CAA
1 GCCAGTATCGCTC-TCACGA
* *
20622687 GCCAGTATTGCTCTTACGA
1 GCCAGTATCGCTCTCACGA
* *
20622706 GCCAGGATCGCTCTAACGA
1 GCCAGTATCGCTCTCACGA
*
20622725 GCTAGTAT
1 GCCAGTAT
20622733 TACTCAAATG
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
18 1 0.02
19 50 0.94
20 2 0.04
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (19 bp):
GCCAGTATCGCTCTCACGA
Found at i:20622700 original size:38 final size:37
Alignment explanation
Indices: 20622628--20622719 Score: 112
Period size: 38 Copynumber: 2.4 Consensus size: 37
20622618 TCACTCTTAT
* *
20622628 GAGCTAGTATCGCTCTTTCCTGCCAATATCGCTCTCAC
1 GAGCCAGTATCGCTC-TTCCAGCCAATATCGCTCTCAC
* * *
20622666 GAGCCAGTATCGCTCTTCCAAGCCAGTATTGCTCTTAC
1 GAGCCAGTATCGCTCTTCC-AGCCAATATCGCTCTCAC
*
20622704 GAGCCAGGATCGCTCT
1 GAGCCAGTATCGCTCT
20622720 AACGAGCTAG
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 4 0.09
38 43 0.91
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.28
Consensus pattern (37 bp):
GAGCCAGTATCGCTCTTCCAGCCAATATCGCTCTCAC
Found at i:20622732 original size:38 final size:38
Alignment explanation
Indices: 20622649--20622733 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
20622639 GCTCTTTCCT
* * * **
20622649 GCCAATATCGCTCTCACGAGCCAGTATCGCTCTTCCAA
1 GCCAGTATTGCTCTCACGAGCCAGGATCGCTCTAACAA
* *
20622687 GCCAGTATTGCTCTTACGAGCCAGGATCGCTCTAACGA
1 GCCAGTATTGCTCTCACGAGCCAGGATCGCTCTAACAA
*
20622725 GCTAGTATT
1 GCCAGTATT
20622734 ACTCAAATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.26
Consensus pattern (38 bp):
GCCAGTATTGCTCTCACGAGCCAGGATCGCTCTAACAA
Found at i:20622758 original size:18 final size:18
Alignment explanation
Indices: 20622735--20622805 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
20622725 GCTAGTATTA
*
20622735 CTCAAATGAGCCAATATG
1 CTCAAACGAGCCAATATG
*
20622753 CTCAAACGAGCCAGTATG
1 CTCAAACGAGCCAATATG
* *
20622771 CTCAAACAAGGCAGGCAGTATG
1 CTCAAAC---G-AGCCAATATG
20622793 CTCAAACGAGCCA
1 CTCAAACGAGCCA
20622806 CTAATGCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
18 27 0.60
19 1 0.02
21 1 0.02
22 16 0.36
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (18 bp):
CTCAAACGAGCCAATATG
Found at i:20623888 original size:14 final size:15
Alignment explanation
Indices: 20623869--20623901 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
20623859 ACTAACTCTT
20623869 AATTCAAAAATT-AA
1 AATTCAAAAATTCAA
*
20623883 AATTCAACAATTCAA
1 AATTCAAAAATTCAA
20623898 AATT
1 AATT
20623902 TCATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTCAAAAATTCAA
Found at i:20629201 original size:36 final size:35
Alignment explanation
Indices: 20629120--20629201 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
20629110 AATAACACAA
20629120 TCACTATCACATGGCATGAAAACATACCCACATAT
1 TCACTATCACATGGCATGAAAACATACCCACATAT
* * *
20629155 TTA-TGGTCACATGGCATGAATAACATACCCTCATAT
1 TCACT-ATCACATGGCATGAA-AACATACCCACATAT
*
20629191 TCACTTTCACA
1 TCACTATCACA
20629202 ACAATCATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
34 1 0.03
35 16 0.41
36 21 0.54
37 1 0.03
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (35 bp):
TCACTATCACATGGCATGAAAACATACCCACATAT
Found at i:20638297 original size:20 final size:19
Alignment explanation
Indices: 20638276--20638331 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
20638266 TTAAAATGAT
20638276 TTTAAACATGTCAAAATAA
1 TTTAAACATGTCAAAATAA
* * *
20638295 TTTGAACTAAGTCAAAATCA
1 TTTAAAC-ATGTCAAAATAA
*
20638315 TTTCAACACT-TCAAAAT
1 TTTAAACA-TGTCAAAAT
20638332 GTTTTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (19 bp):
TTTAAACATGTCAAAATAA
Found at i:20639364 original size:50 final size:51
Alignment explanation
Indices: 20639309--20639445 Score: 161
Period size: 50 Copynumber: 2.7 Consensus size: 51
20639299 GTGATGTTCC
*
20639309 ATCTATCAAGCTTTGAGTTTATGTTA-CATATCAAGCTTTAAGCCAGT-GTT
1 ATCTATCAAGCTTTGAGTTGATGTTATC-TATCAAGCTTTAAGCCAGTAGTT
* * * * * * *
20639359 ATCTATTAGGCTTTGAGTCGGTGTTATCTATCAAGCTTTGAGCTAGTATTT
1 ATCTATCAAGCTTTGAGTTGATGTTATCTATCAAGCTTTAAGCCAGTAGTT
* *
20639410 ATCTAGCAAGCTTTGAGCTGATGTTATCTATCAAGC
1 ATCTATCAAGCTTTGAGTTGATGTTATCTATCAAGC
20639446 CTTGAGTCGA
Statistics
Matches: 71, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
50 38 0.54
51 33 0.46
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (51 bp):
ATCTATCAAGCTTTGAGTTGATGTTATCTATCAAGCTTTAAGCCAGTAGTT
Found at i:20639396 original size:25 final size:25
Alignment explanation
Indices: 20639309--20639463 Score: 138
Period size: 25 Copynumber: 6.2 Consensus size: 25
20639299 GTGATGTTCC
**
20639309 ATCTATCAAGCTTTGAGTTTATGTT
1 ATCTATCAAGCTTTGAGTCGATGTT
* *
20639334 A-CATATCAAGCTTTAAG-CCAGTGTT
1 ATC-TATCAAGCTTTGAGTCGA-TGTT
* * *
20639359 ATCTATTAGGCTTTGAGTCGGTGTT
1 ATCTATCAAGCTTTGAGTCGATGTT
*
20639384 ATCTATCAAGCTTTGAGCTAGTAT-TT
1 ATCTATCAAGCTTTGAG-TCG-ATGTT
*
20639410 ATCTAGCAAGCTTTGAG-CTGATGTT
1 ATCTATCAAGCTTTGAGTC-GATGTT
* *
20639435 ATCTATCAAGCCTTGAGTCGATGCT
1 ATCTATCAAGCTTTGAGTCGATGTT
20639460 ATCT
1 ATCT
20639464 CATGCTTTGA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
24 4 0.04
25 76 0.73
26 23 0.22
27 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (25 bp):
ATCTATCAAGCTTTGAGTCGATGTT
Found at i:20639419 original size:26 final size:25
Alignment explanation
Indices: 20639300--20639475 Score: 132
Period size: 25 Copynumber: 7.0 Consensus size: 25
20639290 AAGTTAACAG
*
20639300 TGATGTTCCATCTATCAAGCTTTGAGT
1 TGATGTT--ATCTATCAAGCTTTGAGC
* *
20639327 TTATGTTA-CATATCAAGCTTTAAGC
1 TGATGTTATC-TATCAAGCTTTGAGC
* * *
20639352 -CAGTGTTATCTATTAGGCTTTGAG-
1 TGA-TGTTATCTATCAAGCTTTGAGC
*
20639376 TCGGTGTTATCTATCAAGCTTTGAGC
1 T-GATGTTATCTATCAAGCTTTGAGC
*
20639402 TAGTAT-TTATCTAGCAAGCTTTGAGC
1 T-G-ATGTTATCTATCAAGCTTTGAGC
*
20639428 TGATGTTATCTATCAAGCCTTGAG-
1 TGATGTTATCTATCAAGCTTTGAGC
* *
20639452 TCGATGCTATC--TCATGCTTTGAGC
1 T-GATGTTATCTATCAAGCTTTGAGC
20639476 CAGTATTTAT
Statistics
Matches: 120, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
23 10 0.08
24 5 0.04
25 75 0.62
26 23 0.19
27 7 0.06
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (25 bp):
TGATGTTATCTATCAAGCTTTGAGC
Found at i:20639435 original size:51 final size:49
Alignment explanation
Indices: 20639309--20639451 Score: 153
Period size: 51 Copynumber: 2.8 Consensus size: 49
20639299 GTGATGTTCC
* *
20639309 ATCTATCAAGCTTTGAGTTTATGTTA-CATATCAAGCTTTAAGCCAGTGTT
1 ATCTATCAAGCTTTGAG-TGATGTTATC-TATCAAGCTTTGAGCCAGTGTT
* * * * *
20639359 ATCTATTAGGCTTTGAGTCGGTGTTATCTATCAAGCTTTGAGCTAGTATTT
1 ATCTATCAAGCTTTGAGT-GATGTTATCTATCAAGCTTTGAGCCAGT-GTT
* *
20639410 ATCTAGCAAGCTTTGAGCTGATGTTATCTATCAAGCCTTGAG
1 ATCTATCAAGCTTTGAG-TGATGTTATCTATCAAGCTTTGAG
20639452 TCGATGCTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 37 0.48
51 38 0.49
52 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (49 bp):
ATCTATCAAGCTTTGAGTGATGTTATCTATCAAGCTTTGAGCCAGTGTT
Found at i:20639439 original size:76 final size:76
Alignment explanation
Indices: 20639309--20639491 Score: 189
Period size: 76 Copynumber: 2.4 Consensus size: 76
20639299 GTGATGTTCC
* * * * *
20639309 ATCTATCAAGCTTTGAG-T-TTATGTTA-CATATCAAGCTTTAAGCCAGTGTTATCTATTAGGCT
1 ATCTATCAAGCTTTGAGCTAGTAT-TTATC-TAGCAAGCTTTAAGCCAGTGTTATCTATCAAGCC
* *
20639371 TTGAGTCGGTGTT
64 TTGAGTCGATGCT
* *
20639384 ATCTATCAAGCTTTGAGCTAGTATTTATCTAGCAAGCTTTGAG-CTGATGTTATCTATCAAGCCT
1 ATCTATCAAGCTTTGAGCTAGTATTTATCTAGCAAGCTTTAAGCCAG-TGTTATCTATCAAGCCT
20639448 TGAGTCGATGCT
65 TGAGTCGATGCT
* * *
20639460 ATC--TCATGCTTTGAGCCAGTATTTATTTAGCA
1 ATCTATCAAGCTTTGAGCTAGTATTTATCTAGCA
20639492 GGTATCATGT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
74 26 0.28
75 19 0.21
76 43 0.47
77 4 0.04
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (76 bp):
ATCTATCAAGCTTTGAGCTAGTATTTATCTAGCAAGCTTTAAGCCAGTGTTATCTATCAAGCCTT
GAGTCGATGCT
Found at i:20640466 original size:21 final size:21
Alignment explanation
Indices: 20640436--20640485 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
20640426 TAAAATGTGA
20640436 TTTT-ATGCTTTATTATATAG
1 TTTTCATGCTTTATTATATAG
20640456 TTTTCATGCTTTATTATATAG
1 TTTTCATGCTTTATTATATAG
20640477 TTTTCATGC
1 TTTTCATGC
20640486 ATAAAATGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.58
Consensus pattern (21 bp):
TTTTCATGCTTTATTATATAG
Found at i:20651156 original size:21 final size:20
Alignment explanation
Indices: 20651119--20651181 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
20651109 GTAAGTTACA
* *
20651119 TGGGTGAGCACATGGGCATG
1 TGGGTTAGCACACGGGCATG
20651139 TGGGTTAGTCACACGGGCATG
1 TGGGTTAG-CACACGGGCATG
* *
20651160 TGGGATAGCCACACGGTCATG
1 TGGGTTAG-CACACGGGCATG
20651181 T
1 T
20651182 TTGGAGCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (20 bp):
TGGGTTAGCACACGGGCATG
Found at i:20663900 original size:902 final size:902
Alignment explanation
Indices: 20662157--20664865 Score: 5373
Period size: 902 Copynumber: 3.0 Consensus size: 902
20662147 TGTTGGCAAT
*
20662157 GGTTTTAACTCCAAGATGGTAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
1 GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
20662222 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
66 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
20662287 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
131 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
20662352 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
196 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
20662417 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
261 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
*
20662482 CTTTGAACACGTCGACAACTGTTCGTCCCGTTATTAGAAATGGCCTCCCAAGAATTATGGGTACC
326 CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAAGAATTATGGGTACC
20662547 TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
391 TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
20662612 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
456 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
20662677 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
521 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
20662742 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
586 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
20662807 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
651 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
20662872 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
716 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
20662937 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
781 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
20663002 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
846 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
20663059 GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
1 GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
20663124 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
66 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
20663189 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
131 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
20663254 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
196 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
20663319 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
261 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
20663384 CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAAGAATTATGGGTACC
326 CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAAGAATTATGGGTACC
*
20663449 TCCTTATCTGCTTCGCAGTCTAAGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
391 TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
20663514 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
456 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
20663579 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
521 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
20663644 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
586 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
20663709 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
651 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
20663774 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
716 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
20663839 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
781 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
20663904 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
846 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
20663961 GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
1 GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
20664026 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
66 CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
20664091 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
131 CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
20664156 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
196 GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
20664221 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
261 GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
*
20664286 CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAACAATTATGGGTACC
326 CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAAGAATTATGGGTACC
20664351 TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
391 TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
20664416 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
456 AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
20664481 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
521 TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
20664546 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
586 GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
*
20664611 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCTGTCTGAGCG
651 GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
20664676 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
716 CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
20664741 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
781 TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
20664806 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
846 AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
20664863 GGT
1 GGT
20664866 ATGGTCGCAG
Statistics
Matches: 1801, Mismatches: 6, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
902 1801 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (902 bp):
GGTTTTAACTCCAAGATGGGAGCTTGTTCGACAGATGGTTTAAACACCGAGATTGTCCTGTTAGA
CAAATCCAAAGACTCCATCTGCCAATTCTAACGCAGCTCACAATTGTTAACCTCCTCTTTGTCGA
CACAGTCATCTAGAATGTCATTGGTAAATGTTACCGCATCATCATCAAACAGTGCTGAACTTCTT
GTATTAAATTCTTCCAGAATAATCTCATCCAACAGATCAATGTGGTGACATTGTTCATTGGATCC
GAACGGTGATGCTTCAAACACACTGAAGGTTACTTGGTCATAATTATGATGCATAACAAGTTCTC
CTTTGAACACGTCGACAACTGTTCGTCCCGTTACTAGAAATGGCCTCCCAAGAATTATGGGTACC
TCCTTATCTGCTTCGCAGTCTAGGATGATAAAATCAGCAGGGAACACCAACCTATCAACTTGAAC
AAGAACATCTTTGATTTGTCCTTTCAGTTATGCTAAAGATCTATCTGCCAGTTGCAATGTCCCCA
TAGTGGGCTTCATCGAACCTATTCCTAATTTCTTAAAAGTGGACAAAGGCATCAGGTTAATACTT
GCTTCTAAATCACATAAAGCCTTACCTAAATAATGATTCCCGATGGAGCATGGGATAGTGAAGCT
GCCAGGATCTTTCATCTTGGTTGGTAACTTATTTGTAAGCACAGCGTTGCACCCCCGTCTGAGCG
CAATCGTCTCGATGTTGGACAATTTTTTTTCTTTGATAACAACTCCTTCATGTATTTCCCATAAC
TAGGTATCTACACAAGAGCATCTATTAGAGGTATATTAATGTGCAATTGTTTCAAAGCAGAAACA
AACTTTTGATATTCTTTATCATGGATTCTCTCTTTTAATCATTGCGAAAATAGTAGA
Found at i:20672352 original size:24 final size:23
Alignment explanation
Indices: 20672324--20672368 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
20672314 AAGTAAAATA
20672324 AATAAATAAAAGAAAAATTAAAAC
1 AATAAATAAAAG-AAAATTAAAAC
*
20672348 AATAAATAAATGAAAATTAAA
1 AATAAATAAAAGAAAATTAAA
20672369 TAAAAGGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (23 bp):
AATAAATAAAAGAAAATTAAAAC
Found at i:20672442 original size:19 final size:19
Alignment explanation
Indices: 20672411--20672467 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
20672401 GCATGAAAGA
*
20672411 AAAT-AACAATAAATAAAT
1 AAATAAACACTAAATAAAT
20672429 AAATAAACACTAAAATAAA-
1 AAATAAACACT-AAATAAAT
*
20672448 AAATAAATAC-AAA-AAAT
1 AAATAAACACTAAATAAAT
20672465 AAA
1 AAA
20672468 AATAACAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 4 0.12
19 14 0.41
20 7 0.21
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATAAACACTAAATAAAT
Found at i:20672753 original size:7 final size:6
Alignment explanation
Indices: 20672732--20672768 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
20672722 ACTGTAAAGT
20672732 AATTAA AATTAA AATATAA AATTAA AA-T-A AATTAA AA
1 AATTAA AATTAA AAT-TAA AATTAA AATTAA AATTAA AA
20672769 AATAAAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 2 0.07
6 17 0.61
7 6 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AATTAA
Found at i:20672753 original size:13 final size:13
Alignment explanation
Indices: 20672735--20672760 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20672725 GTAAAGTAAT
20672735 TAAAATTAAAATA
1 TAAAATTAAAATA
20672748 TAAAATTAAAATA
1 TAAAATTAAAATA
20672761 AATTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAATTAAAATA
Found at i:20674224 original size:99 final size:100
Alignment explanation
Indices: 20674043--20674561 Score: 646
Period size: 98 Copynumber: 5.2 Consensus size: 100
20674033 TGCCCCATTT
* * *
20674043 CAACTTCAAGGAG-ATAGTATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATT
1 CAACTTTAAGG-GTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATT
20674107 GA-ATTCTGCTACTGTTAGTTTT-ATCCG-TCCCTCTA
65 GAGA-TCTGCTACTGTTAGTTTTAATCCGAT-CCTCTA
* * *
20674142 CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTACTACTTCAGTAGAGATTG
1 CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * * *
20674207 AGATATGTTACTATTAGTTTTAATCCGAT-CT-TG
66 AGATCTGCTACTGTTAGTTTTAATCCGATCCTCTA
* * *
20674240 CAACTTCAAGGCTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAATGGAGATTG
1 CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* *
20674305 AGATCTGCTACTGTTAGTTTTAATCTG-CCTCTCTA
66 AGATCTGCTACTGTTAGTTTTAATCCGATC-CTCTA
*
20674340 CAAGTTT-AGGGTATAGGATTTGGTGTGGCTTCACTCCATT-CACTGCAACTTCAGTGGAGATTG
1 CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * *
20674403 AGATCTACTACTGTTAGTTTTAATCAGATCCACTA
66 AGATCTGCTACTGTTAGTTTTAATCCGATCCTCTA
* * *
20674438 CAACTTT-AGGGATATAGGATTTGGTATGGCTTCACTCCATTCCAATGCAACTTCAGTAGAGATT
1 CAACTTTAAGGG-TATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATT
* * * * *
20674502 GAGATATGCTGCTGTTAATTTTAATCTGATCCACTA
65 GAGATCTGCTACTGTTAGTTTTAATCCGATCCTCTA
* *
20674538 C-ATTTTGAGGGATATAGGATTTGG
1 CAACTTTAAGGG-TATAGGATTTGG
20674562 ATTTGATCTA
Statistics
Matches: 369, Mismatches: 40, Indels: 21
0.86 0.09 0.05
Matches are distributed among these distances:
98 145 0.39
99 142 0.38
100 81 0.22
101 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (100 bp):
CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
AGATCTGCTACTGTTAGTTTTAATCCGATCCTCTA
Found at i:20674293 original size:98 final size:99
Alignment explanation
Indices: 20674043--20674561 Score: 618
Period size: 99 Copynumber: 5.2 Consensus size: 99
20674033 TGCCCCATTT
* * *
20674043 CAACTTCAAGGAGATAGTATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
20674108 A-ATTCTGCTACTGTTAGTTTT-ATCCG-TCCCTCTA
66 AGA-TCTGCTACTGTTAGTTTTAATCCGAT--CTCTA
* * * * *
20674142 CAACTTTAAGGGTATAGGATTTGGTGTGGCTTCACTCCATTCCACTACTACTTCAGTAGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * * *
20674207 AGATATGTTACTATTAGTTTTAATCCGATCT-TG
66 AGATCTGCTACTGTTAGTTTTAATCCGATCTCTA
* *
20674240 CAACTTCAAGGCTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAATGGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* *
20674305 AGATCTGCTACTGTTAGTTTTAATCTGCCTCTCTA
66 AGATCTGCTACTGTTAGTTTTAATCCG-ATCTCTA
* * *
20674340 CAAGTT-TAGGGTATAGGATTTGGTGTGGCTTCACTCCATT-CACTGCAACTTCAGTGGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * *
20674403 AGATCTACTACTGTTAGTTTTAATCAGATCCACTA
66 AGATCTGCTACTGTTAGTTTTAATCCGAT-CTCTA
* * * * *
20674438 CAACTTTAGGGATATAGGATTTGGTATGGCTTCACTCCATTCCAATGCAACTTCAGTAGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * * * *
20674503 AGATATGCTGCTGTTAATTTTAATCTGATCCACTA
66 AGATCTGCTACTGTTAGTTTTAATCCGAT-CTCTA
** * *
20674538 CATTTTGAGGGATATAGGATTTGG
1 CAACTTCAAGGATATAGGATTTGG
20674562 ATTTGATCTA
Statistics
Matches: 365, Mismatches: 47, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
97 1 0.00
98 139 0.38
99 140 0.38
100 84 0.23
101 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (99 bp):
CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
AGATCTGCTACTGTTAGTTTTAATCCGATCTCTA
Found at i:20674378 original size:197 final size:199
Alignment explanation
Indices: 20674043--20674561 Score: 685
Period size: 197 Copynumber: 2.6 Consensus size: 199
20674033 TGCCCCATTT
* * *
20674043 CAACTTCAAGGAGATAGTATTTGGTGTGACTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
*
20674108 A-ATTCTGCTACTGTTAGTTTT-ATCCGTCCCTCTACAACTTTAAGGGTATAGGATTTGGTGTGG
66 AGA-TCTGCTACTGTTAGTTTTAATCTGTCCCTCTACAACTTTAAGGGTATAGGATTTGGTGTGG
* ** *
20674171 CTTCACTCCATTCCACTACTACTTCAGTAGAGATTGAGATATGTTACTATTAGTTTTAATCCGAT
130 CTTCACTCCATT-CACTACAACTTCAGTAGAGATTGAGATATACTACTATTAGTTTTAATCAGAT
* *
20674236 -C-TTG
194 CCACTA
* *
20674240 CAACTTCAAGGCTATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAATGGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
*
20674305 AGATCTGCTACTGTTAGTTTTAATCTG-CCTCTCTACAAGTTT-AGGGTATAGGATTTGGTGTGG
66 AGATCTGCTACTGTTAGTTTTAATCTGTCC-CTCTACAACTTTAAGGGTATAGGATTTGGTGTGG
* * * *
20674368 CTTCACTCCATTCACTGCAACTTCAGTGGAGATTGAGATCTACTACTGTTAGTTTTAATCAGATC
130 CTTCACTCCATTCACTACAACTTCAGTAGAGATTGAGATATACTACTATTAGTTTTAATCAGATC
20674433 CACTA
195 CACTA
* * * * *
20674438 CAACTTTAGGGATATAGGATTTGGTATGGCTTCACTCCATTCCAATGCAACTTCAGTAGAGATTG
1 CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
* * * * * *
20674503 AGATATGCTGCTGTTAATTTTAATCTGAT-CCACTAC-ATTTTGAGGGATATAGGATTTGG
66 AGATCTGCTACTGTTAGTTTTAATCTG-TCCCTCTACAACTTTAAGGG-TATAGGATTTGG
20674562 ATTTGATCTA
Statistics
Matches: 284, Mismatches: 29, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
196 44 0.15
197 119 0.42
198 108 0.38
199 13 0.05
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (199 bp):
CAACTTCAAGGATATAGGATTTGGTGTGGCTTCACTCCATTCCACTGCAACTTCAGTGGAGATTG
AGATCTGCTACTGTTAGTTTTAATCTGTCCCTCTACAACTTTAAGGGTATAGGATTTGGTGTGGC
TTCACTCCATTCACTACAACTTCAGTAGAGATTGAGATATACTACTATTAGTTTTAATCAGATCC
ACTA
Found at i:20675160 original size:21 final size:20
Alignment explanation
Indices: 20675118--20675173 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
20675108 AACAATGGCC
*
20675118 AAAAATTGCAAACATTGGTA
1 AAAAATGGCAAACATTGGTA
* *
20675138 AAAAATGGCAAATATTGGTT
1 AAAAATGGCAAACATTGGTA
*
20675158 AAAAATAGCAAACATT
1 AAAAATGGCAAACATT
20675174 AATCAAGTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (20 bp):
AAAAATGGCAAACATTGGTA
Found at i:20675483 original size:5 final size:5
Alignment explanation
Indices: 20675468--20675553 Score: 87
Period size: 5 Copynumber: 18.0 Consensus size: 5
20675458 TCGGCCTCTC
*
20675468 CTTTT CTTTTT CTTTT -TTTT -TTTT C-TTT -TTTC CTTTT CTTTT C--TT
1 CTTTT C-TTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
20675513 CTTTT CTTTT CTTTT CTTTT CTTTT CCTTTCT CTTTT -TTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT -CTTT-T CTTTT CTTTT
20675554 GGGTAAAATT
Statistics
Matches: 71, Mismatches: 2, Indels: 17
0.79 0.02 0.19
Matches are distributed among these distances:
3 3 0.04
4 17 0.24
5 37 0.52
6 13 0.18
7 1 0.01
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:20675490 original size:13 final size:13
Alignment explanation
Indices: 20675469--20675537 Score: 75
Period size: 13 Copynumber: 5.2 Consensus size: 13
20675459 CGGCCTCTCC
*
20675469 TTTTCTTTTTCTT
1 TTTTTTTTTTCTT
20675482 TTTTTTTTTTCTT
1 TTTTTTTTTTCTT
**
20675495 TTTTCCTTTTCTT
1 TTTTTTTTTTCTT
* *
20675508 TTCTTCTTTTCTT
1 TTTTTTTTTTCTT
20675521 TTCTTTTCTTTTCTT
1 TT-TTTT-TTTTCTT
20675536 TT
1 TT
20675538 CCTTTCTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
13 36 0.77
14 2 0.04
15 9 0.19
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:20675498 original size:15 final size:16
Alignment explanation
Indices: 20675469--20675553 Score: 84
Period size: 18 Copynumber: 5.1 Consensus size: 16
20675459 CGGCCTCTCC
*
20675469 TTTTCTTTT-TCTTTT
1 TTTTCTTTTCTTTTTT
20675484 TTTT-TTTTCTTTTTT
1 TTTTCTTTTCTTTTTT
20675499 CCTTTTCTTTTCTTCTTTT
1 --TTTTCTTTTCTT-TTTT
*
20675518 CTTTTCTTTTCTTTTCT
1 -TTTTCTTTTCTTTTTT
*
20675535 TTTCCTTTCTCTTTTTT
1 TTTTCTTT-TCTTTTTT
20675552 TT
1 TT
20675554 GGGTAAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.07
15 9 0.15
16 7 0.12
17 16 0.27
18 20 0.33
19 4 0.07
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTT
Found at i:20681460 original size:17 final size:17
Alignment explanation
Indices: 20681438--20681511 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
20681428 ATGAAAGGGC
* *
20681438 AAATAATTAAGTAAAAT
1 AAATAAATAAATAAAAT
*
20681455 AAATAAATAAATAAATT
1 AAATAAATAAATAAAAT
* *
20681472 AAA-ACA-AATTAAAA-
1 AAATAAATAAATAAAAT
*
20681486 CAATAAATAAATTAAAATT
1 AAATAAATAAA-TAAAA-T
20681505 AAATAAA
1 AAATAAA
20681512 AGGCAAAAAG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
14 2 0.05
15 8 0.19
16 4 0.10
17 22 0.52
19 6 0.14
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.26
Consensus pattern (17 bp):
AAATAAATAAATAAAAT
Found at i:20681511 original size:27 final size:25
Alignment explanation
Indices: 20681451--20681512 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 25
20681441 TAATTAAGTA
20681451 AAATAAATAAATAAATAAATTAAAAC
1 AAATAAA-AAATAAATAAATTAAAAC
*
20681477 AAATTAAAACAATAAATAAATTAAAATT
1 AAA-TAAAA-AATAAATAAATTAAAA-C
20681505 AAATAAAA
1 AAATAAAA
20681513 GGCAAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.12
27 25 0.78
28 3 0.09
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (25 bp):
AAATAAAAAATAAATAAATTAAAAC
Found at i:20681912 original size:13 final size:12
Alignment explanation
Indices: 20681894--20681934 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
20681884 GTAAAGTAAT
20681894 TAAAATTAAAAGA
1 TAAAATTAAAA-A
20681907 TAAAATT-AAAA
1 TAAAATTAAAAA
*
20681918 TAAATTTAAAAA
1 TAAAATTAAAAA
20681930 TAAAA
1 TAAAA
20681935 AAGGATGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 7 0.28
12 11 0.44
13 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:20681969 original size:32 final size:33
Alignment explanation
Indices: 20681901--20681962 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
20681891 AATTAAAATT
*
20681901 AAAA-GATAAAATTAAAATAAATTTAAAAATAA
1 AAAAGGATAAAATTAAAACAAATTTAAAAATAA
20681933 AAAAGGATGAAAA-TAAAACAAA-TTAAAAAT
1 AAAAGGAT-AAAATTAAAACAAATTTAAAAAT
20681963 GCAAAAGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 12 0.44
33 11 0.41
34 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (33 bp):
AAAAGGATAAAATTAAAACAAATTTAAAAATAA
Found at i:20682912 original size:18 final size:18
Alignment explanation
Indices: 20682889--20682932 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
20682879 CTTTGGACTT
*
20682889 TTTATTTTAATGGGTTTA
1 TTTATTTTAATAGGTTTA
*
20682907 TTTATTTTTACTAGGTTTA
1 TTTA-TTTTAATAGGTTTA
20682926 TTTATTT
1 TTTATTT
20682933 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.66
Consensus pattern (18 bp):
TTTATTTTAATAGGTTTA
Found at i:20682944 original size:19 final size:21
Alignment explanation
Indices: 20682903--20682945 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
20682893 TTTTAATGGG
20682903 TTTATTTATTTTTACTAGGTTTA
1 TTTATTTATTTTTA-TA-GTTTA
20682926 TTTATTTATTTTT-TA-TTTA
1 TTTATTTATTTTTATAGTTTA
20682945 T
1 T
20682946 AAATAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 5 0.25
21 2 0.10
23 13 0.65
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTATTTTTATAGTTTA
Found at i:20687713 original size:9 final size:8
Alignment explanation
Indices: 20687678--20687709 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
20687668 TCGGAATGAA
20687678 GAGAGAATT
1 GAGAGAA-T
20687687 GAGAGAAT
1 GAGAGAAT
20687695 GAGAGAAT
1 GAGAGAAT
20687703 GAGAGAA
1 GAGAGAA
20687710 ATGATGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.50, C:0.00, G:0.38, T:0.12
Consensus pattern (8 bp):
GAGAGAAT
Found at i:20695866 original size:24 final size:25
Alignment explanation
Indices: 20695839--20695885 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
20695829 ATTATTTCAT
20695839 TAATAAATTGG-TTAATTAAATTTG
1 TAATAAATTGGATTAATTAAATTTG
* *
20695863 TAATTAATTGGATTAATTTAATT
1 TAATAAATTGGATTAATTAAATT
20695886 AATTTAACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (25 bp):
TAATAAATTGGATTAATTAAATTTG
Found at i:20703428 original size:14 final size:14
Alignment explanation
Indices: 20703409--20703436 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20703399 CAAAATGGTT
20703409 GTTAGATAGTGTTC
1 GTTAGATAGTGTTC
20703423 GTTAGATAGTGTTC
1 GTTAGATAGTGTTC
20703437 TAAGTCTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.29, T:0.43
Consensus pattern (14 bp):
GTTAGATAGTGTTC
Found at i:20703804 original size:21 final size:21
Alignment explanation
Indices: 20703778--20703819 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20703768 ATTGAACCTT
20703778 TTCGAATAACATCGGATACTA
1 TTCGAATAACATCGGATACTA
20703799 TTCGAATAACATCGGATACTA
1 TTCGAATAACATCGGATACTA
20703820 GGAATACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
TTCGAATAACATCGGATACTA
Found at i:20711119 original size:17 final size:17
Alignment explanation
Indices: 20711089--20711197 Score: 110
Period size: 17 Copynumber: 6.4 Consensus size: 17
20711079 TGGATTATTC
*
20711089 TTTAAATTTTAATTTAT
1 TTTAAATTTAAATTTAT
*
20711106 TTTAAGTTTAAATTTAT
1 TTTAAATTTAAATTTAT
* *
20711123 TTTAAATTTAAACTTAC
1 TTTAAATTTAAATTTAT
***
20711140 TTTGCGTTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
20711157 CTTAAAATTTAAATTTAT
1 -TTTAAATTTAAATTTAT
* * *
20711175 TTTGAATTAAAATTTAA
1 TTTAAATTTAAATTTAT
20711192 TTTAAA
1 TTTAAA
20711198 AAAAAGTCCA
Statistics
Matches: 72, Mismatches: 19, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
17 59 0.82
18 13 0.18
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:20713064 original size:29 final size:29
Alignment explanation
Indices: 20713019--20713234 Score: 127
Period size: 29 Copynumber: 7.7 Consensus size: 29
20713009 CCCTGAAGGT
* *
20713019 CCCT-AAACTGTCCAAAAATTATATTTTGA
1 CCCTCAAACT-TCTAAAAATTACATTTTGA
*
20713048 CCCTCAAACTTCTAAAAAATCTA-TTTTTGA
1 CCCTCAAACTTCT-AAAAAT-TACATTTTGA
* * *
20713078 CTCTGAAACTTCTAAAAATTACATTTTTA
1 CCCTCAAACTTCTAAAAATTACATTTTGA
* *
20713107 CCCCCAAACTTC-CAAAATTACA-TTT--
1 CCCTCAAACTTCTAAAAATTACATTTTGA
* *
20713132 ---T-AAAC-CCTAAAAATTACATTTTTA
1 CCCTCAAACTTCTAAAAATTACATTTTGA
* *
20713156 CCCCT-AAACTTCTAAAAATTCCATTATTAA
1 -CCCTCAAACTTCTAAAAATTACATT-TTGA
*
20713186 CCCTAAAACTTAC-AAAAATTACCATTTT-A
1 CCCTCAAACTT-CTAAAAATTA-CATTTTGA
* * *
20713215 CCCCCGAACTTCCAAAAATT
1 CCCTCAAACTTCTAAAAATT
20713235 CCGTTTTTGA
Statistics
Matches: 149, Mismatches: 20, Indels: 36
0.73 0.10 0.18
Matches are distributed among these distances:
20 1 0.01
21 13 0.09
22 3 0.02
27 3 0.02
28 17 0.11
29 59 0.40
30 46 0.31
31 7 0.05
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.33
Consensus pattern (29 bp):
CCCTCAAACTTCTAAAAATTACATTTTGA
Found at i:20713160 original size:21 final size:21
Alignment explanation
Indices: 20713120--20713163 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
20713110 CCAAACTTCC
20713120 AAAATTACATTTTAAACCCTA
1 AAAATTACATTTTAAACCCTA
* *
20713141 AAAATTACATTTTTACCCCTA
1 AAAATTACATTTTAAACCCTA
20713162 AA
1 AA
20713164 CTTCTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.45, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAATTACATTTTAAACCCTA
Found at i:20713165 original size:49 final size:50
Alignment explanation
Indices: 20713089--20713199 Score: 163
Period size: 49 Copynumber: 2.2 Consensus size: 50
20713079 TCTGAAACTT
*
20713089 CTAAAAATTACATTTTTACCCCCAAACTTC-CAAAATTACATT-TTAAACC
1 CTAAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACATTATT-AACC
* *
20713138 CTAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTCCATTATTAACC
1 CTAAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACATTATTAACC
*
20713188 CTAAAACTTACA
1 CTAAAAATTACA
20713200 AAAATTACCA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
49 29 0.52
50 25 0.45
51 2 0.04
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (50 bp):
CTAAAAATTACATTTTTACCCCCAAACTTCTAAAAATTACATTATTAACC
Found at i:20713195 original size:108 final size:108
Alignment explanation
Indices: 20713032--20713231 Score: 271
Period size: 108 Copynumber: 1.9 Consensus size: 108
20713022 TAAACTGTCC
* * * * * *
20713032 AAAAATTATATTTTGACCCTCAAACTTCTAAAAAATCTATTTTTGACTCTGAAACTT-CTAAAAA
1 AAAAATTACATTTTGACCCTCAAACTTCTAAAAAATCCATTATTAACCCTAAAACTTAC-AAAAA
20713096 TTA-CATTTTTACCCCCAAACTTCCAAAATTACATTTTAAACCCT
65 TTACCA-TTTTACCCCCAAACTTCCAAAATTACATTTTAAACCCT
* *
20713140 AAAAATTACATTTTTACCC-CTAAACTTCTAAAAATTCCATTATTAACCCTAAAACTTACAAAAA
1 AAAAATTACATTTTGACCCTC-AAACTTCTAAAAAATCCATTATTAACCCTAAAACTTACAAAAA
*
20713204 TTACCATTTTACCCCCGAACTTCCAAAA
65 TTACCATTTTACCCCCAAACTTCCAAAA
20713232 ATTCCGTTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
107 1 0.01
108 76 0.95
109 3 0.04
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.34
Consensus pattern (108 bp):
AAAAATTACATTTTGACCCTCAAACTTCTAAAAAATCCATTATTAACCCTAAAACTTACAAAAAT
TACCATTTTACCCCCAAACTTCCAAAATTACATTTTAAACCCT
Found at i:20730104 original size:16 final size:17
Alignment explanation
Indices: 20730083--20730114 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20730073 AGTTAGCATT
20730083 CTTGCA-TTTTATTGTG
1 CTTGCATTTTTATTGTG
20730099 CTTGCATTTTTATTGT
1 CTTGCATTTTTATTGT
20730115 CACTAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (17 bp):
CTTGCATTTTTATTGTG
Found at i:20735900 original size:30 final size:31
Alignment explanation
Indices: 20735831--20735903 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
20735821 CTGGTCCAGT
*
20735831 TTGGTACTTAAACTTGACACTTTTTTCTAAT
1 TTGGTACTTAAACTTGACACTTTTTTCTAAG
*
20735862 TTGATACTTAAACTTGACACTTTTTT-TAAG
1 TTGGTACTTAAACTTGACACTTTTTTCTAAG
20735892 TTGGTACTTAAA
1 TTGGTACTTAAA
20735904 TTTTTTTGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 14 0.36
31 25 0.64
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.47
Consensus pattern (31 bp):
TTGGTACTTAAACTTGACACTTTTTTCTAAG
Found at i:20735936 original size:89 final size:92
Alignment explanation
Indices: 20735768--20735953 Score: 218
Period size: 89 Copynumber: 2.1 Consensus size: 92
20735758 TTAATATAAC
* * * * * *
20735768 ATTTGGTACTTGAATTTGACATTTTTTTTCTAATTTCGTACCTAAACTTTTTTCTGGTCCAGTTT
1 ATTTGATACTTAAACTTGACATCTTTTTTCTAAGTTCGTACCTAAACTTTTTTCTGGTCCAATTT
*
20735833 GGTACTTAAACTTGACACTTTTTTCTA
66 GGTACTTAAACTTGACACTTTTTCCTA
* * *
20735860 ATTTGATACTTAAACTTGACA-CTTTTTT-TAAGTTGGTACTTAAA-TTTTTT-TGGGTTCAATT
1 ATTTGATACTTAAACTTGACATCTTTTTTCTAAGTTCGTACCTAAACTTTTTTCT-GGTCCAATT
* *
20735921 TGGTACTTGAACTTGACTCTTTTTCCTA
65 TGGTACTTAAACTTGACACTTTTTCCTA
*
20735949 CTTTG
1 ATTTG
20735954 GTACCTTATC
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
88 1 0.01
89 42 0.52
90 13 0.16
91 6 0.08
92 18 0.22
ACGTcount: A:0.22, C:0.15, G:0.13, T:0.50
Consensus pattern (92 bp):
ATTTGATACTTAAACTTGACATCTTTTTTCTAAGTTCGTACCTAAACTTTTTTCTGGTCCAATTT
GGTACTTAAACTTGACACTTTTTCCTA
Found at i:20736244 original size:62 final size:61
Alignment explanation
Indices: 20736129--20736281 Score: 202
Period size: 61 Copynumber: 2.5 Consensus size: 61
20736119 AATTTAATCT
* * * *
20736129 AAAAAAA-CTTAGGTACCAAATTAGG-AAAAAAATGCCATGTTCAAGTACCAAATTGGGTCC
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAAGTACCAAATTGGGT-A
* * * *
20736189 AAAAAAAGTTTAGGTACTAAATTAGGAAAAAAAATATCAAGTTCAGGTACTAAATTGGGTA
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAAGTACCAAATTGGGTA
*
20736250 AAAAAAAGTTTAGGTACCAAATTAAGAAAAAA
1 AAAAAAAGTTTAGGTACCAAATTAGGAAAAAA
20736282 TATTAAGTTT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
60 7 0.09
61 46 0.57
62 28 0.35
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.23
Consensus pattern (61 bp):
AAAAAAAGTTTAGGTACCAAATTAGGAAAAAAAATACCAAGTTCAAGTACCAAATTGGGTA
Found at i:20736280 original size:28 final size:28
Alignment explanation
Indices: 20736189--20736281 Score: 87
Period size: 28 Copynumber: 3.1 Consensus size: 28
20736179 AATTGGGTCC
*
20736189 AAAAAAAGTTTAGGTACTAAATTAGGAAAA
1 AAAAAAAGTTTAGGTACTAAATTA--AGAA
* ** *
20736219 AAAATATCAAGTTCAGGTACTAAATTGGGTA
1 AAAA-A--AAGTTTAGGTACTAAATTAAGAA
*
20736250 AAAAAAAGTTTAGGTACCAAATTAAGAA
1 AAAAAAAGTTTAGGTACTAAATTAAGAA
20736278 AAAA
1 AAAA
20736282 TATTAAGTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
28 22 0.44
30 5 0.10
31 6 0.12
33 17 0.34
ACGTcount: A:0.54, C:0.06, G:0.16, T:0.24
Consensus pattern (28 bp):
AAAAAAAGTTTAGGTACTAAATTAAGAA
Found at i:20741601 original size:55 final size:55
Alignment explanation
Indices: 20741533--20741636 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
20741523 TATTTCAACA
** * * *
20741533 TGACAATTTATTTAAATATATAAACAATCAATTCAAAAGAAGTAATATTATAACT
1 TGACAATCGATTTAAACATAAAAACAATCAATTCAAAAGAAGCAATATTATAACT
*
20741588 TGACAATCGATTTAAACATAAAAATAATCAATTCAAAAGAAGCAATATT
1 TGACAATCGATTTAAACATAAAAACAATCAATTCAAAAGAAGCAATATT
20741637 CCAGCATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.31
Consensus pattern (55 bp):
TGACAATCGATTTAAACATAAAAACAATCAATTCAAAAGAAGCAATATTATAACT
Found at i:20748103 original size:20 final size:20
Alignment explanation
Indices: 20748080--20748118 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
20748070 GACCATAGAT
20748080 TATTGACTGTTGACTTTTTC
1 TATTGACTGTTGACTTTTTC
*
20748100 TATTGATTGTTGACTTTTT
1 TATTGACTGTTGACTTTTT
20748119 TCGCTGTCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.15, T:0.59
Consensus pattern (20 bp):
TATTGACTGTTGACTTTTTC
Found at i:20759194 original size:12 final size:12
Alignment explanation
Indices: 20759177--20759208 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
20759167 CTTCCCTTAT
20759177 TTTTATTTTTTA
1 TTTTATTTTTTA
*
20759189 TTTTATTCTTTA
1 TTTTATTTTTTA
20759201 TTTTATTT
1 TTTTATTT
20759209 AATCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:20774282 original size:296 final size:296
Alignment explanation
Indices: 20773743--20774335 Score: 1080
Period size: 296 Copynumber: 2.0 Consensus size: 296
20773733 AAAGGGAAAA
* *
20773743 AGAAAGAAGAACAGACTAATGCGCCCACAGATCCACAAATATTAAGAAGACTGACTAGTTCGGAA
1 AGAAAGAAGAACAGACTAATGCACCCACAGATCCACAAATATTAAGAAGACTGACTAGTTCGAAA
*
20773808 ATCCATCTTGATTGTATTGATACGCGTACAATCTGCCTCATGAGTGTATTAGATGATTTGGATTA
66 ATCCATCTTGATCGTATTGATACGCGTACAATCTGCCTCATGAGTGTATTAGATGATTTGGATTA
*
20773873 CAAGCAGTATATATTTTATGCATACACAAAAGCCTGGAACGAAGCCATTATCTTTGCATTGCGTC
131 CAAGCAGTATATATTTTATGCATACACAAAAGCCTGAAACGAAGCCATTATCTTTGCATTGCGTC
*
20773938 ACATCAGCACATGGCCACTACTAGATTTTCCAACATTCCTTGATATCTTTTATCCTATGCACCAC
196 ACATCAGCACATGGCCACTACTAGATTTTCCAACATTCCTTGATATCTTCTATCCTATGCACCAC
*
20774003 TCCTCATCTGACCAGCCTACTATTGATGGTAGGCCT
261 TCCTCATCTGACCAGCCTACTACTGATGGTAGGCCT
*
20774039 AGAACGAAGAACAGACTAATGCACCCACAGATCCACAAATATTAAGAAGACTTG-CTAGTTCGAA
1 AGAAAGAAGAACAGACTAATGCACCCACAGATCCACAAATATTAAGAAGAC-TGACTAGTTCGAA
20774103 AATCCATCTTGATCGTATTGATACGCGTACAATCTGCCTCATGAGTGTATTAGATGATTTGGATT
65 AATCCATCTTGATCGTATTGATACGCGTACAATCTGCCTCATGAGTGTATTAGATGATTTGGATT
20774168 ACAAGCAGTATATATTTTATGCATACACAAAAGCCTGAAACGAAGCCATTATCTTTGCATTGCGT
130 ACAAGCAGTATATATTTTATGCATACACAAAAGCCTGAAACGAAGCCATTATCTTTGCATTGCGT
* *
20774233 CACATCAGCACCTGGCCACTACTAGATTTTCCAGCATTCCTTGATATCTTCTATCCTATGCACCA
195 CACATCAGCACATGGCCACTACTAGATTTTCCAACATTCCTTGATATCTTCTATCCTATGCACCA
*
20774298 CTCCTCATTTGACCAGCCTACTACTGATGGTAGGCCT
260 CTCCTCATCTGACCAGCCTACTACTGATGGTAGGCCT
20774335 A
1 A
20774336 CTCAAATGCC
Statistics
Matches: 286, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
296 284 0.99
297 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (296 bp):
AGAAAGAAGAACAGACTAATGCACCCACAGATCCACAAATATTAAGAAGACTGACTAGTTCGAAA
ATCCATCTTGATCGTATTGATACGCGTACAATCTGCCTCATGAGTGTATTAGATGATTTGGATTA
CAAGCAGTATATATTTTATGCATACACAAAAGCCTGAAACGAAGCCATTATCTTTGCATTGCGTC
ACATCAGCACATGGCCACTACTAGATTTTCCAACATTCCTTGATATCTTCTATCCTATGCACCAC
TCCTCATCTGACCAGCCTACTACTGATGGTAGGCCT
Found at i:20779080 original size:21 final size:19
Alignment explanation
Indices: 20779056--20779107 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
20779046 TCTAATTAGG
20779056 TTTTAAATTTTTAAGTTTTA
1 TTTTAAATTTTT-AGTTTTA
*
20779076 TTTTTACTATTTTTAGTTTTA
1 -TTTTA-AATTTTTAGTTTTA
*
20779097 ATTTAAATTTT
1 TTTTAAATTTT
20779108 AATTTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 5 0.19
20 4 0.15
21 12 0.44
22 6 0.22
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
TTTTAAATTTTTAGTTTTA
Found at i:20780648 original size:22 final size:23
Alignment explanation
Indices: 20780605--20780648 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
20780595 TTTTAGGTCC
*
20780605 TTAGGAATTTATTTCTTTCATAG
1 TTAGGAATTTATTTCTTGCATAG
*
20780628 TTAGGATTTTATTTC-TGCATA
1 TTAGGAATTTATTTCTTGCATA
20780649 ATAAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (23 bp):
TTAGGAATTTATTTCTTGCATAG
Done.