Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 63 of 343
Found at i:20365988 original size:88 final size:87
Alignment explanation
Indices: 20365871--20367652 Score: 1999
Period size: 88 Copynumber: 20.3 Consensus size: 87
20365861 CTTATCTCCT
* * * * *
20365871 TAAGCAGTAGAGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGAGC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20365936 AAAGACGATGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * ** * * * * **
20365959 TAAACAGTAGGGAAACAGTTTAAAGATTACAAACCTTATCTCCCTAAACAGTAGTGAAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20366024 GAAGACGGTGAGCCTTAACCCCT
65 GAAGACGGTGAGCCTTAACCCCC
* *
20366047 TAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20366112 GAACACGGTGAGCCTTAACCCCT
65 GAAGACGGTGAGCCTTAACCCCC
* * ** * *
20366135 TAAGTAGTAGGGTAACAGGCTGAATATTACATTTCTTATCTCCCTAAGCAGTAGCGGAACAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
20366200 AAACACGATGAACCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* *
20366223 TAAGCAGTAGGGTAACAGGCTCGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20366288 GAACACGATGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* *
20366311 TAAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20366376 AAAGACGGTGAGCCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
** ** ** * * * * **
20366399 TAAATAACAGGAAAATAGGCTGAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20366464 GAAGACGTTGATCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * *
20366487 TAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20366552 AAAGACGGTGAGCCTAAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
** * * * * * **
20366575 TAAATAGCAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAAACAATAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20366640 AAAGACGGTGAGCTTTATCCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * *
20366663 TAACCAGTAGGGTAACAGGATGAAAATTACAGATCTTATCTCCCTAAACAGTAGTAGAGTAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
20366728 GCAA-ACGGTGAGCCTTAA-CCCC
65 G-AAGACGGTGAGCCTTAACCCCC
* * * *
20366750 TAAGCAGTAGGGTAACAGGCTAAAAATTATAAATCTTATCTCCCTAAGTAGTAGTGGACCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20366815 GAACACAGTGAGCCTTAATCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * *
20366838 TGAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATTTCCCTAACCAGTAGTGGAGCGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * **
20366903 GAACACAGTGAGCCATAACCCTA
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * * **
20366926 TAAACAGTAGCGAAACAAGCTAAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20366991 GAAGACGGTGAGCTTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * *
20367014 TAAGCAGTAAGGTAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20367079 GAAGACGGTGAGTCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* *
20367102 TAAGCAGT-GGGTAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACGGATC
1 TAAGCAGTAGGGTAACAGGCTA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
20367166 GAAGATGGTGAGCCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
** * *
20367189 TAAATAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * ** *
20367254 AAACATAGTGAGCCTTAA-CCCT
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * *
20367276 TAAGTAGTAAGGTAACAGGCTGGAAATTATAGATCTTATCTCCTTAAGCTGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20367341 GAACACGGTGAGCCTTAACCTCCC
65 GAAGACGGTGAGCCTTAACC-CCC
* * *
20367365 TAAGCAATAGGGTAACAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATC
1 TAAGCAGTAGGGTAACAGGCTA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
20367430 GAAGACAGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * * ** *
20367453 TAAACAGTAGGGAAACAGACTGAAGATTACAGATCTTATCTTCCTAAACAGTAGTGGAGTGGATT
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
20367518 GAAGACGGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * *
20367541 TAAGCAAT-GGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAAGCAGTAGTGAAGGAGATC
1 TAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
20367605 GAACACGGTGAACCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
*
20367628 TAAGCAGTAGGGTAACAAGCTAAAA
1 TAAGCAGTAGGGTAACAGGCTAAAA
20367653 CACGGTGAGC
Statistics
Matches: 1439, Mismatches: 239, Indels: 32
0.84 0.14 0.02
Matches are distributed among these distances:
86 6 0.00
87 297 0.21
88 1051 0.73
89 85 0.06
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (87 bp):
TAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACGGTGAGCCTTAACCCCC
Found at i:20366097 original size:44 final size:44
Alignment explanation
Indices: 20366047--20366364 Score: 149
Period size: 44 Copynumber: 7.2 Consensus size: 44
20366037 CTTAACCCCT
*
20366047 TAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
* * * ** * * *
20366091 TAAGTAGTAGTGG-AGCA-GATCGAACACGGT-GAG-CCTTAAC-CCC
1 TAAGCAGTAG-GGTAACAGGCT-GAA-A-ATTACAGATCTTATCTCCC
* * **
20366134 TTAAGTAGTAGGGTAACAGGCTGAATATTACATTTCTTATCTCCC
1 -TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
* * * * * *
20366179 TAAGCAGTAGCGG-AACA-GAT-CAAA-CACGATGAACCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTGAAAATTAC-A-G-ATCTTATCTCCC
20366223 TAAGCAGTAGGGTAACAGGCTCG-AAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCT-GAAAATTACAGATCTTATCTCCC
** * * ** * * * *
20366267 TAAGCAGTAGTGG-AGTA-GATCGAACACGA-TGAGCCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCT-GAAAATTACAGA-TCTTATCTCCC
* *
20366311 TAAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
20366355 TAAGCAGTAG
1 TAAGCAGTAG
20366365 TGGAGCAGAT
Statistics
Matches: 195, Mismatches: 54, Indels: 50
0.65 0.18 0.17
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 20 0.10
44 141 0.72
45 21 0.11
46 5 0.03
47 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (44 bp):
TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
Found at i:20367454 original size:44 final size:44
Alignment explanation
Indices: 20367406--20367543 Score: 111
Period size: 44 Copynumber: 3.1 Consensus size: 44
20367396 GATCTTATCT
*
20367406 CCCTAAGCAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAACAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
* * * ** * * *
20367450 CCCTAAACAGTAG-GGAAACAGA-CTGAAGATTACAGA-TCTTATCT
1 CCCTAAACAGTAGTGG-AGCGGATC-GAAGA-CAGTGAGCCTTAACC
* * * *
20367494 TCCTAAACAGTAGTGGAGTGGATTGAAGACGGTGAGCCTTAACC
1 CCCTAAACAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
20367538 CCCTAA
1 CCCTAA
20367544 GCAATGGGTA
Statistics
Matches: 66, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
43 5 0.08
44 56 0.85
45 5 0.08
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (44 bp):
CCCTAAACAGTAGTGGAGCGGATCGAAGACAGTGAGCCTTAACC
Found at i:20367711 original size:133 final size:132
Alignment explanation
Indices: 20367522--20367777 Score: 408
Period size: 133 Copynumber: 1.9 Consensus size: 132
20367512 TGGATTGAAG
20367522 ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
1 ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
* *
20367587 GCAGTAGT-GAAGGAGATCGAACACGGTGAACCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAA
66 GCAGTAGTAG-AGCAGATCGAACACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
20367651 AAC
130 AAC
* * * *
20367654 ACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAA-TTACAGATCTTATCTCCCT
1 ACGGTGAGCCTTAACCCCCTAAGCAAT-GGGTAACAGGCTA-AAAGTTACAAATCTTATCTCCCT
*
20367718 AAGCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
64 AAGCAGTAGTAGAGCAGATCGAACACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACA
20367778 GGCTGGAAAT
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
132 25 0.22
133 85 0.75
134 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (132 bp):
ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
GCAGTAGTAGAGCAGATCGAACACGGTGAACCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAA
AC
Found at i:20367763 original size:88 final size:88
Alignment explanation
Indices: 20367654--20368263 Score: 733
Period size: 88 Copynumber: 6.9 Consensus size: 88
20367644 AAGCTAAAAC
* * *
20367654 ACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAATAGGCTAGAAATTACAGATCTTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
*
20367719 AGCAGTAGTAGAGCAGATCGAAC
66 AGCAGTAGTAGAGCAGATCGAAG
* *
20367742 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCGCCTTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
*
20367807 AGCAGTAGCAGAGCAGATCGAAG
66 AGCAGTAGTAGAGCAGATCGAAG
* * * * *
20367830 ACAGTGAGCCTTTACCCCCTAAGTAGT-GGGTAACAGGCTGGAAATTGCAGATCGTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* *
20367894 AGCAGTAG-AGGAGTAGATCAAAG
66 AGCAGTAGTA-GAGCAGATCGAAG
* ** * *
20367917 ACGGTGAGCCTTAACCCCCTAAGCAGTCGGGTAACAGGCTAAAAATTACAAATCTTATCTCACTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
*
20367982 AGCAGTAGTGGAGCAGATCGAAG
66 AGCAGTAGTAGAGCAGATCGAAG
** ** * *
20368005 ACGGTGAGCCCCAACCCCCTAAGCAGTAGCATAACAGGCTGAAAATTACAGATCTTATCTCTCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* * * * *
20368070 AGCAATAGTGGAGCAAATCAAAA
66 AGCAGTAGTAGAGCAGATCGAAG
* *
20368093 ACGGTGAGCCTTGACCCCTTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* *
20368158 AGCAGTATTGGAGCAGATCGAAG
66 AGCAGTAGTAGAGCAGATCGAAG
* * * * * ** * * * *
20368181 ACAGTGAGCCTTATCTCCTTGAGCAACAGTGG-AGCAAGCT-GAAGATTACAAATCATATCTCCC
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTGGAA-ATTACAGATCTTATCTCCC
* *
20368244 TAAGCAGTAGTGGAGTAGAT
64 TAAGCAGTAGTAGAGCAGAT
20368264 TGATATGAAA
Statistics
Matches: 451, Mismatches: 66, Indels: 10
0.86 0.13 0.02
Matches are distributed among these distances:
86 1 0.00
87 79 0.18
88 369 0.82
89 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (88 bp):
ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
AGCAGTAGTAGAGCAGATCGAAG
Found at i:20368630 original size:5 final size:5
Alignment explanation
Indices: 20368622--20368653 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
20368612 ATTTTTTTGT
20368622 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
20368654 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:20369230 original size:15 final size:14
Alignment explanation
Indices: 20369174--20369290 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
20369164 TTATTATGTT
*
20369174 TCTATTTATATTTA
1 TCTATTTTTATTTA
*
20369188 T-T-TTGTTATTCTAA
1 TCTATTTTTATT-T-A
*
20369202 TACTATTATTATTTA
1 T-CTATTTTTATTTA
20369217 TCTAATTTTTATTTA
1 TCT-ATTTTTATTTA
* *
20369232 TCTATTTATATTTC
1 TCTATTTTTATTTA
*
20369246 TACTATTATTATATT-
1 T-CTATTTTTAT-TTA
20369261 TCTATTTATTATATT-
1 TCTATTT-TTAT-TTA
* *
20369276 TTTATTTCTATTTA
1 TCTATTTTTATTTA
20369290 T
1 T
20369291 ATACTAATAT
Statistics
Matches: 82, Mismatches: 11, Indels: 20
0.73 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 4 0.05
14 24 0.29
15 37 0.45
16 4 0.05
17 7 0.09
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (14 bp):
TCTATTTTTATTTA
Found at i:20369243 original size:29 final size:28
Alignment explanation
Indices: 20369164--20369269 Score: 78
Period size: 29 Copynumber: 3.7 Consensus size: 28
20369154 ATTGCTATTG
20369164 TTATTATGTT-TCTATTTATATTTAT-T-
1 TTATTAT-TTATCTATTTATATTTATCTA
*
20369190 TTGTTATTCTAATACTA-TTATTATTTATCTAA
1 TTATTATT-T-AT-CTATTTA-TATTTATCT-A
* *
20369222 TTTTTATTTATCTATTTATATTTCTACTA
1 TTATTATTTATCTATTTATATTTAT-CTA
20369251 TTATTATATT-TCTATTTAT
1 TTATTAT-TTATCTATTTAT
20369270 TATATTTTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 19
0.74 0.05 0.22
Matches are distributed among these distances:
25 1 0.02
26 7 0.11
28 4 0.06
29 35 0.54
30 10 0.15
31 1 0.02
32 7 0.11
ACGTcount: A:0.26, C:0.08, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATTATTTATCTATTTATATTTATCTA
Found at i:20369259 original size:17 final size:15
Alignment explanation
Indices: 20369237--20369282 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
20369227 ATTTATCTAT
20369237 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
20369254 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
20369269 TTATATTTTTATTT
1 TTATATTTCTATTT
20369283 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:20369326 original size:52 final size:54
Alignment explanation
Indices: 20369205--20369326 Score: 125
Period size: 52 Copynumber: 2.4 Consensus size: 54
20369195 ATTCTAATAC
* * *
20369205 TATTATTATTTATC-TA-ATTTTTATTTATCTATTTATATTTCTACTATTATTA
1 TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
* *
20369257 TATT-TCTA--TTTATTATATTTTTA-TT-TCTATTTATA-TACTAATATTATTT
1 TATTAT-TATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
20369306 TCATTATTATTTTTCTTATAT
1 T-ATTATTATTTTTCTTATAT
20369327 ATGTTTTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
49 12 0.21
50 17 0.30
51 6 0.11
52 22 0.39
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (54 bp):
TATTATTATTTTTCTTATATTTTTATTTATCTATTTATATTACTAATATTATTA
Found at i:20373092 original size:28 final size:28
Alignment explanation
Indices: 20373058--20373115 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
20373048 GCCTCTAGAC
*
20373058 TATTCTACAACTTGATATTTAATCTATA
1 TATTCTAAAACTTGATATTTAATCTATA
20373086 TATTCTAAAACTTGATATTTAATCTATA
1 TATTCTAAAACTTGATATTTAATCTATA
20373114 TA
1 TA
20373116 CTTTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.47
Consensus pattern (28 bp):
TATTCTAAAACTTGATATTTAATCTATA
Found at i:20374237 original size:32 final size:31
Alignment explanation
Indices: 20374139--20374240 Score: 150
Period size: 31 Copynumber: 3.3 Consensus size: 31
20374129 GTTACAAAAT
*
20374139 AGTCACTAAACTATTCAAAAGTTCGCATTTA
1 AGTCACTAAACTATTCAAAAGTTCTCATTTA
**
20374170 AGTCACCGAACTATTCAAAAGTTCTCATTTA
1 AGTCACTAAACTATTCAAAAGTTCTCATTTA
* *
20374201 AGTCACTAAACTATTCAAAAGATTTTTATTTA
1 AGTCACTAAACTATTCAAAAG-TTCTCATTTA
20374233 AGTCACTA
1 AGTCACTA
20374241 GGTTATTAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 47 0.75
32 16 0.25
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (31 bp):
AGTCACTAAACTATTCAAAAGTTCTCATTTA
Found at i:20377795 original size:26 final size:26
Alignment explanation
Indices: 20377766--20377873 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
20377756 TGATACAAAT
*
20377766 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
20377792 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20377818 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20377844 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
20377870 TGAT
1 TGAT
20377874 GGGAATTTCT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:20379387 original size:26 final size:26
Alignment explanation
Indices: 20379358--20379410 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20379348 TTTACAGTTT
20379358 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
20379384 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
20379410 T
1 T
20379411 GCGTGCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:20380712 original size:38 final size:38
Alignment explanation
Indices: 20380659--20380735 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
20380649 TATTTTCATT
* *
20380659 TTATGTCCTCTTAGTCAGTTTACCAATTTAAAAAATTA
1 TTATGCCCTCGTAGTCAGTTTACCAATTTAAAAAATTA
*
20380697 TTATGCCCTCGTAGTCGGTTTACCAATTTAAAAAATTA
1 TTATGCCCTCGTAGTCAGTTTACCAATTTAAAAAATTA
20380735 T
1 T
20380736 GTAAAATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.40
Consensus pattern (38 bp):
TTATGCCCTCGTAGTCAGTTTACCAATTTAAAAAATTA
Found at i:20387678 original size:44 final size:45
Alignment explanation
Indices: 20387598--20387694 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
20387588 TTTTCTCAAG
* * *
20387598 GAGATAAGATCTACAATCATCAGTCTGCTTCGTTGCTACCTCAG-
1 GAGATAAGATCTACAATCACCAATCTACTTCGTTGCTACCTCAGA
* *
20387642 GAAGATAAGA-CTACAATCGCCAATCTACTCTC-TTGCTATCTCAGA
1 G-AGATAAGATCTACAATCACCAATCTACT-TCGTTGCTACCTCAGA
20387687 GAGATAAG
1 GAGATAAG
20387695 GCTAGTGGCT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
GAGATAAGATCTACAATCACCAATCTACTTCGTTGCTACCTCAGA
Found at i:20387988 original size:177 final size:176
Alignment explanation
Indices: 20387597--20388465 Score: 1109
Period size: 177 Copynumber: 4.9 Consensus size: 176
20387587 GTTTTCTCAA
* * * **
20387597 GGAGATAAGATCTACAATCATCAGTCTGCTTCGTTGCTACCTCAGGAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
* * * *
20387662 CAATCTACTCTCTTGCTATCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCTTTGCGATAC
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCGATAC
* * * *
20387727 ATGGAGATAAGATTCGCCGTCTTCAATCTGCTCCACAACTGCTTAT
131 ATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAG
* * * *
20387773 GGAGATAAGATCCTCAATCTTTAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
** *
20387838 CATTCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATTGCTGATA
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGC-GATA
* *
20387903 CATGGAGATAAGATTAGCCGTCTTCGATCTACTCCACAACTGCTTAG
130 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAG
* * * ***
20387950 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACCTCAGAAATATAAGACTTGTATCTT
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT-TT
* * * * * * * * * * *
20388015 -GAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTTGGGGCTGAAATTTGCTCCATTAACGA
65 CCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATT-GCGA
** *
20388078 TACATGGAGATAAGATTTTCCATCTTCGATATACTCCA-AACTGCTTAG
128 TACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAG
*
20388126 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACCATCTT
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT-TT
* * **
20388191 -CAACCTGCTCTCTTGCTACCTTAGAGAAATAAGGCTAGTGGCTTCAATCTGCTCCATTGCCGAT
65 CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTG-CGAT
* * *
20388255 ACAGGGAGATAAGATTCGCC-TCTTTCGATCTTCTCCACTACTGCTTAG
129 ACATGGAGATAAGATTCGCCATC-TTCGATCTACTCCACAACTGCTTAG
* * * **
20388303 GGAGATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
* * *
20388368 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATA
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTG-CGATA
20388433 CATGGAGATAAGATTCGCCATCTTCGATCTACT
130 CATGGAGATAAGATTCGCCATCTTCGATCTACT
20388466 GCACTAGTAC
Statistics
Matches: 597, Mismatches: 86, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
175 2 0.00
176 257 0.43
177 333 0.56
178 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (176 bp):
GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCGATAC
ATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAG
Found at i:20388248 original size:353 final size:354
Alignment explanation
Indices: 20387597--20388465 Score: 1120
Period size: 353 Copynumber: 2.5 Consensus size: 354
20387587 GTTTTCTCAA
* * * * * *
20387597 GGAGATAAGATCTACAATCATCAGTCTGCTTCGTTGCTACCTCAGGAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * * * * * * * **
20387662 CAATCTACTCTCTTGCTATCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCC-TTTGCGATA
66 CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGATA
* * * *
20387726 CATGGAGATAAGATTCGCCGTCTTCAATCTGCTCCACAACTGCTTATGGAGATAAGATCCTCAAT
131 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAAT
* **
20387791 CTTTAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTCCATTCTGCTCTCTTGCTA
196 CTTCAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTCCAACCTGCTCTCTTGCTA
* * *
20387856 CCTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATTGCTGATACATGGAGATAAGATTAGC
261 CCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTAGC
20387921 CGTC-TTCGATCTACTCCACAACTGCTTAG
326 C-TCTTTCGATCTACTCCACAACTGCTTAG
* * *** **
20387950 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACCTCAGAAATATAAGACTTGTATCTT
1 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * *
20388015 GAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTTGGGGCTGAAATTTGCTCCATTAACGAT
66 CAACCTGCTCTC-CTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGAT
** * *
20388079 ACATGGAGATAAGATTTTCCATCTTCGATATACTCCA-AACTGCTTAGGGAGATAAGATCTTCAA
130 ACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAA
* * *
20388143 TCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACCATCTT-CAACCTGCTCTCTTGC
195 TCTTCAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAAT-TTCCAACCTGCTCTCTTGC
* ** * *
20388207 TACCTTAGAGAAATAAGGCTAGTGGCTTCAATCTGCTCCATTGCCGATACAGGGAGATAAGATTC
259 TACCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTA
* *
20388272 GCCTCTTTCGATCTTCTCCACTACTGCTTAG
324 GCCTCTTTCGATCTACTCCACAACTGCTTAG
* *
20388303 GGAGATAAGATCTTCAATCTTTAGTCTGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * ** *
20388368 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGGTGGCTGAAATCTGCTCCATTGCCAAT
66 CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGG-GGCTGAAATCTGCTCCATTAACGAT
20388432 ACATGGAGATAAGATTCGCCATCTTCGATCTACT
130 ACATGGAGATAAGATTCGCCATCTTCGATCTACT
20388466 GCACTAGTAC
Statistics
Matches: 438, Mismatches: 72, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
352 6 0.01
353 392 0.89
354 40 0.09
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (354 bp):
GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGATA
CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAAT
CTTCAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTCCAACCTGCTCTCTTGCTA
CCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTAGC
CTCTTTCGATCTACTCCACAACTGCTTAG
Found at i:20397025 original size:19 final size:20
Alignment explanation
Indices: 20397001--20397047 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
20396991 TAATGGTCTT
* *
20397001 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
20397020 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
20397040 -AATGCAAA
1 TAATGCAAA
20397048 GGAGGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:20401516 original size:197 final size:199
Alignment explanation
Indices: 20401119--20401518 Score: 495
Period size: 197 Copynumber: 2.0 Consensus size: 199
20401109 ACCATGGATT
* * * * *
20401119 ATATATGTACAAATATATATAAAAACATTTGAACGAAATGTTACATAAAGTGTTAAAATAATATG
1 ATATATGTACAAATATACATAAAAACATTTAAACGAAATATTACACAAAATGTTAAAATAATATG
* ****
20401184 ATATAAAAAAGAACTTTAAAATAATAATTTTGTAAAAACAAAGAAAAATTATTAAAAATAGCTCA
66 A-ATAAAAAAGAACTTCAAAATAATAATCAAATAAAAACAAAGAAAAATTATTAAAAATA-CTCA
* *
20401249 ACACATGTTTTTAAAAAAATATTAAGTGAATTTTAAAATAATAAGTATTACAAATAGAAAAATCA
129 ACACA---TTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTATTACAAATAGAAAAATCA
20401314 ATTAAAATA
191 ATTAAAATA
* * * *
20401323 ATATATGTACAAATATACATAAAAATATTTAAATGAGATATTATACAAAATGTTAAAATAATATG
1 ATATATGTACAAATATACATAAAAACATTTAAACGAAATATTACACAAAATGTTAAAATAATATG
* *
20401388 -ATAAAAAA-AACTTCAAAATAATTATACAAATAAAAACAAAGTAAAATTATTAAAATATA-TCA
66 AATAAAAAAGAACTTCAAAATAATAAT-CAAATAAAAACAAAGAAAAATTATTAAAA-ATACTCA
* * * *
20401450 ACACA-TATATAAAAATATTAAATGAATTTTACAATAGTAAGT-TATACAAATAGAAAACTCAAT
129 ACACATTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTAT-TACAAATAGAAAAATCAAT
20401513 TAAAAT
193 TAAAAT
20401519 TGAATTAAAA
Statistics
Matches: 171, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
196 1 0.01
197 56 0.33
201 23 0.13
202 32 0.19
203 3 0.02
204 56 0.33
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (199 bp):
ATATATGTACAAATATACATAAAAACATTTAAACGAAATATTACACAAAATGTTAAAATAATATG
AATAAAAAAGAACTTCAAAATAATAATCAAATAAAAACAAAGAAAAATTATTAAAAATACTCAAC
ACATTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTATTACAAATAGAAAAATCAATTAA
AATA
Found at i:20402444 original size:15 final size:14
Alignment explanation
Indices: 20402415--20402445 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20402405 AGGAAATCTA
20402415 TTTTCCTTTTCTTT
1 TTTTCCTTTTCTTT
*
20402429 TTTTTCTTTTCTTT
1 TTTTCCTTTTCTTT
20402443 TTT
1 TTT
20402446 GCTATTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCCTTTTCTTT
Found at i:20416034 original size:11 final size:11
Alignment explanation
Indices: 20416018--20416044 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20416008 ATGGTAAAAA
20416018 ATATTATTAAT
1 ATATTATTAAT
20416029 ATATTATTAAT
1 ATATTATTAAT
20416040 ATATT
1 ATATT
20416045 TTTTGCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:20418103 original size:35 final size:35
Alignment explanation
Indices: 20418057--20418126 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
20418047 ACGGAATAAA
*
20418057 AACAATTTATTTGCTTTCAATGGGAAAGTAAATTC
1 AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
*
20418092 AACAATTTATTTACTTTCAATGGGAGAGTAAATTC
1 AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
20418127 TATCTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
Found at i:20424924 original size:9 final size:9
Alignment explanation
Indices: 20424885--20424925 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
20424875 ATAGAAGATA
20424885 TTATTATTT
1 TTATTATTT
*
20424894 TTATTTAGTT
1 TTA-TTATTT
20424904 TTATTA-TT
1 TTATTATTT
20424912 TTATTATTT
1 TTATTATTT
20424921 TTATT
1 TTATT
20424926 TTATTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (9 bp):
TTATTATTT
Found at i:20424924 original size:14 final size:14
Alignment explanation
Indices: 20424885--20424931 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
20424875 ATAGAAGATA
20424885 TTATTATTTTTA-T
1 TTATTATTTTTATT
*
20424898 TTAGTT-TTATTATT
1 TTA-TTATTTTTATT
20424912 TTATTATTTTTATT
1 TTATTATTTTTATT
20424926 TTATTA
1 TTATTA
20424932 ATTTAGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (14 bp):
TTATTATTTTTATT
Found at i:20424927 original size:22 final size:24
Alignment explanation
Indices: 20424883--20424936 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
20424873 AAATAGAAGA
*
20424883 TATTATTATTTTTATTTAGTTTTAT
1 TATT-TTATTATTATTTAGTTTTAT
20424908 TATTTTATTATT-TTTA-TTTTAT
1 TATTTTATTATTATTTAGTTTTAT
*
20424930 TAATTTA
1 TATTTTA
20424937 GAATAGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 12 0.44
23 4 0.15
24 7 0.26
25 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TATTTTATTATTATTTAGTTTTAT
Found at i:20424935 original size:9 final size:8
Alignment explanation
Indices: 20424885--20424936 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
20424875 ATAGAAGATA
20424885 TTATTATTT
1 TTATTA-TT
20424894 TTATTTAGTT
1 TTA-TTA-TT
20424904 TTATTATT
1 TTATTATT
20424912 TTATTA-T
1 TTATTATT
20424919 TT-TTATT
1 TTATTATT
*
20424926 TTATTAAT
1 TTATTATT
20424934 TTA
1 TTA
20424937 GAATAGGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
6 3 0.08
7 6 0.16
8 15 0.39
9 6 0.16
10 8 0.21
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTATTATT
Found at i:20432311 original size:18 final size:18
Alignment explanation
Indices: 20432288--20432325 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20432278 AAGTGTAATT
20432288 TTAATTATTTTATAAAAA
1 TTAATTATTTTATAAAAA
* *
20432306 TTAATTTTTTTATAAGAA
1 TTAATTATTTTATAAAAA
20432324 TT
1 TT
20432326 TTATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTAATTATTTTATAAAAA
Found at i:20438724 original size:2 final size:2
Alignment explanation
Indices: 20438717--20438742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20438707 AATAGCTGAT
20438717 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
20438743 TAGGGAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20441742 original size:22 final size:19
Alignment explanation
Indices: 20441703--20441746 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
20441693 TGCAAAGTTG
20441703 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
20441722 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
20441744 ATA
1 ATA
20441747 TGAAGTAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 3 0.14
22 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:20450055 original size:44 final size:44
Alignment explanation
Indices: 20449972--20450056 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
20449962 AACAGAAACT
*
20449972 GTACGACACATGAAGTGCCTCATCGACACGAAGTTGAAGTAACA
1 GTACGACACATGAAGTGCCTCATCGACACGAAGTCGAAGTAACA
* ** *
20450016 GTACGACACTAT-TAGTGCCTCATCGACTTGAGGTCGAAGTA
1 GTACGACAC-ATGAAGTGCCTCATCGACACGAAGTCGAAGTA
20450057 TCCCTGTACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 33 0.94
45 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
GTACGACACATGAAGTGCCTCATCGACACGAAGTCGAAGTAACA
Found at i:20450982 original size:8 final size:8
Alignment explanation
Indices: 20450944--20450989 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
20450934 TTATGTTTTG
20450944 TTATATTA
1 TTATATTA
*
20450952 TTAAATTA
1 TTATATTA
*
20450960 TTA-AAT-
1 TTATATTA
20450966 TTATA-TA
1 TTATATTA
20450973 TTATATTA
1 TTATATTA
20450981 TTATATTA
1 TTATATTA
20450989 T
1 T
20450990 ATACTTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 4 0.12
7 8 0.24
8 21 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:20461508 original size:25 final size:25
Alignment explanation
Indices: 20461469--20461587 Score: 121
Period size: 25 Copynumber: 4.8 Consensus size: 25
20461459 TCATGTACAT
* * * *
20461469 ATATGCTTATACGAGCTGTGAATCG
1 ATATGCTCACACGAGCTATAAATCG
* *
20461494 GTATGCTCACTCGAGCTATAAATCG
1 ATATGCTCACACGAGCTATAAATCG
* *
20461519 ATATGCTCTCACGAGCTATAAATCA
1 ATATGCTCACACGAGCTATAAATCG
* *
20461544 ATATGCTCACACGAGCTGTAGATCG
1 ATATGCTCACACGAGCTATAAATCG
* **
20461569 TTATGCTTTCACGAGCTAT
1 ATATGCTCACACGAGCTAT
20461588 GGGTCAAAAC
Statistics
Matches: 76, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (25 bp):
ATATGCTCACACGAGCTATAAATCG
Found at i:20485213 original size:31 final size:30
Alignment explanation
Indices: 20485134--20485213 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
20485124 ATTTCTTCAA
* * * *
20485134 ATGTGTATGATGAACCAAAATTAAAATTTC
1 ATGTGTATAATTAACCATAATCAAAATTTC
** *
20485164 ATGAATATATTTGAACCATAATCAAAATTTC
1 ATGTGTATAATT-AACCATAATCAAAATTTC
20485195 ATGTGTATAATTACACCAT
1 ATGTGTATAATTA-ACCAT
20485214 TCAAAGTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
ATGTGTATAATTAACCATAATCAAAATTTC
Found at i:20487516 original size:14 final size:14
Alignment explanation
Indices: 20487497--20487532 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
20487487 TAAGTGACTA
20487497 AAACATAACATTTC
1 AAACATAACATTTC
*
20487511 AAACATAATATTTC
1 AAACATAACATTTC
20487525 AAACATAA
1 AAACATAA
20487533 GTTACTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.28
Consensus pattern (14 bp):
AAACATAACATTTC
Found at i:20488281 original size:10 final size:10
Alignment explanation
Indices: 20488266--20488303 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
20488256 TTGTTATATA
20488266 TTTTTTAAAT
1 TTTTTTAAAT
20488276 TTTTTTAAA-
1 TTTTTTAAAT
* *
20488285 TTTTATAATT
1 TTTTTTAAAT
20488295 TTTTTTAAA
1 TTTTTTAAA
20488304 ATACAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:20488287 original size:19 final size:19
Alignment explanation
Indices: 20488265--20488303 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
20488255 TTTGTTATAT
*
20488265 ATTTTTTAAATTTTTTTAA
1 ATTTTATAAATTTTTTTAA
*
20488284 ATTTTATAATTTTTTTTAA
1 ATTTTATAAATTTTTTTAA
20488303 A
1 A
20488304 ATACAAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTATAAATTTTTTTAA
Found at i:20488339 original size:19 final size:21
Alignment explanation
Indices: 20488312--20488364 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
20488302 AAATACAAAA
*
20488312 TTTAGAATTTTTATAAA-TA-T
1 TTTA-AATTTTTAAAAATTACT
20488332 TTTAAA-TTTTAAAAATTACT
1 TTTAAATTTTTAAAAATTACT
*
20488352 TTTAATTTTTTAA
1 TTTAAATTTTTAA
20488365 TTATTACAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.29
19 4 0.14
20 10 0.36
21 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAAATTTTTAAAAATTACT
Found at i:20506128 original size:94 final size:94
Alignment explanation
Indices: 20505967--20506153 Score: 365
Period size: 94 Copynumber: 2.0 Consensus size: 94
20505957 AAAAATAAAG
20505967 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
1 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
20506032 GTATTAAATAAAAGGTGAAATGAGGTAGT
66 GTATTAAATAAAAGGTGAAATGAGGTAGT
*
20506061 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATGCATATTGGTTAGAGCGCAAGAGATA
1 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
20506126 GTATTAAATAAAAGGTGAAATGAGGTAG
66 GTATTAAATAAAAGGTGAAATGAGGTAG
20506154 GAATTTGAAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (94 bp):
TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
GTATTAAATAAAAGGTGAAATGAGGTAGT
Found at i:20511192 original size:6 final size:7
Alignment explanation
Indices: 20511176--20511200 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20511166 CTTTCGTCTC
20511176 TTTTGCT
1 TTTTGCT
20511183 TTTTGCT
1 TTTTGCT
20511190 TTTTGCT
1 TTTTGCT
20511197 TTTT
1 TTTT
20511201 ATTTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.12, T:0.76
Consensus pattern (7 bp):
TTTTGCT
Found at i:20513826 original size:46 final size:46
Alignment explanation
Indices: 20513766--20514402 Score: 760
Period size: 46 Copynumber: 14.9 Consensus size: 46
20513756 TTTGACATGA
* * * * * *
20513766 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
20513812 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20513858 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20513904 TGCCATGGTATCTTTCAATCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20513942 TGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20513988 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20514026 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514072 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514156 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514194 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20514240 TGCCATAGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514278 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
20514324 TGCCATGGTATCTTTCAGCCGTGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514362 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20514403 AAGAGAGCAC
Statistics
Matches: 517, Mismatches: 25, Indels: 98
0.81 0.04 0.15
Matches are distributed among these distances:
38 192 0.37
39 6 0.01
40 18 0.03
41 6 0.01
43 6 0.01
44 18 0.03
45 10 0.02
46 261 0.50
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:20514002 original size:84 final size:84
Alignment explanation
Indices: 20513856--20514402 Score: 1031
Period size: 84 Copynumber: 6.5 Consensus size: 84
20513846 TTCATGTCAC
*
20513856 GTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
*
20513921 ATCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
20513940 GTTGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
20514005 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
20514024 GTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
20514089 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
20514108 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
20514173 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
*
20514192 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
20514257 ACCATGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
20514276 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
* *
20514341 GCCGTGGTCTTACACACAG
66 ACCATGGTCTTACACACAG
20514360 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20514403 AAGAGAGCAC
Statistics
Matches: 453, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 453 1.00
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (84 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
ACCATGGTCTTACACACAG
Found at i:20514077 original size:168 final size:168
Alignment explanation
Indices: 20513766--20514402 Score: 1051
Period size: 168 Copynumber: 3.7 Consensus size: 168
20513756 TTTGACATGA
* * * * * *
20513766 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* * *
20513830 CCATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTA--C---ACA---CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
*
20513895 ATATCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACACAGGT
122 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
20513942 TGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
20514007 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514072 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
131 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
20514110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
20514175 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
20514240 TGCCATAGTATCTTTCAACCATGGTCTTACACACAGGT
131 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
*
20514278 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
20514343 CGTGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
66 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20514403 AAGAGAGCAC
Statistics
Matches: 443, Mismatches: 17, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
168 373 0.84
171 2 0.00
174 1 0.00
175 4 0.01
176 63 0.14
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (168 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:20514229 original size:252 final size:252
Alignment explanation
Indices: 20513766--20514402 Score: 1060
Period size: 252 Copynumber: 2.5 Consensus size: 252
20513756 TTTGACATGA
* * * * *
20513766 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACTATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* * *
20513830 CCATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTC
65 CCATGGTCTTA--C---ACA---CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
* *
20513895 ATATCAGGTTGCCATGGTATCTTTCAATCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAT
122 ATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAA
*
20513960 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACACAGG
187 CCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACACAGG
20514025 T
252 T
20514026 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
20514091 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
20514156 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCT
131 TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCT
20514221 TACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACACAGGT
196 TACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACACAGGT
* *
20514278 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAGC
1 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
20514343 CGTGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
66 CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
20514403 AAGAGAGCAC
Statistics
Matches: 362, Mismatches: 14, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
252 290 0.80
255 2 0.01
258 1 0.00
259 4 0.01
260 65 0.18
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (252 bp):
TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
TGCCATGGTATCTTTCAACCATGGTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCT
TACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACACAGGT
Found at i:20518286 original size:18 final size:17
Alignment explanation
Indices: 20518253--20518291 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
20518243 TTGTATAAAT
20518253 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
20518271 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
20518288 TGTG
1 TGTG
20518292 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:20518544 original size:23 final size:23
Alignment explanation
Indices: 20518517--20518614 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
20518507 AGTGTTATTG
20518517 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
20518540 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
20518563 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20518585 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
20518608 ATCAGTG
1 ATCAGTG
20518615 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:20518583 original size:45 final size:45
Alignment explanation
Indices: 20518519--20518607 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
20518509 TGTTATTGAT
* *
20518519 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
20518564 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
20518608 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:20527744 original size:110 final size:110
Alignment explanation
Indices: 20527551--20527773 Score: 437
Period size: 110 Copynumber: 2.0 Consensus size: 110
20527541 CAATCTTGTA
20527551 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
1 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
20527616 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
66 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
20527661 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
1 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
*
20527726 AACTGTCTGAAATTACTGTTAACATGCTATAAAACTACTATAGGT
66 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
20527771 AGT
1 AGT
20527774 AAACCTTACT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 112 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (110 bp):
AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
Found at i:20529489 original size:7 final size:7
Alignment explanation
Indices: 20529477--20529501 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
20529467 GGACTGTGCA
20529477 AAACCCT
1 AAACCCT
20529484 AAACCCT
1 AAACCCT
20529491 AAACCCT
1 AAACCCT
20529498 AAAC
1 AAAC
20529502 ACTGTGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:20533671 original size:17 final size:18
Alignment explanation
Indices: 20533649--20533683 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20533639 CCAATTAGGC
20533649 CGTGT-GGGCCACACGGG
1 CGTGTGGGGCCACACGGG
20533666 CGTGTGGGGCCACACGGG
1 CGTGTGGGGCCACACGGG
20533684 TGAACCACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.11, C:0.29, G:0.49, T:0.11
Consensus pattern (18 bp):
CGTGTGGGGCCACACGGG
Found at i:20538502 original size:23 final size:22
Alignment explanation
Indices: 20538470--20538513 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
20538460 AACCAATCCA
20538470 ATTCAGCATATTT-TCAAGATAG
1 ATTCAGCATATTTAT-AAGATAG
20538492 ATTCATGCATATTTATAAGATA
1 ATTCA-GCATATTTATAAGATA
20538514 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
ATTCAGCATATTTATAAGATAG
Found at i:20539101 original size:16 final size:17
Alignment explanation
Indices: 20539082--20539118 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
20539072 ACTAAAAGGT
20539082 TAAACATG-TAAAATAA
1 TAAACATGCTAAAATAA
*
20539098 TAAACATGCTAATATAA
1 TAAACATGCTAAAATAA
20539115 TAAA
1 TAAA
20539119 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.27
Consensus pattern (17 bp):
TAAACATGCTAAAATAA
Found at i:20539864 original size:16 final size:15
Alignment explanation
Indices: 20539823--20539866 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
20539813 AAATATGAAT
*
20539823 TATATATGATGAAATG
1 TATATATG-TGAAATA
20539839 TATA-ATGTGATAATA
1 TATATATGTGA-AATA
20539854 TATATATGTGAAA
1 TATATATGTGAAA
20539867 GCCAAATGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 12 0.48
16 10 0.40
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (15 bp):
TATATATGTGAAATA
Found at i:20546377 original size:19 final size:20
Alignment explanation
Indices: 20546355--20546401 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
20546345 AGAAAAAAAA
20546355 TATAAAAAA-TAATAAATTT
1 TATAAAAAATTAATAAATTT
*
20546374 TATAAAAAATTATTAAATTT
1 TATAAAAAATTAATAAATTT
20546394 TAATAAAA
1 T-ATAAAA
20546402 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.36
20 10 0.40
21 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAAATTAATAAATTT
Found at i:20546414 original size:19 final size:19
Alignment explanation
Indices: 20546379--20546427 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
20546369 AATTTTATAA
*
20546379 AAAATTATTAAATTTTAAT
1 AAAATTATTAAAATTTAAT
20546398 AAAATT-TTAAAAATTT-A-
1 AAAATTATT-AAAATTTAAT
*
20546415 AAATTTATTAAAA
1 AAAATTATTAAAA
20546428 ATTAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 9 0.35
18 5 0.19
19 12 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTATTAAAATTTAAT
Found at i:20546731 original size:9 final size:9
Alignment explanation
Indices: 20546691--20546872 Score: 65
Period size: 9 Copynumber: 19.6 Consensus size: 9
20546681 ACTTGTAAAA
20546691 TTTTATAATTT
1 TTTTATAA--T
20546702 TTTTATAA-
1 TTTTATAAT
*
20546710 TTCTAT-AT
1 TTTTATAAT
20546718 ATTTTATAAT
1 -TTTTATAAT
*
20546728 TTTTTTACTAT
1 TTTTATA--AT
*
20546739 TTTTATAAAA
1 TTTTAT-AAT
* *
20546749 ATTTACAAT
1 TTTTATAAT
*
20546758 CTTTTATTAT
1 -TTTTATAAT
20546768 TTTT-TACGAT
1 TTTTATA--AT
20546778 TTTTATATAT
1 TTTTATA-AT
20546788 TTTTATAA-
1 TTTTATAAT
20546796 TTTT-TAAT
1 TTTTATAAT
* *
20546804 ATTTGA-ATT
1 -TTTTATAAT
*
20546813 TTTTATTAAAA
1 TTTTA-T-AAT
*
20546824 TTTAATAAT
1 TTTTATAAT
* *
20546833 ATTTATAAA
1 TTTTATAAT
20546842 TTTTATAGA-
1 TTTTATA-AT
*
20546851 TTTTA-ATT
1 TTTTATAAT
20546859 TTTTATAAT
1 TTTTATAAT
20546868 TTTTA
1 TTTTA
20546873 ATAAAAGCAG
Statistics
Matches: 126, Mismatches: 26, Indels: 40
0.66 0.14 0.21
Matches are distributed among these distances:
7 4 0.03
8 20 0.16
9 49 0.39
10 30 0.24
11 22 0.17
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:20546732 original size:10 final size:10
Alignment explanation
Indices: 20546691--20546800 Score: 52
Period size: 10 Copynumber: 11.3 Consensus size: 10
20546681 ACTTGTAAAA
20546691 TTTTATAATTT
1 TTTTATAA-TT
20546702 TTTTATAA--
1 TTTTATAATT
* *
20546710 TTCTAT-ATA
1 TTTTATAATT
20546719 TTTTATAATT
1 TTTTATAATT
*
20546729 TTTT-TACTAT
1 TTTTATAAT-T
**
20546739 TTTTATAAAA
1 TTTTATAATT
* * *
20546749 ATTTACAATC
1 TTTTATAATT
*
20546759 TTTTATTATT
1 TTTTATAATT
**
20546769 TTTTACGA-T
1 TTTTATAATT
20546778 TTTTAT-ATAT
1 TTTTATAAT-T
20546788 TTTTATAATT
1 TTTTATAATT
20546798 TTT
1 TTT
20546801 AATATTTGAA
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
7 1 0.01
8 6 0.08
9 14 0.19
10 40 0.55
11 12 0.16
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:20546805 original size:20 final size:19
Alignment explanation
Indices: 20546691--20546872 Score: 80
Period size: 19 Copynumber: 9.7 Consensus size: 19
20546681 ACTTGTAAAA
* *
20546691 TTTTATAATTTTTTTATAA
1 TTTTATAATTTTTATATAT
*
20546710 TTCTAT-ATATTTTATA-AT
1 TTTTATAAT-TTTTATATAT
* * *
20546728 TTTTTTACTATTTTTATAAAA
1 TTTTATA--ATTTTTATATAT
* *
20546749 ATTTACAATCTTTTAT-TAT
1 TTTTATAAT-TTTTATATAT
20546768 TTTT-TACGATTTTTATATAT
1 TTTTATA--ATTTTTATATAT
20546788 TTTTATAATTTTTA-ATA-
1 TTTTATAATTTTTATATAT
* * * *
20546805 TTTGA-ATTTTTTATTAAAA
1 TTTTATAATTTTTA-TATAT
* * *
20546824 TTTAATAATATTTATA-AA
1 TTTTATAATTTTTATATAT
20546842 TTTTATAGA-TTTTA-AT-T
1 TTTTATA-ATTTTTATATAT
20546859 TTTTATAATTTTTA
1 TTTTATAATTTTTA
20546873 ATAAAAGCAG
Statistics
Matches: 124, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
16 8 0.06
17 17 0.14
18 25 0.20
19 37 0.30
20 28 0.23
21 9 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:20546873 original size:45 final size:44
Alignment explanation
Indices: 20546766--20546876 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 44
20546756 ATCTTTTATT
** * * *
20546766 ATTTTTTACGATTTTT-ATATATTTTTATAATTTTTAATATTTGA
1 ATTTTTTATAATTTTTAATA-ATATTTATAAATTTTAAGATTTGA
** *
20546810 ATTTTTTATTAAAATTTAATAATATTTATAAATTTTATAGATTTTA
1 ATTTTTTA-TAATTTTTAATAATATTTATAAATTTTA-AGATTTGA
20546856 ATTTTTTATAATTTTTAATAA
1 ATTTTTTATAATTTTTAATAA
20546877 AAGCAGAGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
44 8 0.15
45 29 0.54
46 17 0.31
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (44 bp):
ATTTTTTATAATTTTTAATAATATTTATAAATTTTAAGATTTGA
Found at i:20548015 original size:8 final size:8
Alignment explanation
Indices: 20548002--20548028 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
20547992 ATATTCTATT
20548002 TTATTTTA
1 TTATTTTA
20548010 TTATTTTA
1 TTATTTTA
20548018 TTATTTTA
1 TTATTTTA
20548026 TTA
1 TTA
20548029 CATTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:20548034 original size:16 final size:16
Alignment explanation
Indices: 20548002--20548040 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20547992 ATATTCTATT
**
20548002 TTATTTTATTATTTTA
1 TTATTTTATTACATTA
20548018 TTATTTTATTACATTA
1 TTATTTTATTACATTA
20548034 -TATTTTA
1 TTATTTTA
20548041 ACTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATTACATTA
Found at i:20557459 original size:74 final size:74
Alignment explanation
Indices: 20557333--20557490 Score: 271
Period size: 74 Copynumber: 2.1 Consensus size: 74
20557323 ATGTCGATAG
* * *
20557333 TACAATTCATATAATTATATGAACTTGATGCTGGATAATATATATTGGTATAGTTTATGAAATTC
1 TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
20557398 ATCCATGTT
66 ATCCATGTT
* *
20557407 TATATTTCATATAATTGTATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
1 TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
20557472 ATCCATGTT
66 ATCCATGTT
20557481 TACATTTCAT
1 TACATTTCAT
20557491 GCAAAGTTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (74 bp):
TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
ATCCATGTT
Found at i:20557466 original size:38 final size:38
Alignment explanation
Indices: 20557350--20557467 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
20557340 CATATAATTA
20557350 TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
1 TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
* * * * ** *
20557388 TATGAAATTCATCCAT-G-T-TTATAT-TTCATATAATT
1 TATGAACTTGATGC-TGGATAATATATATTGGTATAGTT
*
20557423 GTATGAACTTGATGCTGGATAATACATATTGGTATAGTT
1 -TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
20557462 TATGAA
1 TATGAA
20557468 ATTAATCCAT
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
35 9 0.15
36 17 0.29
37 2 0.03
38 22 0.37
39 9 0.15
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (38 bp):
TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
Found at i:20570151 original size:29 final size:25
Alignment explanation
Indices: 20570115--20570166 Score: 68
Period size: 29 Copynumber: 1.9 Consensus size: 25
20570105 AATGAAATAC
20570115 AAAAAAAGTAATATAATATAATAATATT
1 AAAAAAAGTAAT-TAA-A-AATAATATT
20570143 AAAATAAAGTAATTAAAAATAATA
1 AAAA-AAAGTAATTAAAAATAATA
20570167 CTATATATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.30
27 1 0.04
28 7 0.30
29 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (25 bp):
AAAAAAAGTAATTAAAAATAATATT
Found at i:20570183 original size:12 final size:12
Alignment explanation
Indices: 20570163--20570200 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20570153 AATTAAAAAT
20570163 AATACTATATATA
1 AATA-TATATATA
20570176 AATATATATATA
1 AATATATATATA
*
20570188 CATATATA-ATA
1 AATATATATATA
20570199 AA
1 AA
20570201 ACACATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 4 0.17
12 15 0.65
13 4 0.17
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:20570321 original size:12 final size:12
Alignment explanation
Indices: 20570304--20570336 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
20570294 TAAAAAATGC
20570304 TATATATAAATA
1 TATATATAAATA
*
20570316 TATATATACATA
1 TATATATAAATA
20570328 TATA-ATAAA
1 TATATATAAA
20570337 ACATATACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (12 bp):
TATATATAAATA
Found at i:20570361 original size:136 final size:137
Alignment explanation
Indices: 20569981--20571075 Score: 1231
Period size: 136 Copynumber: 7.8 Consensus size: 137
20569971 AAAGGAAGGC
20569981 ATATAATATAATAATATTAAAATAAAGTAATTAAAAATGATACTATATATAAATATATATATTTA
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAA--ATACTATATAT-AA-ATATATA--TA
* * * * *
20570046 TATATACATATAATAAAACATAGACTAATATTAATAATG-ATAATATTACTAAAAATAGTAATGA
60 TACAT--ATATAATAAAACATACACTAATATTAATAA-GAATAATAATACTAGAAATAATAATGA
*
20570110 AATACAAAAAAAGT-A
122 AATACAAAAAAAATAA
20570125 ATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACA
1 ATATAATATAATAATATTAAAATAAAGTAATT-AAAA-AATACTATATATAAATATATATATACA
* *
20570190 TATATAATAAAACACATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATAC-A
64 TATATAATAAAACATACACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAA
20570254 AAAAAATAA
129 AAAAAATAA
* *
20570263 ACATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTATATATAAATATATATATACATA
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATACTATATATAAATATATATATACATA
* *
20570328 TATAATAAAACATATACTAATATTAATAAGAATAATAGTACTAGAAATAATAATGAAATACAAAA
66 TATAATAAAACATACACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAA
20570393 AAAATAA
131 AAAATAA
*
20570400 ACATAATATAATAATAATATTAAAATAAAGTAATTTAAAATAATACTATATATAAAAATATATAT
1 ATAT-A-AT-ATAATAATATTAAAATAAAGTAA-TTAAAA-AATACTATATAT--AAATATATAT
* * *
20570465 ATACCTATATAATAAAAACATACACTAATATTAATAATG-ATAATAATGCTA-ACAATAGTAATG
59 ATACATATATAAT-AAAACATACACTAATATTAATAA-GAATAATAATACTAGA-AATAATAATG
* *
20570528 AAATACGAAAAAAGTAA
121 AAATACAAAAAAAATAA
20570545 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAA-A-TACTATATAAATATATATATACAT
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATACTA-TATATAAATATATATATACAT
*
20570608 ATATAATAAAACATATACT-A-A-TAAT---AATAATAATACTAGAAATAATAATGAAATACAAA
65 ATATAATAAAACATACACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATAC-AA
20570667 AAAAAATAA
129 AAAAAATAA
* *
20570676 ACATAATATAATAATAATATTAAAATAAAGTAATTAAAAACAATACTATATGTAAAAATATATAT
1 ATAT-A-AT-ATAATAATATTAAAATAAAGTAATT-AAAA-AATACTATA--T-ATAA-ATATAT
* * * *
20570741 ATATACCTATATAAAAAAACATACACTAATATTAATAATAATAATAATACTAGCAATAATAATGA
57 ATATACATATATAATAAAACATACACTAATATTAATAAGAATAATAATACTAGAAATAATAATGA
*
20570806 AATACAAAAAAAGTAA
122 AATACAAAAAAAATAA
* * *
20570822 ATAT-A-ATAATAATGTTAAAATAAAGTAATT-AAAAATAGTATTATATATAA-ATATATATACG
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATACTA-TATATA-AATATATATATACA
* * * * *
20570883 TATATAATAAGAATATACACTAATAATAATAATAATAATAATAGTA-ATAATAATATTGAAATAC
64 TATATAATAA-AACATACACTAATATTAATAAGAATAATAATACTAGA-AATAATAATGAAATAC
*
20570947 AAAAAGCAAATGTA
127 AAAAA--AAAT-AA
* *
20570961 ATATAATA-AA-AATATTAAAATAAAGTAATTAAAAAAATAATACTATGTGTAAATATAAATACA
1 ATATAATATAATAATATTAAAATAAAGTAATT---AAAA-AATACTATATATAAATAT--AT--A
* * *
20571024 TATACGTATATAATAAAAACATATACACTAATATATAATAATAATAGTAATA
58 TATACATATATAAT-AAAAC--ATACACTAATAT-TAATAAGAATAATAATA
20571076 ATAATAATAT
Statistics
Matches: 839, Mismatches: 53, Indels: 112
0.84 0.05 0.11
Matches are distributed among these distances:
130 26 0.03
131 13 0.02
132 1 0.00
133 6 0.01
134 26 0.03
135 24 0.03
136 155 0.18
137 53 0.06
138 101 0.12
139 38 0.05
140 37 0.04
141 67 0.08
142 44 0.05
143 15 0.02
144 77 0.09
145 65 0.08
146 15 0.02
147 47 0.06
148 2 0.00
149 11 0.01
150 16 0.02
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (137 bp):
ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATACTATATATAAATATATATATACATA
TATAATAAAACATACACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAA
AAAATAA
Found at i:20570480 original size:280 final size:283
Alignment explanation
Indices: 20569981--20571075 Score: 1338
Period size: 282 Copynumber: 3.9 Consensus size: 283
20569971 AAAGGAAGGC
*
20569981 ATATAATATAATAATATTAAAATAAAGTAATT-AAAAATGATACTATATATAAATATATATATTT
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTAC--TATAT-AA-ATATATA--T
* * * * *
20570045 ATATATACATATAATAAAACATAGACTAATATTAATAATG-ATAATATTACTAAAAATAGTAATG
60 ATACAT--ATATAATAAAACATATACTAATATTAATAA-GAATAATAATACTAGAAATAATAATG
* *
20570109 AAATACAAAAAAAGT-AATAT-A-AT-ATAATAATATTAAAATAAAGTAATTAAAAATAATACTA
122 AAATACAAAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTA
*
20570170 TATAT--AA-ATATATATATACATATATAATAAAACACAT-ACTAATATTAATAAGAATAATAAT
187 TATATAAAATATATATATATACCTATATAATAAAACACATAACTAATATTAATAAGAATAATAAT
20570231 ACTAGAAATAATAATGAAATACAAAAAAATAA
252 ACTAGAAATAATAATGAAATACAAAAAAATAA
*
20570263 ACATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTA-TATATAAATATATATATACAT
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTACTATATAAATATATATATACAT
*
20570327 ATATAATAAAACATATACTAATATTAATAAGAATAATAGTACTAGAAATAATAATGAAATACAAA
66 ATATAATAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAA
*
20570392 AAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTTAAAATAATACTATATATAAAA
131 AAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAA
*
20570457 -ATATATATATACCTATATAATAAAA-ACATACACTAATATTAATAATG-ATAATAATGCTA-AC
196 TATATATATATACCTATATAATAAAACACATA-ACTAATATTAATAA-GAATAATAATACTAGA-
* *
20570518 AATAGTAATGAAATACGAAAAAAGTAA
258 AATAATAATGAAATAC-AAAAAAATAA
*
20570545 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAA--ATACTATATAAATATATATATACAT
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTACTATATAAATATATATATACAT
20570608 ATATAATAAAACATATACT-A-A-TAAT---AATAATAATACTAGAAATAATAATGAAATACAAA
66 ATATAATAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATAC-AA
* *
20570667 AAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAACAATACTATATGTAAA
130 AAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AA
* *
20570732 AATATATATATATACCTATATAA-AAAA-ACATACACTAATATTAATAATAATAATAATACTAGC
194 AATATATATATATACCTATATAATAAAACACATA-ACTAATATTAATAAGAATAATAATACTAGA
20570795 AATAATAATGAAATACAAAAAAAGTAA
258 AATAATAATGAAATACAAAAAAA-TAA
* *
20570822 ATAT-A-ATAATAATGTTAAAATAAAGTAATT-AAAAATAG-TATTATATATAA-ATATATATAC
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAAAT-GCTACTATATA-AATATATATATAC
* * * * * * *
20570882 GTATATAATAAGAATATACACTAATAATAATAATAATAATAATAGTA-ATAATAATATTGAAATA
64 ATATATAATAA-AACATATACTAATATTAATAAGAATAATAATACTAGA-AATAATAATGAAATA
** ** * *
20570946 C--AAAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAAATAATACTATGT
127 CAAAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATT--AAAAATAATACTATAT
* * * * * * *
20571009 GTAAATATAAATACATATACGTATATAATAAAAACATATACACTAATATATAATAATAATAGTAA
190 ATAAA-ATATATATATATACCTATATAAT-AAAACACATA-ACTAATAT-TAATAAGAATAATAA
20571074 TA
251 TA
20571076 ATAATAATAT
Statistics
Matches: 730, Mismatches: 44, Indels: 74
0.86 0.05 0.09
Matches are distributed among these distances:
273 1 0.00
274 69 0.09
275 58 0.08
276 103 0.14
277 73 0.10
278 74 0.10
279 8 0.01
280 78 0.11
281 83 0.11
282 114 0.16
283 36 0.05
284 4 0.01
285 13 0.02
286 16 0.02
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (283 bp):
ATATAATATAATAATATTAAAATAAAGTAATTAAAAAATGCTACTATATAAATATATATATACAT
ATATAATAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAA
AAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAA
TATATATATATACCTATATAATAAAACACATAACTAATATTAATAAGAATAATAATACTAGAAAT
AATAATGAAATACAAAAAAATAA
Found at i:20570909 original size:3 final size:3
Alignment explanation
Indices: 20570903--20570937 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
20570893 GAATATACAC
*
20570903 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
20570938 TTGAAATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:20571057 original size:23 final size:21
Alignment explanation
Indices: 20571015--20571058 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20571005 ATGTGTAAAT
* *
20571015 ATAAATACATATACGTATATA
1 ATAAAAACATATACCTATATA
20571036 ATAAAAACATATACACTAATATA
1 ATAAAAACATATAC-CT-ATATA
20571059 TAATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 1 0.05
23 5 0.26
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAAAAACATATACCTATATA
Found at i:20571066 original size:3 final size:3
Alignment explanation
Indices: 20571052--20571107 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
20571042 ACATATACAC
* * *
20571052 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA AAA TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
20571097 TAA AAA TAA TA
1 TAA TAA TAA TA
20571108 GTGTTAGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:20575849 original size:78 final size:78
Alignment explanation
Indices: 20575720--20575887 Score: 239
Period size: 78 Copynumber: 2.2 Consensus size: 78
20575710 ATGAGTGGAT
* * * * *
20575720 AGAAACTAAAAATACCTCAGCGTGTGACTCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATT
1 AGAAATTAAAAATACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AAT
*
20575785 TTTTTTGAAAAA-C
65 TTTTTTGAAAAAGA
* * *
20575798 AGAAATTGAAAATACCTCGGTGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
1 AGAAATTAAAAATACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
20575863 TTTTTGAAAAAGA
66 TTTTTGAAAAAGA
20575876 AGAAATTAAAAA
1 AGAAATTAAAAA
20575888 ACAGAAATTG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 14 0.18
78 65 0.82
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (78 bp):
AGAAATTAAAAATACCTCAGCGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAATT
TTTTTGAAAAAGA
Found at i:20575857 original size:142 final size:141
Alignment explanation
Indices: 20575590--20575857 Score: 410
Period size: 142 Copynumber: 1.9 Consensus size: 141
20575580 TAAATTGAAG
* *
20575590 ATACCTCAGTGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTCTTGAAAAA
1 ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAA
* * * * *
20575655 CAGAAATTAAAAATATCTCGGCATGTGGCCTGAGGGTCAACTCACCTCTCGCAATATGAGTGGAT
66 CAGAAATTAAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTGGAT
20575720 AGAAACTAAAA
131 AGAAACTAAAA
* * *
20575731 ATACCTCAGCGTGTGACTCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTTGAAAA
1 ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTCTTGAAAA
* **
20575796 ACAGAAATTGAAAATACCTCGGTGTATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
65 ACAGAAATTAAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGT
20575858 TAATTTTTTT
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
141 48 0.42
142 65 0.58
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (141 bp):
ATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAA
CAGAAATTAAAAATACCTCGGCATATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTGGAT
AGAAACTAAAA
Found at i:20593033 original size:30 final size:30
Alignment explanation
Indices: 20592987--20593099 Score: 153
Period size: 30 Copynumber: 3.9 Consensus size: 30
20592977 TCCCATTTAC
* *
20592987 TTTTT-CCC-AAAA-TTTTACTCTCTCCCA
1 TTTTTCCCCTAAAACTTTTACTCCCTCCTA
*
20593014 -CTTTCACCCTAAAACTTTTACTCCCTCCTA
1 TTTTTC-CCCTAAAACTTTTACTCCCTCCTA
20593044 TTTTTCCCCTAAAACTTTTACTCCCTCCTA
1 TTTTTCCCCTAAAACTTTTACTCCCTCCTA
*
20593074 TTTTTCCCCTAAAACTTTTAATCCCT
1 TTTTTCCCCTAAAACTTTTACTCCCT
20593100 TCCCATCACA
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.04
28 3 0.04
29 4 0.05
30 62 0.82
31 4 0.05
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.42
Consensus pattern (30 bp):
TTTTTCCCCTAAAACTTTTACTCCCTCCTA
Found at i:20593048 original size:16 final size:16
Alignment explanation
Indices: 20593029--20593078 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
20593019 ACCCTAAAAC
20593029 TTTTACTCCCTCCTAT
1 TTTTACTCCCTCCTAT
*** *
20593045 TTTT-C-CCCTAAAAC
1 TTTTACTCCCTCCTAT
20593059 TTTTACTCCCTCCTAT
1 TTTTACTCCCTCCTAT
20593075 TTTT
1 TTTT
20593079 CCCCTAAAAC
Statistics
Matches: 24, Mismatches: 8, Indels: 4
0.67 0.22 0.11
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 13 0.54
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTACTCCCTCCTAT
Found at i:20593536 original size:37 final size:39
Alignment explanation
Indices: 20593477--20593551 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 39
20593467 CAATTTCACA
*
20593477 TTTTATATTTAAAATAACTTTT-ATTAAAAAAT-CATAT
1 TTTTACATTTAAAATAACTTTTAATTAAAAAATACATAT
* ** *
20593514 TTTTACATTTAACATATTTTTTAATTACAAAATACATA
1 TTTTACATTTAAAATAACTTTTAATTAAAAAATACATA
20593552 GTGACAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 18 0.58
38 9 0.29
39 4 0.13
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (39 bp):
TTTTACATTTAAAATAACTTTTAATTAAAAAATACATAT
Found at i:20594960 original size:16 final size:15
Alignment explanation
Indices: 20594918--20594966 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
20594908 AGAAAATTGA
20594918 AAAGATAAAAAAT-T
1 AAAGATAAAAAATAT
20594932 AAAGGGATAAAAAAATAT
1 AAA--GAT-AAAAAATAT
*
20594950 AAAGATGAAAAATAT
1 AAAGATAAAAAATAT
20594965 AA
1 AA
20594967 TTTTTCTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
16 6 0.20
17 7 0.23
18 4 0.13
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAAGATAAAAAATAT
Found at i:20599897 original size:7 final size:7
Alignment explanation
Indices: 20599885--20599919 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
20599875 ATTCAAAATG
20599885 AATGTGT
1 AATGTGT
20599892 AATGTGT
1 AATGTGT
20599899 AATGTGT
1 AATGTGT
20599906 AATGTGT
1 AATGTGT
20599913 AATGTGT
1 AATGTGT
20599920 TTGAAGTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (7 bp):
AATGTGT
Found at i:20609964 original size:20 final size:20
Alignment explanation
Indices: 20609932--20609999 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
20609922 TAGAGTTTTC
*
20609932 ATTT-ATTTGTTTTATTTAT
1 ATTTAATTTCTTTTATTTAT
*
20609951 ATTTAATTTTTTTTACTTT-T
1 ATTTAATTTCTTTTA-TTTAT
*
20609971 ATTTAATTTCTATTATTTAT
1 ATTTAATTTCTTTTATTTAT
20609991 -TTTAGATTT
1 ATTTA-ATTT
20610000 AATCCCCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
19 11 0.26
20 28 0.67
21 3 0.07
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTAATTTCTTTTATTTAT
Found at i:20611333 original size:40 final size:40
Alignment explanation
Indices: 20611278--20611358 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
20611268 TATCCAATGT
*
20611278 TCAAAGCTACTATTTATTAGGACACTTATATACATTAAAC
1 TCAAAGCTACTATTTATTAGAACACTTATATACATTAAAC
20611318 TCAAAGCTACTATTTATTAGAACACTTATATACATTAAAC
1 TCAAAGCTACTATTTATTAGAACACTTATATACATTAAAC
20611358 T
1 T
20611359 AACCTCAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.36
Consensus pattern (40 bp):
TCAAAGCTACTATTTATTAGAACACTTATATACATTAAAC
Found at i:20612570 original size:42 final size:42
Alignment explanation
Indices: 20612506--20612747 Score: 236
Period size: 42 Copynumber: 5.7 Consensus size: 42
20612496 TCGTGTTTAC
* * * *
20612506 TTTCCGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGAG
* *
20612548 TTTCCGTTTAGCT-GTATTGAGCTTCTGTTCAACTCTTATGAG
1 TTTCCGTTTAGCTCTTA-TGAGCTTCTGTTCAACTCATATGAG
** * * * *
20612590 TTTTTGTTCAGCTCTTCTGAGCTTTTGTTCAACTCTTATGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGAG
* * *
20612632 TTTTCGTTCAACTCTTATGAGCTTCTGTTTCAACTCATATGAG
1 TTTCCGTTTAGCTCTTATGAGCTTCTG-TTCAACTCATATGAG
* * * *
20612675 CTTCCGTTTAGCTCTTATGAGCTCCTGTTCAACCCTTAT-AGG
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGA-G
* * * *
20612717 TTTCTGTTTAGCTCTCATAAGCTTCTATTCA
1 TTTCCGTTTAGCTCTTATGAGCTTCTGTTCA
20612748 GCCTTAGGGC
Statistics
Matches: 166, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
41 2 0.01
42 127 0.77
43 37 0.22
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.44
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTATGAGCTTCTGTTCAACTCATATGAG
Found at i:20612597 original size:21 final size:21
Alignment explanation
Indices: 20612565--20612713 Score: 156
Period size: 21 Copynumber: 7.0 Consensus size: 21
20612555 TTAGCTGTAT
*
20612565 TGAGCTTCTGTTCAACTCTTA
1 TGAGCTTTTGTTCAACTCTTA
* * *
20612586 TGAGTTTTTGTTCAGCTCTTC
1 TGAGCTTTTGTTCAACTCTTA
20612607 TGAGCTTTTGTTCAACTCTTA
1 TGAGCTTTTGTTCAACTCTTA
20612628 TGAG-TTTTCGTTCAACTCTTA
1 TGAGCTTTT-GTTCAACTCTTA
* *
20612649 TGAGCTTCTGTTTCAACTCATA
1 TGAGCTTTTG-TTCAACTCTTA
** * *
20612671 TGAGCTTCCGTTTAGCTCTTA
1 TGAGCTTTTGTTCAACTCTTA
** *
20612692 TGAGCTCCTGTTCAACCCTTA
1 TGAGCTTTTGTTCAACTCTTA
20612713 T
1 T
20612714 AGGTTTCTGT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
20 4 0.04
21 81 0.76
22 22 0.21
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.44
Consensus pattern (21 bp):
TGAGCTTTTGTTCAACTCTTA
Found at i:20612740 original size:85 final size:84
Alignment explanation
Indices: 20612567--20612747 Score: 202
Period size: 85 Copynumber: 2.1 Consensus size: 84
20612557 AGCTGTATTG
* * ** * ** *
20612567 AGCTTCTGTTCAACTCTTATGAGTTTTTGTTCAGCTCTTCTGAGCTTTTGTTCAACTCTTATGAG
1 AGCTTCTGTTCAACTCATATGAGCTTCCGTTCAGCTCTTATGAGCTCCTGTTCAACCCTTATGAG
* * *
20612632 TTTTCGTTCAACTCTTATG
66 GTTTCGTTCAACTCTCATA
*
20612651 AGCTTCTGTTTCAACTCATATGAGCTTCCGTTTAGCTCTTATGAGCTCCTGTTCAACCCTTAT-A
1 AGCTTCTG-TTCAACTCATATGAGCTTCCGTTCAGCTCTTATGAGCTCCTGTTCAACCCTTATGA
* *
20612715 GGTTTCTGTTTAGCTCTCATA
65 GGTTTC-GTTCAACTCTCATA
*
20612736 AGCTTCTATTCA
1 AGCTTCTGTTCA
20612748 GCCTTAGGGC
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
84 18 0.22
85 62 0.77
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (84 bp):
AGCTTCTGTTCAACTCATATGAGCTTCCGTTCAGCTCTTATGAGCTCCTGTTCAACCCTTATGAG
GTTTCGTTCAACTCTCATA
Found at i:20612742 original size:21 final size:21
Alignment explanation
Indices: 20612567--20612742 Score: 93
Period size: 21 Copynumber: 8.3 Consensus size: 21
20612557 AGCTGTATTG
* *
20612567 AGCTTCTGTTCAACTCTTATG
1 AGCTTCTGTTTAACTCTTATA
* * * * * *
20612588 AGTTTTTGTTCAGCTCTTCTG
1 AGCTTCTGTTTAACTCTTATA
* * *
20612609 AGCTTTTGTTCAACTCTTATG
1 AGCTTCTGTTTAACTCTTATA
* * *
20612630 AG-TTTTCGTTCAACTCTTATG
1 AGCTTCT-GTTTAACTCTTATA
* *
20612651 AGCTTCTGTTTCAACTCATATG
1 AGCTTCTGTTT-AACTCTTATA
* * *
20612673 AGCTTCCGTTTAGCTCTTATG
1 AGCTTCTGTTTAACTCTTATA
* * *
20612694 AGCTCCTGTTCAACCCTTATA
1 AGCTTCTGTTTAACTCTTATA
* * * *
20612715 GGTTTCTGTTTAGCTCTCATA
1 AGCTTCTGTTTAACTCTTATA
20612736 AGCTTCT
1 AGCTTCT
20612743 ATTCAGCCTT
Statistics
Matches: 124, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
20 4 0.03
21 98 0.79
22 22 0.18
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (21 bp):
AGCTTCTGTTTAACTCTTATA
Found at i:20616026 original size:26 final size:24
Alignment explanation
Indices: 20615982--20616030 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
20615972 ATTTGTTTTA
*
20615982 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
20616006 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
20616031 ATTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:20619663 original size:487 final size:487
Alignment explanation
Indices: 20618745--20619721 Score: 1909
Period size: 487 Copynumber: 2.0 Consensus size: 487
20618735 GTAACACCCC
20618745 TAACCTGTATCCATTGTCAAAACAGGGTTTCAGAGCATTACTAGAATTTGCAGATCACCTAAAAA
1 TAACCTGTATCCATTGTCAAAACAGGGTTTCAGAGCATTACTAGAATTTGCAGATCACCTAAAAA
20618810 AATTTAAATACTTACCGATTCAATGCATCATATAAATAAATATATTACCATTCAATCAACAGTTT
66 AATTTAAATACTTACCGATTCAATGCATCATATAAATAAATATATTACCATTCAATCAACAGTTT
20618875 GGCACTTATATAAGCATCAAACAGCAACATTGTTAGTATACTTGCACATATCTCATATAAATTCA
131 GGCACTTATATAAGCATCAAACAGCAACATTGTTAGTATACTTGCACATATCTCATATAAATTCA
20618940 ACATTGATATATCTATTTTCTCGACATATCGCACTTGAGTTTAATAATAGTCTCAACTTACATAA
196 ACATTGATATATCTATTTTCTCGACATATCGCACTTGAGTTTAATAATAGTCTCAACTTACATAA
20619005 TTTCCTTGTATCAACATATCAAAGATAATCATATATGTACATGTCATGAAACATATCATGCTCTA
261 TTTCCTTGTATCAACATATCAAAGATAATCATATATGTACATGTCATGAAACATATCATGCTCTA
20619070 ACCATTTCTTCATAAGCATAAATCATTCATTTCATTATATCAATATTTCATGCTCCATCATTTCC
326 ACCATTTCTTCATAAGCATAAATCATTCATTTCATTATATCAATATTTCATGCTCCATCATTTCC
20619135 ATATATTTTATGTATATTTATTCCGGTAATAGTTTATATCAAACTTAACATAAATTATATTCCAT
391 ATATATTTTATGTATATTTATTCCGGTAATAGTTTATATCAAACTTAACATAAATTATATTCCAT
20619200 GTACTTATACTTATTTCGTTTATCTATCTTCA
456 GTACTTATACTTATTTCGTTTATCTATCTTCA
* *
20619232 TAACTTGTATCCATTGTCGAAACAGGGTTTCAGAGCATTACTAGAATTTGCAGATCACCTAAAAA
1 TAACCTGTATCCATTGTCAAAACAGGGTTTCAGAGCATTACTAGAATTTGCAGATCACCTAAAAA
20619297 AATTTAAATACTTACCGATTCAATGCATCATATAAATAAATATATTACCATTCAATCAACAGTTT
66 AATTTAAATACTTACCGATTCAATGCATCATATAAATAAATATATTACCATTCAATCAACAGTTT
*
20619362 GGCACTTGTATAAGCATCAAACAGCAACATTGTTAGTATACTTGCACATATCTCATATAAATTCA
131 GGCACTTATATAAGCATCAAACAGCAACATTGTTAGTATACTTGCACATATCTCATATAAATTCA
20619427 ACATTGATATATCTATTTTCTCGACATATCGCACTTGAGTTTAATAATAGTCTCAACTTACATAA
196 ACATTGATATATCTATTTTCTCGACATATCGCACTTGAGTTTAATAATAGTCTCAACTTACATAA
*
20619492 TTTCCTTGTATCAACATGTCAAAGATAATCATATATGTACATGTCATGAAACATATCATGCTCTA
261 TTTCCTTGTATCAACATATCAAAGATAATCATATATGTACATGTCATGAAACATATCATGCTCTA
*
20619557 ACCATTTCTTCATAAGCATATATCATTCATTTCATTATATCAATATTTCATGCTCCATCATTTCC
326 ACCATTTCTTCATAAGCATAAATCATTCATTTCATTATATCAATATTTCATGCTCCATCATTTCC
20619622 ATATATTTTATGTATATTTATTCCGGTAATAGTTTATATCAAACTTAACATAAATTATATTCCAT
391 ATATATTTTATGTATATTTATTCCGGTAATAGTTTATATCAAACTTAACATAAATTATATTCCAT
20619687 GTACTTATACTTATTTCGTTTATCTATCTTCA
456 GTACTTATACTTATTTCGTTTATCTATCTTCA
20619719 TAA
1 TAA
20619722 TTATTTCATA
Statistics
Matches: 485, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
487 485 1.00
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.38
Consensus pattern (487 bp):
TAACCTGTATCCATTGTCAAAACAGGGTTTCAGAGCATTACTAGAATTTGCAGATCACCTAAAAA
AATTTAAATACTTACCGATTCAATGCATCATATAAATAAATATATTACCATTCAATCAACAGTTT
GGCACTTATATAAGCATCAAACAGCAACATTGTTAGTATACTTGCACATATCTCATATAAATTCA
ACATTGATATATCTATTTTCTCGACATATCGCACTTGAGTTTAATAATAGTCTCAACTTACATAA
TTTCCTTGTATCAACATATCAAAGATAATCATATATGTACATGTCATGAAACATATCATGCTCTA
ACCATTTCTTCATAAGCATAAATCATTCATTTCATTATATCAATATTTCATGCTCCATCATTTCC
ATATATTTTATGTATATTTATTCCGGTAATAGTTTATATCAAACTTAACATAAATTATATTCCAT
GTACTTATACTTATTTCGTTTATCTATCTTCA
Found at i:20619975 original size:46 final size:45
Alignment explanation
Indices: 20619867--20619975 Score: 110
Period size: 46 Copynumber: 2.4 Consensus size: 45
20619857 CGTCTCCTAT
* * *
20619867 CCACGGTCTTATTTATCTTCGACATGATGCCATAGTGTCTTTCAA
1 CCACGGTCTTATTCATTTTCGACATGATGCCATAGTATCTTTCAA
* * ** * * *
20619912 CTATGGTCTTACCCATTTTCTGTCATGTTGCCATGGTATCTTTCAA
1 CCACGGTCTTATTCATTTTC-GACATGATGCCATAGTATCTTTCAA
*
20619958 CCACAGTCTTATTCATTT
1 CCACGGTCTTATTCATTT
20619976 CTTGTCAAGA
Statistics
Matches: 48, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
45 14 0.29
46 34 0.71
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.41
Consensus pattern (45 bp):
CCACGGTCTTATTCATTTTCGACATGATGCCATAGTATCTTTCAA
Found at i:20620038 original size:46 final size:46
Alignment explanation
Indices: 20619987--20620137 Score: 241
Period size: 46 Copynumber: 3.3 Consensus size: 46
20619977 TTGTCAAGAT
20619987 ACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCA
*
20620033 ACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCA
1 ACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCA
* * *
20620079 ACCATGGTCTTATTCATTT-CTCGTCATATTGCCATAGTATCTTTCA
1 ACCATGGTCTTACTCATTTCCT-GTCATGTTGCCATGGTATCTTTCA
*
20620125 ACTATGGTCTTAC
1 ACCATGGTCTTAC
20620138 ACATCTGAAT
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 2 0.02
46 97 0.98
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (46 bp):
ACCATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCA
Found at i:20620070 original size:76 final size:76
Alignment explanation
Indices: 20619914--20620058 Score: 245
Period size: 76 Copynumber: 1.9 Consensus size: 76
20619904 TCTTTCAACT
* *
20619914 ATGGTCTTACCCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTATTCATTTCTT
1 ATGGTCTTACCCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTATTCATTTCCT
20619979 GTCAAGATACC
66 GTCAAGATACC
* **
20619990 ATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCT
1 ATGGTCTTACCCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTATTCATTTCCT
20620055 GTCA
66 GTCA
20620059 TGTTGCCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
76 64 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.42
Consensus pattern (76 bp):
ATGGTCTTACCCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCACAGTCTTATTCATTTCCT
GTCAAGATACC
Found at i:20620228 original size:45 final size:45
Alignment explanation
Indices: 20620108--20620231 Score: 194
Period size: 45 Copynumber: 2.8 Consensus size: 45
20620098 CTCGTCATAT
* * *
20620108 TGCCATAGTATCTTTCAACTATGGTCTTACACATCTGAATCGCGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGA
* *
20620153 TGCCATAGCATCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGA
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGA
*
20620198 TGCCATAGCGTCTTTCAGCTATGGTCTTACTCAT
1 TGCCATAGCATCTTTCAGCTATGGTCTTACTCAT
20620232 TCCTGGTATG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAGCTATGGTCTTACTCATCTGAATCGCGA
Found at i:20620247 original size:45 final size:45
Alignment explanation
Indices: 20619990--20620251 Score: 212
Period size: 46 Copynumber: 5.8 Consensus size: 45
20619980 TCAAGATACC
* * *
20619990 ATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCA-TTCCTGTCATGGTGCCATAGTATCTTTCAACT
* * * *
20620036 ATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACC
1 ATGGTCTTACTCA-TTCCTGTCATGGTGCCATAGTATCTTTCAACT
* * **
20620082 ATGGTCTTATTCATTTCTCGTCATATTGCCATAGTATCTTTCAACT
1 ATGGTCTTACTCATTCCT-GTCATGGTGCCATAGTATCTTTCAACT
* * * *
20620128 ATGGTCTTACACA-T-CTG-AATCGCGATGCCATAGCATCTTTCAGCT
1 ATGGTCTTACTCATTCCTGTCAT-G-G-TGCCATAGTATCTTTCAACT
* * * ** *
20620173 ATGGTCTTACTC-GT-CTGAATCGTGATGCCATAGCGTCTTTCAGCT
1 ATGGTCTTACTCATTCCTG--TCATGGTGCCATAGTATCTTTCAACT
20620218 ATGGTCTTACTCATTCCTGGT-ATGGTGCCATAGT
1 ATGGTCTTACTCATTCCT-GTCATGGTGCCATAGT
20620252 CCAACTATGG
Statistics
Matches: 184, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
42 2 0.01
43 1 0.01
44 2 0.01
45 79 0.43
46 95 0.52
47 3 0.02
48 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.39
Consensus pattern (45 bp):
ATGGTCTTACTCATTCCTGTCATGGTGCCATAGTATCTTTCAACT
Found at i:20621933 original size:34 final size:34
Alignment explanation
Indices: 20621890--20621958 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
20621880 AAAGAAAGTT
20621890 TCTTTCTTTCTTTTCTCTTCATACGTTGGGTGCA
1 TCTTTCTTTCTTTTCTCTTCATACGTTGGGTGCA
20621924 TCTTTCTTTCTTTTCTCTTCATACGTTGGGTGCA
1 TCTTTCTTTCTTTTCTCTTCATACGTTGGGTGCA
20621958 T
1 T
20621959 GGGAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.09, C:0.23, G:0.14, T:0.54
Consensus pattern (34 bp):
TCTTTCTTTCTTTTCTCTTCATACGTTGGGTGCA
Found at i:20622478 original size:25 final size:25
Alignment explanation
Indices: 20622450--20622501 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
20622440 CTAATGTTGA
20622450 CATAACTCAAAATTTCCCCTTTTGT
1 CATAACTCAAAATTTCCCCTTTTGT
*
20622475 CATAACTCAAAATTTCCCTTTTTGT
1 CATAACTCAAAATTTCCCCTTTTGT
20622500 CA
1 CA
20622502 ATTTATTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.04, T:0.40
Consensus pattern (25 bp):
CATAACTCAAAATTTCCCCTTTTGT
Found at i:20634942 original size:3 final size:3
Alignment explanation
Indices: 20634930--20634958 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
20634920 TTAATATAGA
20634930 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20634959 ATAGTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:20634993 original size:13 final size:13
Alignment explanation
Indices: 20634968--20635001 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
20634958 TATAGTAAAT
20634968 AAAGAAA-AAAGA
1 AAAGAAACAAAGA
*
20634980 AATGAAACAAAGA
1 AAAGAAACAAAGA
20634993 AAAGAAACA
1 AAAGAAACA
20635002 GAATAGGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (13 bp):
AAAGAAACAAAGA
Found at i:20636158 original size:51 final size:54
Alignment explanation
Indices: 20636072--20636187 Score: 150
Period size: 51 Copynumber: 2.2 Consensus size: 54
20636062 AAGTGTCGCC
* * **
20636072 TTACTGTTACTGTTCCGGATTCGTTCTGAATAGGTAC-TT-TGTA-CTTTACTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGAATAGGTACTTTGTGTACCGCTACTG
*
20636123 TTACTGTTACTGTTCCAGATTTGTTCCG-ATGAGGTACTTTGTGTACCGCTACTG
1 TTACTGTTACTGTTCCAGATTCGTTCCGAAT-AGGTACTTTGTGTACCGCTACTG
20636177 TTACTGTTACT
1 TTACTGTTACT
20636188 ATTACTATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
50 2 0.04
51 31 0.55
52 2 0.04
53 4 0.07
54 17 0.30
ACGTcount: A:0.17, C:0.19, G:0.20, T:0.44
Consensus pattern (54 bp):
TTACTGTTACTGTTCCAGATTCGTTCCGAATAGGTACTTTGTGTACCGCTACTG
Found at i:20636335 original size:18 final size:18
Alignment explanation
Indices: 20636312--20636393 Score: 101
Period size: 18 Copynumber: 4.6 Consensus size: 18
20636302 TAAATAAATG
* * *
20636312 TACTGAATGATTGTCTGC
1 TACTGAATAACTGACTGC
*
20636330 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
*
20636348 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGC
* *
20636366 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGC
20636384 TACTGAATAA
1 TACTGAATAA
20636394 TTTATCATTA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 55 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:20636366 original size:36 final size:36
Alignment explanation
Indices: 20636312--20636421 Score: 125
Period size: 36 Copynumber: 3.1 Consensus size: 36
20636302 TAAATAAATG
* * *
20636312 TACTGAATGATTGTCTGCTACTGAATAACTGACTGT
1 TACTGAATAACTGACTGCTACTGAATAACTGACTGT
* *
20636348 TACTGGATAACTGACTGCTACTGAATAATTGACTGT
1 TACTGAATAACTGACTGCTACTGAATAACTGACTGT
* *
20636384 TACTGAATAATTTA-T-CATTACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC--TACTGAATAACTGACTGT
20636420 TA
1 TA
20636422 AAGCGTGACT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
34 1 0.02
35 1 0.02
36 61 0.97
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTGACTGCTACTGAATAACTGACTGT
Found at i:20636394 original size:18 final size:18
Alignment explanation
Indices: 20636330--20636421 Score: 114
Period size: 18 Copynumber: 5.1 Consensus size: 18
20636320 GATTGTCTGC
20636330 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
* *
20636348 TACTGGATAACTGACTGC
1 TACTGAATAACTGACTGT
*
20636366 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * *
20636384 TACTGAATAATTTA-TCAT
1 TACTGAATAACTGACT-GT
20636402 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGT
20636420 TA
1 TA
20636422 AAGCGTGACT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
17 1 0.02
18 60 0.97
19 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:20636405 original size:54 final size:54
Alignment explanation
Indices: 20636312--20636418 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
20636302 TAAATAAATG
* * * *
20636312 TACTGAATGATTGTCTGCTACTGAATAACTGACTGTTACTGGATAACTGACTGC
1 TACTGAATAATTGACTGCTACTGAATAACTGACTATTACTGAATAACTGACTGC
* * *
20636366 TACTGAATAATTGACTGTTACTGAATAATTTA-TCATTACTGAATAACTGACTG
1 TACTGAATAATTGACTGCTACTGAATAACTGACT-ATTACTGAATAACTGACTG
20636419 TTAAAGCGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 1 0.02
54 44 0.98
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (54 bp):
TACTGAATAATTGACTGCTACTGAATAACTGACTATTACTGAATAACTGACTGC
Found at i:20636448 original size:18 final size:18
Alignment explanation
Indices: 20636427--20636483 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
20636417 TGTTAAAGCG
*
20636427 TGACTGAATATTATTGAA
1 TGACTGAATGTTATTGAA
20636445 TGACT-AATTGTTATTGAA
1 TGACTGAA-TGTTATTGAA
* *
20636463 TGATTGAATGTTACTGAA
1 TGACTGAATGTTATTGAA
20636481 TGA
1 TGA
20636484 AACTGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (18 bp):
TGACTGAATGTTATTGAA
Found at i:20651028 original size:20 final size:20
Alignment explanation
Indices: 20651005--20651054 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
20650995 AAATCCAAAT
20651005 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* *
20651025 TAAAATCCTGAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
20651045 TAAGAATACT
1 TAA-AATACT
20651055 GATGTGGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:20653328 original size:46 final size:46
Alignment explanation
Indices: 20653212--20653755 Score: 785
Period size: 46 Copynumber: 11.9 Consensus size: 46
20653202 TTCTGAAATT
20653212 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
20653258 AAA--TGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
20653302 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG-TCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-ATG
*** *
20653348 -AATAAATAAGACCTTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
20653393 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
20653439 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG-TCATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT-ATG
*** *
20653485 AAATAAATAAGACCTTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
20653531 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
**
20653577 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
** * * *
20653623 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*** *
20653669 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * * * *
20653714 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
20653756 TCAAAGATAA
Statistics
Matches: 452, Mismatches: 38, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
44 44 0.10
45 41 0.09
46 366 0.81
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:20653574 original size:138 final size:138
Alignment explanation
Indices: 20653219--20653773 Score: 865
Period size: 138 Copynumber: 4.1 Consensus size: 138
20653209 ATTAAATGTG
20653219 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAA--TGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
20653282 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGTCAT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTCAT
20653347 G-AATAAA
131 GAAATAAA
*
20653354 TAAGACCTTGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
*
20653419 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGTCAT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTCAT
20653484 GAAATAAA
131 GAAATAAA
*
20653492 TAAGACCTTGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
20653557 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG--AT
66 TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTCAT
*
20653620 GGGAAATGAA
131 --GAAATAAA
* * * ***
20653630 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
* * * * * *
20653695 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCA
66 TACCATGGCAACATGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTCA
20653759 --AAGATAAA
130 TGAA-ATAAA
20653767 TAAGACC
1 TAAGACC
20653774 GTGGATGGGA
Statistics
Matches: 394, Mismatches: 17, Indels: 16
0.92 0.04 0.04
Matches are distributed among these distances:
135 41 0.10
136 4 0.01
137 99 0.25
138 249 0.63
140 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGTCAT
GAAATAAA
Found at i:20654646 original size:23 final size:22
Alignment explanation
Indices: 20654603--20654648 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
20654593 TACTTTAGCC
*
20654603 ATTTTTATTTTTATTGCAATTT
1 ATTTTTATTTTTATTGAAATTT
* *
20654625 ATTTTTGTTTTTATTTTAAATTT
1 ATTTTTATTTTTA-TTGAAATTT
20654648 A
1 A
20654649 CTAATTTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
ATTTTTATTTTTATTGAAATTT
Found at i:20659494 original size:29 final size:29
Alignment explanation
Indices: 20659419--20659528 Score: 118
Period size: 29 Copynumber: 3.9 Consensus size: 29
20659409 AATTTCACAT
* *
20659419 ACCTGTATCTGGCCCATTAAGCCC-AATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * *
20659447 A--TATCATATAGCTCATTAGGCCCAAATC
1 ACCTGT-ATATGGCCCATTAGGCCCAAATC
20659475 ACCTGTATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAGGCCCAAATC
* * *
20659504 ACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAGGCCCA
20659529 GTCACATTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.03
27 14 0.21
28 6 0.09
29 43 0.64
30 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.26
Consensus pattern (29 bp):
ACCTGTATATGGCCCATTAGGCCCAAATC
Found at i:20661073 original size:16 final size:16
Alignment explanation
Indices: 20661035--20661065 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20661025 TGGCAAAAAC
*
20661035 CGAAATGTCAAAAAGT
1 CGAAAAGTCAAAAAGT
20661051 CGAAAAGTCAAAAAG
1 CGAAAAGTCAAAAAG
20661066 CTGAAAAGCT
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:0.55, C:0.13, G:0.19, T:0.13
Consensus pattern (16 bp):
CGAAAAGTCAAAAAGT
Found at i:20661345 original size:29 final size:28
Alignment explanation
Indices: 20661290--20661393 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
20661280 GTGAGCATGA
* * *
20661290 ATATGAATGTGAATGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
20661318 ATATAAATGTGATTTGGGCTTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* * * *
20661347 AGATACAGGTGATTTGGGCCTAATGGGTC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
20661376 ATATGAATATGATTGGGC
1 ATATAAATGTGATTGGGC
20661394 TTAGTAGGCC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 17 0.28
29 44 0.72
ACGTcount: A:0.28, C:0.12, G:0.31, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:20661410 original size:57 final size:58
Alignment explanation
Indices: 20661303--20661413 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
20661293 TGAATGTGAA
* * *
20661303 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCTTAATGGGCCAGATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCTTAATAGGCCAAATACAGGTGATT
* * * *
20661361 TGGGCCTAATGGGTCATATGAATATGA-TTGGGCTTAGTAGGCCAAATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGATTTGGGCTTAATAGGCCAAATACAGGT
20661414 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACGGGCCATATAAATATGATTTGGGCTTAATAGGCCAAATACAGGTGATT
Found at i:20665752 original size:29 final size:29
Alignment explanation
Indices: 20665712--20665810 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
20665702 ATGTGACTGA
*
20665712 GCCTAACGGGCCATATAAATGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* *
20665741 GCCTAATGGGCCATATACAGGTGATTTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* * *
20665770 GCCTAATGGGCCATCTGAATATGA-TTGG
1 GCCTAATGGGCCATATAAATGTGATTTGG
* *
20665798 GCTTAGTGGGCCA
1 GCCTAATGGGCCA
20665811 GATACAGGTA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
28 15 0.25
29 45 0.75
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (29 bp):
GCCTAATGGGCCATATAAATGTGATTTGG
Found at i:20675085 original size:3 final size:3
Alignment explanation
Indices: 20675077--20675112 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
20675067 CAATATTGTA
*
20675077 ATG ATG ATG ATG ATG ATG ATG ATG GTG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
20675113 GAGGAGGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:20680538 original size:27 final size:26
Alignment explanation
Indices: 20680506--20680556 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
20680496 AAAATAAATT
20680506 ATAATTATTT-TTAAATATATAATTATC
1 ATAATT-TTTATTAAAT-TATAATTATC
20680533 ATAATTTTTATTAAATTATAATTA
1 ATAATTTTTATTAAATTATAATTA
20680557 CTTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
ATAATTTTTATTAAATTATAATTATC
Found at i:20680595 original size:44 final size:44
Alignment explanation
Indices: 20680485--20680605 Score: 149
Period size: 44 Copynumber: 2.7 Consensus size: 44
20680475 ACTTTATTAA
*
20680485 ATCATAATTTTAAAATAAATTATAATTATTTTTAAATATATAATT
1 ATCATAA-TTTAAATTAAATTATAATTATTTTTAAATATATAATT
** *
20680530 ATCATAATTTTTATTAAATTATAATTACTTTTAAATATATAA-T
1 ATCATAATTTAAATTAAATTATAATTATTTTTAAATATATAATT
20680573 -T-ATAATTCTAAATTAAATATTATAATTATTTTT
1 ATCATAATT-TAAATT-AA-ATTATAATTATTTTT
20680606 TTCAAAATGT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 6 0.09
42 5 0.08
43 3 0.05
44 45 0.68
45 7 0.11
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.51
Consensus pattern (44 bp):
ATCATAATTTAAATTAAATTATAATTATTTTTAAATATATAATT
Found at i:20686417 original size:5 final size:5
Alignment explanation
Indices: 20686407--20686442 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
20686397 ATTTAAGTAA
20686407 ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT A
20686443 AAATATAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:20686449 original size:15 final size:15
Alignment explanation
Indices: 20686416--20686449 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
20686406 AATATTATAT
* *
20686416 TATATTATATTATAT
1 TATATTATATTAAAA
20686431 TATATTATATTAAAA
1 TATATTATATTAAAA
20686446 TATA
1 TATA
20686450 AAGTACATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTATATTAAAA
Found at i:20686494 original size:24 final size:24
Alignment explanation
Indices: 20686458--20686521 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
20686448 TAAAGTACAT
* *
20686458 AAAAG-AAATGAAATAAAAGAAAC
1 AAAAGAAAAAGAAATAAAACAAAC
20686481 AAAAGAAAAAG-AA-AAAACAAAC
1 AAAAGAAAAAGAAATAAAACAAAC
*
20686503 AGAATAGAAAACGAAATAA
1 A-AA-AGAAAAAGAAATAA
20686522 GGGAGAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 9 0.27
23 9 0.27
24 11 0.33
25 2 0.06
26 2 0.06
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.06
Consensus pattern (24 bp):
AAAAGAAAAAGAAATAAAACAAAC
Found at i:20686566 original size:17 final size:18
Alignment explanation
Indices: 20686536--20686569 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20686526 GAAAAAGGGC
*
20686536 AAAAAGAAAGAGAGAAAG
1 AAAAAGAAAAAGAGAAAG
20686554 AAAAA-AAAAAGAGAAA
1 AAAAAGAAAAAGAGAAA
20686570 CTTAGGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAAGAGAAAG
Found at i:20688013 original size:4 final size:4
Alignment explanation
Indices: 20688004--20688033 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
20687994 TGGTTGATTA
20688004 TATG TATG TATG TATG TATG TATG TTATG T
1 TATG TATG TATG TATG TATG TATG -TATG T
20688034 TAAGGATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:20691491 original size:46 final size:45
Alignment explanation
Indices: 20691438--20691613 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
20691428 TATTTGGGCA
*
20691438 TCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
20691484 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
20691531 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
20691577 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20691614 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.61
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:20691593 original size:93 final size:93
Alignment explanation
Indices: 20691434--20691605 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
20691424 AGGATATTTG
* *
20691434 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
20691499 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
20691527 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
20691592 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
20691606 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAATTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Done.