Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 44 of 59
Found at i:15845866 original size:222 final size:214
Alignment explanation
Indices: 15845475--15845911 Score: 750
Period size: 222 Copynumber: 2.0 Consensus size: 214
15845465 ATAGATGATA
*
15845475 ATATTGATCAACTGTTAATTATAAAGATTTATTTTACTTAAAATAAAAATATAAAAATTTGATTA
1 ATATTAATCAACTGTTAATTATAAAGATTTATTTTACTTAAAATAAAAATATAAAAATTTGATTA
*
15845540 AATATAATAAAAAAGAATTTATTTAAAAATTTTAAATAATTTAATAATTTTTAAATATTATACCT
66 AATATAATAAAAAAAAATTTATTTAAAAATTTTAAATAATTTAATAATTTTTAAATATTATACCT
15845605 TTTCTTTTTTTTTTAAATGACAAGAGTAGGCGAATGTATCATATTAAAGTGTCATAGCTCATTTT
131 TTTCTTTTTTTTTTAAATGACAAGAGTAGGCGAATGTATCATATTAAAGTGTCATAGCTCATTTT
15845670 ATTTTTTTAATTTAAAAGT
196 ATTTTTTTAATTTAAAAGT
*
15845689 NATATTAATCAATTGTTAATTATAAAGATTTATTTTACTTAAAATAAAAATATAAAAAATTTGAT
1 -ATATTAATCAACTGTTAATTATAAAGATTTATTTTACTTAAAATAAAAATAT-AAAAATTTGAT
*
15845754 TGAATATAATAAAAGAATAAATATTTATTT-AAAATTTTAAATAATTTAATTAATTTTTTAAAAT
64 TAAATATAAT-AAA-AA-AAA-ATTTATTTAAAAATTTTAAATAATTTAA-TAA-TTTTT-AAAT
15845818 ATTATACCTTTTCTTTTTTTTTTAAATGACAAGAGTAGGCGAATGTATCATATTAAAGTGTCATA
122 ATTATACCTTTTCTTTTTTTTTTAAATGACAAGAGTAGGCGAATGTATCATATTAAAGTGTCATA
15845883 GCTCATTTTATTTTTTTAATTTAAAAGT
187 GCTCATTTTATTTTTTTAATTTAAAAGT
15845911 A
1 A
15845912 GGAAAACCAT
Statistics
Matches: 210, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
215 50 0.24
216 20 0.10
217 3 0.01
218 2 0.01
219 21 0.10
220 11 0.05
221 6 0.03
222 97 0.46
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (214 bp):
ATATTAATCAACTGTTAATTATAAAGATTTATTTTACTTAAAATAAAAATATAAAAATTTGATTA
AATATAATAAAAAAAAATTTATTTAAAAATTTTAAATAATTTAATAATTTTTAAATATTATACCT
TTTCTTTTTTTTTTAAATGACAAGAGTAGGCGAATGTATCATATTAAAGTGTCATAGCTCATTTT
ATTTTTTTAATTTAAAAGT
Found at i:15851197 original size:13 final size:13
Alignment explanation
Indices: 15851179--15851222 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
15851169 AAATTTAAGT
*
15851179 TAAATTTATTTTG
1 TAAATTTATTTTA
15851192 TAAATTTACTTTTA
1 TAAATTTA-TTTTA
*
15851206 TAAGTTT-TTTTA
1 TAAATTTATTTTA
15851218 TAAAT
1 TAAAT
15851223 AAACTGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 9 0.33
13 8 0.30
14 10 0.37
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (13 bp):
TAAATTTATTTTA
Found at i:15866733 original size:17 final size:18
Alignment explanation
Indices: 15866700--15866736 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
15866690 TATTATTATA
15866700 TTTATATATACTAATACT
1 TTTATATATACTAATACT
15866718 TTTAGTATATA-T-ATACT
1 TTTA-TATATACTAATACT
15866735 TT
1 TT
15866737 AAATATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTATATATACTAATACT
Found at i:15866743 original size:17 final size:17
Alignment explanation
Indices: 15866703--15866753 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
15866693 TATTATATTT
*
15866703 ATATATACTAATACTTTTA
1 ATATATA-T-ATACTTTAA
*
15866722 GTATATATATACTTTAA
1 ATATATATATACTTTAA
*
15866739 ATATAAATATA-TTTA
1 ATATATATATACTTTA
15866754 CTTTCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 1 0.04
19 6 0.21
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (17 bp):
ATATATATATACTTTAA
Found at i:15867613 original size:2 final size:2
Alignment explanation
Indices: 15867606--15867639 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15867596 ATTAATTATA
15867606 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
15867640 TTTATAGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15877626 original size:357 final size:356
Alignment explanation
Indices: 15876953--15877640 Score: 1071
Period size: 357 Copynumber: 1.9 Consensus size: 356
15876943 TATTTTTACT
* * * *
15876953 ATAGTTAGTCAATCACTAGTTATAAGAGCCTATTTAGTTCAAATAAAAGTATAGATGGTTAATTA
1 ATAGTTAGTCAATCACTAATCATAAGAGCCTATTCAGTTCAAATAAAAGTATAAATGGTTAATTA
**** * *
15877018 ATTGTAACAAAAGAATCATGACTTTTTTTGAATTTGCTTGTATAATTCAAGAATTTTTTAAAATA
66 AACACAACAAAAGAATCATGACCTTTTTTGAATTTACTTGTATAATTCAAGAATTTTTTAAAATA
* *
15877083 TTATGCTTTTATAAAGTATAAACTTTCTTGGAAAATAAGAGCTCTTTATAAATATAGTCTTAAGT
131 TTATGCTTTTATAAAGTATAAACTTTCTTGGAAAATAAGAGCTCTATATAAATATAATCTTAAGT
15877148 TGAATTGGAAACACGTTAGGTAAGGTTGCTTTTACGTGGAAATAGCCTTGCAACTAAGAGTGGAC
196 TGAATTGGAAACACGTTAGGTAAGGTTGCTTTTACGTGGAAATAGCCTTGCAACTAAGAGTGGAC
* *
15877213 TTCTAGTCTTTCTCCTTTTATATTTTTTAAAGTGAAAGGAGAGTAGTGGATTCATTTTCATTACT
261 TTCTAGTCTTTCTCCTTTAATATTTTTTAAAGTGAAA-GAGAGTAGTGGATTCATTTTCATTACC
15877278 TTTTATATTTTTTTTCATAAATGTTACTAATA
325 TTTTATATTTTTTTTCATAAATGTTACTAATA
*
15877310 ATAGTTAGTCAATCATTAATCATAA-AGGCCTATTCAGTTCAAA-AAATA-TATAAATGGTTAAT
1 ATAGTTAGTCAATCACTAATCATAAGA-GCCTATTCAGTTCAAATAAA-AGTATAAATGGTTAAT
* * *
15877372 TAAACACAATAAAAGAATTATGACCCTTTTTTGAATTTACTTGTATAGTTCAA-AGATTTTTTAA
64 TAAACACAACAAAAGAATCATGA-CCTTTTTTGAATTTACTTGTATAATTCAAGA-ATTTTTTAA
* * *
15877436 AATATTATGCTTTTATAAAGTTTAAACTTTCTTGGAAAATAAGAGCTGTATATAAATCTAATCTT
127 AATATTATGCTTTTATAAAGTATAAACTTTCTTGGAAAATAAGAGCTCTATATAAATATAATCTT
*
15877501 AAGTTGAATTGGAAATACGTTAGGTAAGGTTGCTTTTACGTGGAAATAGCCTTGCAACTAAGAGT
192 AAGTTGAATTGGAAACACGTTAGGTAAGGTTGCTTTTACGTGGAAATAGCCTTGCAACTAAGAGT
*
15877566 GGACTTCTAGTCTTTCTCCTTTAATATATTTTTAAAGTGAAA-AGAGTAGTGGGGTTCATTTTCA
257 GGACTTCTAGTCTTTCTCCTTTAATAT-TTTTTAAAGTGAAAGAGAGTAGT-GGATTCATTTTCA
15877630 TTACCTTTTAT
320 TTACCTTTTAT
15877641 GTGTTTTTGA
Statistics
Matches: 302, Mismatches: 23, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
356 43 0.14
357 245 0.81
358 14 0.05
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (356 bp):
ATAGTTAGTCAATCACTAATCATAAGAGCCTATTCAGTTCAAATAAAAGTATAAATGGTTAATTA
AACACAACAAAAGAATCATGACCTTTTTTGAATTTACTTGTATAATTCAAGAATTTTTTAAAATA
TTATGCTTTTATAAAGTATAAACTTTCTTGGAAAATAAGAGCTCTATATAAATATAATCTTAAGT
TGAATTGGAAACACGTTAGGTAAGGTTGCTTTTACGTGGAAATAGCCTTGCAACTAAGAGTGGAC
TTCTAGTCTTTCTCCTTTAATATTTTTTAAAGTGAAAGAGAGTAGTGGATTCATTTTCATTACCT
TTTATATTTTTTTTCATAAATGTTACTAATA
Found at i:15883325 original size:22 final size:22
Alignment explanation
Indices: 15883300--15883411 Score: 82
Period size: 22 Copynumber: 5.1 Consensus size: 22
15883290 GAGTAGCTTT
*
15883300 TAGGAATTGTGTGACTGGGTTG
1 TAGGAATTGCGTGACTGGGTTG
* * * * *
15883322 TAGGCATTGCGCGATTGGTTTT
1 TAGGAATTGCGTGACTGGGTTG
15883344 TA-GACATTGCGTGACTGGGTTG
1 TAGGA-ATTGCGTGACTGGGTTG
* * ** *
15883366 TAAGAATTGCGGGACTGATTTT
1 TAGGAATTGCGTGACTGGGTTG
* * *
15883388 TAGGCATTGCGTCACTAGGTTG
1 TAGGAATTGCGTGACTGGGTTG
15883410 TA
1 TA
15883412 AGGATTACCA
Statistics
Matches: 65, Mismatches: 23, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
21 1 0.02
22 62 0.95
23 2 0.03
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.36
Consensus pattern (22 bp):
TAGGAATTGCGTGACTGGGTTG
Found at i:15883345 original size:44 final size:44
Alignment explanation
Indices: 15883297--15883413 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
15883287 CAAGAGTAGC
* * * * *
15883297 TTTTAGGAATTGTGTGACTGGGTTGTAGGCATTGCGCGATTGGT
1 TTTTAGGAATTGCGTGACTGGGTTGTAAGAATTGCGCGACTGAT
*
15883341 TTTTA-GACATTGCGTGACTGGGTTGTAAGAATTGCGGGACTGAT
1 TTTTAGGA-ATTGCGTGACTGGGTTGTAAGAATTGCGCGACTGAT
* * *
15883385 TTTTAGGCATTGCGTCACTAGGTTGTAAG
1 TTTTAGGAATTGCGTGACTGGGTTGTAAG
15883414 GATTACCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 2 0.03
44 59 0.95
45 1 0.02
ACGTcount: A:0.20, C:0.11, G:0.32, T:0.37
Consensus pattern (44 bp):
TTTTAGGAATTGCGTGACTGGGTTGTAAGAATTGCGCGACTGAT
Found at i:15883475 original size:23 final size:22
Alignment explanation
Indices: 15883427--15883484 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 22
15883417 TACCAAATTT
*
15883427 ATTTTTAGGCATTGCGCGACTT
1 ATTTTTAGGCATTGCGCGACTG
* * *
15883449 ATTTATTAGGGATTGTGGGACTG
1 ATTT-TTAGGCATTGCGCGACTG
*
15883472 A-TTTTAAGCATTG
1 ATTTTTAGGCATTG
15883485 TCTGACAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 8 0.28
22 6 0.21
23 15 0.52
ACGTcount: A:0.22, C:0.10, G:0.26, T:0.41
Consensus pattern (22 bp):
ATTTTTAGGCATTGCGCGACTG
Found at i:15885214 original size:35 final size:34
Alignment explanation
Indices: 15885146--15885348 Score: 111
Period size: 35 Copynumber: 6.0 Consensus size: 34
15885136 TTTTACCAAG
* * * *
15885146 CTTT-ACAATGGCTTTTACCAGGCTTAGCTAAAAC
1 CTTTCACAATGGTTTTTA-CAGGCTCAACCAAAAC
* *
15885180 CTTTCACAATAGTTTTTACTAGGATCAACCAAAAC
1 CTTTCACAATGGTTTTTAC-AGGCTCAACCAAAAC
* * *
15885215 C---CA-AAGTGGTTTTCAAAGGCTCAACCACAAC
1 CTTTCACAA-TGGTTTTTACAGGCTCAACCAAAAC
*
15885246 CTTTCACAATGGTTTTTCACGGGCTCAACCAAAAC
1 CTTTCACAATGGTTTTT-ACAGGCTCAACCAAAAC
* * *
15885281 C---CA-AAGTGGTTTTTCAAAAGCTCAACCACAAC
1 CTTTCACAA-TGGTTTTT-ACAGGCTCAACCAAAAC
* * * *
15885313 C-TACAACAATAGTTTTTCACGGGATCAACCAAAAC
1 CTTTC-ACAATGGTTTTT-ACAGGCTCAACCAAAAC
15885348 C
1 C
15885349 CAACACCTAA
Statistics
Matches: 131, Mismatches: 25, Indels: 25
0.72 0.14 0.14
Matches are distributed among these distances:
31 18 0.14
32 34 0.26
34 15 0.11
35 62 0.47
36 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.13, T:0.26
Consensus pattern (34 bp):
CTTTCACAATGGTTTTTACAGGCTCAACCAAAAC
Found at i:15885254 original size:66 final size:67
Alignment explanation
Indices: 15885177--15885351 Score: 266
Period size: 67 Copynumber: 2.6 Consensus size: 67
15885167 GCTTAGCTAA
* *
15885177 AACCTTTCACAATAGTTTTT-ACTAGGATCAACCAAAACCCAAAGTGG-TTTTCAAAGGCTCAAC
1 AACCTTTCACAATAGTTTTTCAC-GGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAAC
15885240 CAC
65 CAC
* *
15885243 AACCTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
1 AACCTTTCACAATAGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
15885308 AC
66 AC
*
15885310 AACC-TACAACAATAGTTTTTCACGGGATCAACCAAAACCCAA
1 AACCTTTC-ACAATAGTTTTTCACGGGATCAACCAAAACCCAA
15885352 CACCTAACTT
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
66 43 0.43
67 56 0.57
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (67 bp):
AACCTTTCACAATAGTTTTTCACGGGATCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACC
AC
Found at i:15897140 original size:32 final size:32
Alignment explanation
Indices: 15897104--15897252 Score: 120
Period size: 35 Copynumber: 4.5 Consensus size: 32
15897094 TTTACCGGAA
15897104 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
1 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
* * * **
15897136 TCAACCACAACTTTTCACAA-TGGTTTTTCACGGGC
1 TCAACCAAAAC---CCA-AAGTAGTTTTTCAAAGGC
* *
15897171 TCAACCAAAACCCAAAGTGGTTTTTCAAAAGC
1 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
* * ** *
15897203 TCAACCACAACCTACAACAATAGTTTTTCACGGGA
1 TCAACCAAAACC--CAA-AGTAGTTTTTCAAAGGC
15897238 TCAACCAAAACCCAA
1 TCAACCAAAACCCAA
15897253 CACCTAACTT
Statistics
Matches: 91, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
31 2 0.02
32 35 0.38
33 3 0.03
34 3 0.03
35 46 0.51
36 2 0.02
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (32 bp):
TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
Found at i:15897160 original size:67 final size:66
Alignment explanation
Indices: 15897080--15897252 Score: 249
Period size: 67 Copynumber: 2.6 Consensus size: 66
15897070 TAGCCAAAAT
* *
15897080 CTTTCACAATGGTTTTT-ACCGGAATCAACCAAAACCCAAAGTAGTTTTTCAAAGGCTCAACCAC
1 CTTTCACAATGGTTTTTCA-CGGGATCAACCAAAACCCAAAGTAGTTTTTCAAAAGCTCAACCAC
15897144 AA
65 AA
* *
15897146 CTTTTCACAATGGTTTTTCACGGGCTCAACCAAAACCCAAAGTGGTTTTTCAAAAGCTCAACCAC
1 C-TTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAGTTTTTCAAAAGCTCAACCAC
15897211 AA
65 AA
* * *
15897213 CCTACAACAATAGTTTTTCACGGGATCAACCAAAACCCAA
1 CTTTC-ACAATGGTTTTTCACGGGATCAACCAAAACCCAA
15897253 CACCTAACTT
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
66 3 0.03
67 92 0.96
68 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (66 bp):
CTTTCACAATGGTTTTTCACGGGATCAACCAAAACCCAAAGTAGTTTTTCAAAAGCTCAACCACA
A
Found at i:15897164 original size:35 final size:32
Alignment explanation
Indices: 15897104--15897214 Score: 116
Period size: 32 Copynumber: 3.4 Consensus size: 32
15897094 TTTACCGGAA
* *
15897104 TCAACCAAAACCCAAAGTAGTTTTTCAAAGGC
1 TCAACCACAACCCAAAGTGGTTTTTCAAAGGC
* **
15897136 TCAACCACAACTTTTCACAA-TGGTTTTTCACGGGC
1 TCAACCACAAC---CCA-AAGTGGTTTTTCAAAGGC
* *
15897171 TCAACCAAAACCCAAAGTGGTTTTTCAAAAGC
1 TCAACCACAACCCAAAGTGGTTTTTCAAAGGC
15897203 TCAACCACAACC
1 TCAACCACAACC
15897215 TACAACAATA
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
31 2 0.03
32 35 0.56
35 24 0.38
36 2 0.03
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (32 bp):
TCAACCACAACCCAAAGTGGTTTTTCAAAGGC
Found at i:15898093 original size:28 final size:28
Alignment explanation
Indices: 15897998--15898123 Score: 130
Period size: 28 Copynumber: 4.5 Consensus size: 28
15897988 AAAATATTTT
** *
15897998 TTTTGTTACACACCCTGTATAATTTCTA
1 TTTTGTTACATGCCTTGTATAATTTCTA
* *
15898026 TTTTGTTACACGCACTT-TATAATTTATA
1 TTTTGTTACATGC-CTTGTATAATTTCTA
* *
15898054 TTTTGTTGCATGCCTTGTGTAATTTCTA
1 TTTTGTTACATGCCTTGTATAATTTCTA
* *
15898082 TTTTGTTACATGCCTT-AACTAATTTTTA
1 TTTTGTTACATGCCTTGTA-TAATTTCTA
*
15898110 ATTTGTTACATGCC
1 TTTTGTTACATGCC
15898124 ATACCTTTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
27 3 0.04
28 78 0.94
29 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (28 bp):
TTTTGTTACATGCCTTGTATAATTTCTA
Found at i:15898122 original size:56 final size:56
Alignment explanation
Indices: 15897999--15898123 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 56
15897989 AAATATTTTT
** * *
15897999 TTTGTTACACACCCTGTATAATTTCTATTTTGTTACACGCACTTTATAATTTATAT
1 TTTGTTACATGCCCTGTATAATTTCTATTTTGTTACACGCACTTAATAATTTATAA
* * * * *
15898055 TTTGTTGCATGCCTTGTGTAATTTCTATTTTGTTACATGC-CTTAACTAATTTTTAA
1 TTTGTTACATGCCCTGTATAATTTCTATTTTGTTACACGCACTTAA-TAATTTATAA
15898111 TTTGTTACATGCC
1 TTTGTTACATGCC
15898124 ATACCTTTAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 4 0.07
56 54 0.93
ACGTcount: A:0.23, C:0.17, G:0.10, T:0.50
Consensus pattern (56 bp):
TTTGTTACATGCCCTGTATAATTTCTATTTTGTTACACGCACTTAATAATTTATAA
Found at i:15898473 original size:28 final size:28
Alignment explanation
Indices: 15898442--15898516 Score: 123
Period size: 28 Copynumber: 2.7 Consensus size: 28
15898432 ATACACATTA
*
15898442 TAATTTCTATTTTGTTACATGCCCTGAC
1 TAATTTCTATTTTCTTACATGCCCTGAC
*
15898470 TAATTTCTATTTTCTTACCTGCCCTGAC
1 TAATTTCTATTTTCTTACATGCCCTGAC
*
15898498 TAATTTCTCTTTTCTTACA
1 TAATTTCTATTTTCTTACA
15898517 CGCCAAACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.20, C:0.24, G:0.07, T:0.49
Consensus pattern (28 bp):
TAATTTCTATTTTCTTACATGCCCTGAC
Found at i:15900407 original size:33 final size:33
Alignment explanation
Indices: 15900363--15900430 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
15900353 GGCAACAGAT
15900363 TACTAGCTAAGACCTTCAGGAGAATGCAAATTC
1 TACTAGCTAAGACCTTCAGGAGAATGCAAATTC
* * *
15900396 TACTAGTTAAGACCTTCAGGAGACTGTAAATTC
1 TACTAGCTAAGACCTTCAGGAGAATGCAAATTC
15900429 TA
1 TA
15900431 TCTCTTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (33 bp):
TACTAGCTAAGACCTTCAGGAGAATGCAAATTC
Found at i:15903338 original size:65 final size:65
Alignment explanation
Indices: 15903217--15903389 Score: 206
Period size: 65 Copynumber: 2.7 Consensus size: 65
15903207 ATGTTGACAA
* * * *
15903217 AAGCA-TGCATGACTAGTTGATAGGGCATGCGTGACTGGTTTTAGGCATTAGGTTTAAGGGTTTT
1 AAGCATTGCGTGACTAGTTGATAGGGCATGCGTGATTGGTTTTAGGCATTAGATTTAAAGGTTTT
* * *
15903281 AAGCATTGCGTGACTGGTTGATAGGGCATGCGTGATTAGTTTTAGGTATT-GCATTTAAAGGTTT
1 AAGCATTGCGTGACTAGTTGATAGGGCATGCGTGATTGGTTTTAGGCATTAG-ATTTAAAGGTTT
15903345 T
65 T
* * * * *
15903346 AGGCATTGTGTGATTAATTGATAAGGCATTGCGTGATTGGTTTT
1 AAGCATTGCGTGACTAGTTGATAGGGCA-TGCGTGATTGGTTTT
15903390 TAATCATTGC
Statistics
Matches: 92, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
64 6 0.07
65 72 0.78
66 14 0.15
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.38
Consensus pattern (65 bp):
AAGCATTGCGTGACTAGTTGATAGGGCATGCGTGATTGGTTTTAGGCATTAGATTTAAAGGTTTT
Found at i:15903391 original size:45 final size:45
Alignment explanation
Indices: 15903342--15903442 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
15903332 CATTTAAAGG
* * *
15903342 TTTTAGGCATTGTGTGATTAATTGATAAGGCATTGCGTGATTGGT
1 TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
** **
15903387 TTTTAATCATTGCGTAATTGGTTGATAAGGCAATGCGTGATTGGT
1 TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
15903432 TTTTAGGCATT
1 TTTTAGGCATT
15903443 AAGTGACTGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.43
Consensus pattern (45 bp):
TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
Found at i:15903399 original size:22 final size:22
Alignment explanation
Indices: 15903371--15903521 Score: 122
Period size: 22 Copynumber: 6.8 Consensus size: 22
15903361 AATTGATAAG
15903371 GCATTGCGTGATTGGTTTTTAA
1 GCATTGCGTGATTGGTTTTTAA
* * **
15903393 TCATTGCGTAATTGGTTGATAA
1 GCATTGCGTGATTGGTTTTTAA
* *
15903415 GGCAATGCGTGATTGGTTTTTAG
1 -GCATTGCGTGATTGGTTTTTAA
** *
15903438 GCATTAAGTGACTGGTTTTTAA
1 GCATTGCGTGATTGGTTTTTAA
* *** *
15903460 TCATTAAATGATTGGTTTGTAA
1 GCATTGCGTGATTGGTTTTTAA
* * *
15903482 GGAATTACGTGATTGATTTTTAA
1 -GCATTGCGTGATTGGTTTTTAA
*
15903505 TCATTGCGTGATTGGTT
1 GCATTGCGTGATTGGTT
15903522 GATAGAGCAT
Statistics
Matches: 98, Mismatches: 29, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
22 66 0.67
23 32 0.33
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.43
Consensus pattern (22 bp):
GCATTGCGTGATTGGTTTTTAA
Found at i:15903429 original size:23 final size:23
Alignment explanation
Indices: 15903346--15903432 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
15903336 TAAAGGTTTT
* **
15903346 AGGCATTGTGTGATTAATTGATA
1 AGGCATTGCGTGATTGGTTGATA
**
15903369 AGGCATTGCGTGATTGGTTTTTA
1 AGGCATTGCGTGATTGGTTGATA
* *
15903392 A-TCATTGCGTAATTGGTTGATA
1 AGGCATTGCGTGATTGGTTGATA
*
15903414 AGGCAATGCGTGATTGGTT
1 AGGCATTGCGTGATTGGTT
15903433 TTTAGGCATT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.24, C:0.08, G:0.29, T:0.39
Consensus pattern (23 bp):
AGGCATTGCGTGATTGGTTGATA
Found at i:15903440 original size:67 final size:67
Alignment explanation
Indices: 15903369--15903521 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 67
15903359 TTAATTGATA
*** * *
15903369 AGGCATTGCGTGATTGGTTTTTAATCATTGCGTAATTGG-TTGATAAGGCAA-TGCGTGATTGGT
1 AGGCATTGCGTGATTGGTTTTTAATCATTAAATAATTGGTTTG-TAAGG-AATTACGTGATTGAT
15903432 TTTT
64 TTTT
** * *
15903436 AGGCATTAAGTGACTGGTTTTTAATCATTAAATGATTGGTTTGTAAGGAATTACGTGATTGATTT
1 AGGCATTGCGTGATTGGTTTTTAATCATTAAATAATTGGTTTGTAAGGAATTACGTGATTGATTT
15903501 TT
66 TT
**
15903503 AATCATTGCGTGATTGGTT
1 AGGCATTGCGTGATTGGTT
15903522 GATAGAGCAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
66 2 0.03
67 65 0.93
68 3 0.04
ACGTcount: A:0.24, C:0.08, G:0.25, T:0.42
Consensus pattern (67 bp):
AGGCATTGCGTGATTGGTTTTTAATCATTAAATAATTGGTTTGTAAGGAATTACGTGATTGATTT
TT
Found at i:15903454 original size:45 final size:45
Alignment explanation
Indices: 15903363--15903454 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
15903353 GTGTGATTAA
* * ** *
15903363 TTGATAAGGCATTGCGTGATTGGTTTTTAATCATTGCGTAATTGG
1 TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
* *
15903408 TTGATAAGGCAATGCGTGATTGGTTTTTAGGCATTAAGTGACTGG
1 TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
15903453 TT
1 TT
15903455 TTTAATCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.23, C:0.09, G:0.28, T:0.40
Consensus pattern (45 bp):
TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
Found at i:15903517 original size:45 final size:44
Alignment explanation
Indices: 15903420--15903521 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 44
15903410 GATAAGGCAA
* * *
15903420 TGCGTGATTGGTTTTTAGGCATTAAGTGACTGGTTTTTAATCAT
1 TGCGTGATTGGTTTTAAGGAATTAAGTGACTGATTTTTAATCAT
*** * *
15903464 TAAATGATTGGTTTGTAAGGAATTACGTGATTGATTTTTAATCAT
1 TGCGTGATTGGTTT-TAAGGAATTAAGTGACTGATTTTTAATCAT
15903509 TGCGTGATTGGTT
1 TGCGTGATTGGTT
15903522 GATAGAGCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
44 11 0.24
45 35 0.76
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.45
Consensus pattern (44 bp):
TGCGTGATTGGTTTTAAGGAATTAAGTGACTGATTTTTAATCAT
Found at i:15903568 original size:23 final size:23
Alignment explanation
Indices: 15903489--15903586 Score: 83
Period size: 23 Copynumber: 4.2 Consensus size: 23
15903479 TAAGGAATTA
*
15903489 CGTGATTGATTTT-TA-ATCATTG
1 CGTGATTG-TTTTATAGAGCATTG
* *
15903511 CGTGATTGGTTGATAGAGCATTG
1 CGTGATTGTTTTATAGAGCATTG
* * *
15903534 CTTGACTATTTTATAGAGCATTG
1 CGTGATTGTTTTATAGAGCATTG
* *
15903557 CGTAATTGTTTTCTATAGTGCATTG
1 CGTGATTG-TTT-TATAGAGCATTG
15903582 CGTGA
1 CGTGA
15903587 CTATCATTGA
Statistics
Matches: 58, Mismatches: 14, Indels: 5
0.75 0.18 0.06
Matches are distributed among these distances:
21 2 0.03
22 10 0.17
23 28 0.48
24 3 0.05
25 15 0.26
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.43
Consensus pattern (23 bp):
CGTGATTGTTTTATAGAGCATTG
Found at i:15905472 original size:23 final size:22
Alignment explanation
Indices: 15905430--15905494 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
15905420 GGATGTGAGG
*
15905430 TCACATAATGCCTAAAAACTAA
1 TCACGTAATGCCTAAAAACTAA
*
15905452 TCACGTAATGCCTTAAAAACTAG
1 TCACGTAATGCC-TAAAAACTAA
* *
15905475 TCACGGAATACCCTAAAAAC
1 TCACGTAAT-GCCTAAAAAC
15905495 CATTCATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 11 0.30
23 24 0.65
24 2 0.05
ACGTcount: A:0.45, C:0.25, G:0.09, T:0.22
Consensus pattern (22 bp):
TCACGTAATGCCTAAAAACTAA
Found at i:15906542 original size:28 final size:28
Alignment explanation
Indices: 15906505--15906630 Score: 103
Period size: 28 Copynumber: 4.5 Consensus size: 28
15906495 TACAAAAACA
*
15906505 TTTT-TTTTGTTACACACCCTGTATAAT
1 TTTTATTTTGTTACACGCCCTGTATAAT
* * *
15906532 TTTTATTTTGTTGCACGCACTTTATAAT
1 TTTTATTTTGTTACACGCCCTGTATAAT
* ** * * *
15906560 TTATATTTTGTTGTATGCCTTGTGTAAT
1 TTTTATTTTGTTACACGCCCTGTATAAT
* * *
15906588 TTCTATTTTGTTACATGCCCT-AACTAAT
1 TTTTATTTTGTTACACGCCCTGTA-TAAT
*
15906616 TTTTAATTTGTTACA
1 TTTTATTTTGTTACA
15906631 TGCCATACCT
Statistics
Matches: 78, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
27 4 0.05
28 74 0.95
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.53
Consensus pattern (28 bp):
TTTTATTTTGTTACACGCCCTGTATAAT
Found at i:15906984 original size:28 final size:28
Alignment explanation
Indices: 15906953--15907027 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
15906943 ATACACATTA
* *
15906953 TAATTTCTATTTTGTTACATGCCCTGAC
1 TAATTTCTATTTTCTTACATGCCCTAAC
*
15906981 TAATTTCTATTTTCTTACCTGCCCTAAC
1 TAATTTCTATTTTCTTACATGCCCTAAC
*
15907009 TAATTTCTCTTTTCTTACA
1 TAATTTCTATTTTCTTACA
15907028 CGCCAAACCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.49
Consensus pattern (28 bp):
TAATTTCTATTTTCTTACATGCCCTAAC
Found at i:15908932 original size:33 final size:33
Alignment explanation
Indices: 15908884--15908951 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
15908874 GGCAACAGAT
15908884 TACTAGCTAAAACCTTCAGAAGAATGCAAATTC
1 TACTAGCTAAAACCTTCAGAAGAATGCAAATTC
* * * * *
15908917 TACTAGTTAAGACCTTCAGGAGACTGTAAATTC
1 TACTAGCTAAAACCTTCAGAAGAATGCAAATTC
15908950 TA
1 TA
15908952 TCTCTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (33 bp):
TACTAGCTAAAACCTTCAGAAGAATGCAAATTC
Found at i:15921085 original size:21 final size:19
Alignment explanation
Indices: 15921059--15921097 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
15921049 GGTGCTGTTA
15921059 CCTTTAAGCTTCATTTGTGGC
1 CCTTTAAGCTT--TTTGTGGC
*
15921080 CCTTTATGCTTTTTGTGG
1 CCTTTAAGCTTTTTGTGG
15921098 ATGAGTTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.49
Consensus pattern (19 bp):
CCTTTAAGCTTTTTGTGGC
Found at i:15926382 original size:81 final size:81
Alignment explanation
Indices: 15926269--15926417 Score: 201
Period size: 81 Copynumber: 1.8 Consensus size: 81
15926259 AAAGCATGCA
* * * *
15926269 TGACTAGTTGATAGGGCATGTGTGACTGGTTTTAGGCATTAG-GTTTAAGGGTTTTAAGCATTGC
1 TGACTAGTTGATAGGGCATGCGTGACTAGTTTTAGGCATT-GCATTTAAAGGTTTTAAGCATTGC
15926333 GTGACTTAGGGTTTGCG
65 GTGACTTAGGGTTTGCG
* * * * *
15926350 TGACTGGTTGATAGGGCATGCGTGATTAGTTTTAGGTATTGCATTTAAAGGTTTTAGGCATTGTG
1 TGACTAGTTGATAGGGCATGCGTGACTAGTTTTAGGCATTGCATTTAAAGGTTTTAAGCATTGCG
15926415 TGA
66 TGA
15926418 TTAATTGATA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.02
81 57 0.98
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (81 bp):
TGACTAGTTGATAGGGCATGCGTGACTAGTTTTAGGCATTGCATTTAAAGGTTTTAAGCATTGCG
TGACTTAGGGTTTGCG
Found at i:15926450 original size:45 final size:45
Alignment explanation
Indices: 15926401--15926501 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
15926391 CATTTAAAGG
* * *
15926401 TTTTAGGCATTGTGTGATTAATTGATAAGGCATTGCGTGATTGGT
1 TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
** ** *
15926446 TTTTAATCATTGCGTAATTGGTTGATAAGGCAATGTGTGATTGGT
1 TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
15926491 TTTTAGGCATT
1 TTTTAGGCATT
15926502 AAGTGACTGG
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.23, C:0.07, G:0.27, T:0.44
Consensus pattern (45 bp):
TTTTAGGCATTGCGTAATTAATTGATAAGGCAATGCGTGATTGGT
Found at i:15926458 original size:22 final size:22
Alignment explanation
Indices: 15926430--15926580 Score: 86
Period size: 22 Copynumber: 6.8 Consensus size: 22
15926420 AATTGATAAG
15926430 GCATTGCGTGATTGGTTTTTAA
1 GCATTGCGTGATTGGTTTTTAA
* * **
15926452 TCATTGCGTAATTGGTTGATAA
1 GCATTGCGTGATTGGTTTTTAA
* * *
15926474 GGCAATGTGTGATTGGTTTTTAG
1 -GCATTGCGTGATTGGTTTTTAA
** *
15926497 GCATTAAGTGACTGGTTTTTAA
1 GCATTGCGTGATTGGTTTTTAA
* * * * **
15926519 TCATTACATGACTGGTTCGTAA
1 GCATTGCGTGATTGGTTTTTAA
* * * *
15926541 GGAATTACGTGACTGATTTTTAA
1 -GCATTGCGTGATTGGTTTTTAA
* *
15926564 TCATTGTGTGATTGGTT
1 GCATTGCGTGATTGGTT
15926581 GATAGAGCAT
Statistics
Matches: 94, Mismatches: 33, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
22 63 0.67
23 31 0.33
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.42
Consensus pattern (22 bp):
GCATTGCGTGATTGGTTTTTAA
Found at i:15926513 original size:45 final size:45
Alignment explanation
Indices: 15926422--15926513 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
15926412 GTGTGATTAA
* * ** *
15926422 TTGATAAGGCATTGCGTGATTGGTTTTTAATCATTGCGTAATTGG
1 TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
* * *
15926467 TTGATAAGGCAATGTGTGATTGGTTTTTAGGCATTAAGTGACTGG
1 TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
15926512 TT
1 TT
15926514 TTTAATCATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.23, C:0.08, G:0.28, T:0.41
Consensus pattern (45 bp):
TTGATAAGGCAATGCGTGATTGGTTTTTAAGCATTAAGTAACTGG
Found at i:15926580 original size:45 final size:44
Alignment explanation
Indices: 15926479--15926581 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 44
15926469 GATAAGGCAA
* * * *
15926479 TGTGTGATTGGTTTTTAGGCATTAAGTGACTGGTTTTTAATCAT
1 TGTGTGATTGGTTGTAAGGAATTAAGTGACTGATTTTTAATCAT
*** * *
15926523 TACATGACTGGTTCGTAAGGAATTACGTGACTGATTTTTAATCAT
1 TGTGTGATTGGTT-GTAAGGAATTAAGTGACTGATTTTTAATCAT
15926568 TGTGTGATTGGTTG
1 TGTGTGATTGGTTG
15926582 ATAGAGCATT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 10 0.22
45 35 0.78
ACGTcount: A:0.22, C:0.09, G:0.25, T:0.44
Consensus pattern (44 bp):
TGTGTGATTGGTTGTAAGGAATTAAGTGACTGATTTTTAATCAT
Found at i:15926608 original size:23 final size:24
Alignment explanation
Indices: 15926582--15926649 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 24
15926572 TGATTGGTTG
*
15926582 ATAGAGCATTGCTTGACTATTT-T
1 ATAGAGCATTGCGTGACTATTTCT
* *
15926605 ATAGAGCATTGCGTAACTGTTTTCT
1 ATAGAGCATTGCGTGACT-ATTTCT
*
15926630 ATAGTGCATTGCGTGACTAT
1 ATAGAGCATTGCGTGACTAT
15926650 CATTGATTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
23 16 0.43
24 4 0.11
25 17 0.46
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (24 bp):
ATAGAGCATTGCGTGACTATTTCT
Found at i:15928857 original size:18 final size:21
Alignment explanation
Indices: 15928816--15928857 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
15928806 ATTTAAGCTG
*
15928816 AGAAGAATTTGGAAGGAGTTA
1 AGAAGAATTTGGAAGGAGTCA
15928837 AGAAG-ATTTGGAA-GA-TCA
1 AGAAGAATTTGGAAGGAGTCA
15928855 AGA
1 AGA
15928858 TTATAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 5 0.25
19 2 0.10
20 8 0.40
21 5 0.25
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.21
Consensus pattern (21 bp):
AGAAGAATTTGGAAGGAGTCA
Found at i:15929970 original size:33 final size:33
Alignment explanation
Indices: 15929925--15930009 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
15929915 ACGTTTATTA
*
15929925 AAATTTTC-TTAATTTTAATGATGAAATTTTGT
1 AAATTATCTTTAATTTTAATGATGAAATTTTGT
15929957 AAATTATCTTTAATTTTAATGATGAAATTTTGT
1 AAATTATCTTTAATTTTAATGATGAAATTTTGT
15929990 AAATTATCTTTAATTTTAAT
1 AAATTATCTTTAATTTTAAT
15930010 TACTACTTTT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 7 0.14
33 44 0.86
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.53
Consensus pattern (33 bp):
AAATTATCTTTAATTTTAATGATGAAATTTTGT
Found at i:15929973 original size:19 final size:19
Alignment explanation
Indices: 15929949--15930006 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
15929939 TTAATGATGA
15929949 AATTTTGTAAATTATCTTT
1 AATTTTGTAAATTATCTTT
* **
15929968 AA-TTT-T-AATGA--TGA
1 AATTTTGTAAATTATCTTT
15929982 AATTTTGTAAATTATCTTT
1 AATTTTGTAAATTATCTTT
15930001 AATTTT
1 AATTTT
15930007 AATTACTACT
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
14 3 0.11
15 3 0.11
16 5 0.18
17 5 0.18
18 3 0.11
19 9 0.32
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
AATTTTGTAAATTATCTTT
Found at i:15931328 original size:28 final size:28
Alignment explanation
Indices: 15931261--15931335 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
15931251 GCTATAAAAA
*
15931261 AACAAGT-TAAGTGAA-AAGGTGTATGTG
1 AACAAGTATAAGAGAATAA-GTGTATGTG
* * *
15931288 AATAGGTACAAGAGAATAAGTGTATGTG
1 AACAAGTATAAGAGAATAAGTGTATGTG
15931316 AACAAGTATAAGAGAATAAG
1 AACAAGTATAAGAGAATAAG
15931336 GTAAAAGGAG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
27 5 0.13
28 32 0.82
29 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.23
Consensus pattern (28 bp):
AACAAGTATAAGAGAATAAGTGTATGTG
Found at i:15931582 original size:35 final size:35
Alignment explanation
Indices: 15931543--15931653 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 35
15931533 CTTGTATGAG
*
15931543 TTGTTTCGTGTGAAGTAGTGCTTCGCTTGTTCTAA
1 TTGTTTCGTGTGAAGTAGTGCTTCACTTGTTCTAA
*
15931578 TTGTTTCATGTGAAGTAGTGCTTCACTTGTTCTAA
1 TTGTTTCGTGTGAAGTAGTGCTTCACTTGTTCTAA
* * * *
15931613 TTGTTCCGTGTGAAGTAATTCTTCACTTATTCTAA
1 TTGTTTCGTGTGAAGTAGTGCTTCACTTGTTCTAA
15931648 TT-TTTC
1 TTGTTTC
15931654 TACATGAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
34 3 0.04
35 65 0.96
ACGTcount: A:0.18, C:0.15, G:0.19, T:0.48
Consensus pattern (35 bp):
TTGTTTCGTGTGAAGTAGTGCTTCACTTGTTCTAA
Found at i:15936008 original size:74 final size:73
Alignment explanation
Indices: 15935894--15936035 Score: 194
Period size: 74 Copynumber: 1.9 Consensus size: 73
15935884 GTGCTTAATT
* * * *
15935894 TCAAATTTCTGACGGTGAGCTTTTAGTTGACTAACTATACTTTTTAGTCGATTAAGTCTTCTTTG
1 TCAAATTTCTGACGGTAAGCTTTTAATTGACTAACTATACTTTTTAGTCGATTAAGTATCCTTTG
15935959 TCTCGTAA
66 TCTCGTAA
* * * * *
15935967 TCAAATTCTTTGATGGTAAGCTTTTAATTGGCTAATTATACTTTTTAGTTGATTAAGTATCCTTT
1 TCAAATT-TCTGACGGTAAGCTTTTAATTGACTAACTATACTTTTTAGTCGATTAAGTATCCTTT
15936032 GTCT
65 GTCT
15936036 TGCAATCTGC
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
73 7 0.12
74 52 0.88
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.46
Consensus pattern (73 bp):
TCAAATTTCTGACGGTAAGCTTTTAATTGACTAACTATACTTTTTAGTCGATTAAGTATCCTTTG
TCTCGTAA
Found at i:15936837 original size:29 final size:30
Alignment explanation
Indices: 15936801--15936873 Score: 103
Period size: 29 Copynumber: 2.4 Consensus size: 30
15936791 AAATATTTAT
15936801 AATATCCACAATAGCTAAACAAGATATA-C
1 AATATCCACAATAGCTAAACAAGATATATC
* * *
15936830 AATATCCACAGTAGCTAAGCAAGATATATTG
1 AATATCCACAATAGCTAAACAAGATATA-TC
15936861 AATATCCACAATA
1 AATATCCACAATA
15936874 ACTAGCACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 26 0.68
31 12 0.32
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.23
Consensus pattern (30 bp):
AATATCCACAATAGCTAAACAAGATATATC
Found at i:15942951 original size:30 final size:30
Alignment explanation
Indices: 15942915--15942974 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15942905 AAGCTGAAAT
15942915 TTCATTTGTCATAATCACAAAACTCAACTA
1 TTCATTTGTCATAATCACAAAACTCAACTA
15942945 TTCATTTGTCATAATCACAAAACTCAACTA
1 TTCATTTGTCATAATCACAAAACTCAACTA
15942975 ACATATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.33
Consensus pattern (30 bp):
TTCATTTGTCATAATCACAAAACTCAACTA
Found at i:15947720 original size:25 final size:24
Alignment explanation
Indices: 15947667--15947754 Score: 79
Period size: 24 Copynumber: 3.5 Consensus size: 24
15947657 TGTTACGTTG
* * *
15947667 AAAAAATATTATTATACGTCATA-T
1 AAAAAA-AATATTACACGTTATATT
*
15947691 AAAAAAATATATTACACGTTATTGTT
1 AAAAAAA-ATATTACACGTTA-TATT
* *
15947717 AAAAAAAATTGTTACATGTTATATT
1 AAAAAAAA-TATTACACGTTATATT
15947742 AAAAAAAATATTA
1 AAAAAAAATATTA
15947755 TTGTTACATG
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 20 0.38
25 13 0.25
26 18 0.35
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (24 bp):
AAAAAAAATATTACACGTTATATT
Found at i:15947776 original size:28 final size:30
Alignment explanation
Indices: 15947724--15947784 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
15947714 GTTAAAAAAA
*
15947724 ATTGTTACATGTTATATTAAAAAAAATATT
1 ATTGTTACATGTTATAGTAAAAAAAATATT
*
15947754 ATTGTTACATGTTAT-GTATAAAAATATATT
1 ATTGTTACATGTTATAGTA-AAAAAAATATT
15947784 A
1 A
15947785 CAAAGTATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (30 bp):
ATTGTTACATGTTATAGTAAAAAAAATATT
Found at i:15949589 original size:20 final size:19
Alignment explanation
Indices: 15949543--15949586 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
15949533 AGTTAAATTC
15949543 TTTAATTAATTTAATAAAAT
1 TTTAATTAATTTAAT-AAAT
15949563 TTTAATTAATTTAGAT-AAT
1 TTTAATTAATTTA-ATAAAT
15949582 TTTAA
1 TTTAA
15949587 ATTTTACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTAATTTAATAAAT
Found at i:15951082 original size:51 final size:51
Alignment explanation
Indices: 15950926--15951083 Score: 162
Period size: 51 Copynumber: 3.1 Consensus size: 51
15950916 TAATAAATAA
15950926 ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAAGTTAACTTT
1 ATTTTTATTAATCACAAATTACTTTGTTCACAATAG-AAAAAAGTTAACTTT
* *** * * * * * **
15950978 ATTTTT-TT-TTTTTAAATAAATTT-TTAGAAAATATAAAAAAG-TATTTTT
1 ATTTTTATTAATCACAAATTACTTTGTT-CACAATAGAAAAAAGTTAACTTT
15951026 NATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAGTTAACTTT
1 -ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAGTTAACTTT
15951078 ATTTTT
1 ATTTTT
15951084 TTTTTTAAAT
Statistics
Matches: 78, Mismatches: 22, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
48 5 0.06
49 15 0.19
50 16 0.21
51 29 0.37
52 13 0.17
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (51 bp):
ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAGTTAACTTT
Found at i:15951086 original size:101 final size:97
Alignment explanation
Indices: 15950926--15951124 Score: 355
Period size: 101 Copynumber: 2.0 Consensus size: 97
15950916 TAATAAATAA
15950926 ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAAGTTAACTTTATTTTTTTTTTTT
1 ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAAGTTAACTTTA-TTTTTTTTTTT
15950991 AAATAAATTTTTAGAAAATATAAAAAAGTATTTTT
65 AAATAAATTTTTAG-AAATAT-AAAAAGTATTTTT
15951026 NATTTTTATTAATCACAAATTACTTTGTTCACAATAG-AAAAAAGTTAACTTTATTTTTTTTTTT
1 -ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAAGTTAACTTTATTTTTTTTTTT
15951090 AAATAAATTTTTAGAAATATAAAAAGTATTTTT
65 AAATAAATTTTTAGAAATATAAAAAGTATTTTT
15951123 AT
1 AT
15951125 ATAATATAAA
Statistics
Matches: 98, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
96 2 0.02
97 13 0.13
98 6 0.06
99 25 0.26
100 16 0.16
101 36 0.37
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (97 bp):
ATTTTTATTAATCACAAATTACTTTGTTCACAATAGAAAAAAAGTTAACTTTATTTTTTTTTTTA
AATAAATTTTTAGAAATATAAAAAGTATTTTT
Found at i:15957176 original size:9 final size:8
Alignment explanation
Indices: 15957150--15957180 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
15957140 AATAAATAAG
15957150 TATAAAAA
1 TATAAAAA
15957158 TATAAAAA
1 TATAAAAA
15957166 TATAAATAA
1 TATAAA-AA
15957175 TATAAA
1 TATAAA
15957181 GAGAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
TATAAAAA
Found at i:15965736 original size:2 final size:2
Alignment explanation
Indices: 15965729--15965763 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
15965719 TTTGTTCTTT
* *
15965729 TA TA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15965764 GACACCATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15966650 original size:19 final size:19
Alignment explanation
Indices: 15966626--15966667 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
15966616 TTTTTTTTCT
* *
15966626 TTTGAATTTCATCTTAGAA
1 TTTGAATTCCATCCTAGAA
15966645 TTTGAATTCCATCCTAGAA
1 TTTGAATTCCATCCTAGAA
15966664 TTTG
1 TTTG
15966668 TTCCTGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (19 bp):
TTTGAATTCCATCCTAGAA
Found at i:15966756 original size:14 final size:14
Alignment explanation
Indices: 15966737--15966766 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15966727 ACAAAGTTTG
15966737 TTGAATATTGGATA
1 TTGAATATTGGATA
*
15966751 TTGAATATTGGGTA
1 TTGAATATTGGATA
15966765 TT
1 TT
15966767 AGGATATCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (14 bp):
TTGAATATTGGATA
Found at i:15973996 original size:20 final size:21
Alignment explanation
Indices: 15973973--15974016 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
15973963 AATTTAGTAA
15973973 AATTTAAAATTAT-TTAAATT
1 AATTTAAAATTATATTAAATT
* *
15973993 AA-TTAAGATTTTATTAAATT
1 AATTTAAAATTATATTAAATT
15974013 AATT
1 AATT
15974017 AAATAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 8 0.40
20 11 0.55
21 1 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
AATTTAAAATTATATTAAATT
Found at i:15976779 original size:20 final size:19
Alignment explanation
Indices: 15976733--15976782 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
15976723 TAGATATCAT
15976733 CCATTACCAATGAAATTTA
1 CCATTACCAATGAAATTTA
* *
15976752 TCAGTTACCAATGGAATTTAA
1 CCA-TTACCAATGAAATTT-A
15976773 CCATTACCAA
1 CCATTACCAA
15976783 CAAAGTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (19 bp):
CCATTACCAATGAAATTTA
Found at i:15978398 original size:144 final size:144
Alignment explanation
Indices: 15978137--15978412 Score: 423
Period size: 144 Copynumber: 1.9 Consensus size: 144
15978127 TCAAACATAC
15978137 ATTATTTATTCAACATTTATTATTAGTACTTGAGTACAGACAAATGTAATTATACATGTATTTTT
1 ATTATTTATTCAACATTTATTATTAGTACTTGAGTACAGACAAATGTAATTATACATGTATTTTT
* * *
15978202 TCAATTTAATGTTAACATAACTAAAAATTTGTTATTGGTTAATATGTATAATTTTTTTATTTAAA
66 CCAATTTAACGTTAACATAACTAAAAATTTGTTATTGATTAATATGTATAA-TTTTTTATTTAAA
15978267 AAATTGTATATATGT
130 AAATTGTATATATGT
* * *
15978282 ATTATTTATTCAACATTTGTTATTAGTACTTGTA-TACAGAC-AGTGTAATTATATATGTATTTT
1 ATTATTTATTCAACATTTATTATTAGTACTTG-AGTACAGACAAATGTAATTATACATGTATTTT
* * *
15978345 TCCATTTTAACGTTAACCATAACT-CAAATTTGTTATTGATTTATATGTATAATTTTTTATTTAA
65 TCCAATTTAACGTTAA-CATAACTAAAAATTTGTTATTGATTAATATGTATAATTTTTTATTTAA
15978409 AAAA
129 AAAA
15978413 CCATGGGAAA
Statistics
Matches: 120, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
143 16 0.13
144 58 0.48
145 45 0.38
146 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.48
Consensus pattern (144 bp):
ATTATTTATTCAACATTTATTATTAGTACTTGAGTACAGACAAATGTAATTATACATGTATTTTT
CCAATTTAACGTTAACATAACTAAAAATTTGTTATTGATTAATATGTATAATTTTTTATTTAAAA
AATTGTATATATGT
Found at i:15978938 original size:30 final size:30
Alignment explanation
Indices: 15978877--15978938 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
15978867 AGGGGATTAC
* *
15978877 TTGTTAATTTACTATAATTTGCTAGATTGA
1 TTGTTAATTTACTATAATTTGCTAAAGTGA
15978907 TTGTTAATTTACTATAATTTGCTAAAGTGA
1 TTGTTAATTTACTATAATTTGCTAAAGTGA
15978937 TT
1 TT
15978939 AGATAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (30 bp):
TTGTTAATTTACTATAATTTGCTAAAGTGA
Found at i:15989494 original size:47 final size:47
Alignment explanation
Indices: 15989437--15989528 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 47
15989427 GAAATTGGAA
15989437 ACTAAAGCATAGCTAAGTTGGTCGGCCATGGATGGAAGAAAACTTTG
1 ACTAAAGCATAGCTAAGTTGGTCGGCCATGGATGGAAGAAAACTTTG
*
15989484 ACTAAAGCATAGCTAAGTTGGTTGGCCATGGATGGAAGAAAACTT
1 ACTAAAGCATAGCTAAGTTGGTCGGCCATGGATGGAAGAAAACTT
15989529 AGTAAGCTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (47 bp):
ACTAAAGCATAGCTAAGTTGGTCGGCCATGGATGGAAGAAAACTTTG
Found at i:16002404 original size:21 final size:22
Alignment explanation
Indices: 16002357--16002412 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
16002347 GCTGATATAT
*
16002357 TTTAGATTAGTTTTAGTTATTAG
1 TTTA-ATTAGTTTTAATTATTAG
*
16002380 TTT-ATTAGTTTTAATT-TTAAT
1 TTTAATTAGTTTTAATTATT-AG
16002401 TTTAATT-GTTTT
1 TTTAATTAGTTTT
16002413 GATAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 2 0.07
21 21 0.72
22 3 0.10
23 3 0.10
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (22 bp):
TTTAATTAGTTTTAATTATTAG
Found at i:16011327 original size:17 final size:18
Alignment explanation
Indices: 16011290--16011328 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16011280 ATATTAAATT
16011290 TTATTATATTTGATGTTG
1 TTATTATATTTGATGTTG
* *
16011308 TTATTAT-TTTTATTTTG
1 TTATTATATTTGATGTTG
16011325 TTAT
1 TTAT
16011329 AATTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (18 bp):
TTATTATATTTGATGTTG
Found at i:16011380 original size:19 final size:19
Alignment explanation
Indices: 16011329--16011380 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
16011319 ATTTTGTTAT
* *
16011329 AATTATTTTTATAATTATAA
1 AATTATATTTA-AATAATAA
*
16011349 AATTTAAATTTAAATAATAA
1 AA-TTATATTTAAATAATAA
16011369 AATTATATTTAA
1 AATTATATTTAA
16011381 TTGTAAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 9 0.33
20 11 0.41
21 7 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AATTATATTTAAATAATAA
Found at i:16013871 original size:12 final size:11
Alignment explanation
Indices: 16013849--16013874 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16013839 AACAAAATAA
16013849 TAAAATTTTTT
1 TAAAATTTTTT
16013860 TAAAATTTTTT
1 TAAAATTTTTT
16013871 TAAA
1 TAAA
16013875 TAATTTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TAAAATTTTTT
Found at i:16015401 original size:4 final size:4
Alignment explanation
Indices: 16015392--16015421 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
16015382 CCATTGTAGC
16015392 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
16015422 ATGCTTATTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:16029362 original size:48 final size:48
Alignment explanation
Indices: 16029291--16029387 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
16029281 TGTCCTTCCC
*
16029291 CTTTTTAGTCACTCTGTTTTATCT-TCACCTCAAATGGCTCTGTTTAAT
1 CTTTTTAGTCACTCTGTTTTATCTGT-ACCTCAAATGACTCTGTTTAAT
16029339 CTTTTTAGTCACTCTGTTTTATCTGTACCTCAAATGACTCTGTTTAAT
1 CTTTTTAGTCACTCTGTTTTATCTGTACCTCAAATGACTCTGTTTAAT
16029387 C
1 C
16029388 ACATAATTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.10, T:0.47
Consensus pattern (48 bp):
CTTTTTAGTCACTCTGTTTTATCTGTACCTCAAATGACTCTGTTTAAT
Found at i:16030444 original size:18 final size:19
Alignment explanation
Indices: 16030404--16030445 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
16030394 ATTCTCTAGA
*
16030404 TTTAATTTAATTTATTTAT
1 TTTAATTTAATTTATTTAC
16030423 TTTAA-TTAATTT-TTTCAC
1 TTTAATTTAATTTATTT-AC
16030441 TTTAA
1 TTTAA
16030446 ATGTCAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTAATTTAATTTATTTAC
Found at i:16030758 original size:30 final size:29
Alignment explanation
Indices: 16030710--16030774 Score: 96
Period size: 28 Copynumber: 2.2 Consensus size: 29
16030700 TTGAGGGAAG
16030710 AAAATTATAAATTATTTAAAAAATAAAAAAT
1 AAAATTATAAATTATTT--AAAATAAAAAAT
16030741 AAAATTATAAA-TATTTAAAATAAAAAAT
1 AAAATTATAAATTATTTAAAATAAAAAAT
16030769 ATAAAT
1 A-AAAT
16030775 ATTTGAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
28 13 0.39
29 4 0.12
30 5 0.15
31 11 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (29 bp):
AAAATTATAAATTATTTAAAATAAAAAAT
Found at i:16030760 original size:22 final size:22
Alignment explanation
Indices: 16030736--16030783 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16030726 TAAAAAATAA
*
16030736 AAAAT-AAAATTATAAATATTT
1 AAAATAAAAAATATAAATATTT
16030757 AAAATAAAAAATATAAATATTT
1 AAAATAAAAAATATAAATATTT
*
16030779 GAAAT
1 AAAAT
16030784 TTTGGGGGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATAAAAAATATAAATATTT
Found at i:16031724 original size:17 final size:17
Alignment explanation
Indices: 16031702--16031735 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16031692 TTCCATTGCT
*
16031702 TAATTGCTTAAAGAGTA
1 TAATTGCATAAAGAGTA
16031719 TAATTGCATAAAGAGTA
1 TAATTGCATAAAGAGTA
16031736 ATTTTTCACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (17 bp):
TAATTGCATAAAGAGTA
Found at i:16039498 original size:122 final size:116
Alignment explanation
Indices: 16039287--16039525 Score: 318
Period size: 122 Copynumber: 2.0 Consensus size: 116
16039277 AGTCAGTCAA
* * * * *
16039287 TTCCAATTTCTAATTACCTTTCAGATGAAAGCTCTAATCTGATGGTTCATCATCATAGGGTGATG
1 TTCCAATTTCCAATTACCTTTCAGATGAAAACTCTAATCTGATGATTCATCATCATAGGATAATG
* * *
16039352 AATGAACATCAAACACAAAGTGATGCAAAGTCAACAGAAAATTTCAAGCAG
66 AATGAACATCAAACACAAAATGATGCAAAGTCAACAGAAAAATGCAAGCAG
*
16039403 TTCCAATTTCCAATTACCTTTCAGATGGAAAACTCTAATCTCCGATGATTCATCATCTTAGAGCA
1 TTCCAATTTCCAATTACCTTTCAGAT-GAAAACTCTAATCT--GATGATTCATCATCATAG-G--
*
16039468 ATAAGTG-ATGAACATCAAACACAAAATGATGCAAAGTCACCAGAAAAATGCAAGCAG
60 ATAA-TGAATGAACATCAAACACAAAATGATGCAAAGTCAACAGAAAAATGCAAGCAG
16039525 T
1 T
16039526 ATTACAATGG
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
116 25 0.24
117 13 0.12
119 16 0.15
120 1 0.01
122 49 0.46
123 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (116 bp):
TTCCAATTTCCAATTACCTTTCAGATGAAAACTCTAATCTGATGATTCATCATCATAGGATAATG
AATGAACATCAAACACAAAATGATGCAAAGTCAACAGAAAAATGCAAGCAG
Found at i:16040924 original size:24 final size:24
Alignment explanation
Indices: 16040896--16040949 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16040886 CACCGCCATT
16040896 TCCCTCCGCTTCCTC-CCTCTCTCC
1 TCCCTCCGCTTCCTCTCCTCTC-CC
* * *
16040920 TCCCTCTGTTTCCTCTCCTCTCCT
1 TCCCTCCGCTTCCTCTCCTCTCCC
16040944 TCCCTC
1 TCCCTC
16040950 AACCTCCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.00, C:0.57, G:0.04, T:0.39
Consensus pattern (24 bp):
TCCCTCCGCTTCCTCTCCTCTCCC
Found at i:16043882 original size:23 final size:24
Alignment explanation
Indices: 16043838--16043892 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
16043828 AAAGAGAGAA
* * *
16043838 TAAATAATTAAAGAAAATAGTATT
1 TAAATAAATAAAGAAAAAAGTAAT
*
16043862 TATATAAATAAA-AAAAAAGTAAT
1 TAAATAAATAAAGAAAAAAGTAAT
16043885 TAAATAAA
1 TAAATAAA
16043893 CCAAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (24 bp):
TAAATAAATAAAGAAAAAAGTAAT
Found at i:16082151 original size:36 final size:36
Alignment explanation
Indices: 16082104--16082199 Score: 174
Period size: 36 Copynumber: 2.7 Consensus size: 36
16082094 TACGAAGCTA
16082104 TTGATTCTAGTTAGAATTAGGAATCAAAACCTTCTT
1 TTGATTCTAGTTAGAATTAGGAATCAAAACCTTCTT
16082140 TTGATTCTAGTTAGAATTAGGAATCAAAACCTTCTT
1 TTGATTCTAGTTAGAATTAGGAATCAAAACCTTCTT
* *
16082176 TTGATTCCAGTTAGAATAAGGAAT
1 TTGATTCTAGTTAGAATTAGGAAT
16082200 TAAGACTTGT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (36 bp):
TTGATTCTAGTTAGAATTAGGAATCAAAACCTTCTT
Found at i:16084472 original size:4 final size:4
Alignment explanation
Indices: 16084458--16084489 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
16084448 AAAGCTTAGA
16084458 AAAG CAAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAA
16084490 AAACTTAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.03, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:16087137 original size:16 final size:17
Alignment explanation
Indices: 16087110--16087142 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
16087100 AATAAGTTAT
16087110 TAATATTATAACAAATA
1 TAATATTATAACAAATA
*
16087127 TAATATT-TAACCAATA
1 TAATATTATAACAAATA
16087143 CCTAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATTATAACAAATA
Found at i:16087342 original size:21 final size:20
Alignment explanation
Indices: 16087317--16087358 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
16087307 AATTAATTAA
16087317 TTTAAATGAATCATATTCAAT
1 TTTAAATGAATCA-ATTCAAT
* *
16087338 TTTAAATTAATTAATTCAAT
1 TTTAAATGAATCAATTCAAT
16087358 T
1 T
16087359 CCATAGACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTAAATGAATCAATTCAAT
Found at i:16089554 original size:24 final size:24
Alignment explanation
Indices: 16089527--16089582 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
16089517 TAATAGTAAA
*
16089527 AAGCAAAAGCGAAGTAGTGAGAAG
1 AAGCAAAAGAGAAGTAGTGAGAAG
* * * *
16089551 AAGCAGAAGATAGGTAGTGAGCAG
1 AAGCAAAAGAGAAGTAGTGAGAAG
16089575 AAGCAAAA
1 AAGCAAAA
16089583 CTAGAGAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.09, G:0.32, T:0.09
Consensus pattern (24 bp):
AAGCAAAAGAGAAGTAGTGAGAAG
Found at i:16099145 original size:34 final size:34
Alignment explanation
Indices: 16099103--16099321 Score: 230
Period size: 35 Copynumber: 6.3 Consensus size: 34
16099093 TTGTTTTCTA
16099103 TCTC-AAATTTGTAGCAAAACTCTTTCTTTTTCC
1 TCTCAAAATTTGTAGCAAAACTCTTTCTTTTTCC
16099136 TCTCAAAATTTGTAGCAAAACTCTATT-TTTTTCCC
1 TCTCAAAATTTGTAGCAAAACTCT-TTCTTTTT-CC
* * * *
16099171 TCTTAAAATTTATAGCAAAACTCTCTCTATTTCCC
1 TCTCAAAATTTGTAGCAAAACTCTTTCT-TTTTCC
** * *
16099206 TCTCAAAATTTACAGCACAACTCTTTCTATTT-C
1 TCTCAAAATTTGTAGCAAAACTCTTTCTTTTTCC
* * * *
16099239 TTTCCAAAAATTTTGCAGCAAAACTCTCTCTATTTCCC
1 TCT-C-AAAA-TTTGTAGCAAAACTCTTTCT-TTTTCC
16099277 TCTCAAAATTTGTAGCAAAACT-TTGTCTTTTTCC
1 TCTCAAAATTTGTAGCAAAACTCTT-TCTTTTTCC
16099311 TCTCAAAATTT
1 TCTCAAAATTT
16099322 TGCAGCTCAA
Statistics
Matches: 155, Mismatches: 20, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
33 7 0.05
34 45 0.29
35 73 0.47
36 24 0.15
37 3 0.02
38 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.42
Consensus pattern (34 bp):
TCTCAAAATTTGTAGCAAAACTCTTTCTTTTTCC
Found at i:16099293 original size:106 final size:103
Alignment explanation
Indices: 16099115--16099321 Score: 263
Period size: 106 Copynumber: 2.0 Consensus size: 103
16099105 TCAAATTTGT
* * * * *
16099115 AGCAAAACTCTTTCTTTTTCCTCTCAAAATTTGTAGCAAAACTCTATTTTTTTCCCTCTTAAAAT
1 AGCAAAACTCTTTCTATTTCCTCTCAAAATTTGCAGCAAAACTCTATCTATTTCCCTCTCAAAAT
16099180 TTATAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTAC
66 TTATAGCAAAACTCTCTCT-TTTCCCTCTCAAAATTTAC
* * *
16099219 AGCACAACTCTTTCTATTT-CTTTCCAAAAATTTTGCAGCAAAACTCTCTCTATTTCCCTCTCAA
1 AGCAAAACTCTTTCTATTTCCTCT-C-AAAA-TTTGCAGCAAAACTCTATCTATTTCCCTCTCAA
* * * *
16099283 AATTTGTAGCAAAACTTTGTCTTTTTCCTCTCAAAATTT
63 AATTTATAGCAAAACTCTCTCTTTTCCCTCTCAAAATTT
16099322 TGCAGCTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
103 3 0.03
104 18 0.20
105 20 0.23
106 47 0.53
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (103 bp):
AGCAAAACTCTTTCTATTTCCTCTCAAAATTTGCAGCAAAACTCTATCTATTTCCCTCTCAAAAT
TTATAGCAAAACTCTCTCTTTTCCCTCTCAAAATTTAC
Found at i:16115265 original size:40 final size:39
Alignment explanation
Indices: 16115218--16115323 Score: 115
Period size: 38 Copynumber: 2.7 Consensus size: 39
16115208 CTCATCTGAC
* *
16115218 TCATGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCA
1 TCATGTGCATCCCCCCACATCGTGCACA-AGCCAGAGCCA
* * * * * *
16115258 TCGTGTGCATCCCTCCACATCATGTAC-AGTCAGTGCCA
1 TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGCCA
*
16115296 TCATATGCATCCCCCCACATCGTGCACA
1 TCATGTGCATCCCCCCACATCGTGCACA
16115324 CGGGCATTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
38 29 0.56
40 23 0.44
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.23
Consensus pattern (39 bp):
TCATGTGCATCCCCCCACATCGTGCACAAGCCAGAGCCA
Found at i:16116468 original size:35 final size:35
Alignment explanation
Indices: 16116389--16116606 Score: 239
Period size: 35 Copynumber: 6.3 Consensus size: 35
16116379 TTGTTTTCTC
* *
16116389 TCTC-AAATTTGCAGCACAACTCTTTCTTTTTCC-
1 TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
*
16116422 TCTCAAAATTTGTAGCAAAACTCTCTCTTTTTCCT
1 TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
*
16116457 TCTCAAAATTTGCAGCAAAACTCTCTCTATTTCCT
1 TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
* * * * *
16116492 TCTCAAAATTTGTAGCACAACTCTTTCTATTTCTT
1 TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
* * *
16116527 TC-CAAAAATTTACAGTAAAACTCTCTCTATTTCCCT
1 TCTC-AAAATTTGCAGCAAAACTCTCTCT-TTTTCCT
* * * *
16116563 T-TCAAAATTTACAGCAAAACTTTGTCTTTTTTC-
1 TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
16116596 TCTCAAAATTT
1 TCTCAAAATTT
16116607 TGCAACACAA
Statistics
Matches: 157, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
33 5 0.03
34 40 0.25
35 106 0.68
36 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (35 bp):
TCTCAAAATTTGCAGCAAAACTCTCTCTTTTTCCT
Found at i:16116568 original size:105 final size:103
Alignment explanation
Indices: 16116383--16116616 Score: 276
Period size: 105 Copynumber: 2.2 Consensus size: 103
16116373 CAGCTCTTGT
* **
16116383 TTTCTCTCTC-AAATTTGCAGCACAACTCTTTCTTTTTCCTCTCAAAATTTGTAGCAAAACTCTC
1 TTTC-CTCTCAAAATTTGCAGCACAACTCTTTCTATTTCCTCTCAAAATTTACAGCAAAACTCTC
* *
16116447 TCTTTTTCCTTCTCAAAATTTGCAGCAAAACTCTCTCTA
65 TCTTTTCCCTTCTCAAAATTTACAGCAAAACTCTCTCTA
* * *
16116486 TTTCCTTCTCAAAATTTGTAGCACAACTCTTTCTATTT-CTTTCCAAAAATTTACAGTAAAACTC
1 TTTCC-TCTCAAAATTTGCAGCACAACTCTTTCTATTTCCTCT-C-AAAATTTACAGCAAAACTC
* * *
16116550 TCTCTATTTCCCTT-TCAAAATTTACAGCAAAACTTTGTCTT
63 TCTCT-TTTCCCTTCTCAAAATTTACAGCAAAACTCTCTCTA
* *
16116591 TTTTCTCTCAAAATTTTGCAACACAA
1 TTTCCTCTCAAAA-TTTGCAGCACAA
16116617 AGCCTCTTTT
Statistics
Matches: 111, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
102 1 0.01
103 11 0.10
104 34 0.31
105 58 0.52
106 7 0.06
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.41
Consensus pattern (103 bp):
TTTCCTCTCAAAATTTGCAGCACAACTCTTTCTATTTCCTCTCAAAATTTACAGCAAAACTCTCT
CTTTTCCCTTCTCAAAATTTACAGCAAAACTCTCTCTA
Found at i:16126089 original size:748 final size:745
Alignment explanation
Indices: 16124703--16126635 Score: 2186
Period size: 748 Copynumber: 2.6 Consensus size: 745
16124693 TGTGAGTTTT
* * * *
16124703 TTTAATTTTTAAAAGTTTACGTCAAGGTTTTTTAACTACTAATTTTCACTA-GAATTATTTTAAT
1 TTTAATTCTTACAAGTTTACGTCAAGGTTTTTTAACTACTAATTTTCTCTATG-ATTATTTTTAT
* * * *
16124767 CCTTACTATTACTCGTGTATAAATTAAAATTTGTAAATCATTAAACACTTTAAACTT-AATAATA
65 CCTTACTATTATTCGTTTATAAATTAAAATTTGTAAATCGTTAAACACTTTAAA-TTCAAGAATA
*
16124831 TAAATTTAAATATTTAATTTTTTAAAAAATTATATCTATTTGACTTAA-T--TTGTTAC-GTTAA
129 TAAATTTAAATATTTAA-TTTTTAAAAAA-TAT-T-TATTTGACTTAATTACTTGTTACGGTAAA
*
16124892 TTCTCAAAGGTTTATGTCAATATTTTGACATTACTTGTTCC-CCCTT-TAGAAGTTTTTACTTTA
190 TT-TCAAA-GTTTATGTCAATATTTTGACATTACTTGTTCCACCCTTATA-AAG-TTTTACGTTA
* ** * * *
16124955 ATTCTTATAGGTTTACGTTAACGTTTTGGAACTAA-TAATTTTCTCTATAATTA-TTTCATCCTC
251 ATTCTTATAGGTTTACGTTAAGGTTTTTCAAC-AACTAATTTTCTCTATAATTATTTTTATCTTT
* ** * * *
16125018 ATTATTATTTGTTTATAAATTAAAATTTGTAAACTGTTATACACTTTATACTCAAGAATATAAAT
315 ACTATTATTTGTTTATAAATTAATTTTTGTAAACTGTTAAACACTTTAAACTCTAGAATATAAAT
* * * ** *
16125083 TTAAATATTTAATTTTTCAAAAATTTATGTTATTTTACTTAATTGACTTGTTACATTTTATCTCA
380 TTAAATATTTAATTTTTCAAAAAATTATATTATTTGACTTAATTGACTTG-TACATTAAATCTAA
* * * ** * * * *
16125148 CGTGTTAGGTCATTATTTTGACATTGTTTGTTCCACCTTTATAGTTTTTATGTTTATTCTTATAG
444 CGTGTTACGCCAATATTTTGACATTACTTATTCCACCTTTATAGTTTTTATATTAATTCTTAAAG
* * *
16125213 GTTTATATCAAAGTATTTTAACTACTAATTTTTACTATAATTATTTTAATAATTATATTATTTGT
509 GTTTATAGCAAAGTATTTTAACTACTAATTTTCACTATAATTATTTTAATAATTATATTATTCGT
* * * *
16125278 TTATAAATTTAAATTTGTGAACCGTTAAGCACTTTGAACTCAAGAATATAAATTTAAATGTTTAA
574 TTATAAATTAAAATTTGTAAACCATTAAGCACTTTAAACTCAAGAATATAAATTTAAATGTTTAA
* * ** *
16125343 -TTTCTTAAAAAATTATGTTTATTTGACTTAATTAACTTGTTACGTTAAATTTTTCACGTTTACG
639 TTTTC-TAAAAAATTATGTTTATTTGACTTAATTAACTTGTTACATTAAATCTCACACGTTTAAG
* * *
16125407 TCAATATTTTGACATTACTTGTTTTATCTTTAAAAGTTTTTAC
703 TCAATATTATGACATTACTTGTTCTACCTTTAAAAGTTTTTAC
* * * * * * *
16125450 TTTAATTCTTACAAGTTTATGTTAAAGTATTTCAACAACTAATTTTCTCTATGATTATTTTTATT
1 TTTAATTCTTACAAGTTTACGTCAAGGTTTTTTAACTACTAATTTTCTCTATGATTATTTTTATC
* * * * *
16125515 TTTACTATTATTCATTTATAAATTAAAGTTTGTAAA-CTGTTAAACATTTTAAATTCGAGAATAT
66 CTTACTATTATTCGTTTATAAATTAAAATTTGTAAATC-GTTAAACACTTTAAATTCAAGAATAT
* *
16125579 AAATTTAATTATTTAATTTTTAAAAAA-ATTTGTTTGACTTAATTGACTTGTTACGGTAAATTTC
130 AAATTTAAATATTTAATTTTTAAAAAATATTTATTTGACTTAATT-ACTTGTTACGGTAAATTTC
* * * * *
16125643 ACAAGTTTATGTCAATATTTTGAGATTGCTTATTCCACCCTTATCAA-TTTTCAGGTTAATTCTT
194 A-AAGTTTATGTCAATATTTTGACATTACTTGTTCCACCCTTATAAAGTTTT-ACGTTAATTCTT
* * * * * * * *
16125707 ACATGTTTACATAAAGGTTTTTCAACAACTATTTTTTTTTAAAAATTATTTTTATCTTTACTATT
257 ATAGGTTTACGTTAAGGTTTTTCAACAACTAATTTTCTCT-ATAATTATTTTTATCTTTACTATT
* *
16125772 ATTCGTTTATAAATTAATTTTTGTAAACTGTTAAATACTTTAAACTCTAGAATATAAATTTAAAT
321 ATTTGTTTATAAATTAATTTTTGTAAACTGTTAAACACTTTAAACTCTAGAATATAAATTTAAAT
* *
16125837 ATTTAATTTTTCAAAAAATTATATTATTTGACTTAATTGACTTGTACGTTAAATCTGAATGT-TT
386 ATTTAATTTTTCAAAAAATTATATTATTTGACTTAATTGACTTGTACATTAAATCT-AACGTGTT
*
16125901 ACGCCAATATTTTGACATTACTTATTCCACCTTTATAAGTTCTTT-TATTAATTTTTAAAGGTTT
450 ACGCCAATATTTTGACATTACTTATTCCACCTTTAT-AGTT-TTTATATTAATTCTTAAAGGTTT
* * * * *
16125965 A-CGCCAAG-ACTTTTCAATTACTAATTTTCACTATATTTATTTTTATAATTACTATTATTCGTT
513 ATAGCAAAGTA-TTTT-AACTACTAATTTTCACTATAATTATTTTAATAATTA-TATTATTCGTT
* * * * *
16126028 TAT-AATTAAAATTTGTAAATCATTGTA-CACTTTAAACTCGAGAATTTAAATTTAGATGTTTAA
575 TATAAATTAAAATTTGTAAACCATT-AAGCACTTTAAACTCAAGAATATAAATTTAAATGTTTAA
* *
16126091 TTTTCTCAAAAATTATGTTTATTTGACTTAATTAACTTGTTACATTAAATCTCACATGTTTAAGT
639 TTTTCTAAAAAATTATGTTTATTTGACTTAATTAACTTGTTACATTAAATCTCACACGTTTAAGT
* * *
16126156 CAATATTATGACATTGCTTGTTCTACCTTTATATGTTTTTAC
704 CAATATTATGACATTACTTGTTCTACCTTTAAAAGTTTTTAC
* * ** * *
16126198 GTTAATTCTTACAAATTTACAACAAGGTTTTTTAACTACTAATTTTCTCTATAATTATTTTTACC
1 TTTAATTCTTACAAGTTTACGTCAAGGTTTTTTAACTACTAATTTTCTCTATGATTATTTTTATC
* * *
16126263 CTTACTATTATTTGTTTATAAATTAAAATTTGTAAATCGTCAAACACTTTAAACTCAAGAATATA
66 CTTACTATTATTCGTTTATAAATTAAAATTTGTAAATCGTTAAACACTTTAAATTCAAGAATATA
* * *
16126328 AATTTAAATGTTTAATTTCTCAAAAAGTTATATTTATTTGACTTAATTAACTTGTTACGTTAAAT
131 AATTTAAATATTTAATTT-TTAAAAA---ATATTTATTTGACTTAATT-ACTTGTTACGGTAAAT
* * * * * *
16126393 CTCATACGTTTACGTCAATATTTTGACATTACTTGTT-CATCCTTTATAAAGTTTTATGTTAATC
191 TTCA-AAGTTTATGTCAATATTTTGACATTACTTGTTCCA-CCCTTATAAAGTTTTACGTTAATT
* * * ** *
16126457 CTTATAGGTTTATGTTAAGATTTTTCAACTACTAATTTTCAGTATAATTATTTTTATTTTTACTA
254 CTTATAGGTTTACGTTAAGGTTTTTCAACAACTAATTTTCTCTATAATTATTTTTATCTTTACTA
* * * * *
16126522 TTATTTATTTATAAATT-ATTATTTACTAAACTGCTAAACATTTTAAACT-TGAGAATGA-AAAA
319 TTATTTGTTTATAAATTAATT-TTT-GTAAACTGTTAAACACTTTAAACTCT-AGAAT-ATAAAT
* * *
16126584 TTAAATGTTTAATTTTTCAAAAAATTATGTTTAGTTGACTTAATTGACTTGT
380 TTAAATATTTAATTTTTCAAAAAATTAT-ATTATTTGACTTAATTGACTTGT
16126636 TATGATAAAT
Statistics
Matches: 990, Mismatches: 160, Indels: 65
0.81 0.13 0.05
Matches are distributed among these distances:
742 11 0.01
743 2 0.00
744 2 0.00
745 6 0.01
746 91 0.09
747 187 0.19
748 429 0.43
749 28 0.03
751 3 0.00
752 42 0.04
753 163 0.16
754 26 0.03
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (745 bp):
TTTAATTCTTACAAGTTTACGTCAAGGTTTTTTAACTACTAATTTTCTCTATGATTATTTTTATC
CTTACTATTATTCGTTTATAAATTAAAATTTGTAAATCGTTAAACACTTTAAATTCAAGAATATA
AATTTAAATATTTAATTTTTAAAAAATATTTATTTGACTTAATTACTTGTTACGGTAAATTTCAA
AGTTTATGTCAATATTTTGACATTACTTGTTCCACCCTTATAAAGTTTTACGTTAATTCTTATAG
GTTTACGTTAAGGTTTTTCAACAACTAATTTTCTCTATAATTATTTTTATCTTTACTATTATTTG
TTTATAAATTAATTTTTGTAAACTGTTAAACACTTTAAACTCTAGAATATAAATTTAAATATTTA
ATTTTTCAAAAAATTATATTATTTGACTTAATTGACTTGTACATTAAATCTAACGTGTTACGCCA
ATATTTTGACATTACTTATTCCACCTTTATAGTTTTTATATTAATTCTTAAAGGTTTATAGCAAA
GTATTTTAACTACTAATTTTCACTATAATTATTTTAATAATTATATTATTCGTTTATAAATTAAA
ATTTGTAAACCATTAAGCACTTTAAACTCAAGAATATAAATTTAAATGTTTAATTTTCTAAAAAA
TTATGTTTATTTGACTTAATTAACTTGTTACATTAAATCTCACACGTTTAAGTCAATATTATGAC
ATTACTTGTTCTACCTTTAAAAGTTTTTAC
Found at i:16126393 original size:252 final size:251
Alignment explanation
Indices: 16124616--16126647 Score: 1954
Period size: 248 Copynumber: 8.1 Consensus size: 251
16124606 GTTTAATATG
* * * * * * * * *
16124616 TTTATTTGACTTAATTGATTTATTACGTTAAATCTCATAGGTTCACCTTAATATTTTGATATTGC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * * * *
16124681 TTATTCCATCC-TTGTGAGTTTTT---TTAATTTTTAAAAGTTTACGTCAAGGTTTTTTAACTAC
66 TTGTTCCA-CCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTAC
* * * * * *
16124742 TAATTTTCACTAGAATTATTTTAATCCTTACTATTACTCGTGTATAAATTAAAATTTGTAAATCA
130 TAATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAA-CG
* * *
16124807 TTAAACACTTTAAACTTAATAATATAAATTTAAATATTTAATTTTTTAAAAAATTATA
194 TTAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* * * * *
16124865 TCTATTTGACTTAA-T---TTGTTACGTTAATTCTCAAAGGTTTATGTCAATATTTTGACATTAC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * * * * * ** *
16124926 TTGTTCCCCCTTTAGAAGTTTTTACTTTAATTCTTATAGGTTTACGTTAACGTTTTGGAACTAAT
66 TTGTTCCACCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTACT
* * * *
16124991 AATTTTCTCTATAATTA-TTTCATCCTCATTATTATTTGTTTATAAATTAAAATTTGTAAACTGT
131 AATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAAC-GT
* *
16125055 TATACACTTTATACTCAAGAATATAAATTTAAATATTTAATTTTTC-AAAAATT-TA
195 TAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* * ** * * * *
16125110 TGTTATTTTACTTAATTGACTTGTTACATTTTATCTCACGTG-TTAGGTCATTATTTTGACATTG
1 T-TTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTA
* * * * * ** *
16125174 TTTGTTCCACCTTTAT-AGTTTTTATGTTTATTCTTATAGGTTTATATCAAAGTATTTT-AACTA
65 CTTGTTCCACCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGT-TTTTCAACTA
* ** * * *
16125237 CTAATTTT-TACTATAATTATTTTAATAATTA-TATTATTTGTTTATAAATTTAAATTTGTGAAC
129 CTAATTTTCT-CTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGT-AAA
* * * *
16125300 CGTTAAGCACTTTGAACTCAAGAATATAAATTTAAATGTTTAATTTCTT-AAAAAATTATG
192 CGTTAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTT-TTCAAAAAATTATA
* * ** *
16125360 TTTATTTGACTTAATTAACTTGTTACGTTAAATTTTTCACGTTTACGTCAATATTTTGACATTAC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
** * * * * * * * *
16125425 TTGTTTTATCTTTAAAAGTTTTTACTTTAATTCTTACAAGTTTATGTTAAAGTATTTCAACAACT
66 TTGTTCCACCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTACT
* ** * *
16125490 AATTTTCTCTATGATTATTTTTATTTTTACTATTATTCATTTATAAATTAAAGTTTGTAAACTGT
131 AATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAAC-GT
* * * *
16125555 TAAACATTTTAAATTCGAGAATATAAATTTAATTATTTAATTTTT--AAAAA--A-A
195 TAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* * * * * * *
16125607 TTTGTTTGACTTAATTGACTTGTTACGGTAAATTTCACAAGTTTATGTCAATATTTTGAGATTGC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * * * * * *
16125672 TTATTCCACCCTTATCAA-TTTTCAGGTTAATTCTTACATGTTTACATAAAGGTTTTTCAACAAC
66 TTGTTCCACCTTTAT-AAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTAC
* * * * * **
16125736 TATTTTTTTTTAAAAATTATTTTTATCTTTACTATTATTCGTTTATAAATTAATTTTTGTAAACT
130 TAATTTTCTCT-ATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAAC-
* *
16125801 GTTAAATACTTTAAACTCTAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
193 GTTAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* *
16125860 -TTATTTGACTTAATTGACTTG-TACGTTAAATCTGA-ATGTTTACGCCAATATTTTGACATTAC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * ** *
16125922 TTATTCCACCTTTATAAGTTCTTTTA--TTAATTTTTA-AAGGTTTACGCCAAGACTTTTCAATT
66 TTGTTCCACCTTTATAAG-T-TTTTACGTTAATTCTTACAA-GTTTACGTCAAGGTTTTTCAACT
* * **
16125984 ACTAATTTTCACTATATTTATTTTTATAATTACTATTATTCGTTTAT-AATTAAAATTTGTAAAT
128 ACTAATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAA-
* ** * * * * *
16126048 CATTGTACACTTTAAACTCGAGAATTTAAATTTAGATGTTTAATTTTCTC-AAAAATTATG
192 CGTTAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTT-TCAAAAAATTATA
* * * * *
16126108 TTTATTTGACTTAATTAACTTGTTACATTAAATCTCACATGTTTAAGTCAATATTATGACATTGC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * ** *
16126173 TTGTTCTACCTTTATATGTTTTTACGTTAATTCTTACAAATTTACAACAAGGTTTTTTAACTACT
66 TTGTTCCACCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTACT
* *
16126238 AATTTTCTCTATAATTATTTTTACCCTTACTATTATTTGTTTATAAATTAAAATTTGTAAATCGT
131 AATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAA-CGT
* * * *
16126303 CAAACACTTTAAACTCAAGAATATAAATTTAAATGTTTAATTTCTCAAAAAGTTATA
195 TAAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* * *
16126360 TTTATTTGACTTAATTAACTTGTTACGTTAAATCTCATACGTTTACGTCAATATTTTGACATTAC
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
* * * * * * *
16126425 TTGTT-CATCCTTTATAAAG-TTTTATGTTAATCCTTATAGGTTTATGTTAAGATTTTTCAACTA
66 TTGTTCCA-CCTTTAT-AAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTA
** ** ** ** *
16126488 CTAATTTTCAGTATAATTATTTTTATTTTTACTATTATTTATTTATAAATTATTATTTACTAAAC
129 CTAATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTT-GTAAAC
* * ** * * *
16126553 TGCTAAACATTTTAAACTTGAGAATGA-AAAATTAAATGTTTAATTTTTCAAAAAATTATG
193 -GTTAAACACTTTAAACTCAAGAAT-ATAAATTTAAATATTTAATTTTTCAAAAAATTATA
* * *
16126613 TTTAGTTGACTTAATTGACTTGTTATGATAAATCT
1 TTTATTTGACTTAATTGACTTGTTACGTTAAATCT
16126648 AATACGTTTA
Statistics
Matches: 1465, Mismatches: 269, Indels: 94
0.80 0.15 0.05
Matches are distributed among these distances:
244 2 0.00
245 55 0.04
246 19 0.01
247 191 0.13
248 318 0.22
249 158 0.11
250 143 0.10
251 183 0.12
252 309 0.21
253 86 0.06
254 1 0.00
ACGTcount: A:0.33, C:0.11, G:0.08, T:0.48
Consensus pattern (251 bp):
TTTATTTGACTTAATTGACTTGTTACGTTAAATCTCACATGTTTACGTCAATATTTTGACATTAC
TTGTTCCACCTTTATAAGTTTTTACGTTAATTCTTACAAGTTTACGTCAAGGTTTTTCAACTACT
AATTTTCTCTATAATTATTTTTATCCTTACTATTATTCGTTTATAAATTAAAATTTGTAAACGTT
AAACACTTTAAACTCAAGAATATAAATTTAAATATTTAATTTTTCAAAAAATTATA
Found at i:16129137 original size:21 final size:20
Alignment explanation
Indices: 16129100--16129142 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
16129090 TTAGTGAATT
16129100 TTTAGTTTTCATTAA-TTAG
1 TTTAGTTTTCATTAATTTAG
*
16129119 TTTAGTGTTTGATTAAATTTAG
1 TTTAGT-TTTCATT-AATTTAG
16129141 TT
1 TT
16129143 GCAATTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 2 0.10
22 6 0.30
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (20 bp):
TTTAGTTTTCATTAATTTAG
Found at i:16129794 original size:19 final size:21
Alignment explanation
Indices: 16129770--16129815 Score: 71
Period size: 19 Copynumber: 2.3 Consensus size: 21
16129760 TACATGTTGA
16129770 TTAGTTTAA-TTTA-GTTATT
1 TTAGTTTAATTTTATGTTATT
16129789 TTAGTTTAATTTTATGTTATT
1 TTAGTTTAATTTTATGTTATT
16129810 TT-GTTT
1 TTAGTTT
16129816 TAAATTTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 9 0.36
20 8 0.32
21 8 0.32
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (21 bp):
TTAGTTTAATTTTATGTTATT
Found at i:16132015 original size:37 final size:37
Alignment explanation
Indices: 16131911--16132016 Score: 140
Period size: 37 Copynumber: 2.9 Consensus size: 37
16131901 GATGATGTTG
* * *
16131911 AAGTGTGCGAGTAGGGAGTGCACACATGATCATGATG
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATAATA
* * **
16131948 GAGTGTGCGAGTAGTGAGTGCACATGTGATGATAATA
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGATAATA
*
16131985 AAGTGTACGAGTAGGGAGTGCACACATGATGA
1 AAGTGTGCGAGTAGGGAGTGCACACATGATGA
16132017 CGATGTATGT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.23
Consensus pattern (37 bp):
AAGTGTGCGAGTAGGGAGTGCACACATGATGATAATA
Found at i:16144881 original size:20 final size:20
Alignment explanation
Indices: 16144856--16144893 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16144846 AAGTTAGTAA
16144856 GTTCATAATCAGTTAAAGGT
1 GTTCATAATCAGTTAAAGGT
16144876 GTTCATAATCAGTTAAAG
1 GTTCATAATCAGTTAAAG
16144894 AAAATCTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (20 bp):
GTTCATAATCAGTTAAAGGT
Found at i:16153098 original size:14 final size:15
Alignment explanation
Indices: 16153067--16153100 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16153057 ATGTGATTAC
16153067 GTAATGTAATTAAAT
1 GTAATGTAATTAAAT
*
16153082 GTAATGT-ATTAAGT
1 GTAATGTAATTAAAT
16153096 GTAAT
1 GTAAT
16153101 ATGATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (15 bp):
GTAATGTAATTAAAT
Found at i:16155023 original size:504 final size:498
Alignment explanation
Indices: 16153780--16155286 Score: 1541
Period size: 504 Copynumber: 3.0 Consensus size: 498
16153770 ATTATATCAA
* * *
16153780 ATTTAAATTTATATTCTCAAGTTTAAAGTATTTAACGATTTACAAATTTAAATTAAT-AATGAAT
1 ATTTAAATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTACAAATTTTAATTAATAAATGAAT
* * * *
16153844 AATAAGAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAGTTTTGACGTAAA-TCTAT
66 AATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGACATAAACT-TAT
* ** * *
16153908 AAGAATTAACATAAAAAATTATATAGATGGAAA-ATTCAATGTCAAAATATTGATGTCAACGTGT
130 AAGAATTAACATAAAAAATTATAAAGAT-GAAACAAGCAATGTCAAAATATTGACGTAAACGTGT
** * * * * * * *
16153972 GAGATTTGATTTAATAAGTCAATTATTTCATATAAACA-TAGTTTTTTGAAAAATTCAA-TTTTA
194 GAGATTTGACATAACAAGTCAATTATGTCAAATAAATATTA-TTTTTTAAAAAATTAAACATTTA
* * * * ** *
16154035 AATTTATATTCTCCATTTTAAAGTGTTTAATGGTTTACAAATTTTAATTTATAAGTTAATAATAG
258 AATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTGCAAATTTTAATTTATAA-ACAAAAATAG
** * * * * *
16154100 TAAGGATAAAAATAATTATAGAAAAAATTAGTTGTTAAAAAATTTAGGCGTAAACCT-AAAAGAA
322 TAAGGATAAAAATAATTATAGTGAAAATTAGTAGTT-AAAACTTTA-ACGTGAACCTGTAAA-AA
** * * * **
16154164 TTAACATAAAAAATTATAAAAATAAAAAAAGCGATATCAGAATATTGATGTAAACGTGT-AAGA-
384 TTAACATAAAAAATTATAAAGGTGAAAAAAGCAATGTCA-AATATTGACATAAACGTGTGAA-AT
* * *
16154227 -T--TTGAC--AT-AA-TAA--G---TCAACATAATGTTTTAAAAATTAAAT
447 TTAATTAACAAATCAATTAAGTGAAATAAACATAATATTTTAAAAATTAAAT
* ** * *** * *
16154267 ATTTAAAATTATATTCTTGATTTTAAAGTGTTTAGTAGTTTAAAAATTTTAATTTATAAATGAAT
1 ATTTAAATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTACAAATTTTAATTAATAAATGAAT
* * * * *
16154332 AATAGTAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTAAAAAAACTTTGACATAAACTTGT
66 AATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATC-TTGACATAAACTTAT
* * * * * * *
16154397 AAGAATTATCGTAAAAAATTATAAAAATGAAACAAGAAATGTCAAAATATTGCCGTAAACGTATA
130 AAGAATTAACATAAAAAATTATAAAGATGAAACAAGCAATGTCAAAATATTGACGTAAACGTGTG
* * * *
16154462 AGATTTGACATAACAAATCAATTATGT-AGAATAAATATAATTTTTTAGAAAATTAAACATATAA
195 AGATTTGACATAACAAGTCAATTATGTCA-AATAAATATTATTTTTTAAAAAATTAAACATTTAA
* * *
16154526 ATTTATATTCTCAAGTTTAAAGTATATAACAGTTTGCAAATTTTAATTTATAAACGAAAAATAGT
259 ATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTGCAAATTTTAATTTATAAAC-AAAAATAGT
** *
16154591 AATTATAAGAAA-AATTATAGTGAAAATTAGTAGTTGACAAACTTTAAAGTGAACCTGTAAAAAT
323 AAGGATAA-AAATAATTATAGTGAAAATTAGTAGTT-A-AAACTTTAACGTGAACCTGTAAAAAT
* * * * *
16154655 TAACGTAAAAACTTACAAAGGTGGAATAAGCAATGTCGAAATATTGACATAAACGTGTGAAATTT
385 TAACATAAAAAATTATAAAGGTGAAAAAAGCAATGTC-AAATATTGACATAAACGTGTGAAATTT
*
16154720 AATATAACAAATCAATTAAGTGAAATAAACATAATATTTTGAAAAATTAAAC
449 AAT-TAACAAATCAATTAAGTGAAATAAACATAATATTTT-AAAAATTAAAT
* * * * * *
16154772 ATTTAAATTTATATTCTCAAGTTGAAATTGTATAACGGCTGACAAATTTTAATTCATAAATGAAT
1 ATTTAAATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTACAAATTTTAATTAATAAATGAAT
* *
16154837 AATAATAAGGATAAAAATAATTATAGAGAAAATTAGTAGTTGAAAAATCTTGAAATAAACTTATA
66 AATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGACATAAACTTATA
* * * * * *
16154902 AAAATTAGCATAAAAACTTATAAAGATGAAACAAGCAATGTCAAAATATTAACATAAATGTGTGA
131 AGAATTAACATAAAAAATTATAAAGATGAAACAAGCAATGTCAAAATATTGACGTAAACGTGTGA
* * *
16154967 GATTTAACATAACAAGTCTATTATGTCACATAAATATTATTTTTTAAAAAATTAAACATTTAAAT
196 GATTTGACATAACAAGTCAATTATGTCAAATAAATATTATTTTTTAAAAAATTAAACATTTAAAT
** * *
16155032 TTATATTCTTGAGTTTAAAGTGTTTAACGGTTTGTAAATTTTAATTTATAAACAAATAATAATAA
261 TTATATTCTCAAGTTTAAAGTGTTTAACGGTTTGCAAATTTTAATTTATAAACAAA-AATAGTAA
* * * * * *
16155097 GGATAAAAATAATTATAGTGAAAATTAATAGTTAAAAGGCCTTGACGTGAA-ATAGTAAGACTT-
325 GGATAAAAATAATTATAGTGAAAATTAGTAGTTAAAA--CTTTAACGTGAACCT-GTAAAAATTA
* ** *
16155160 ACATAAAAAATTATAAAGGTGAAACAAGCAATGTCAAAATATTGACATAAATATGTGAGATTTAA
387 ACATAAAAAATTATAAAGGTGAAAAAAGCAATGTC-AAATATTGACATAAACGTGTGAAATTTAA
* * * * * * *
16155225 CGTAACAAGTCAATTAAGTCAAATAAATACAATTTTTTTAAAAAATAAAT
451 -TTAACAAATCAATTAAGTGAAATAAACATAA-TATTTTAAAAATTAAAT
16155275 ATTTAAATTTAT
1 ATTTAAATTTAT
16155287 GTTTTTGAGT
Statistics
Matches: 828, Mismatches: 156, Indels: 56
0.80 0.15 0.05
Matches are distributed among these distances:
487 45 0.05
488 54 0.07
489 101 0.12
490 142 0.17
491 16 0.02
492 1 0.00
494 1 0.00
495 3 0.00
497 2 0.00
498 2 0.00
499 3 0.00
501 1 0.00
502 3 0.00
503 111 0.13
504 237 0.29
505 106 0.13
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (498 bp):
ATTTAAATTTATATTCTCAAGTTTAAAGTGTTTAACGGTTTACAAATTTTAATTAATAAATGAAT
AATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGAAAAATCTTGACATAAACTTATA
AGAATTAACATAAAAAATTATAAAGATGAAACAAGCAATGTCAAAATATTGACGTAAACGTGTGA
GATTTGACATAACAAGTCAATTATGTCAAATAAATATTATTTTTTAAAAAATTAAACATTTAAAT
TTATATTCTCAAGTTTAAAGTGTTTAACGGTTTGCAAATTTTAATTTATAAACAAAAATAGTAAG
GATAAAAATAATTATAGTGAAAATTAGTAGTTAAAACTTTAACGTGAACCTGTAAAAATTAACAT
AAAAAATTATAAAGGTGAAAAAAGCAATGTCAAATATTGACATAAACGTGTGAAATTTAATTAAC
AAATCAATTAAGTGAAATAAACATAATATTTTAAAAATTAAAT
Found at i:16155253 original size:251 final size:252
Alignment explanation
Indices: 16154246--16155308 Score: 1124
Period size: 252 Copynumber: 4.2 Consensus size: 252
16154236 ATAAGTCAAC
* * * * ** **
16154246 ATAATGTTTT-AAAAATTAAATATTTAAAATTATATTCTTGATTTTAAAGTGTTTAGTAGTTTAA
1 ATAATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACAGTTTGC
** * * *
16154310 AAATTTTAATTTATAAATGAATAATAGTAAAGATAAAAATAATTATAGTGAAAATTAGTAGTTAA
66 AAATTTTAATTTATAAACAAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTT-G
* * * * * * * *
16154375 AAAAACTTTGACATAAACTTGTAAGAATTATCGTAAAAAATTATAAAAATGAAACAAGAAATGTC
130 AAAAACCTTGAAATAAACTAGTAAAAATTAGCATAAAAAATTATAAAGATGAAACAAGCAATGTC
* * * * * *
16154440 AAAATATTGCCGTAAACGTATAAGATTTGACATAACAAATCAATTATGT-AGAATAAAT
195 AAAATATTGACATAAACGTGTGAGATTTAACATAACAAATCAATTAAGTCA-AATAAAT
* * ** * *
16154498 ATAATTTTTTAGAAAATTAAACATATAAATTTATATTCTCAAGTTTAAAGTATATAACAGTTTGC
1 ATAATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACAGTTTGC
* **
16154563 AAATTTTAATTTATAAACGAAA-AATAGTAATTATAAGAAA-AATTATAGTGAAAATTAGTAGTT
66 AAATTTTAATTTATAAAC-AAATAATAATAAGGATAA-AAATAATTATAGTGAAAATTAGTAGTT
* * * * * * * * * *
16154626 GACAAA-CTTTAAAGTGAACCT-GTAAAAATTAACGTAAAAACTTACAAAGGTGGAATAAGCAAT
129 GAAAAACCTTGAAA-T-AAACTAGTAAAAATTAGCATAAAAAATTATAAAGATGAAACAAGCAAT
* * * * *
16154689 GTCGAAATATTGACATAAACGTGTGAAATTTAATATAACAAATCAATTAAGTGAAATAAAC
192 GTCAAAATATTGACATAAACGTGTGAGATTTAACATAACAAATCAATTAAGTCAAATAAAT
* * ** * * * **
16154750 ATAATATTTTGAAAAATTAAACATTTAAATTTATATTCTCAAGTTGAAATTGTATAAC-GGCTGA
1 ATAATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACAGTTTG-
* ** *
16154814 CAAATTTTAATTCATAAATGAATAATAATAAGGATAAAAATAATTATAGAGAAAATTAGTAGTTG
65 CAAATTTTAATTTATAAACAAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTG
* *
16154879 AAAAATCTTGAAATAAACTTA-TAAAAATTAGCATAAAAACTTATAAAGATGAAACAAGCAATGT
130 AAAAACCTTGAAATAAAC-TAGTAAAAATTAGCATAAAAAATTATAAAGATGAAACAAGCAATGT
* * * * * *
16154943 CAAAATATTAACATAAATGTGTGAGATTTAACATAACAAGTCTATTATGTCACATAAAT
194 CAAAATATTGACATAAACGTGTGAGATTTAACATAACAAATCAATTAAGTCAAATAAAT
* * *
16155002 ATTATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACGGTTTGT
1 ATAATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACAGTTTGC
*
16155067 AAATTTTAATTTATAAACAAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAATAGTT-A
66 AAATTTTAATTTATAAACAAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGA
* ** * * *
16155131 AAAGGCCTTGACGTGAAA-TAGTAAGACTTA-CATAAAAAATTATAAAGGTGAAACAAGCAATGT
131 AAA-ACCTTGAAAT-AAACTAGTAAAAATTAGCATAAAAAATTATAAAGATGAAACAAGCAATGT
** * *
16155194 CAAAATATTGACATAAATATGTGAGATTTAACGTAACAAGTCAATTAAGTCAAATAAAT
194 CAAAATATTGACATAAACGTGTGAGATTTAACATAACAAATCAATTAAGTCAAATAAAT
* * * * *
16155253 ACAATTTTTTTAAAAAA-TAAATATTTAAATTTATGTTTTTGAGTTTGAAGTGTTTA
1 ATAA-TTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTA
16155309 GTTAACAACT
Statistics
Matches: 679, Mismatches: 115, Indels: 35
0.82 0.14 0.04
Matches are distributed among these distances:
251 142 0.21
252 422 0.62
253 110 0.16
254 5 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (252 bp):
ATAATTTTTTAAAAAATTAAACATTTAAATTTATATTCTTGAGTTTAAAGTGTTTAACAGTTTGC
AAATTTTAATTTATAAACAAATAATAATAAGGATAAAAATAATTATAGTGAAAATTAGTAGTTGA
AAAACCTTGAAATAAACTAGTAAAAATTAGCATAAAAAATTATAAAGATGAAACAAGCAATGTCA
AAATATTGACATAAACGTGTGAGATTTAACATAACAAATCAATTAAGTCAAATAAAT
Found at i:16175647 original size:171 final size:174
Alignment explanation
Indices: 16175224--16175648 Score: 554
Period size: 171 Copynumber: 2.4 Consensus size: 174
16175214 TTGAGAAAAT
** * * *
16175224 TTTTATTAGGAATTAAATTCCTAAGTTTAAGTCACAAAGAATTTCAAAAGGACTCAAAAACTAAT
1 TTTTATTATAAATGAAATTCCTAAGTTTAAGTTACAAAGAATTTCAAAAGGACTCAAAAACTGAT
* * * * *
16175289 TCTACCACTTATAGATAATGGTCTCCATTTTTGAATTTTTTGAATGGCCAAATCACCTCCTAAAA
66 TATGCCACCTATAAATAATGG-CTCCA---TTG-AGTTTTTGAATGGCCAAATCACCTCCTAAAA
16175354 TCCTGAAAATTTATTTGGAATAGTTACATGAGTTATCTATCAAGATAAA
126 TCCTGAAAATTTATTTGGAATAGTTACATGAGTTATCTATCAAGATAAA
* * *
16175403 TTTTATTATAAATTAAATTCCTAATTTTAAGTTACAAAGAATTTCAAAAGGACTC-AAAAGTCGA
1 TTTTATTATAAATGAAATTCCTAAGTTTAAGTTACAAAGAATTTCAAAAGGACTCAAAAACT-GA
* *
16175467 TTATGCCACCTATAAATAGTGG-T-CA-TG-GTTTTTGAATGGCCAAATTACCTCCTAAAATCCT
65 TTATGCCACCTATAAATAATGGCTCCATTGAGTTTTTGAATGGCCAAATCACCTCCTAAAATCCT
* * *
16175528 GAAAATTTATTTTGGAATAGTTCCATGAGTTATCTATTAGGATAAA
130 GAAAATTTA-TTTGGAATAGTTACATGAGTTATCTATCAAGATAAA
* * *
16175574 TTTTATTTTAAATGAAATTCTTAAGTTTAAGTTTCAAAGAATTTCAAAAGGACTCAAAAACTGAT
1 TTTTATTATAAATGAAATTCCTAAGTTTAAGTTACAAAGAATTTCAAAAGGACTCAAAAACTGAT
*
16175639 TTTGCCACCT
66 TATGCCACCT
16175649 GTAGCTAATT
Statistics
Matches: 220, Mismatches: 23, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
170 41 0.19
171 95 0.43
172 7 0.03
176 2 0.01
177 1 0.00
178 5 0.02
179 69 0.31
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.36
Consensus pattern (174 bp):
TTTTATTATAAATGAAATTCCTAAGTTTAAGTTACAAAGAATTTCAAAAGGACTCAAAAACTGAT
TATGCCACCTATAAATAATGGCTCCATTGAGTTTTTGAATGGCCAAATCACCTCCTAAAATCCTG
AAAATTTATTTGGAATAGTTACATGAGTTATCTATCAAGATAAA
Found at i:16191936 original size:15 final size:15
Alignment explanation
Indices: 16191901--16191944 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
16191891 AGTTTTATCT
16191901 TTTTTATTATTCTTTTA
1 TTTTTATTA-T-TTTTA
* *
16191918 TTTTTTTTATTTTTG
1 TTTTTATTATTTTTA
16191933 TTTTTATTATTT
1 TTTTTATTATTT
16191945 AAACTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 15 0.62
16 1 0.04
17 8 0.33
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTATTATTTTTA
Found at i:16191936 original size:20 final size:20
Alignment explanation
Indices: 16191892--16191936 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16191882 TAATTCTTGA
16191892 GTTTTATCTTTTTTATTATT
1 GTTTTATCTTTTTTATTATT
* * *
16191912 CTTTTATTTTTTTTATTTTT
1 GTTTTATCTTTTTTATTATT
16191932 GTTTT
1 GTTTT
16191937 TATTATTTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (20 bp):
GTTTTATCTTTTTTATTATT
Found at i:16193656 original size:14 final size:14
Alignment explanation
Indices: 16193637--16193672 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
16193627 CTCTAACTAC
16193637 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
16193651 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
*
16193665 TTTATTTA
1 TTTTTTTA
16193673 ATTATTAAAT
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:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:16193755 original size:20 final size:20
Alignment explanation
Indices: 16193716--16193754 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
16193706 GCAGGTTCAT
16193716 GTAAAAAAATTTTCAAAAAA
1 GTAAAAAAATTTTCAAAAAA
16193736 GTAAAAAAA-TTTCAAAAAA
1 GTAAAAAAATTTTCAAAAAA
16193755 AATCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
GTAAAAAAATTTTCAAAAAA
Found at i:16199625 original size:19 final size:18
Alignment explanation
Indices: 16199578--16199625 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
16199568 GGAAACAAAA
16199578 ATCAAAGTGGTTAGGTCC
1 ATCAAAGTGGTTAGGTCC
* *
16199596 ATACAAGGTGGTTAAGGTCT
1 AT-CAAAGTGGTT-AGGTCC
*
16199616 ATCAATGTGG
1 ATCAAAGTGG
16199626 CGCAATTGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.64
20 7 0.28
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (18 bp):
ATCAAAGTGGTTAGGTCC
Found at i:16214695 original size:38 final size:38
Alignment explanation
Indices: 16214609--16214711 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 38
16214599 ACTTGGCTCA
*
16214609 TGTACATCCCCCTACATCGTGCACATAGCCGGCATCATCG
1 TGTACATCCCCC-ACATCGTGCACATAGCAGGCA-CATCG
* *
16214649 TGTGCATCCCCACACATCGTGCACA-ATCAGTGC-CATCG
1 TGTACATCCCC-CACATCGTGCACATAGCAG-GCACATCG
16214687 TGTACATCCCCCCACATCGTGCACA
1 TGTACAT-CCCCCACATCGTGCACA
16214712 CGGGCACTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
38 24 0.43
39 7 0.12
40 24 0.43
41 1 0.02
ACGTcount: A:0.23, C:0.39, G:0.17, T:0.21
Consensus pattern (38 bp):
TGTACATCCCCCACATCGTGCACATAGCAGGCACATCG
Found at i:16214704 original size:19 final size:19
Alignment explanation
Indices: 16214609--16214707 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
16214599 ACTTGGCTCA
*
16214609 TGTACATCCCCCTACATCG
1 TGTACATCCCCCCACATCG
* * **
16214628 TGCACATAGCCGGCATCATCG
1 TGTACAT-CCCCCCA-CATCG
* *
16214649 TGTGCATCCCCACACATCG
1 TGTACATCCCCCCACATCG
* ****
16214668 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
16214687 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
16214706 TG
1 TG
16214708 CACACGGGCA
Statistics
Matches: 55, Mismatches: 21, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
18 4 0.07
19 30 0.55
20 11 0.20
21 10 0.18
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.22
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:16217113 original size:43 final size:43
Alignment explanation
Indices: 16217056--16217141 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
16217046 TTTAAATAAA
*
16217056 ATTAAAATACATTGACTACTATACCCAAGTTCATGACAGAATT
1 ATTAAAATACATTGACTACCATACCCAAGTTCATGACAGAATT
16217099 ATTAAAATACATTGACTACCATACCCAAGTTCATGACAGAATT
1 ATTAAAATACATTGACTACCATACCCAAGTTCATGACAGAATT
16217142 GTTTTAGCTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (43 bp):
ATTAAAATACATTGACTACCATACCCAAGTTCATGACAGAATT
Found at i:16219748 original size:22 final size:22
Alignment explanation
Indices: 16219707--16219749 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16219697 AAAAGAATTA
*
16219707 ATAAATAAATAAATATTAATCC
1 ATAAATAAATAAATAATAATCC
* *
16219729 ATAAATAATTAATTAATAATC
1 ATAAATAAATAAATAATAATC
16219750 TAAAAATACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (22 bp):
ATAAATAAATAAATAATAATCC
Found at i:16220999 original size:21 final size:22
Alignment explanation
Indices: 16220975--16221029 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
16220965 AAATATATTT
16220975 TATATAAAT-TTA-AAAATAGTA
1 TATATAAATATTATAAAATA-TA
*
16220996 TATAT-AATATTATATAATATA
1 TATATAAATATTATAAAATATA
16221017 TATATAAATATTA
1 TATATAAATATTA
16221030 GTTTGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 12 0.40
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATATAAATATTATAAAATATA
Found at i:16222022 original size:27 final size:27
Alignment explanation
Indices: 16221988--16222042 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
16221978 TGCTTCAATT
16221988 TCATTAAGTGATGTCGTGGGAATTTCA
1 TCATTAAGTGATGTCGTGGGAATTTCA
*
16222015 TCATTAAGTGATGTCTTGGGAATTTCA
1 TCATTAAGTGATGTCGTGGGAATTTCA
16222042 T
1 T
16222043 TTTGATACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (27 bp):
TCATTAAGTGATGTCGTGGGAATTTCA
Found at i:16232994 original size:68 final size:67
Alignment explanation
Indices: 16232882--16233102 Score: 248
Period size: 68 Copynumber: 3.3 Consensus size: 67
16232872 TATGGAATTT
* * * * *
16232882 TACATCATATACACAACACATGGCATTTC-TCATGCCTACTCAATCATTTTATGTAGTATGTGAA
1 TACATCATATACAAAACTCATGGCA-TTCATCATGCTTTCTCAATCATTTCATGTAGTATGTGAA
*
16232946 ACA
65 ATA
* *
16232949 TACATCATATACAAAATCTCATGACATTCATCATGCTTTCTCAATCATCTCATGTAGTATGT-AG
1 TACATCATATACAAAA-CTCATGGCATTCATCATGCTTTCTCAATCATTTCATGTAGTATGTGA-
16233013 AATA
64 AATA
* * * * * * *
16233017 TACATCATATACATAACCTCATGGTATTTATCATGTTTTCTCAATCATTTCATGTAGCATATGGA
1 TACATCATATACA-AAACTCATGGCATTCATCATGCTTTCTCAATCATTTCATGTAGTATGTGAA
16233082 ATA
65 ATA
16233085 TACATCATATACATAAAC
1 TACATCATATACA-AAAC
16233103 ATATCAATCT
Statistics
Matches: 131, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
67 19 0.15
68 110 0.84
69 2 0.02
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (67 bp):
TACATCATATACAAAACTCATGGCATTCATCATGCTTTCTCAATCATTTCATGTAGTATGTGAAA
TA
Found at i:16241376 original size:2 final size:2
Alignment explanation
Indices: 16241369--16241449 Score: 116
Period size: 2 Copynumber: 42.5 Consensus size: 2
16241359 AGAATTTATT
**
16241369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A CN
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16241409 TA T- TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16241449 T
1 T
16241450 TAACAAGTGT
Statistics
Matches: 72, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
1 4 0.06
2 68 0.94
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:16241942 original size:18 final size:18
Alignment explanation
Indices: 16241919--16241953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16241909 AAGTTGCATA
* *
16241919 ACCTTTGGAAACCTTTTT
1 ACCTTTGAAAAACTTTTT
16241937 ACCTTTGAAAAACTTTT
1 ACCTTTGAAAAACTTTT
16241954 GAAATAAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (18 bp):
ACCTTTGAAAAACTTTTT
Found at i:16262745 original size:21 final size:21
Alignment explanation
Indices: 16262721--16262765 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
16262711 TTAAAGTAAT
16262721 TTAAAAC-AAAATAACATAAAA
1 TTAAAACTAAAATAAC-TAAAA
*
16262742 TT-AAACTAAAATAACTTAAA
1 TTAAAACTAAAATAACTAAAA
16262762 TTAA
1 TTAA
16262766 CTACTCAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAAAACTAAAATAACTAAAA
Found at i:16262762 original size:20 final size:20
Alignment explanation
Indices: 16262724--16262765 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16262714 AAGTAATTTA
16262724 AAACAAAATAACATAAAATT
1 AAACAAAATAACATAAAATT
*
16262744 AAACTAAAATAAC-TTAAATT
1 AAAC-AAAATAACATAAAATT
16262764 AA
1 AA
16262766 CTACTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (20 bp):
AAACAAAATAACATAAAATT
Found at i:16262825 original size:21 final size:22
Alignment explanation
Indices: 16262801--16262844 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
16262791 ACTAAAAAAA
* *
16262801 AAACCTAAAATGCTAAA-ATCT
1 AAACATAAAATCCTAAAGATCT
16262822 AAACATAAAATCCTAAAGATCT
1 AAACATAAAATCCTAAAGATCT
16262844 A
1 A
16262845 TCTACTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.23
Consensus pattern (22 bp):
AAACATAAAATCCTAAAGATCT
Found at i:16263126 original size:47 final size:47
Alignment explanation
Indices: 16263008--16263411 Score: 264
Period size: 47 Copynumber: 8.8 Consensus size: 47
16262998 GAAACTTTTT
* * ** * *
16263008 TCATCTCTAAACGAGACTACACAACTTAAAATGGTTGGAAAAACTCA
1 TCATCTCTAAATGAGGCTATGCAACTTAAAATGATTGGAAAAGCTCA
* * * * * *
16263055 TCATCTCTATACGAGACTACGTAACTTAAAATGGTTGGAAAAGCTCA
1 TCATCTCTAAATGAGGCTATGCAACTTAAAATGATTGGAAAAGCTCA
* * * * * * *
16263102 TCATTTTTAAATAAGGCTATGTAACTTAAAATGATTGAAAAAACTCT
1 TCATCTCTAAATGAGGCTATGCAACTTAAAATGATTGGAAAAGCTCA
* * * * *
16263149 TCATTTTTAAATGAGG-TGATACAACTT----TG---GAAAAAGCTCT
1 TCATCTCTAAATGAGGCT-ATGCAACTTAAAATGATTGGAAAAGCTCA
* *
16263189 TCATCTTTAAATAAGGCTATG-----TAAAATGATTGGAAAAGCTCA
1 TCATCTCTAAATGAGGCTATGCAACTTAAAATGATTGGAAAAGCTCA
* * * ** *
16263231 TCATTTCTGAACGAGGCTACACAACTTTAAAATGATTTGAAAAGCTTC-
1 TCATCTCTAAATGAGGCTATGCAAC-TTAAAATGATTGGAAAAGC-TCA
* * * * *
16263279 TCGTCTATAAATAAAGCTATGCAACTTTAAAATGATTGAAAAAGCT-A
1 TCATCTCTAAATGAGGCTATGCAAC-TTAAAATGATTGGAAAAGCTCA
* * *
16263326 TTCATCTCTAAATGAGGCTATACAACTTTAAAAAGATTGGAAAAGCTCT
1 -TCATCTCTAAATGAGGCTATGCAAC-TTAAAATGATTGGAAAAGCTCA
*
16263375 TCATCTCTAAATGAAGCTACT-CAACTTAAAATGATTG
1 TCATCTCTAAATGAGGCTA-TGCAACTTAAAATGATTG
16263412 AGAATTTTCC
Statistics
Matches: 284, Mismatches: 53, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
35 1 0.00
39 2 0.01
40 26 0.09
41 1 0.00
42 23 0.08
43 2 0.01
46 1 0.00
47 113 0.40
48 112 0.39
49 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (47 bp):
TCATCTCTAAATGAGGCTATGCAACTTAAAATGATTGGAAAAGCTCA
Found at i:16263265 original size:48 final size:48
Alignment explanation
Indices: 16263210--16263411 Score: 221
Period size: 48 Copynumber: 4.2 Consensus size: 48
16263200 TAAGGCTATG
* * * *
16263210 TAAAATGATTGGAAAAGCTCATCATTTCTGAACGAGGCTACACAACTT
1 TAAAATGATTGGAAAAGCTCATCATCTCTAAATGAAGCTACACAACTT
* * * * **
16263258 TAAAATGATTTGAAAAGCTTC-TCGTCTATAAATAAAGCTATGCAACTT
1 TAAAATGATTGGAAAAGC-TCATCATCTCTAAATGAAGCTACACAACTT
* * *
16263306 TAAAATGATTGAAAAAGCT-ATTCATCTCTAAATGAGGCTATACAACTT
1 TAAAATGATTGGAAAAGCTCA-TCATCTCTAAATGAAGCTACACAACTT
* * *
16263354 TAAAAAGATTGGAAAAGCTCTTCATCTCTAAATGAAGCTACTCAAC-T
1 TAAAATGATTGGAAAAGCTCATCATCTCTAAATGAAGCTACACAACTT
16263401 TAAAATGATTG
1 TAAAATGATTG
16263412 AGAATTTTCC
Statistics
Matches: 126, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
47 12 0.10
48 112 0.89
49 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (48 bp):
TAAAATGATTGGAAAAGCTCATCATCTCTAAATGAAGCTACACAACTT
Found at i:16263340 original size:178 final size:176
Alignment explanation
Indices: 16263034--16263354 Score: 423
Period size: 178 Copynumber: 1.8 Consensus size: 176
16263024 CTACACAACT
* ** *
16263034 TAAAATGGTTGGAAAAACTCATCATCTCTATACGAGACTACGTAACTTAAAATGGTTGGAAAAGC
1 TAAAATGATTGGAAAAACTCATCATCTCTATACGAGACTACACAACTTAAAATGATTGGAAAAGC
* * * * * * *
16263099 TCATCATTTTTAAATAAGGCTATGTAACTTAAAATGATTGAAAAAACTCTTCATTTTTAAATGAG
66 TCATCATCTATAAATAAAGCTATGCAACTTAAAATGATTGAAAAAACTATTCATCTCTAAATGAG
16263164 G-TGATACAACTTTGGAAAAAGCTCTTCATCTTTAAATAAGGCTATG
131 GCT-ATACAACTTTGGAAAAAGCTCTTCATCTTTAAATAAGGCTATG
* * * *
16263210 TAAAATGATTGGAAAAGCTCATCATTTCTGA-ACGAGGCTACACAACTTTAAAATGATTTGAAAA
1 TAAAATGATTGGAAAAACTCATCATCTCT-ATACGAGACTACACAAC-TTAAAATGATTGGAAAA
* *
16263274 GCTTC-TCGTCTATAAATAAAGCTATGCAACTTTAAAATGATTGAAAAAGCTATTCATCTCTAAA
64 GC-TCATCATCTATAAATAAAGCTATGCAAC-TTAAAATGATTGAAAAAACTATTCATCTCTAAA
16263338 TGAGGCTATACAACTTT
127 TGAGGCTATACAACTTT
16263355 AAAAAGATTG
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
176 38 0.31
177 38 0.31
178 46 0.37
179 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (176 bp):
TAAAATGATTGGAAAAACTCATCATCTCTATACGAGACTACACAACTTAAAATGATTGGAAAAGC
TCATCATCTATAAATAAAGCTATGCAACTTAAAATGATTGAAAAAACTATTCATCTCTAAATGAG
GCTATACAACTTTGGAAAAAGCTCTTCATCTTTAAATAAGGCTATG
Found at i:16263343 original size:96 final size:95
Alignment explanation
Indices: 16263210--16263412 Score: 259
Period size: 96 Copynumber: 2.1 Consensus size: 95
16263200 TAAGGCTATG
* * * * *
16263210 TAAAATGATTGGAAAAGCTCATCATTTCTGAACGAGGCTACACAACTTTAAAATGATTTGAAAAG
1 TAAAATGATTGAAAAAGCTCATCATCTCTAAACGAGGCTACACAACTTTAAAAAGATTGGAAAAG
*
16263275 CT-TCTCGTCTATAAATAAAGCTA-TGCAACTT
66 CTCT-TCATCTATAAATAAAGCTACT-CAAC-T
* *
16263306 TAAAATGATTGAAAAAGCT-ATTCATCTCTAAATGAGGCTATACAACTTTAAAAAGATTGGAAAA
1 TAAAATGATTGAAAAAGCTCA-TCATCTCTAAACGAGGCTACACAACTTTAAAAAGATTGGAAAA
* *
16263370 GCTCTTCATCTCTAAATGAAGCTACTCAACT
65 GCTCTTCATCTATAAATAAAGCTACTCAACT
16263401 TAAAATGATTGA
1 TAAAATGATTGA
16263413 GAATTTTCCT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
95 14 0.15
96 78 0.83
97 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (95 bp):
TAAAATGATTGAAAAAGCTCATCATCTCTAAACGAGGCTACACAACTTTAAAAAGATTGGAAAAG
CTCTTCATCTATAAATAAAGCTACTCAACT
Found at i:16265102 original size:20 final size:21
Alignment explanation
Indices: 16265077--16265116 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16265067 ATCCTACTCC
*
16265077 TACAAA-AATAGAAAAATAAA
1 TACAAATAACAGAAAAATAAA
*
16265097 TACAAATAACATAAAAATAA
1 TACAAATAACAGAAAAATAA
16265117 CATTATTATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (21 bp):
TACAAATAACAGAAAAATAAA
Found at i:16266418 original size:22 final size:22
Alignment explanation
Indices: 16266389--16266447 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
16266379 TTTCCTTTTT
*
16266389 TTTC-TTTTTTGCTTTTCTTTC
1 TTTCTTTTTTTGCTTTTCTCTC
*
16266410 TTTCTTTTTTTTG-TTCTCTCTC
1 TTTC-TTTTTTTGCTTTTCTCTC
16266432 TTT-TTTTTTT-CTTTTC
1 TTTCTTTTTTTGCTTTTC
16266448 ATTCCTTACA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 11 0.34
21 4 0.12
22 10 0.31
23 7 0.22
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTGCTTTTCTCTC
Found at i:16266421 original size:17 final size:15
Alignment explanation
Indices: 16266368--16266446 Score: 59
Period size: 17 Copynumber: 4.9 Consensus size: 15
16266358 CAAAGGATGA
* *
16266368 TTTTATTTCTTTTTCC
1 TTTTTTTTCTTTTT-T
16266384 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
*
16266399 GCTTTTCTTTCTTTCTTT
1 --TTTTTTTTCTTT-TTT
* *
16266417 TTTTTGTTCTCTCTCTT
1 TTTTT-TT-TCTTTTTT
16266434 TTTTTTTTCTTTT
1 TTTTTTTTCTTTT
16266447 CATTCCTTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
15 4 0.08
16 19 0.38
17 20 0.40
18 7 0.14
ACGTcount: A:0.01, C:0.16, G:0.03, T:0.80
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:16280070 original size:43 final size:43
Alignment explanation
Indices: 16280009--16280097 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
16279999 ATAAGTGATG
* *
16280009 AAGATGTATCTGTTGTAATTCTATTCATCTTGAAAGTAATTAC
1 AAGATGAATCTGTTGTAATTCCATTCATCTTGAAAGTAATTAC
16280052 AAGATGAATCTGTTGTAATTCCATTCATCTTGAAAGTAATTAC
1 AAGATGAATCTGTTGTAATTCCATTCATCTTGAAAGTAATTAC
16280095 AAG
1 AAG
16280098 CAAACTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (43 bp):
AAGATGAATCTGTTGTAATTCCATTCATCTTGAAAGTAATTAC
Found at i:16284962 original size:32 final size:32
Alignment explanation
Indices: 16284921--16284990 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
16284911 AATCTTCGAG
* **
16284921 AGAACAATCAACCGTTGATTCAAAAAGCAAGA
1 AGAATAATCAACCACTGATTCAAAAAGCAAGA
*
16284953 AGAATAATCAACCACTGATTCAAAAAGTAAGA
1 AGAATAATCAACCACTGATTCAAAAAGCAAGA
16284985 AGAATA
1 AGAATA
16284991 TAGTACTGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.17
Consensus pattern (32 bp):
AGAATAATCAACCACTGATTCAAAAAGCAAGA
Found at i:16287876 original size:28 final size:29
Alignment explanation
Indices: 16287835--16287894 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
16287825 GTCTATGGGC
*
16287835 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
16287863 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
16287893 AA
1 AA
16287895 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:16293433 original size:13 final size:13
Alignment explanation
Indices: 16293415--16293439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16293405 TTTCAGAAAA
16293415 TTTATAAAATCAT
1 TTTATAAAATCAT
16293428 TTTATAAAATCA
1 TTTATAAAATCA
16293440 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Done.