Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 94 of 129
Found at i:15576233 original size:27 final size:27
Alignment explanation
Indices: 15576203--15576254 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
15576193 TTTTATCTCT
*
15576203 TTTTACATTTTTTCTCTTTTTTTTTCA
1 TTTTACATTTTTTCTATTTTTTTTTCA
** *
15576230 TTTTTTATTTTTTTTATTTTTTTTT
1 TTTTACATTTTTTCTATTTTTTTTT
15576255 TTTTCTCATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTTACATTTTTTCTATTTTTTTTTCA
Found at i:15576240 original size:16 final size:16
Alignment explanation
Indices: 15576221--15576268 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
15576211 TTTTTCTCTT
15576221 TTTTTTTCATTTTTTA
1 TTTTTTTCATTTTTTA
* *
15576237 TTTTTTTTATTTTTTT
1 TTTTTTTCATTTTTTA
15576253 TTTTTTCTCATTTTTT
1 TTTTTT-TCATTTTTT
15576269 CATCCATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
16 20 0.71
17 8 0.29
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.85
Consensus pattern (16 bp):
TTTTTTTCATTTTTTA
Found at i:15576240 original size:17 final size:16
Alignment explanation
Indices: 15576219--15576268 Score: 75
Period size: 17 Copynumber: 3.1 Consensus size: 16
15576209 ATTTTTTCTC
15576219 TTTTTTTTTCATTTTT
1 TTTTTTTTTCATTTTT
15576235 TATTTTTTTT-ATTTTT
1 T-TTTTTTTTCATTTTT
15576251 TTTTTTTTCTCATTTTT
1 TTTTTTTT-TCATTTTT
15576268 T
1 T
15576269 CATCCATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.23
16 9 0.29
17 15 0.48
ACGTcount: A:0.08, C:0.06, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTCATTTTT
Found at i:15580242 original size:15 final size:14
Alignment explanation
Indices: 15580222--15580251 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
15580212 GATTTAATTA
15580222 TTTTTTATTCTTTAT
1 TTTTTTATT-TTTAT
15580237 TTTTTTATTTTTAT
1 TTTTTTATTTTTAT
15580251 T
1 T
15580252 GAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTATTTTTAT
Found at i:15581235 original size:21 final size:21
Alignment explanation
Indices: 15581209--15581255 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
15581199 TCCCTTTAAA
15581209 CTTCTTC-TGCTTTCTCTCTTT
1 CTTCTTCAT-CTTTCTCTCTTT
*
15581230 CTTCTTCATTTTTCTCTCTTT
1 CTTCTTCATCTTTCTCTCTTT
15581251 -TTCTT
1 CTTCTT
15581256 TCTAGAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 18 0.75
22 1 0.04
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (21 bp):
CTTCTTCATCTTTCTCTCTTT
Found at i:15581803 original size:34 final size:32
Alignment explanation
Indices: 15581758--15581822 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 32
15581748 TTATCACTAG
*
15581758 AAAAATTAAAGATAAATCAAATAAAAAAAATAAA
1 AAAAATCAAAGATAAA-CAAA-AAAAAAAATAAA
*
15581792 AAAAATCAAAGATAAACAAAAAAATAAATAA
1 AAAAATCAAAGATAAACAAAAAAAAAAATAA
15581823 TAATTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 10 0.34
33 4 0.14
34 15 0.52
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (32 bp):
AAAAATCAAAGATAAACAAAAAAAAAAATAAA
Found at i:15581815 original size:23 final size:23
Alignment explanation
Indices: 15581771--15581820 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
15581761 AATTAAAGAT
*
15581771 AAATCAAATAAAAAAAATAAAAA
1 AAATCAAAGAAAAAAAATAAAAA
* *
15581794 AAATCAAAGATAAACAAA-AAAAT
1 AAATCAAAGA-AAAAAAATAAAAA
15581817 AAAT
1 AAAT
15581821 AATAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (23 bp):
AAATCAAAGAAAAAAAATAAAAA
Found at i:15581822 original size:4 final size:4
Alignment explanation
Indices: 15581803--15581896 Score: 74
Period size: 4 Copynumber: 24.2 Consensus size: 4
15581793 AAAATCAAAG
* * *
15581803 ATAA ACAA AAAA ATAA AT-A AT-A ATTA ATAA A-AA GATAA ACCTAA A--A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA -ATAA A--TAA ATAA
* *
15581849 ATAA ATAA ATAA ATAA GTAA ATAG ATAA AT-A ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
15581896 A
1 A
15581897 ATATAAAATA
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
2 2 0.03
3 11 0.15
4 55 0.74
5 2 0.03
6 4 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:15581837 original size:34 final size:34
Alignment explanation
Indices: 15581765--15581904 Score: 117
Period size: 34 Copynumber: 4.1 Consensus size: 34
15581755 TAGAAAAATT
* * *
15581765 AAAGATAAATCAAATAAAAAAAATAA-AAAAAAT-C
1 AAAGATAAA-CAAA-AAAATAAATAATAAATAATAA
*
15581799 AAAGATAAACAAAAAAATAAATAATAATTAATAA
1 AAAGATAAACAAAAAAATAAATAATAAATAATAA
**
15581833 AAAGATAAACCTAAAAATAAATAAATAAATAAGTAA
1 AAAGATAAACAAAAAAATAAAT-AATAAATAA-TAA
* * *
15581869 ATAGATAAA-TAATAAATAAATAAATAAA-ATATAA
1 AAAGATAAACAAAAAAATAAAT-AATAAATA-ATAA
15581903 AA
1 AA
15581905 TAGTATTTGC
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
32 10 0.11
33 9 0.10
34 34 0.38
35 25 0.28
36 11 0.12
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (34 bp):
AAAGATAAACAAAAAAATAAATAATAAATAATAA
Found at i:15581906 original size:35 final size:35
Alignment explanation
Indices: 15581779--15581907 Score: 102
Period size: 35 Copynumber: 3.8 Consensus size: 35
15581769 ATAAATCAAA
*
15581779 TAAAAA-AAATAAA-AAAA-AT-CAA-AGATAAAC
1 TAAAAATAAATAAATAAAATATAAAATAGATAAAC
15581809 --AAAA-AAATAAATAATAATTAATAAAA-AGATAAACC
1 TAAAAATAAATAAATAA-AA-T-ATAAAATAGATAAA-C
15581844 TAAAAATAAATAAAT-AAATA-AGTAAATAGATAAA-
1 TAAAAATAAATAAATAAAATATA--AAATAGATAAAC
15581878 TAATAAATAAATAAATAAAATATAAAATAG
1 TAA-AAATAAATAAATAAAATATAAAATAG
15581908 TATTTGCTCA
Statistics
Matches: 82, Mismatches: 1, Indels: 27
0.75 0.01 0.25
Matches are distributed among these distances:
28 11 0.13
29 2 0.02
30 2 0.02
33 3 0.04
34 13 0.16
35 23 0.28
36 14 0.17
37 6 0.07
38 8 0.10
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (35 bp):
TAAAAATAAATAAATAAAATATAAAATAGATAAAC
Found at i:15585981 original size:31 final size:31
Alignment explanation
Indices: 15585943--15586004 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15585933 ATAACTTGTG
15585943 TTTCTTCTAACATACTACTTGGCATACTTAT
1 TTTCTTCTAACATACTACTTGGCATACTTAT
15585974 TTTCTTCTAACATACTACTTGGCATACTTAT
1 TTTCTTCTAACATACTACTTGGCATACTTAT
15586005 CCAGGAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (31 bp):
TTTCTTCTAACATACTACTTGGCATACTTAT
Found at i:15602771 original size:20 final size:20
Alignment explanation
Indices: 15602713--15602780 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 20
15602703 TGTTTAGGAA
*
15602713 AAAAAAAAAAAGAAAAAAACC
1 AAAAAAAAAAAGAAAAAAA-T
15602734 AAAAAAAAGAGAAGAAAAAAAT
1 AAAAAAAA-A-AAGAAAAAAAT
*
15602756 AAAAAATAAAAA-AAAAAGAT
1 AAAAAA-AAAAAGAAAAAAAT
15602776 AAAAA
1 AAAAA
15602781 GGGTTGAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
20 12 0.29
21 10 0.24
22 8 0.19
23 12 0.29
ACGTcount: A:0.85, C:0.03, G:0.07, T:0.04
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAAAAAT
Found at i:15602780 original size:1 final size:1
Alignment explanation
Indices: 15602711--15602772 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
15602701 CATGTTTAGG
* ** * * * * *
15602711 AAAAAAAAAAAAAGAAAAAAACCAAAAAAAAGAGAAGAAAAAAATAAAAAATAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
15602773 GATAAAAAGG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.87, C:0.03, G:0.06, T:0.03
Consensus pattern (1 bp):
A
Found at i:15606542 original size:98 final size:98
Alignment explanation
Indices: 15606433--15606630 Score: 378
Period size: 98 Copynumber: 2.0 Consensus size: 98
15606423 CTTATAAACT
* *
15606433 TGGTTTAATTTGGTAATGGGTTTTCGTACTGAGAAATCTTCTGAAAGTCGATATTGAATAAAATT
1 TGGTTTAATTTGGTAATGGGTTTTCATACCGAGAAATCTTCTGAAAGTCGATATTGAATAAAATT
15606498 TATCCAATCTTCCACACTTATGACATCTGCATA
66 TATCCAATCTTCCACACTTATGACATCTGCATA
15606531 TGGTTTAATTTGGTAATGGGTTTTCATACCGAGAAATCTTCTGAAAGTCGATATTGAATAAAATT
1 TGGTTTAATTTGGTAATGGGTTTTCATACCGAGAAATCTTCTGAAAGTCGATATTGAATAAAATT
15606596 TATCCAATCTTCCACACTTATGACATCTGCATA
66 TATCCAATCTTCCACACTTATGACATCTGCATA
15606629 TG
1 TG
15606631 TTATAGGTGG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (98 bp):
TGGTTTAATTTGGTAATGGGTTTTCATACCGAGAAATCTTCTGAAAGTCGATATTGAATAAAATT
TATCCAATCTTCCACACTTATGACATCTGCATA
Found at i:15607442 original size:18 final size:18
Alignment explanation
Indices: 15607406--15607442 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
15607396 ACCCAATATC
* *
15607406 ATACAATATCATTCGACA
1 ATACAATATCAGTCAACA
15607424 ATACAATATCAGTCAACA
1 ATACAATATCAGTCAACA
15607442 A
1 A
15607443 GGTTTAGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (18 bp):
ATACAATATCAGTCAACA
Found at i:15608705 original size:19 final size:19
Alignment explanation
Indices: 15608657--15608698 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
15608647 TCAACAAACG
*
15608657 CCTTCAGTAATTAAAGGCA
1 CCTTCAATAATTAAAGGCA
*
15608676 CCTTCAATAATTGAAGGCA
1 CCTTCAATAATTAAAGGCA
15608695 CCTT
1 CCTT
15608699 TTCTAATAAA
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:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (19 bp):
CCTTCAATAATTAAAGGCA
Found at i:15609288 original size:333 final size:332
Alignment explanation
Indices: 15608060--15609684 Score: 2030
Period size: 333 Copynumber: 4.8 Consensus size: 332
15608050 ATTGAAAGCG
* * * * * * * *
15608060 GCTTATAATAAAAGACGCCTTTAATAATC-CGAAAAATTTTTTTTGGAAAAATATTAAAGGCATT
1 GCTTATAATAAAAGACGCCTTTAATAATCATG-GAAACTTTTATTAGAAAATTATTGAAGGCGTT
* **
15608124 GTTATCTGAAATCGCCTTCAGTAATTATATACAAACTGTGATA-GAAGTTATTAAAGGTGTCTAT
65 GTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAA-TTATTAAAGGCATCTAT
* * * *
15608188 CTTAAATATACACCTTCAATAATAGTGTTATAATATGTGTAGTGATATATAGAAGGTATTTTACA
129 CTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTACA
* * * * *
15608253 GTAAAAGATACCTTTAATAATTCTTAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTATTATTA
194 ATAGAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTA
** * *
15608318 ACAAATACCTTCAATAATTGAAGG-TGCCTTTTCTAATAAACGCCTTCGATTACCATCGTGGTAT
259 ACAAACGCCTTCAGTAATTGAAGGATGCCTTTTCTAATAAACGCCTTCGATTACCATCATGGTAT
* *
15608382 ATCAAAGAC
324 ATCGAAGGC
* * * *
15608391 GACTTATAATAAAAGACGCATTTAATAATCATTGAAACTTTTATTAAAAAAATTATTGAAGGTGT
1 G-CTTATAATAAAAGACGCCTTTAATAATCATGGAAACTTTTATT-AGAAAATTATTGAAGGCGT
* * * *
15608456 TGTTATCTAAAATCGCCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGACGTCTAT
64 TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTAT
* *
15608521 CTTAAATATACGACTTCAA-AACAGTATTACAATATGTGTAGTGGTATATAGAAGGTATTTTACA
129 CTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTACA
* * *
15608585 ATAGAAGATACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGTGTCTATTATCA
194 ATAGAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTA
* *
15608650 ACAAACGCCTTCAGTAATTAAAGGCACCTTCAATAATTGAAGGCACCTTTTCTAATAAATGCCTT
259 ACAAACGCCTTCAGTAATTGAAGG-----------A-T----G--CCTTTTCTAATAAACGCCTT
* * * *
15608715 CAATTACCAACGTGGTATATCGAAGGT
306 CGATTACCATCATGGTATATCGAAGGC
* * *
15608742 GACTTATAATAAAAGACGCCTTTAATAATC-TGAAAATTTTTTTTTGAGAAAA-TATTGAAGGCG
1 G-CTTATAATAAAAGACGCCTTTAATAATCATGGAAA-CTTTTATT-AGAAAATTATTGAAGGCG
* * *
15608805 TTGTTATCTGAAATCACTTTCAGTAATTATATACAAATTGTGATATGAATTATTAAAGGCATCTA
63 TTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTA
*
15608870 TCTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGCGGTATATAGAAGGTATTTTAC
128 TCTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTAC
* * * *
15608935 AGTA-AGAGACGCCTTTAATAATTCTCAAAATATTTAGTGAGAAAATTTTGAAGGCGTTTATTAT
193 AATAGA-AGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTAT
15608999 TAACAAACGCCTTCAGTAATTGAAGG-TGCCTTTTCTAATAAACGCCTTCGATTACCATCATGGT
257 TAACAAACGCCTTCAGTAATTGAAGGATGCCTTTTCTAATAAACGCCTTCGATTACCATCATGGT
15609063 ATATCGAAGGC
322 ATATCGAAGGC
* *
15609074 AGCTTATAATAAAAGATGCCTTTAATAATCATGGAAACTTTTATTAGAAAATTTATTGAAGGCAT
1 -GCTTATAATAAAAGACGCCTTTAATAATCATGGAAACTTTTATTAGAAAA-TTATTGAAGGCGT
* * *
15609139 TGTTATCTAAAATTACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGACATCTAT
64 TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTAT
* * * * * *
15609204 CTTAAATATACGCCTTCAATAATAGTGTTACAATATATGTAGCGATTTATAGAAGGCATTTTACA
129 CTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTACA
* * * * * *
15609269 ATAGAAGACGGCTTTAATAATTCTCAAAATATTTAGTGAGAAAATTTTAAAGGCATCTGTTATTA
194 ATAGAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTA
* * * * * *
15609334 ATAAACGCCTTTAGTAATTGAAGGCT-CTTTTTCTAATAAACGCCTTCGATTACTAAT-ATAGTA
259 ACAAACGCCTTCAGTAATTGAAGGATGCCTTTTCTAATAAACGCCTTCGATTAC-CATCATGGTA
15609397 TATCGAAGGC
323 TATCGAAGGC
* * *
15609407 GGCTTATAATAAAAGATGCCTTTAATAATCATGGAAACTTTTATTAAAAAAATTATTAAAGGCGT
1 -GCTTATAATAAAAGACGCCTTTAATAATCATGGAAACTTTTATT-AGAAAATTATTGAAGGCGT
* *
15609472 TATTATCTGAAATCACCTTCAGTAATTATATACAAACTATGATAGGAATTATTAAAGGCATCTAT
64 TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTAT
* * * *
15609537 CTTAAATATACACCTTCAATAACAGTGTTACAATATGTATAGTGGTATATAGAAGGTATGTTATA
129 CTTAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTACA
* * * * *
15609602 ATAGAAGATGCCTTTAATAATTTTCAAAATATTTAGTGAAAAATTTTTGAAGCCGTTTGTT-TCT
194 ATAGAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTAT-T
* *
15609666 AACAAACACCTTCTGTAAT
258 AACAAACGCCTTCAGTAAT
15609685 GGATTACTAA
Statistics
Matches: 1132, Mismatches: 127, Indels: 68
0.85 0.10 0.05
Matches are distributed among these distances:
331 7 0.01
332 232 0.20
333 582 0.51
334 13 0.01
338 1 0.00
345 1 0.00
349 1 0.00
350 92 0.08
351 203 0.18
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (332 bp):
GCTTATAATAAAAGACGCCTTTAATAATCATGGAAACTTTTATTAGAAAATTATTGAAGGCGTTG
TTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAAAGGCATCTATCT
TAAATATACGCCTTCAATAACAGTGTTACAATATGTGTAGTGGTATATAGAAGGTATTTTACAAT
AGAAGATGCCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGGCGTCTATTATTAAC
AAACGCCTTCAGTAATTGAAGGATGCCTTTTCTAATAAACGCCTTCGATTACCATCATGGTATAT
CGAAGGC
Found at i:15609608 original size:683 final size:675
Alignment explanation
Indices: 15608057--15609678 Score: 2136
Period size: 683 Copynumber: 2.4 Consensus size: 675
15608047 ATTATTGAAA
* * *
15608057 GCGGCTTATAATAAAAGACGCCTTTAATAATCCGAAAAATTTTTTTTGGAAAAATATTAAAGGCA
1 GCGGCTTATAATAAAAGACGCCTTTAATAATCTG-AAAATTTTTTTTGAAAAAATATTAAAGGCG
* **
15608122 TTGTTATCTGAAATCGCCTTCAGTAATTATATACAAACTGTGATAGAAGTTATTAAAGGTGTCTA
65 TTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGAA-TTATTAAAGGCATCTA
* *
15608187 TCTTAAATATACACCTTCAATAATAGTGTTATA-ATAT-GTGT--AGTGATATATAGAAGGTATT
129 TCTTAAATATACACCTTCAATAACAGTGTTACATATATAGTGTAGAGTG-TATATAGAAGGTATT
* *
15608248 TTACAGTAAAAGATACCTTTAATAATTCTTAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTAT
193 TTACAGTAAAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTAT
* *
15608313 TATTAACAAATACCTTCAATAATTGAAGGTGCCTTTTCTAATAAACGCCTTCGATTACCATCGTG
258 TATTAACAAACACCTTCAATAATTGAAGGTGCCTTTTCTAATAAACGCCTTCGATTACCATCATG
*
15608378 GTATATCAAAGACGACTTATAATAAAAGACGCATTTAATAATCATTGAAACTTTTATTAAAAAAA
323 GTATATCAAAGACGACTTATAATAAAAGACGCATTTAATAATCATGGAAACTTTTATTAAAAAAA
** *
15608443 TTATTGAAGGTGTTGTTATCTAAAATCGCCTTCAGTAATTATATACAAACTGTGATAGGAATTAT
388 TTATTGAAGGCATTGTTATCTAAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTAT
* * * *
15608508 TAAAGACGTCTATCTTAAATATACGACTTCAAAACAGTATTACAATATGTGTAGTGGTATATAGA
453 TAAAGACATCTATCTTAAATATACGACTTCAAAACAGTATTACAATATATGTAGCGATATATAGA
* * *
15608573 AGGTATTTTACAATAGAAGATACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAGG
518 AGGCATTTTACAATAGAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAAG
15608638 TGTCTATTATCAACAAACGCCTTCAGTAATTAAAGGCACCTTCAATAATTGAAGGCACCTTTTCT
583 TGTC---TAT--AC--ACG-CTTCAGTAATTAAA-GCACCTTCAATAATTGAAGGCACCTTTTCT
* * *
15608703 AATAAATGCCTTCAATTACCAACGTGGTATATCGAAG
639 AATAAACGCCTTCAATTACCAACATAGTATATCGAAG
* * * *
15608740 GTGACTTATAATAAAAGACGCCTTTAATAATCTGAAAATTTTTTTTTGAGAAAATATTGAAGGCG
1 GCGGCTTATAATAAAAGACGCCTTTAATAATCTGAAAA-TTTTTTTTGAAAAAATATTAAAGGCG
* *
15608805 TTGTTATCTGAAATCACTTTCAGTAATTATATACAAATTGTGATATGAATTATTAAAGGCATCTA
65 TTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATA-GAATTATTAAAGGCATCTA
* *
15608870 TCTTAAATATACGCCTTCAATAACAGTGTTACA-ATAT-GTGTAGCG-GTATATAGAAGGTATTT
129 TCTTAAATATACACCTTCAATAACAGTGTTACATATATAGTGTAGAGTGTATATAGAAGGTATTT
* * * * *
15608932 TACAGTAAGAGACGCCTTTAATAATTCTCAAAATATTTAGTGAGAAAATTTTGAAGGCGTTTATT
194 TACAGTAAAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTATT
* *
15608997 ATTAACAAACGCCTTCAGTAATTGAAGGTGCCTTTTCTAATAAACGCCTTCGATTACCATCATGG
259 ATTAACAAACACCTTCAATAATTGAAGGTGCCTTTTCTAATAAACGCCTTCGATTACCATCATGG
* * * * * *
15609062 TATATCGAAGGC-AGCTTATAATAAAAGATGCCTTTAATAATCATGGAAACTTTTATTAGAAAAT
324 TATATCAAAGACGA-CTTATAATAAAAGACGCATTTAATAATCATGGAAACTTTTATTAAAAAAA
*
15609126 TTATTGAAGGCATTGTTATCTAAAATTACCTTCAGTAATTATATACAAACTGTGATAGGAATTAT
388 TTATTGAAGGCATTGTTATCTAAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTAT
* * * *
15609191 TAAAGACATCTATCTTAAATATACGCCTTCAATAATAGTGTTACAATATATGTAGCGATTTATAG
453 TAAAGACATCTATCTTAAATATACGACTTCAA-AACAGTATTACAATATATGTAGCGATATATAG
** *
15609256 AAGGCATTTTACAATAGAAGACGGCTTTAATAATTCTCAAAATATTTAGTGAGAAAATTTT-AAA
517 AAGGCATTTTACAATAGAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAA
* * * * * * *
15609320 G-G-C-AT-C-TG-TT-ATTAA-TAAA-CGCCTTTAGTAATTGAAGGCTCTTTTTCTAATAAACG
582 GTGTCTATACACGCTTCAGTAATTAAAGCACCTTCAATAATTGAAGGCACCTTTTCTAATAAACG
* * *
15609376 CCTTCGATTACTAATATAGTATATCGAAG
647 CCTTCAATTACCAACATAGTATATCGAAG
* * * * *
15609405 GCGGCTTATAATAAAAGATGCCTTTAATAATCATGGAAACTTTTATTAAAAAAATTATTAAAGGC
1 GCGGCTTATAATAAAAGACGCCTTTAATAATC-TGAAAATTTTTTTTGAAAAAA-TATTAAAGGC
* *
15609470 GTTATTATCTGAAATCACCTTCAGTAATTATATACAAACTATGATAGGAATTATTAAAGGCATCT
64 GTTGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATA-GAATTATTAAAGGCATCT
* * *
15609535 ATCTTAAATATACACCTTCAATAACAGTGTTACA-ATAT-GTATAGTG-GTATATAGAAGGTATG
128 ATCTTAAATATACACCTTCAATAACAGTGTTACATATATAGTGTAGAGTGTATATAGAAGGTATT
* * * ** * * * * * *
15609597 TTATAATAGAAGATGCCTTTAATAATTTTCAAAATATTTAGTGAAAAATTTTTGAAGCCGTTTGT
193 TTACAGTAAAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTAT
15609662 T-TCTAACAAACACCTTC
258 TAT-TAACAAACACCTTC
15609679 TGTAATGGAT
Statistics
Matches: 836, Mismatches: 94, Indels: 35
0.87 0.10 0.04
Matches are distributed among these distances:
665 96 0.11
666 201 0.24
667 4 0.00
668 4 0.00
669 2 0.00
671 1 0.00
674 1 0.00
677 2 0.00
681 1 0.00
682 6 0.01
683 431 0.52
684 86 0.10
685 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (675 bp):
GCGGCTTATAATAAAAGACGCCTTTAATAATCTGAAAATTTTTTTTGAAAAAATATTAAAGGCGT
TGTTATCTGAAATCACCTTCAGTAATTATATACAAACTGTGATAGAATTATTAAAGGCATCTATC
TTAAATATACACCTTCAATAACAGTGTTACATATATAGTGTAGAGTGTATATAGAAGGTATTTTA
CAGTAAAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTAAAGGCGTCTATTAT
TAACAAACACCTTCAATAATTGAAGGTGCCTTTTCTAATAAACGCCTTCGATTACCATCATGGTA
TATCAAAGACGACTTATAATAAAAGACGCATTTAATAATCATGGAAACTTTTATTAAAAAAATTA
TTGAAGGCATTGTTATCTAAAATCACCTTCAGTAATTATATACAAACTGTGATAGGAATTATTAA
AGACATCTATCTTAAATATACGACTTCAAAACAGTATTACAATATATGTAGCGATATATAGAAGG
CATTTTACAATAGAAGACACCTTTAATAATTCTCAAAATATTTAGTGAAAAAATTTTGAAAGTGT
CTATACACGCTTCAGTAATTAAAGCACCTTCAATAATTGAAGGCACCTTTTCTAATAAACGCCTT
CAATTACCAACATAGTATATCGAAG
Found at i:15617175 original size:12 final size:12
Alignment explanation
Indices: 15617158--15617186 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15617148 TTTATTGAAA
15617158 ATAAAATTTATT
1 ATAAAATTTATT
15617170 ATAAAATTTATT
1 ATAAAATTTATT
15617182 A-AAAA
1 ATAAAA
15617187 AAAATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAAAATTTATT
Found at i:15618642 original size:3 final size:3
Alignment explanation
Indices: 15618634--15618679 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
15618624 ATCTGCTATT
15618634 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15618680 GCATTGATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:15620121 original size:2 final size:2
Alignment explanation
Indices: 15620114--15620144 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15620104 ACAATTGCCT
15620114 TA TA TA TA TA TA 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 T
15620145 GAATTTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15620299 original size:19 final size:20
Alignment explanation
Indices: 15620255--15620304 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
15620245 CTTATGGAAT
*
15620255 AATTATAAAAATAATTTTAA
1 AATTATAAAAATAATTATAA
15620275 ATATTATAAATAA-AATTAT-A
1 A-ATTATAAA-AATAATTATAA
15620295 AATTATAAAA
1 AATTATAAAA
15620305 GTTATAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 1 0.04
19 8 0.30
20 3 0.11
21 13 0.48
22 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTATAAAAATAATTATAA
Found at i:15620508 original size:2 final size:2
Alignment explanation
Indices: 15620501--15620539 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15620491 AAAATTATAA
15620501 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
15620540 TTTAATTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15625905 original size:160 final size:158
Alignment explanation
Indices: 15625364--15626275 Score: 588
Period size: 161 Copynumber: 5.7 Consensus size: 158
15625354 TTTGGATAAA
* * * * *
15625364 TTTAATATCATATATTGAAGCAATCTAAACTGTCAAAATAGAATAATAAACA-CAAATTTGCATT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAA-AGAAAATTTGCATT
* * * * *
15625428 TTAGCTTTTTAATGGCATAAAAAAGTGCTAAACAGATACAAACAATAACTTTTTCACACATATCA
65 TTGGCCTTTTAATAGCATAAAAAA-T-CTAAACAGACATAAAC-ATAACTTTTTCACACATATCA
* *
15625493 TTCATGAAAACTAAGTTCAATCACTCAAA-AAG
127 ATCATGAAAACTAAGTTCAATCA-TTAAACAAG
* * * * * * **
15625525 TTTAATATAATGTATTTAAGCTATCTAAATTGTTAAAACATAAAAATAAATGCAAAA-TAACATT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAAG-AAAATTTGCATT
** * * * * *
15625589 TTTACCCTTTAACAGCATAACAAAGTCCTAAAAACACATAAACAGTAACTTTTTCACACATATCA
65 TTGGCCTTTTAATAGCATAA-AAAAT-CTAAACAGACATAAACA-TAACTTTTTCACACATATCA
* * *
15625654 ATCATAAAAACTAAGTTCAATTATTCAACAAG
127 ATCATGAAAACTAAGTTCAATCATTAAACAAG
* * * * * * *
15625686 TTTAATATTATGTATTGAAACTATCTAAACTATTACAACAAAATAATAAATGCAAATTTGCA-TT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAAGAAAATTTGCATTT
* * *
15625750 TGGCTTTTTAATAGCATAAAAAATCTTAAACAGACATAAACGATAACTTTTTCACATATATCAAC
66 TGGCCTTTTAATAGCATAAAAAATC-TAAACAGACATAAAC-ATAACTTTTTCACACATATCAAT
*
15625815 CATGAAAAGTAAGTTCAATCATTTAAACAAG
129 CATGAAAACTAAGTTCAATCA-TTAAACAAG
* * * *
15625846 TTTAATATCATTTATTGAAGCTATTTAAATTGTTAAAATAGAATAATAAAAGAAAATTTGCATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAAGAAAATTTGCATTT
* * * *
15625911 TGGCCTTTTAAGGGTA-CA-AAAAAATGCTGAATAGATATAAACAATAACTTTTTCTCAC--ATC
66 TGGCCTTTTAA---TAGCATAAAAAAT-CTAAACAGACATAAAC-ATAACTTTTTCACACATATC
* * **
15625972 AATAAT-AGAAACCAAGATTC--GGA-T----AAG
126 AATCATGA-AAACTAAG-TTCAATCATTAAACAAG
* * * * * * ** * * **
15625999 TTTAATATCATGTTTTTAAGCTATCCAAACTATTAAAACAAAAAAATAACTGTATATTTATATTT
1 TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAAGAAAATTTGCATTT
** * * * * * * *
15626064 TTTCCCTTTAACAGCACAACAAAGTCCTAAAAAGATATAATGC-TAAC-TTTTCACACATATCAA
66 TGGCCTTTTAATAGCATAA-AAAAT-CTAAACAGACATAA-ACATAACTTTTTCACACATATCAA
* * * *
15626127 TCGTGGAAACCAAGTTCAATAATTCAAACAAG
128 TCATGAAAACTAAGTTCAATCATT-AAACAAG
* * * * ** * * *
15626159 TTTACTAT-ATTGTATTGAAGCTGT-TCAAACTGTTAAAACAAAAAAATAATTGCATATTTACAT
1 TTTAATATCA-TGTATTGAAGCTATCT-AAACTGTTAAAACAGAATAATAAAAGAAAATTTGCAT
* * * * * *
15626222 TTAT-GCCATTTAATAACACAAAAAGTGCTAAACGGATATAAACGATAACTTTTT
64 TT-TGGCCTTTTAATAGCATAAAAAAT-CTAAACAGACATAAAC-ATAACTTTTT
15626276 TATTTGATGT
Statistics
Matches: 587, Mismatches: 127, Indels: 74
0.74 0.16 0.09
Matches are distributed among these distances:
150 1 0.00
151 10 0.02
152 9 0.02
153 91 0.16
154 2 0.00
155 1 0.00
157 1 0.00
158 2 0.00
159 75 0.13
160 169 0.29
161 183 0.31
162 38 0.06
163 3 0.01
164 2 0.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.32
Consensus pattern (158 bp):
TTTAATATCATGTATTGAAGCTATCTAAACTGTTAAAACAGAATAATAAAAGAAAATTTGCATTT
TGGCCTTTTAATAGCATAAAAAATCTAAACAGACATAAACATAACTTTTTCACACATATCAATCA
TGAAAACTAAGTTCAATCATTAAACAAG
Found at i:15625953 original size:321 final size:322
Alignment explanation
Indices: 15625364--15625970 Score: 727
Period size: 321 Copynumber: 1.9 Consensus size: 322
15625354 TTTGGATAAA
* * * *
15625364 TTTAATATCATATATTGAAGCAATCTAAACTGTCAAAATAGAATAATAAACACAAATTTGCATTT
1 TTTAATATCATATATTGAAACAATCTAAACTATCAAAACAAAATAATAAACACAAATTTGCATTT
* * *
15625429 TAGCTTTTTAATGGCATAAAAAAGTGCTAAACAGATACAAACAATAACTTTTTCACACATATCAT
66 TAGCTTTTTAATAGCATAAAAAAGTGCTAAACAGACACAAACAATAACTTTTTCACACATATCAA
* *
15625494 TCATGAAAACTAAGTTCAATCACTCAAAAAGTTTAATATAATGTATTTAAGCTATCTAAATTGTT
131 CCATGAAAACTAAGTTCAATCACTCAAAAAGTTTAATATAATGTATTGAAGCTATCTAAATTGTT
* * * * * *
15625559 AAAACATAAAAATAAATGCAAAATAACATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAC
196 AAAACAGAAAAATAAAAGCAAAATAACATTTTGACCCTTTAACAGCACAAAAAAATCCTAAAAAC
*
15625624 ACATAAACAGTAACTTTTTCACACATATCAATCATAAAAACTAAGTTCAATTATTCAACAAG
261 ACATAAACAATAACTTTTTCACACATATCAATCATAAAAACTAAGTTCAATTATTCAACAAG
* * * * * **
15625686 TTTAATATTATGTATTGAAACTATCTAAACTATTACAACAAAATAATAAATGCAAATTTGCA-TT
1 TTTAATATCATATATTGAAACAATCTAAACTATCAAAACAAAATAATAAACACAAATTTGCATTT
* * * *
15625750 TGGCTTTTTAATAGCATAAAAAA-T-CTTAAACAGACATAAACGATAACTTTTTCACATATATCA
66 TAGCTTTTTAATAGCATAAAAAAGTGC-TAAACAGACACAAACAATAACTTTTTCACACATATCA
* * * * * *
15625813 ACCATGAAAAGTAAGTTCAATCATTTAAACAAGTTTAATATCATTTATTGAAGCTATTTAAATTG
130 ACCATGAAAACTAAGTTCAATCACTCAAA-AAGTTTAATATAATGTATTGAAGCTATCTAAATTG
* * ** * * ** * * *
15625878 TTAAAATAGAATAATAAAAG-AAAATTTGCATTTTGGCCTTTTAAGGGTACAAAAAAATGCTGAA
194 TTAAAACAGAAAAATAAAAGCAAAA-TAACATTTTGACCCTTTAACAGCACAAAAAAATCCTAAA
* * * *
15625942 TAGATATAAACAATAACTTTTTCTCACAT
258 AACACATAAACAATAACTTTTTCACACAT
15625971 CAATAATAGA
Statistics
Matches: 234, Mismatches: 48, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
319 1 0.00
320 62 0.26
321 120 0.51
322 51 0.22
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (322 bp):
TTTAATATCATATATTGAAACAATCTAAACTATCAAAACAAAATAATAAACACAAATTTGCATTT
TAGCTTTTTAATAGCATAAAAAAGTGCTAAACAGACACAAACAATAACTTTTTCACACATATCAA
CCATGAAAACTAAGTTCAATCACTCAAAAAGTTTAATATAATGTATTGAAGCTATCTAAATTGTT
AAAACAGAAAAATAAAAGCAAAATAACATTTTGACCCTTTAACAGCACAAAAAAATCCTAAAAAC
ACATAAACAATAACTTTTTCACACATATCAATCATAAAAACTAAGTTCAATTATTCAACAAG
Found at i:15627436 original size:13 final size:13
Alignment explanation
Indices: 15627412--15627446 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
15627402 ATAACCAATT
*
15627412 ATATATAAAGAAC
1 ATATATAGAGAAC
*
15627425 ATATCTAGAGAAC
1 ATATATAGAGAAC
15627438 ATATATAGA
1 ATATATAGA
15627447 CATTGAAAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.54, C:0.09, G:0.11, T:0.26
Consensus pattern (13 bp):
ATATATAGAGAAC
Found at i:15629684 original size:21 final size:21
Alignment explanation
Indices: 15629660--15629700 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15629650 TACTTTAAAA
**
15629660 ATCAATATTGCCAACTTGAAT
1 ATCAATATCACCAACTTGAAT
*
15629681 ATCAGTATCACCAACTTGAA
1 ATCAATATCACCAACTTGAA
15629701 AAATACGAGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (21 bp):
ATCAATATCACCAACTTGAAT
Found at i:15643390 original size:80 final size:77
Alignment explanation
Indices: 15643253--15643504 Score: 290
Period size: 80 Copynumber: 3.2 Consensus size: 77
15643243 CTTAAATATT
*
15643253 ATGGTTTGCTGAACCTTGTTGTCTGAT-TTATTTTGCTGAATGGTATTGTATGATATTGAAGGGT
1 ATGGTTTGCTGAACCTTGTTGTCTGATATTATTTT-C-GAATGGTATTGTATGATATTG-AGGGC
* *
15643317 TGAATCCTATGCTGA
63 TGAATCATATGTTGA
* * * * *
15643332 ATGGTTTGTTGAACTTTGTTGTATGATATTGTATTTCGAAATGGTATTGTATGATATTGGGGGAC
1 ATGGTTTGCTGAACCTTGTTGTCTGATATTAT-TTTCG-AATGGTATTGTATGATATTGAGGG-C
15643397 TGAATCATATGTTGA
63 TGAATCATATGTTGA
* * * *
15643412 ATGATTTGCTGAACCTTGTTGTCTAATATTATTTTGTTGAATGGTTTTGTATGATATTGAGAGGC
1 ATGGTTTGCTGAACCTTGTTGTCTGATATTA-TTT-TCGAATGGTATTGTATGATATTGAG-GGC
*
15643477 TAAATCATATGTTGA
63 TGAATCATATGTTGA
*
15643492 ATGGTTTGTTGAA
1 ATGGTTTGCTGAA
15643505 TGGTGTTTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
79 28 0.19
80 110 0.75
81 8 0.05
ACGTcount: A:0.24, C:0.07, G:0.25, T:0.44
Consensus pattern (77 bp):
ATGGTTTGCTGAACCTTGTTGTCTGATATTATTTTCGAATGGTATTGTATGATATTGAGGGCTGA
ATCATATGTTGA
Found at i:15643503 original size:12 final size:12
Alignment explanation
Indices: 15643486--15643533 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
15643476 CTAAATCATA
15643486 TGTTGAATGGTT
1 TGTTGAATGGTT
15643498 TGTTGAATGGTGT
1 TGTTGAATGGT-T
* *
15643511 TTTTGAGTGGTT
1 TGTTGAATGGTT
*
15643523 TGCTGAATGGT
1 TGTTGAATGGT
15643534 GTGTCTAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (12 bp):
TGTTGAATGGTT
Found at i:15643521 original size:25 final size:25
Alignment explanation
Indices: 15643488--15643535 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
15643478 AAATCATATG
*
15643488 TTGAATGGTTTGTTGAATGGTGTTT
1 TTGAATGGTTTGCTGAATGGTGTTT
*
15643513 TTGAGTGGTTTGCTGAATGGTGT
1 TTGAATGGTTTGCTGAATGGTGT
15643536 GTCTAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.48
Consensus pattern (25 bp):
TTGAATGGTTTGCTGAATGGTGTTT
Found at i:15648424 original size:58 final size:58
Alignment explanation
Indices: 15648362--15648576 Score: 317
Period size: 58 Copynumber: 3.7 Consensus size: 58
15648352 TTTTGTATAG
*
15648362 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
* * *
15648420 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCAATTTTT-GAAAACGTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTAGAAAACTTATTTTCAA
* * * *
15648478 GGAAAATTAATACTTTTAACTTTTTCC-CAAAAATATTTTTTAGAAAACTTATTTCCAA
1 GAAAAATTGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
*
15648536 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
15648577 TTTGAATTTT
Statistics
Matches: 140, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
57 12 0.09
58 116 0.83
59 12 0.09
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (58 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAA
Found at i:15648603 original size:5 final size:5
Alignment explanation
Indices: 15648595--15648626 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
15648585 TTATTTAAAG
15648595 AAAAT AAAAT AAAA- AAAAT AAAA- AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15648627 AATATTAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.32
5 17 0.68
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (5 bp):
AAAAT
Found at i:15648635 original size:10 final size:9
Alignment explanation
Indices: 15648595--15648628 Score: 59
Period size: 9 Copynumber: 3.7 Consensus size: 9
15648585 TTATTTAAAG
15648595 AAAATAAAAT
1 AAAA-AAAAT
15648605 AAAAAAAAT
1 AAAAAAAAT
15648614 AAAAAAAAT
1 AAAAAAAAT
15648623 AAAAAA
1 AAAAAA
15648629 TATTAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 20 0.83
10 4 0.17
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:15649467 original size:16 final size:16
Alignment explanation
Indices: 15649446--15649476 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15649436 AATCTCAGTC
15649446 GAAAAAAAAGAAAAAA
1 GAAAAAAAAGAAAAAA
*
15649462 GAAAAAAAATAAAAA
1 GAAAAAAAAGAAAAA
15649477 TCAAATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (16 bp):
GAAAAAAAAGAAAAAA
Found at i:15649535 original size:42 final size:41
Alignment explanation
Indices: 15649463--15649572 Score: 118
Period size: 42 Copynumber: 2.7 Consensus size: 41
15649453 AAGAAAAAAG
* * * *
15649463 AAAAA-AAATAA-AAATCAAATAAAAATATTAATAGATAATT
1 AAAAATAAATAATAGAT-AAATAAAAATATTAACAAATAAAT
*
15649503 AAAAGA-AAATAATCAGATAAATCAAAATATTAACAAATAAAT
1 AAAA-ATAAATAAT-AGATAAATAAAAATATTAACAAATAAAT
*
15649545 AAAAATAAATAATAGATAAATAATAATA
1 AAAAATAAATAATAGATAAATAAAAATA
15649573 AACATATATA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
40 4 0.07
41 21 0.36
42 31 0.53
43 3 0.05
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.24
Consensus pattern (41 bp):
AAAAATAAATAATAGATAAATAAAAATATTAACAAATAAAT
Found at i:15649546 original size:4 final size:4
Alignment explanation
Indices: 15649537--15649684 Score: 53
Period size: 4 Copynumber: 37.5 Consensus size: 4
15649527 AAATATTAAC
* * *
15649537 AAAT AAAT -AA- AAAT AAAT -AAT AGAT AAAT -AAT -AAT AAAC ATAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * ** * ** *
15649580 ATAT ATAAT -AAT ATAT AAAT AGCT AAGT -AAT -AAT AAAT GTAT ATAT
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
15649626 GAACAT AAAA AAAT AAAT AAAT ATATAT TAAT AAAT AGTAAT -AAT AAAT
1 -AA-AT AAAT AAAT AAAT AAAT A-A-AT AAAT AAAT A--AAT AAAT AAAT
15649675 AAAT AAAT AA
1 AAAT AAAT AA
15649685 TACATAAGAT
Statistics
Matches: 109, Mismatches: 21, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
3 24 0.22
4 71 0.65
5 7 0.06
6 7 0.06
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:15649565 original size:11 final size:11
Alignment explanation
Indices: 15649491--15649600 Score: 61
Period size: 11 Copynumber: 10.2 Consensus size: 11
15649481 ATAAAAATAT
*
15649491 TAATAGATAAT
1 TAATAGATAAA
*
15649502 TAAAAGA-AAA
1 TAATAGATAAA
15649512 TAATCAGATAAA
1 TAAT-AGATAAA
*
15649524 TCAA-A-AT-AT
1 T-AATAGATAAA
* *
15649533 TAACAAATAAA
1 TAATAGATAAA
*
15649544 TAA-AAATAAA
1 TAATAGATAAA
15649554 TAATAGATAAA
1 TAATAGATAAA
15649565 TAATA-ATAAA
1 TAATAGATAAA
* *
15649575 CATATATATATAA
1 TA-ATAGATA-AA
*
15649588 TAATATATAAA
1 TAATAGATAAA
15649599 TA
1 TA
15649601 GCTAAGTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 20
0.74 0.07 0.18
Matches are distributed among these distances:
8 2 0.02
9 3 0.04
10 25 0.31
11 32 0.40
12 14 0.17
13 5 0.06
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (11 bp):
TAATAGATAAA
Found at i:15649593 original size:10 final size:10
Alignment explanation
Indices: 15649538--15649691 Score: 73
Period size: 10 Copynumber: 14.5 Consensus size: 10
15649528 AATATTAACA
*
15649538 AATAAATAAA
1 AATAAATAAT
15649548 AATAAATAAT
1 AATAAATAAT
15649558 AGATAAATAAT
1 A-ATAAATAAT
*
15649569 AATAAA-CAT
1 AATAAATAAT
*
15649578 ATATATATAAT
1 A-ATAAATAAT
*
15649589 AATATATAAAT
1 AATAAAT-AAT
* *
15649600 AGCTAAGTAAT
1 A-ATAAATAAT
*
15649611 AATAAATGTAT
1 AATAAAT-AAT
15649622 ATATGAACATAA-
1 A-AT-AA-ATAAT
15649634 AA-AAATAAAT
1 AATAAAT-AAT
* *
15649644 AAATATATATT
1 -AATAAATAAT
*
15649655 AATAAATAGT
1 AATAAATAAT
15649665 AAT-AATAAAT
1 AATAAAT-AAT
15649675 AAATAAATAAT
1 -AATAAATAAT
15649686 ACATAA
1 A-ATAA
15649692 GATACAAAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 33
0.69 0.10 0.21
Matches are distributed among these distances:
8 2 0.02
9 10 0.09
10 43 0.39
11 39 0.35
12 12 0.11
13 3 0.03
14 2 0.02
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (10 bp):
AATAAATAAT
Found at i:15649737 original size:20 final size:20
Alignment explanation
Indices: 15649712--15649769 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
15649702 AGAAAAAAGA
*
15649712 AAAAATATAAATATA-AATAT
1 AAAAATATAAA-ATACAAAAT
15649732 AAAAATATAAAATACAAAAT
1 AAAAATATAAAATACAAAAT
*
15649752 AAAAAAATAAAA-ACAAAA
1 AAAAATATAAAATACAAAA
15649770 ACAAAATGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 9 0.26
20 26 0.74
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATATAAAATACAAAAT
Found at i:15649739 original size:14 final size:13
Alignment explanation
Indices: 15649713--15649764 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
15649703 GAAAAAAGAA
*
15649713 AAAATATAAATAT
1 AAAATAAAAATAT
15649726 AAATATAAAAATAT
1 AAA-ATAAAAATAT
*
15649740 AAAATACAAAATAAA
1 AAAATA-AAAAT-AT
15649755 AAAATAAAAA
1 AAAATAAAAA
15649765 CAAAAACAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
13 6 0.18
14 21 0.62
15 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAATAT
Found at i:15649764 original size:7 final size:7
Alignment explanation
Indices: 15649665--15649764 Score: 51
Period size: 7 Copynumber: 14.1 Consensus size: 7
15649655 AATAAATAGT
*
15649665 AATAATA
1 AATAAAA
15649672 AATAAATA
1 AATAAA-A
*
15649680 AATAATA
1 AATAAAA
* *
15649687 CATAAGA
1 AATAAAA
* *
15649694 TACAAAA
1 AATAAAA
*
15649701 AAGAAAA
1 AATAAAA
*
15649708 AAGAAAA
1 AATAAAA
*
15649715 AAT-ATA
1 AATAAAA
*
15649721 AAT-ATA
1 AATAAAA
15649727 AATATAAA
1 AATA-AAA
*
15649735 AATATAA
1 AATAAAA
*
15649742 AATACAA
1 AATAAAA
15649749 AATAAAAA
1 AAT-AAAA
15649757 AATAAAA
1 AATAAAA
15649764 A
1 A
15649765 CAAAAACAAA
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
6 11 0.15
7 45 0.61
8 18 0.24
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (7 bp):
AATAAAA
Found at i:15649770 original size:20 final size:20
Alignment explanation
Indices: 15649705--15649775 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
15649695 ACAAAAAAGA
* * *
15649705 AAAAAGAAAAAATATAAATAT
1 AAAAATAAAAAA-ATAAAAAC
* *
15649726 AAATATAAAAATATAAAATAC
1 AAAAATAAAAAAATAAAA-AC
15649747 -AAAATAAAAAAATAAAAAC
1 AAAAATAAAAAAATAAAAAC
*
15649766 AAAAACAAAA
1 AAAAATAAAA
15649776 TGGGCCTACC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 2 0.05
20 28 0.70
21 10 0.25
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.15
Consensus pattern (20 bp):
AAAAATAAAAAAATAAAAAC
Found at i:15650271 original size:125 final size:125
Alignment explanation
Indices: 15649950--15650293 Score: 374
Period size: 125 Copynumber: 2.7 Consensus size: 125
15649940 AAGATTTGAT
* * * * *
15649950 CAAAACTCCTCTAAGCAGAGGCTCAACGACTTTGAAAAACATAAACAATGCTCCTCTAATCAGAG
1 CAAAGCTCCTATAATCAGAGGCTCAACGACTTT-AAAAAAAT-AA-ATTGCTCCTCTAATCAGAG
* * * ** *
15650015 GCTCAACGAC-TTTA-AAAATAAATAAAGCTCCTTTAATCAGAGGCTCAACAACTTTGAAAATAA
63 GCTCAACAACTTTTAGAAAATAAAT--GGCGCCCCTAATCAGAGGATCAACAACTTTGAAAATAA
* ** * * *
15650078 CTAAAGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAGAGTAAATGGCTCCTCTAATCAGAGGC
1 C-AAAGCTCCTATAATCAGAGGCTCAACGACTTTAAAAAAATAAATTGCTCCTCTAATCAGAGGC
15650143 TCAACAACTTTTAGAAAATAAATGGCGCCCCTAATCAGAGGTATC-ACAACTTTGGAAAATAA
65 TCAACAACTTTTAGAAAATAAATGGCGCCCCTAATCAGAGG-ATCAACAACTTT-GAAAATAA
** * * *
15650205 -ATGGCTCTTATAATCAGAGGCTCAATGACTTTAAAAAAATAAATTGCTCCTTTAATCAGAGGCT
1 CAAAGCTCCTATAATCAGAGGCTCAACGACTTTAAAAAAATAAATTGCTCCTCTAATCAGAGGCT
15650269 CAACAACTTTT-GAAAAGTAAATGGC
66 CAACAACTTTTAGAAAA-TAAATGGC
15650294 TCCTTGGCAA
Statistics
Matches: 184, Mismatches: 26, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
124 5 0.03
125 72 0.39
126 48 0.26
127 16 0.09
128 13 0.07
129 30 0.16
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (125 bp):
CAAAGCTCCTATAATCAGAGGCTCAACGACTTTAAAAAAATAAATTGCTCCTCTAATCAGAGGCT
CAACAACTTTTAGAAAATAAATGGCGCCCCTAATCAGAGGATCAACAACTTTGAAAATAA
Found at i:15650298 original size:42 final size:41
Alignment explanation
Indices: 15649955--15650297 Score: 318
Period size: 42 Copynumber: 8.1 Consensus size: 41
15649945 TTGATCAAAA
* *
15649955 CTCCTCTAAGCAGAGGCTCAACGAC-TTTGAAAAACATAAACAAT-G
1 CTCCTCTAATCAGAGGCTCAACAACTTTTG--AAA-AT--A-AATGG
* * *
15650000 CTCCTCTAATCAGAGGCTCAACGAC-TTTAAAAATAAATAAAG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAAT--GG
* **
15650042 CTCCTTTAATCAGAGGCTCAACAAC-TTTGAAAATAACTAAAG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAA--ATGG
* *
15650084 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAGAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAA-AATAAATGG
15650126 CTCCTCTAATCAGAGGCTCAACAACTTTTAGAAAATAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTT-GAAAATAAATGG
* * * *
15650168 CGCCCCTAATCAGAGGTATC-ACAACTTTGGAAAATAAATGG
1 CTCCTCTAATCAGAGG-CTCAACAACTTTTGAAAATAAATGG
* * ** ** *
15650209 CTCTTATAATCAGAGGCTCAATGACTTTAAAAAAATAAATTG
1 CTCCTCTAATCAGAGGCTCAACAACTTT-TGAAAATAAATGG
*
15650251 CTCCTTTAATCAGAGGCTCAACAACTTTTGAAAAGTAAATGG
1 CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAA-TAAATGG
15650293 CTCCT
1 CTCCT
15650298 TGGCAATCAT
Statistics
Matches: 252, Mismatches: 34, Indels: 27
0.81 0.11 0.09
Matches are distributed among these distances:
39 3 0.01
40 3 0.01
41 34 0.13
42 166 0.66
43 14 0.06
44 5 0.02
45 27 0.11
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (41 bp):
CTCCTCTAATCAGAGGCTCAACAACTTTTGAAAATAAATGG
Found at i:15651313 original size:11 final size:11
Alignment explanation
Indices: 15651293--15651331 Score: 60
Period size: 11 Copynumber: 3.4 Consensus size: 11
15651283 TCCTTTTTCA
15651293 TTCATTTTTTT
1 TTCATTTTTTT
15651304 TTCATTTTTTT
1 TTCATTTTTTT
15651315 CCTTCATTTTTTT
1 --TTCATTTTTTT
15651328 TTCA
1 TTCA
15651332 AGCATAGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 15 0.58
13 11 0.42
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.74
Consensus pattern (11 bp):
TTCATTTTTTT
Found at i:15651313 original size:13 final size:13
Alignment explanation
Indices: 15651286--15651329 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
15651276 TGAGTCTTCC
15651286 TTTTTCATTCATTTT
1 TTTTTCATT--TTTT
15651301 TTTTTCATTTTTT
1 TTTTTCATTTTTT
**
15651314 TCCTTCATTTTTT
1 TTTTTCATTTTTT
15651327 TTT
1 TTT
15651330 CAAGCATAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 16 0.64
15 9 0.36
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTCATTTTTT
Found at i:15651313 original size:24 final size:24
Alignment explanation
Indices: 15651286--15651331 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15651276 TGAGTCTTCC
15651286 TTTTTCATTCATTTTTTTTTCATT
1 TTTTTCATTCATTTTTTTTTCATT
*
15651310 TTTTTCCTTCATTTTTTTTTCA
1 TTTTTCATTCATTTTTTTTTCA
15651332 AGCATAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.15, G:0.00, T:0.74
Consensus pattern (24 bp):
TTTTTCATTCATTTTTTTTTCATT
Found at i:15661932 original size:58 final size:58
Alignment explanation
Indices: 15661695--15662087 Score: 503
Period size: 58 Copynumber: 6.8 Consensus size: 58
15661685 TGTTTTTGTA
* * ** *
15661695 CAAGAAAAATTGATACTTTCAACTTTTTC-CCAAAATA-TTTTTAGAAATTTTAATTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTT
* * *
15661751 CGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATTCATTTTTT-GAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAA-T-ATTTTTTAGAAAGCTTATTTT
*
15661810 TAA-GAAAATTTGATACTTTCAACTTTTTCTCAAAAATATCTTTTTTAGAAAGCTTATTTT
1 CAAGGAAAA-TTGATACTTTCAACTTTTTCTCAAAAATA--TTTTTTAGAAAGCTTATTTT
* * *
15661870 CAAGGAAAATTTATACTTTCAACTCTTTCTTAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTT
* * *
15661928 CAAGGAAAATTGTTACTTTCAACTTTTCCTCAAAAATCCA-TTTTT-GAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAAT--ATTTTTTAGAAAGCTTATTTT
*
15661986 CAAGGAAAATTGATACTTTCAA-TTTTTCCCCAAAAATATTTTTTAGAAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTT-CTCAAAAATATTTTTTAGAAAGCTTATTTT
* *
15662044 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAATTTTTTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
15662088 TGAATTTTAT
Statistics
Matches: 294, Mismatches: 28, Indels: 28
0.84 0.08 0.08
Matches are distributed among these distances:
56 27 0.09
57 15 0.05
58 147 0.50
59 54 0.18
60 46 0.16
61 5 0.02
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAGCTTATTTT
Found at i:15662122 original size:13 final size:13
Alignment explanation
Indices: 15662104--15662128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15662094 TTATTTAAAG
15662104 AAAATAAAATAAT
1 AAAATAAAATAAT
15662117 AAAATAAAATAA
1 AAAATAAAATAA
15662129 AAACATTAAA
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAAAATAAT
Found at i:15663080 original size:21 final size:20
Alignment explanation
Indices: 15663050--15663162 Score: 104
Period size: 20 Copynumber: 5.5 Consensus size: 20
15663040 AATAAAAATC
15663050 AAATAAAAATATTAATAGAT
1 AAATAAAAATATTAATAGAT
*
15663070 AATTAAAAA-A-TAATCAGAT
1 AAATAAAAATATTAAT-AGAT
* * *
15663089 AAATCAAAATATTAACAAAT
1 AAATAAAAATATTAATAGAT
*
15663109 AAATAAAAATAAATAATAGAT
1 AAATAAAAAT-ATTAATAGAT
* *
15663130 AAATTATAATATATAAATAGAT
1 AAA-TA-AAAATATTAATAGAT
*
15663152 AAATAATAATA
1 AAATAAAAATA
15663163 AATACATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
18 4 0.05
19 12 0.16
20 25 0.34
21 15 0.21
22 13 0.18
23 4 0.05
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:15663103 original size:39 final size:40
Alignment explanation
Indices: 15663050--15663208 Score: 115
Period size: 43 Copynumber: 3.8 Consensus size: 40
15663040 AATAAAAATC
*
15663050 AAATAAAAATATTAATAGATAAT-TAAA-AAATAATCAGAT
1 AAATAAAAATATTAATAGATAATAAAAATAAATAAT-AGAT
* * *
15663089 AAATCAAAATATTAACAAATAAATAAAAATAAATAATAGAT
1 AAATAAAAATATTAATAGAT-AATAAAAATAAATAATAGAT
* * * *
15663130 AAATTATAATATATAAATAGATAAATAATAATAAATACATATAT
1 AAA-TA-AAAATATTAATAGAT-AATAAAAATAAATA-ATAGAT
* * * *
15663174 ATATAATAATATATAAATAGCTAAGTAATAATAAA
1 AAATAA-AA-ATATTAATAGATAA-TAAAAATAAA
15663209 CATATATATT
Statistics
Matches: 97, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
39 17 0.18
40 3 0.03
41 10 0.10
42 9 0.09
43 30 0.31
44 28 0.29
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (40 bp):
AAATAAAAATATTAATAGATAATAAAAATAAATAATAGAT
Found at i:15663151 original size:22 final size:22
Alignment explanation
Indices: 15663107--15663206 Score: 112
Period size: 22 Copynumber: 4.6 Consensus size: 22
15663097 ATATTAACAA
* *
15663107 ATAAATAAAAATAAAT-AATAG
1 ATAAATAATAATATATAAATAG
*
15663128 ATAAATTATAATATATAAATAG
1 ATAAATAATAATATATAAATAG
* * *
15663150 ATAAATAATAATAAATACATAT
1 ATAAATAATAATATATAAATAG
*
15663172 ATATATAATAATATATAAATAG
1 ATAAATAATAATATATAAATAG
* *
15663194 CTAAGTAATAATA
1 ATAAATAATAATA
15663207 AACATATATA
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
21 13 0.20
22 51 0.80
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (22 bp):
ATAAATAATAATATATAAATAG
Found at i:15663187 original size:14 final size:14
Alignment explanation
Indices: 15663050--15663192 Score: 74
Period size: 14 Copynumber: 10.4 Consensus size: 14
15663040 AATAAAAATC
15663050 AAATAA-AA-ATAT
1 AAATAATAATATAT
*
15663062 TAATAGATAAT-TA-
1 AAATA-ATAATATAT
*
15663075 AAA-AATAATCAGAT
1 AAATAATAAT-ATAT
15663089 AAATCAA-AATAT-T
1 AAAT-AATAATATAT
*
15663102 AACA-AATAA-ATAA
1 AA-ATAATAATATAT
*
15663115 AAATAAATAATAGAT
1 AAAT-AATAATATAT
*
15663130 AAATTATAATATAT
1 AAATAATAATATAT
15663144 AAATAGATAA-ATA-
1 AAATA-ATAATATAT
15663157 ATAATAAATACATATAT
1 A-AAT-AATA-ATATAT
*
15663174 ATATAATAATATAT
1 AAATAATAATATAT
15663188 AAATA
1 AAATA
15663193 GCTAAGTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 38
0.66 0.08 0.26
Matches are distributed among these distances:
11 5 0.05
12 10 0.10
13 12 0.12
14 45 0.45
15 19 0.19
16 7 0.07
17 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:15663203 original size:44 final size:44
Alignment explanation
Indices: 15663107--15663217 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
15663097 ATATTAACAA
* * * *
15663107 ATAAATAAAAATAAATA-ATAGATAAATTATAATATATAAATAG
1 ATAAATAATAATAAATACATATATATATAATAATATATAAATAG
15663150 ATAAATAATAATAAATACATATATATATAATAATATATAAATAG
1 ATAAATAATAATAAATACATATATATATAATAATATATAAATAG
* *
15663194 CTAAGTAATAAT-AA-ACATATATAT
1 ATAAATAATAATAAATACATATATAT
15663218 TAACATAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 10 0.16
43 18 0.30
44 33 0.54
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (44 bp):
ATAAATAATAATAAATACATATATATATAATAATATATAAATAG
Found at i:15663234 original size:44 final size:44
Alignment explanation
Indices: 15663107--15663254 Score: 115
Period size: 44 Copynumber: 3.4 Consensus size: 44
15663097 ATATTAACAA
* * * * * *
15663107 ATAAATAAAAATAAATA-ATAGATAAATTATAATATATAAATAG
1 ATAAATAATAATAAATACATATATATATAATAAAAAATAAATAG
* *
15663150 ATAAATAATAATAAATACATATATATATAATAATATATAAATAG
1 ATAAATAATAATAAATACATATATATATAATAAAAAATAAATAG
* * * *
15663194 CTAAGTAATAAT-AA-ACATATATAT-TAACATAAAAAAATAAAAAA
1 ATAAATAATAATAAATACATATATATAT-A-AT-AAAAAATAAATAG
* *
15663238 ATATATATTAATAAATA
1 ATAAATAATAATAAATA
15663255 GTAATAATAA
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
41 1 0.01
42 11 0.13
43 20 0.24
44 50 0.59
45 2 0.02
46 1 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (44 bp):
ATAAATAATAATAAATACATATATATATAATAAAAAATAAATAG
Found at i:15663260 original size:28 final size:30
Alignment explanation
Indices: 15663196--15663265 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
15663186 ATAAATAGCT
*
15663196 AAGTAATAATAAACATATATATTAACATAA
1 AAGTAATAATAAAAATATATATTAACATAA
*
15663226 AA-AAATAA-AAAAATATATATT-A-ATAA
1 AAGTAATAATAAAAATATATATTAACATAA
15663252 ATAGTAATAATAAA
1 A-AGTAATAATAAA
15663266 TAAAGAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 5 0.15
27 2 0.06
28 17 0.50
29 8 0.24
30 2 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (30 bp):
AAGTAATAATAAAAATATATATTAACATAA
Found at i:15663319 original size:6 final size:6
Alignment explanation
Indices: 15663299--15663333 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
15663289 AAAGAAGAAA
15663299 AAATAT AAA-AT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
15663334 GTAAATTAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:15664213 original size:62 final size:61
Alignment explanation
Indices: 15664019--15664213 Score: 150
Period size: 61 Copynumber: 3.2 Consensus size: 61
15664009 AATAATGGGG
* * * * ** *
15664019 TTATTAAAGGCTTTTCTGGTCAAAAACACATTCAATAATCTCCTT-TAA-TTTTAAAAAGGGA
1 TTATTCAAGGCGTTTCTGG-CAAAAACACCTTCAATAATCT-CTTCTAATTTTTTATTAGGCA
* * * * * *
15664080 TTATTCAAGGTGTTTTTGGCAAAAAAATGCCTTGAATAATC-C-TCTGATATATTTT-TT-GACA
1 TTATTCAAGGCGTTTCTGGCAAAAACA--CCTTCAATAATCTCTTCT-A-ATTTTTTATTAGGCA
*
15664141 TTATTCAAGGCGTTTCTGGCCAAAAACACCTTTAATAATCTCTTCTAATTTTTTATTAGGCA
1 TTATTCAAGGCGTTTCTGG-CAAAAACACCTTCAATAATCTCTTCTAATTTTTTATTAGGCA
*
15664203 TTATTGAAGGC
1 TTATTCAAGGC
15664214 TTTTTTAGCT
Statistics
Matches: 103, Mismatches: 20, Indels: 21
0.72 0.14 0.15
Matches are distributed among these distances:
59 1 0.01
60 26 0.25
61 39 0.38
62 34 0.33
63 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (61 bp):
TTATTCAAGGCGTTTCTGGCAAAAACACCTTCAATAATCTCTTCTAATTTTTTATTAGGCA
Found at i:15664236 original size:122 final size:121
Alignment explanation
Indices: 15664019--15664241 Score: 263
Period size: 122 Copynumber: 1.8 Consensus size: 121
15664009 AATAATGGGG
* * *
15664019 TTATTAAAGGCTTTTCTGGTCAAAAACACATTCAATAATCTCCTTTAATTTTAAAAAGGGATTAT
1 TTATTAAAGGCGTTTCTGGCCAAAAACACATTCAATAATCTCCTTTAATTTTAAAAAGGCATTAT
*
15664084 TCAAGGTGTTTTTGGCAAAAAAATGCCTTGAATAATCCTCTGATATATTTTTTGACA
66 TCAAGGTGTTTTTAGCAAAAAAAT-CCTTGAATAATCCTCTGATATATTTTTTGACA
* * * * **
15664141 TTATTCAAGGCGTTTCTGGCCAAAAACACCTTTAATAATCT-CTTCTAATTTTTTATTAGGCATT
1 TTATTAAAGGCGTTTCTGGCCAAAAACACATTCAATAATCTCCTT-TAA-TTTTAAAAAGGCATT
* * *
15664205 ATTGAAGGCT-TTTTTAGCTAGAAATAT-CTTGAATAAT
64 ATTCAAGG-TGTTTTTAGC-AAAAAAATCCTTGAATAAT
15664242 GGATTATTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
121 3 0.04
122 49 0.58
123 25 0.30
124 7 0.08
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (121 bp):
TTATTAAAGGCGTTTCTGGCCAAAAACACATTCAATAATCTCCTTTAATTTTAAAAAGGCATTAT
TCAAGGTGTTTTTAGCAAAAAAATCCTTGAATAATCCTCTGATATATTTTTTGACA
Found at i:15664261 original size:42 final size:42
Alignment explanation
Indices: 15664202--15664283 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
15664192 TTTATTAGGC
* * * *
15664202 ATTATTGAAGGCTTTTTTAGCTAGAAATATCTTGAATAATGG
1 ATTATTGAAGGCATTTTTAGCCAAAAATATATTGAATAATGG
*
15664244 ATTATTGAAGGCATTTTTGGCCAAAAATATATTGAATAAT
1 ATTATTGAAGGCATTTTTAGCCAAAAATATATTGAATAAT
15664284 CCCCTCTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (42 bp):
ATTATTGAAGGCATTTTTAGCCAAAAATATATTGAATAATGG
Found at i:15664323 original size:104 final size:105
Alignment explanation
Indices: 15664140--15664416 Score: 263
Period size: 105 Copynumber: 2.6 Consensus size: 105
15664130 ATTTTTTGAC
* * * * * * * * *
15664140 ATTATTCAAGGCGTTTCTGGCCAAAAACACCTTTAATAATCTCTTCTAATTTTTTATTAGGCATT
1 ATTATTGAAGGCATTTTTGGCCAAAAATACCTTGAATAATCCCATCTAATTTTTTATTAAGAATT
* * * * * *
15664205 ATTGAAGGC-TTTTTTAG-CTAGAAATATCTTGAATAATGG
66 ATTAAAAGCTTTTTTTAGTC-AAAAACACCTTGAATAATCG
** * **
15664244 ATTATTGAAGGCATTTTTGGCCAAAAATATATTGAATAATCCCCTCTAATTTTTTATTACTAATT
1 ATTATTGAAGGCATTTTTGGCCAAAAATACCTTGAATAATCCCATCTAATTTTTTATTAAGAATT
* *
15664309 ATTAAAAG-TATTTTTTTGTCAAAAACGCCTTGAATAATCG
66 ATTAAAAGCT-TTTTTTAGTCAAAAACACCTTGAATAATCG
* * * * * *
15664349 ATTATTGAAGGTATTTTTAGCCAAATATGCCTTGAATAATCCCATGTCATTTTTTATTAAGAATT
1 ATTATTGAAGGCATTTTTGGCCAAAAATACCTTGAATAATCCCATCTAATTTTTTATTAAGAATT
15664414 ATT
66 ATT
15664417 CAAGGTGTAT
Statistics
Matches: 139, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
104 59 0.42
105 79 0.57
106 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (105 bp):
ATTATTGAAGGCATTTTTGGCCAAAAATACCTTGAATAATCCCATCTAATTTTTTATTAAGAATT
ATTAAAAGCTTTTTTTAGTCAAAAACACCTTGAATAATCG
Found at i:15664372 original size:105 final size:104
Alignment explanation
Indices: 15664232--15664451 Score: 260
Period size: 105 Copynumber: 2.1 Consensus size: 104
15664222 CTAGAAATAT
* * * *
15664232 CTTGAATAATGGATTATTGAAGGCATTTTTGGCCAAAAATATATTGAATAATCCCCTCTAATTTT
1 CTTGAATAATCGATTATTGAAGGCATTTTTAGCCAAAAATACATTGAATAATCCCATCTAATTTT
** * * *
15664297 TTATTACTAATTATTAAAAGTATTTTTTTGTCAAAAACGC
66 TTATTAAGAATTATTAAAAGTATATTTTTAT-AAAAAAGC
* * * * * *
15664337 CTTGAATAATCGATTATTGAAGGTATTTTTAGCCAAATATGCCTTGAATAATCCCATGTCATTTT
1 CTTGAATAATCGATTATTGAAGGCATTTTTAGCCAAAAATACATTGAATAATCCCATCTAATTTT
* * *
15664402 TTATTAAGAATTATTCAAGGTGTATTTTTATAAAAAAGC
66 TTATTAAGAATTATTAAAAGTATATTTTTATAAAAAAGC
*
15664441 TTTGAATAATC
1 CTTGAATAATC
15664452 TCCTTCAATT
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
104 17 0.18
105 79 0.82
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (104 bp):
CTTGAATAATCGATTATTGAAGGCATTTTTAGCCAAAAATACATTGAATAATCCCATCTAATTTT
TTATTAAGAATTATTAAAAGTATATTTTTATAAAAAAGC
Found at i:15667021 original size:22 final size:24
Alignment explanation
Indices: 15666969--15667021 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 24
15666959 AAAATAATCC
*
15666969 TCTCCTTTTTGTTTTATTTTTCAT
1 TCTCCTTTTTGTTTTAATTTTCAT
15666993 TCT--TTTTT-TTTTAATTTTC-T
1 TCTCCTTTTTGTTTTAATTTTCAT
15667013 TCTCCTTTT
1 TCTCCTTTT
15667022 CTGAATTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 10 0.38
22 9 0.35
24 3 0.12
ACGTcount: A:0.08, C:0.17, G:0.02, T:0.74
Consensus pattern (24 bp):
TCTCCTTTTTGTTTTAATTTTCAT
Found at i:15668493 original size:22 final size:21
Alignment explanation
Indices: 15668468--15668512 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
15668458 TCTCCAAACA
15668468 AATGATA-ATGAAAAAAAAATGG
1 AATGATAGA-GAAAAAAAAA-GG
*
15668490 AATGATAGAGAAAGAAAAAGG
1 AATGATAGAGAAAAAAAAAGG
15668511 AA
1 AA
15668513 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 16 0.76
23 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.13
Consensus pattern (21 bp):
AATGATAGAGAAAAAAAAAGG
Found at i:15686194 original size:16 final size:16
Alignment explanation
Indices: 15686145--15686194 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
15686135 TTTTATGTAT
15686145 CTATGAATCTAATTAA
1 CTATGAATCTAATTAA
15686161 -T-TGAATCTAA-TAA
1 CTATGAATCTAATTAA
*
15686174 TCTATGAATATAATTAA
1 -CTATGAATCTAATTAA
15686191 CTAT
1 CTAT
15686195 AAATGAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 3 0.10
14 9 0.31
15 2 0.07
16 12 0.41
17 3 0.10
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (16 bp):
CTATGAATCTAATTAA
Found at i:15691080 original size:16 final size:15
Alignment explanation
Indices: 15691059--15691088 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15691049 CCCTATCCAA
15691059 CTTTCTTGCTAGATGG
1 CTTTCTTGCT-GATGG
15691075 CTTTCTTGCTGATG
1 CTTTCTTGCTGATG
15691089 ATTAGTCCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (15 bp):
CTTTCTTGCTGATGG
Found at i:15697148 original size:6 final size:6
Alignment explanation
Indices: 15697131--15697174 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
15697121 CAAAAACTGC
*
15697131 TTGGGT TT-GGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGTT TTG
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTG
15697175 AGTTAGGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.14
6 31 0.86
ACGTcount: A:0.00, C:0.00, G:0.45, T:0.55
Consensus pattern (6 bp):
TTGGGT
Found at i:15703378 original size:134 final size:134
Alignment explanation
Indices: 15703151--15703501 Score: 415
Period size: 134 Copynumber: 2.6 Consensus size: 134
15703141 GCAGCATCTC
* * ** *
15703151 TATCTTTGAGATGCCATTAAATTAGTGATATTTTTAT-AAGAAAAATATCGTTGCTTTGAT-AGG
1 TATCTTTGAGATGCCGTTAATTTAGTGACGTTTTTATGAA-AAAAATATCGTTGCTTTGATGA-C
* * * ** *
15703214 GTTTGTAACTGAAAACATCGCTACTTTAGAGGCATTTGTATCTAAAAATGTCTCTATATTAGCGA
64 GTTTGTAACTGAAAACGTCACTACTGTAGAGGCATTTGTATCTAAAAATACCTCTATATTAACGA
* *
15703279 TATTTT
129 CATTTG
* * * *
15703285 TTTCTTTGAGATGCCGCTAATTTAGTGGA-GTTTTTATGAAAAAAATATTGTTGCTTTGGTGACG
1 TATCTTTGAGATGCCGTTAATTTAGT-GACGTTTTTATGAAAAAAATATCGTTGCTTTGATGACG
* *
15703349 TTTGTAACTGAAAACGTCACTACTGTAGAGGCGTTTGTATCTAAAAATACCTCTATATTAACGGC
65 TTTGTAACTGAAAACGTCACTACTGTAGAGGCATTTGTATCTAAAAATACCTCTATATTAACGAC
15703414 ATTTG
130 ATTTG
* * ** *
15703419 TATCTTTGAGACGCCGTTAATTTAGTGACGTTTTTATGAGAAAAACGTCGTTGCTTTGATGGCGT
1 TATCTTTGAGATGCCGTTAATTTAGTGACGTTTTTATGAAAAAAATATCGTTGCTTTGATGACGT
*
15703484 TTGT-A-TAAAAACGTCACT
66 TTGTAACTGAAAACGTCACT
15703502 TAACTAGCGA
Statistics
Matches: 185, Mismatches: 28, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
132 12 0.06
133 3 0.02
134 165 0.89
135 5 0.03
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (134 bp):
TATCTTTGAGATGCCGTTAATTTAGTGACGTTTTTATGAAAAAAATATCGTTGCTTTGATGACGT
TTGTAACTGAAAACGTCACTACTGTAGAGGCATTTGTATCTAAAAATACCTCTATATTAACGACA
TTTG
Found at i:15708643 original size:20 final size:20
Alignment explanation
Indices: 15708611--15708658 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
15708601 GAACATCAAG
15708611 ATCACCAACTTGAGTATGAAT
1 ATCACC-ACTTGAGTATGAAT
15708632 ATCACCACTTGAGTATGAAT
1 ATCACCACTTGAGTATGAAT
15708652 ATCACCA
1 ATCACCA
15708659 ATTTGTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (20 bp):
ATCACCACTTGAGTATGAAT
Found at i:15713631 original size:80 final size:80
Alignment explanation
Indices: 15713487--15713737 Score: 288
Period size: 80 Copynumber: 3.1 Consensus size: 80
15713477 TTAAATATTG
* * * *
15713487 TGGTTTACTGAACCTTGTTGTCTGAT-TTTTTTTATTGAATGGTACTGTATGATATTGGGGGGCT
1 TGGTTTGCTGAACCTTGTTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGGGGGCT
** *
15713551 GAATCGTACGCTGAA
66 GAATAATATGCTGAA
* ** * **
15713566 TGGTTTGCTGAACCTTGTTGTCTGATATTGTATTGCCGAATGGTGTTGTATGATATTAAGGGGCT
1 TGGTTTGCTGAACCTTGTTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGGGGGCT
* *
15713631 GAATTATATGCTAAA
66 GAATAATATGCTGAA
* * * * *
15713646 TGGTTTGTTGAACCTTATTGTCTGATATTGTTTTGTTAAATGGTTTTGTATAATATTGGGGGGCT
1 TGGTTTGCTGAACCTTGTTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGGGGGCT
*
15713711 GAATATTATGCTGAA
66 GAATAATATGCTGAA
* *
15713726 TGATTTGTTGAA
1 TGGTTTGCTGAA
15713738 TGGTATTTTT
Statistics
Matches: 143, Mismatches: 28, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
79 25 0.17
80 118 0.83
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (80 bp):
TGGTTTGCTGAACCTTGTTGTCTGATATTGTTTTGTTGAATGGTATTGTATGATATTGGGGGGCT
GAATAATATGCTGAA
Found at i:15717683 original size:302 final size:300
Alignment explanation
Indices: 15717130--15717732 Score: 843
Period size: 302 Copynumber: 2.0 Consensus size: 300
15717120 TTTTGAAGGT
* * * *
15717130 GTTTTTAACCAAAACTGCCTTCAATAATCACCCTGAAAATTTATTGTGTGGAATATTAAAGGCAT
1 GTTTTTAACCAAAACCGCCTTCAATAAT-ACCATAAAAATTTATTGTGTGAAATATTAAAGGCAT
* * ** *
15717195 TTTGGGCAAAAAATGCCTTTAAGAATCCATCGAGTCTTTTTTGTATGGATTATTAAAGGTGTTTT
65 TATGGGCAAAAAATACCTTTAAGAATCCATCGAGTCTTTTTTGTATAAATTATTAAAGGCGTTTT
* * * *
15717260 AAAAAAGCGCCTTCAATAATACCAACTAAAAATTAAACGAATGGATTATAAAGGGTGTTTTCCTA
130 AAAAAAACACCTTCAATAATACCAACTAAAAATTAAACAAATGGATTATAAAGGGCGTTTTCCTA
* * * * *
15717325 TGGGTAACGCTTTGAATAATCCCTAATAAAATGTTATTGAAGGCATTTATGGATATAACTAC-CT
195 TAGGTAACGCCTTGAATAATCCATAACAAAAAGTTATTGAAGGCATTTATGGATATAA-T-CGCT
*
15717389 TCAATAATCCAACCATTAAAATTTATCATTTGAAATATTAAAA
258 TCAATAATCCAACCATTAAAATTTATCATCTGAAATATTAAAA
* *
15717432 GTTTTTTACCAAAACCGCCTTCAATAAT-CCATAAAAAAATTTATTGTGTGAAATATTAAAGGCG
1 GTTTTTAACCAAAACCGCCTTCAATAATACCAT--AAAAATTTATTGTGTGAAATATTAAAGGCA
** *
15717496 TTATGGGCAAAAAATACCTTTAAGAATCCATCTCGTCTTTTTTGTATAAATTATTGAAGGCGTTT
64 TTATGGGCAAAAAATACCTTTAAGAATCCATCGAGTCTTTTTTGTATAAATTATTAAAGGCGTTT
* *
15717561 TAAAAAAATACCTTCAATAATACCAACTAAAAATTAATCAAATGGATTATGAAA-GGCGTTTTCC
129 TAAAAAAACACCTTCAATAATACCAACTAAAAATTAAACAAATGGATTAT-AAAGGGCGTTTTCC
*
15717625 TATAGGTAACGCCTTGAATAATCCATAACAAAAAGTTATTGAAGGCATTTTTGGATATAATCGTC
193 TATAGGTAACGCCTTGAATAATCCATAACAAAAAGTTATTGAAGGCATTTATGGATATAATCG-C
* * **
15717690 TTTAATAATCCAATCATTAAAATTTATTGTCTGAAATATTAAA
257 TTCAATAATCCAACCATTAAAATTTATCATCTGAAATATTAAA
15717733 GGCGTTTTGA
Statistics
Matches: 265, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
300 4 0.02
301 1 0.00
302 257 0.97
303 3 0.01
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (300 bp):
GTTTTTAACCAAAACCGCCTTCAATAATACCATAAAAATTTATTGTGTGAAATATTAAAGGCATT
ATGGGCAAAAAATACCTTTAAGAATCCATCGAGTCTTTTTTGTATAAATTATTAAAGGCGTTTTA
AAAAAACACCTTCAATAATACCAACTAAAAATTAAACAAATGGATTATAAAGGGCGTTTTCCTAT
AGGTAACGCCTTGAATAATCCATAACAAAAAGTTATTGAAGGCATTTATGGATATAATCGCTTCA
ATAATCCAACCATTAAAATTTATCATCTGAAATATTAAAA
Found at i:15727779 original size:23 final size:23
Alignment explanation
Indices: 15727738--15727781 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15727728 AAAGCATAAA
*
15727738 AAAAACACAAAAAGGAAAAAATT
1 AAAAACACAAAAAGCAAAAAATT
15727761 AAAAACA-AAAAAGACAAAAAA
1 AAAAACACAAAAAG-CAAAAAA
15727782 AGAAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.80, C:0.09, G:0.07, T:0.05
Consensus pattern (23 bp):
AAAAACACAAAAAGCAAAAAATT
Found at i:15728069 original size:21 final size:20
Alignment explanation
Indices: 15728023--15728061 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15728013 AATATAATAC
15728023 ATAT-ATAAATATAAATTAA
1 ATATAATAAATATAAATTAA
15728042 ATGATAATAAATATATAATT
1 AT-ATAATAAATATA-AATT
15728062 TTATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.12
20 2 0.12
21 9 0.53
22 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (20 bp):
ATATAATAAATATAAATTAA
Found at i:15728765 original size:29 final size:29
Alignment explanation
Indices: 15728741--15728796 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
15728731 ATATAAAATT
*
15728741 TTTATTAAATTAAGATAT-TAAATAATAAC
1 TTTATTAAAATAAGATATATAAATAA-AAC
* *
15728770 TTTATTAAAATAATATATATTAATAAA
1 TTTATTAAAATAAGATATATAAATAAA
15728797 GAAAAGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TTTATTAAAATAAGATATATAAATAAAAC
Found at i:15734614 original size:2 final size:2
Alignment explanation
Indices: 15734609--15734637 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15734599 AATCTATATA
15734609 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
15734638 ACATACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15737894 original size:3 final size:3
Alignment explanation
Indices: 15737886--15737920 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
15737876 CAAATGTCTT
15737886 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15737921 TTTTTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15738486 original size:34 final size:33
Alignment explanation
Indices: 15738433--15738498 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 33
15738423 AATTTTTTAT
* * *
15738433 TTATTTTATTTTTTGAAAATAAATTTTTAAAAA
1 TTATATTATTTTTTAAAAATAAAATTTTAAAAA
15738466 TTATATTATATTTTTAAAAATAAAATTTTAAAA
1 TTATATTAT-TTTTTAAAAATAAAATTTTAAAA
15738499 TATAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (33 bp):
TTATATTATTTTTTAAAAATAAAATTTTAAAAA
Found at i:15738496 original size:14 final size:15
Alignment explanation
Indices: 15738477--15738505 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
15738467 TATATTATAT
15738477 TTTTAAAA-ATAAAA
1 TTTTAAAATATAAAA
15738491 TTTTAAAATATAAAA
1 TTTTAAAATATAAAA
15738506 AAATCATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTTAAAATATAAAA
Found at i:15745126 original size:52 final size:52
Alignment explanation
Indices: 15745023--15745126 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
15745013 ATAACAATAT
* * * *
15745023 AAACTTGCCTATTAAGAATCCTTCTCCTTTTATAATTCTTTTTTTGCAAGTC
1 AAACTTGACTATTAAGAATCCTTCTCCTTTTAGAATTCTTCTTCTGCAAGTC
* *
15745075 AAACTTGACTATTAAGAATCTCTT-TTCTTTTAGAATTCTTCTTCTGTAAGTC
1 AAACTTGACTATTAAGAATC-CTTCTCCTTTTAGAATTCTTCTTCTGCAAGTC
15745127 TTCTTGTCCA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
52 42 0.93
53 3 0.07
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.46
Consensus pattern (52 bp):
AAACTTGACTATTAAGAATCCTTCTCCTTTTAGAATTCTTCTTCTGCAAGTC
Found at i:15745192 original size:11 final size:11
Alignment explanation
Indices: 15745153--15745192 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
15745143 AATATCTAAC
* *
15745153 AAATCTTAAAC
1 AAATCTCAAAT
*
15745164 AAATCTCTAAT
1 AAATCTCAAAT
15745175 AAATCTCAAAT
1 AAATCTCAAAT
15745186 AAATCTC
1 AAATCTC
15745193 CTATAAGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATCTCAAAT
Found at i:15745198 original size:22 final size:22
Alignment explanation
Indices: 15745147--15745192 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
15745137 TCAAGCAATA
* *
15745147 TCTAACAAATCTTAAACAAATC
1 TCTAATAAATCTCAAACAAATC
*
15745169 TCTAATAAATCTCAAATAAATC
1 TCTAATAAATCTCAAACAAATC
15745191 TC
1 TC
15745193 CTATAAGATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
TCTAATAAATCTCAAACAAATC
Found at i:15746493 original size:49 final size:48
Alignment explanation
Indices: 15746440--15746554 Score: 151
Period size: 48 Copynumber: 2.4 Consensus size: 48
15746430 AGTGTTTTCC
* *
15746440 TAAAAAAGTA-AAAAATTATCAAAAGGAATAGGTGATGGGAGTGTAACCT
1 TAAAAAA-TATAAAAATTAT-AAAAGGAATAAGTGATAGGAGTGTAACCT
* **
15746489 TAAAAAATATGAAAATTATAAAAGGAATAAGTGATAGGAGTGTTCCCT
1 TAAAAAATATAAAAATTATAAAAGGAATAAGTGATAGGAGTGTAACCT
*
15746537 TGAAAAATATAAAAATTA
1 TAAAAAATATAAAAATTA
15746555 GTAATAAGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
48 43 0.74
49 15 0.26
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.25
Consensus pattern (48 bp):
TAAAAAATATAAAAATTATAAAAGGAATAAGTGATAGGAGTGTAACCT
Found at i:15746583 original size:40 final size:38
Alignment explanation
Indices: 15746539--15746662 Score: 112
Period size: 38 Copynumber: 3.2 Consensus size: 38
15746529 TGTTCCCTTG
* **
15746539 AAAAATATAAAAATTAGTAAT-AAGAGTGTTTCTCTTAA
1 AAAAAAATAAAAAAAAGTAATGAA-AGTGTTTCTCTTAA
* *
15746577 AAAAAAAAAAAAGAACAAGTAATGTAAGTGTTTC-CTTAA
1 AAAAAAATAAAA-AA-AAGTAATGAAAGTGTTTCTCTTAA
*
15746616 AAAAATAA-AAGAACAAAGTAATGAAAGTGTTTCT-TTAA
1 AAAAA-AATAA-AAAAAAGTAATGAAAGTGTTTCTCTTAA
*
15746654 AAAATAATA
1 AAAAAAATA
15746663 GAACAAGGAA
Statistics
Matches: 71, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
37 2 0.03
38 36 0.51
39 14 0.20
40 18 0.25
41 1 0.01
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (38 bp):
AAAAAAATAAAAAAAAGTAATGAAAGTGTTTCTCTTAA
Found at i:15746618 original size:38 final size:39
Alignment explanation
Indices: 15746554--15746657 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 39
15746544 TATAAAAATT
15746554 AGTAAT-AAGAGTGTTTCTCTTAAAAAAAAAAAAAAGAAC-A
1 AGTAATGAA-AGTGTTTC-CTT-AAAAAAAAAAAAAGAACAA
* *
15746594 AGTAATGTAAGTGTTTCCTT-AAAAAAATAAAAGAACAA
1 AGTAATGAAAGTGTTTCCTTAAAAAAAAAAAAAGAACAA
*
15746632 AGTAATGAAAGTGTTTCTTTAAAAAA
1 AGTAATGAAAGTGTTTCCTTAAAAAA
15746658 TAATAGAACA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
37 15 0.26
38 19 0.33
39 8 0.14
40 14 0.25
41 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (39 bp):
AGTAATGAAAGTGTTTCCTTAAAAAAAAAAAAAGAACAA
Found at i:15746658 original size:37 final size:36
Alignment explanation
Indices: 15746578--15746770 Score: 158
Period size: 37 Copynumber: 5.3 Consensus size: 36
15746568 TTCTCTTAAA
* * *
15746578 AAAAAAAAAAAGAACAAGTAATGTAAGTGTTTCCTTA
1 AAAAAATAAAAGAACAAGTAATGAAAGTGTTT-CTTT
15746615 AAAAAATAAAAGAACAAAGTAATGAAAGTGTTTCTTT
1 AAAAAATAAAAGAAC-AAGTAATGAAAGTGTTTCTTT
* * *
15746652 AAAAAATAATAGAACAAGGAAT-ATCAA-TATTTC-TT
1 AAAAAATAAAAGAACAAGTAATGA--AAGTGTTTCTTT
* ** * * * **
15746687 GAAAAATAGGAGAATAAATAATGAGAGTGTTTCCCT
1 AAAAAATAAAAGAACAAGTAATGAAAGTGTTTCTTT
* * * *
15746723 AAAAAATAAGAGAACAAGTAATGAGAGTATTTCTCTA
1 AAAAAATAAAAGAACAAGTAATGAAAGTGTTTCT-TT
15746760 AAAAAATAAAA
1 AAAAAATAAAA
15746771 TGAGAAGTAA
Statistics
Matches: 125, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
34 1 0.01
35 24 0.19
36 41 0.33
37 43 0.34
38 16 0.13
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (36 bp):
AAAAAATAAAAGAACAAGTAATGAAAGTGTTTCTTT
Found at i:15746754 original size:71 final size:72
Alignment explanation
Indices: 15746578--15746770 Score: 194
Period size: 71 Copynumber: 2.6 Consensus size: 72
15746568 TTCTCTTAAA
* *
15746578 AAAAAAAAAAAGAACAAGTAATGTAAGTGTTTCCTTAAAAAAATAAAAGAACAAAGTAATGAAAG
1 AAAAAATAAAAGAACAAGTAATG-AAGTATTT-CTTAAAAAAATAAAAGAACAAAGTAATGAAAG
**
15746643 TGTTTCTTT
64 TGTTTCCCT
* * * * ** * *
15746652 AAAAAATAATAGAACAAGGAAT-ATCAATATTTCTT-GAAAAATAGGAGAATAAA-TAATGAGAG
1 AAAAAATAAAAGAACAAGTAATGA--AGTATTTCTTAAAAAAATAAAAGAACAAAGTAATGAAAG
15746714 TGTTTCCCT
64 TGTTTCCCT
*
15746723 AAAAAATAAGAGAACAAGTAATGAGAGTATTTCTCTAAAAAAATAAAA
1 AAAAAATAAAAGAACAAGTAATGA-AGTATTTCT-TAAAAAAATAAAA
15746771 TGAGAAGTAA
Statistics
Matches: 95, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
71 43 0.45
72 17 0.18
73 11 0.12
74 24 0.25
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (72 bp):
AAAAAATAAAAGAACAAGTAATGAAGTATTTCTTAAAAAAATAAAAGAACAAAGTAATGAAAGTG
TTTCCCT
Found at i:15746781 original size:37 final size:36
Alignment explanation
Indices: 15746578--15746770 Score: 140
Period size: 36 Copynumber: 5.3 Consensus size: 36
15746568 TTCTCTTAAA
* * *
15746578 AAAAAAAAAAAGAACAAGTAATGTA-AGTGTTTCCTT
1 AAAAAATAAAAGAACAAGTAATG-AGAGTATTTCCCT
* * **
15746614 AAAAAAATAAAAGAACAAAGTAATGAAAGTGTTTCTTT
1 -AAAAAATAAAAGAAC-AAGTAATGAGAGTATTTCCCT
* * * * *
15746652 AAAAAATAATAGAACAAGGAAT-ATCAATATTT-CTT
1 AAAAAATAAAAGAACAAGTAATGA-GAGTATTTCCCT
* ** * * *
15746687 GAAAAATAGGAGAATAAATAATGAGAGTGTTTCCCT
1 AAAAAATAAAAGAACAAGTAATGAGAGTATTTCCCT
* *
15746723 AAAAAATAAGAGAACAAGTAATGAGAGTATTTCTCT
1 AAAAAATAAAAGAACAAGTAATGAGAGTATTTCCCT
15746759 AAAAAAATAAAA
1 -AAAAAATAAAA
15746771 TGAGAAGTAA
Statistics
Matches: 125, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
35 24 0.19
36 44 0.35
37 39 0.31
38 18 0.14
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (36 bp):
AAAAAATAAAAGAACAAGTAATGAGAGTATTTCCCT
Found at i:15753831 original size:24 final size:23
Alignment explanation
Indices: 15753790--15753840 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
15753780 TTGGTATGGA
15753790 TTTTTATTTAAAAAGATTTTATATT
1 TTTTTATTTAAAAAGATTTT-T-TT
* *
15753815 TTTTTA-TTGAAAGGATTTTTTT
1 TTTTTATTTAAAAAGATTTTTTT
15753837 TTTT
1 TTTT
15753841 GTTTTTATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 11 0.46
25 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (23 bp):
TTTTTATTTAAAAAGATTTTTTT
Found at i:15754403 original size:31 final size:31
Alignment explanation
Indices: 15754351--15754410 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
15754341 AATCCCATCG
* *
15754351 AAAAATTCATATTTCGCCGAAAAACTCATAA
1 AAAAATTCATATTCCACCGAAAAACTCATAA
* *
15754382 AAAAATTCATATTCCATCGAAAAATTCAT
1 AAAAATTCATATTCCACCGAAAAACTCAT
15754411 TGAAAACTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.28
Consensus pattern (31 bp):
AAAAATTCATATTCCACCGAAAAACTCATAA
Found at i:15754430 original size:20 final size:20
Alignment explanation
Indices: 15754405--15754443 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15754395 CCATCGAAAA
15754405 ATTCATT-GAAAACTTCAAAC
1 ATTCATTGGAAAA-TTCAAAC
15754425 ATTCATTGGAAAATTCAAA
1 ATTCATTGGAAAATTCAAA
15754444 TTTTCTAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (20 bp):
ATTCATTGGAAAATTCAAAC
Found at i:15754552 original size:20 final size:19
Alignment explanation
Indices: 15754524--15754576 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
15754514 AATTCTCTAA
*
15754524 AAACTTAAATCAAACCCCAG
1 AAACCTAAATCAAA-CCCAG
15754544 AAACCTAAAATCAAACCCAG
1 AAACCT-AAATCAAACCCAG
*
15754564 AATCCTTAAATCA
1 AAACC-TAAATCA
15754577 CACATAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 20 0.69
21 9 0.31
ACGTcount: A:0.51, C:0.28, G:0.04, T:0.17
Consensus pattern (19 bp):
AAACCTAAATCAAACCCAG
Found at i:15754556 original size:21 final size:20
Alignment explanation
Indices: 15754530--15754576 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
15754520 CTAAAAACTT
15754530 AAATCAAACCCCAGAAACCTA
1 AAATCAAA-CCCAGAAACCTA
* *
15754551 AAATCAAACCCAGAATCCTT
1 AAATCAAACCCAGAAACCTA
15754571 AAATCA
1 AAATCA
15754577 CACATAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.51, C:0.30, G:0.04, T:0.15
Consensus pattern (20 bp):
AAATCAAACCCAGAAACCTA
Found at i:15754824 original size:50 final size:50
Alignment explanation
Indices: 15754770--15754907 Score: 154
Period size: 52 Copynumber: 2.7 Consensus size: 50
15754760 TGATTTTCGT
* * *
15754770 TTTAATGAGAATTGATCTTGAAATCAAATCCTAAAATCTCTCC-CTATCA-A
1 TTTAATGTGAATTGAT-TTGGAATTAAATCCTAAAATCTCTCCAC-ATCATA
* * *
15754820 TTTAATGTGAATTGATTATGGAATTAAATTCTGACAATCTCTCCACATCATT
1 TTTAATGTGAATTGATT-TGGAATTAAATCCT-AAAATCTCTCCACATCATA
*
15754872 TTTAATGTCAATTGATTTTGGAATTAAATCCTAAAA
1 TTTAATGTGAATTGA-TTTGGAATTAAATCCTAAAA
15754908 ATATCTCAAT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
49 1 0.01
50 26 0.35
51 17 0.23
52 28 0.38
53 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (50 bp):
TTTAATGTGAATTGATTTGGAATTAAATCCTAAAATCTCTCCACATCATA
Found at i:15755212 original size:65 final size:65
Alignment explanation
Indices: 15755112--15755248 Score: 150
Period size: 65 Copynumber: 2.1 Consensus size: 65
15755102 ACAAAACAAG
* * **
15755112 AAATAAAATGATCTAGATTGAGCTGAGATCAAAATAGGTGATTAAGATTGAACTGT-GAGTTAAA
1 AAATAAAATGATATAGATTGAGCTGAGATCAAAATAAGTGACCAAGATTGAACTGTAG-GTTAAA
15755176 A
65 A
* * * * * * * *
15755177 AAATAAAATGATATGGATTGAGTTTATATCGAAATAAGTGACCGAGATTGAATTGTAGGTTAGAA
1 AAATAAAATGATATAGATTGAGCTGAGATCAAAATAAGTGACCAAGATTGAACTGTAGGTTAAAA
15755242 AAATAAA
1 AAATAAA
15755249 GTTCAAAATT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
65 58 0.98
66 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.28
Consensus pattern (65 bp):
AAATAAAATGATATAGATTGAGCTGAGATCAAAATAAGTGACCAAGATTGAACTGTAGGTTAAAA
Found at i:15755538 original size:86 final size:86
Alignment explanation
Indices: 15755414--15755770 Score: 327
Period size: 86 Copynumber: 4.2 Consensus size: 86
15755404 AGATTTACAG
** * * * * *
15755414 AGGTTCTAGATTCACAAAGATTTCAGGTTCGCAAGGACTTTCAAATTCACAAGAAAGATAGATTC
1 AGGTTCTAGATTTGCAAAGATTCCAGGTTTGTAGGGACTTTCAAATTCGCAAGAAAGATAGATTC
*
15755479 ACAAAATTCCAAGTTTAGCAA
66 ACAAAATTTCAAGTTTAGCAA
* * * * * * *
15755500 AGGTTTTAAATTTGTAAAAATTCCAAGTTTGTAGGGACTTTCAGATTCGCAAGAAAGATAGATTT
1 AGGTTCTAGATTTGCAAAGATTCCAGGTTTGTAGGGACTTTCAAATTCGCAAGAAAGATAGATTC
* * *
15755565 ACAAGATTTCATGTTTCA-AAA
66 ACAAAATTTCAAGTTT-AGCAA
* ** * * *
15755586 AGGTTCTAGATTAGCAAAGATTCCAGGTTCATAGAGG-CTTTCAGATTTGCAAGAAAGA-CG--T
1 AGGTTCTAGATTTGCAAAGATTCCAGGTTTGTAG-GGACTTTCAAATTCGCAAGAAAGATAGATT
* *
15755647 ---AAGATTTCAAGTTTCGCAA
65 CACAAAATTTCAAGTTTAGCAA
* * * * *
15755666 AGGTTTTAGA-TTGCAAAGATTTCAGGTTTGCAGGGACTTTCAAATTCGTAAGAAAGATGGATTC
1 AGGTTCTAGATTTGCAAAGATTCCAGGTTTGTAGGGACTTTCAAATTCGCAAGAAAGATAGATTC
** *
15755730 GTAAAATTTCAAGTTTTGCAA
66 ACAAAATTTCAAGTTTAGCAA
15755751 AGGTTCTAGATTTGCAAAGA
1 AGGTTCTAGATTTGCAAAGA
15755771 CAAATCTGCA
Statistics
Matches: 216, Mismatches: 44, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
78 2 0.01
79 36 0.17
80 25 0.12
82 1 0.00
83 1 0.00
85 27 0.12
86 121 0.56
87 3 0.01
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (86 bp):
AGGTTCTAGATTTGCAAAGATTCCAGGTTTGTAGGGACTTTCAAATTCGCAAGAAAGATAGATTC
ACAAAATTTCAAGTTTAGCAA
Found at i:15755853 original size:17 final size:17
Alignment explanation
Indices: 15755831--15755865 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15755821 CAAAGATTTC
15755831 AGATTCACAAGAAAGAA
1 AGATTCACAAGAAAGAA
* *
15755848 AGATTCGCAAGATAGAA
1 AGATTCACAAGAAAGAA
15755865 A
1 A
15755866 ATTTTGCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.20, T:0.14
Consensus pattern (17 bp):
AGATTCACAAGAAAGAA
Found at i:15760008 original size:47 final size:47
Alignment explanation
Indices: 15759940--15760034 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 47
15759930 ATATATATAC
*
15759940 AATAAATAAATAGTTAAGCAAGTATAAGCAATAAAAAGAAGTAAAAA
1 AATAAATAAATAATTAAGCAAGTATAAGCAATAAAAAGAAGTAAAAA
* *
15759987 AATAAATAAATAATTAAGCAAGTGTAAGCAATGAAAAGAAGTAAAAA
1 AATAAATAAATAATTAAGCAAGTATAAGCAATAAAAAGAAGTAAAAA
15760034 A
1 A
15760035 TCTCAAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.63, C:0.04, G:0.14, T:0.19
Consensus pattern (47 bp):
AATAAATAAATAATTAAGCAAGTATAAGCAATAAAAAGAAGTAAAAA
Found at i:15760856 original size:24 final size:25
Alignment explanation
Indices: 15760829--15760876 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 25
15760819 TATTTTGAAG
15760829 ACTTATTTGAAAA-GATTTTTTTTT
1 ACTTATTTGAAAATGATTTTTTTTT
15760853 ACTTATTTGAAAATGATTTTTTTT
1 ACTTATTTGAAAATGATTTTTTTT
15760877 CTAAAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.58
Consensus pattern (25 bp):
ACTTATTTGAAAATGATTTTTTTTT
Found at i:15760954 original size:8 final size:7
Alignment explanation
Indices: 15760938--15761050 Score: 60
Period size: 7 Copynumber: 15.6 Consensus size: 7
15760928 ATAAAACCAA
15760938 AAAATAAT
1 AAAA-AAT
15760946 AAAGAAAT
1 AAA-AAAT
15760954 AAAAAAT
1 AAAAAAT
*
15760961 AAAATGAGTT
1 AAAA--A-AT
15760971 AAAAAAT
1 AAAAAAT
15760978 AAAAAAT
1 AAAAAAT
15760985 CAAATCAAAT
1 -AAA--AAAT
15760995 --AAAAT
1 AAAAAAT
15761000 CAAAAAAT
1 -AAAAAAT
15761008 -AAAAAT
1 AAAAAAT
15761014 --AAAAT
1 AAAAAAT
15761019 CAAAAAAT
1 -AAAAAAT
15761027 -AAAAAT
1 AAAAAAT
15761033 AAAATAA-
1 AAAA-AAT
*
15761040 AAAAAAG
1 AAAAAAT
15761047 AAAA
1 AAAA
15761051 CCTACGATCA
Statistics
Matches: 87, Mismatches: 2, Indels: 33
0.71 0.02 0.27
Matches are distributed among these distances:
5 9 0.10
6 14 0.16
7 28 0.32
8 25 0.29
9 2 0.02
10 9 0.10
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:15760964 original size:24 final size:24
Alignment explanation
Indices: 15760924--15761045 Score: 82
Period size: 24 Copynumber: 5.2 Consensus size: 24
15760914 AAAATTTATT
*
15760924 AAAAATAAAACCA-AAAAAT-AATA
1 AAAAATAAAA-AATAAAAATAAATA
**
15760947 AAGAAATAAAAAAT-AAAATGAGTTA
1 AA-AAATAAAAAATAAAAAT-AAATA
*
15760972 AAAAATAAAAAAT-CAAATCAAAT-
1 AAAAATAAAAAATAAAAAT-AAATA
15760995 -AAAATCAAAAAATAAAAATAAAATCA
1 AAAAAT-AAAAAATAAAAAT-AAAT-A
15761021 AAAAAT-AAAAAT-AAAATAAA-A
1 AAAAATAAAAAATAAAAATAAATA
15761042 AAAA
1 AAAA
15761046 GAAAACCTAC
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
21 5 0.06
22 5 0.06
23 18 0.22
24 38 0.47
25 10 0.12
27 5 0.06
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (24 bp):
AAAAATAAAAAATAAAAATAAATA
Found at i:15761050 original size:19 final size:19
Alignment explanation
Indices: 15760991--15761043 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
15760981 AAATCAAATC
15760991 AAATAAAATCAAAAAATAA
1 AAATAAAATCAAAAAATAA
15761010 AAATAAAATCAAAAAATAA
1 AAATAAAATCAAAAAATAA
15761029 AAATAAAAT-AAAAAA
1 AAATAAAATCAAAAAA
15761044 AAGAAAACCT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.18
19 28 0.82
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATAAAATCAAAAAATAA
Found at i:15761459 original size:20 final size:19
Alignment explanation
Indices: 15761436--15761509 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
15761426 AAAATTCTCT
15761436 AGAAACTTAAATCAAACCC
1 AGAAACTTAAATCAAACCC
*
15761455 TAGAAACCTAAAGTCAAACCC
1 -AGAAACTTAAA-TCAAACCC
*
15761476 A-AAATCCTTAAATCACACCC
1 AGAAA--CTTAAATCAAACCC
*
15761496 AAAAACTTCAAATC
1 AGAAACTT-AAATC
15761510 GATCATAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
19 6 0.13
20 24 0.52
21 16 0.35
ACGTcount: A:0.50, C:0.28, G:0.04, T:0.18
Consensus pattern (19 bp):
AGAAACTTAAATCAAACCC
Found at i:15766849 original size:16 final size:16
Alignment explanation
Indices: 15766812--15766854 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
15766802 AGAGAACAAC
* *
15766812 TATTCCATGAAAGTGT
1 TATTCCATAAAAGAGT
15766828 TATTCCATAAAAGAGT
1 TATTCCATAAAAGAGT
* *
15766844 TGTTCCTTAAA
1 TATTCCATAAA
15766855 TAGTTGTTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (16 bp):
TATTCCATAAAAGAGT
Found at i:15767770 original size:17 final size:18
Alignment explanation
Indices: 15767735--15767775 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
15767725 CTGAACTATA
15767735 TATATATATTTTATTAATT
1 TATATATATTTTA-TAATT
15767754 TATATATATTTTA-AATT
1 TATATATATTTTATAATT
15767771 T-TATA
1 TATATA
15767776 AAATAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 5 0.23
19 13 0.59
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATATATTTTATAATT
Found at i:15767868 original size:13 final size:13
Alignment explanation
Indices: 15767845--15767886 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
15767835 ATAATTTTAA
15767845 AAAATTCAAAATTT
1 AAAATT-AAAATTT
15767859 AAAATTAAAATTT
1 AAAATTAAAATTT
*
15767872 -AAATTTAAATTT
1 AAAATTAAAATTT
15767884 AAA
1 AAA
15767887 TTTTAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 11 0.42
13 9 0.35
14 6 0.23
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:15767893 original size:7 final size:6
Alignment explanation
Indices: 15767853--15767889 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
15767843 AAAAAATTCA
*
15767853 AAATTT AAAATTA AAATTT AAATTT AAATTT AAATTT
1 AAATTT -AAATTT AAATTT AAATTT AAATTT AAATTT
15767890 TAAAATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AAATTT
Found at i:15780013 original size:181 final size:180
Alignment explanation
Indices: 15779676--15780094 Score: 459
Period size: 181 Copynumber: 2.3 Consensus size: 180
15779666 ACTAAGAACT
* * * * *
15779676 AAAAA-AATTGTTTTACGACAAAACAAAAGGTTATAATGATTTGAAATAAAAAATGTTCATATAC
1 AAAAACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAATAATTGTTCAAATAC
* * * * *
15779740 CCTTAACTATTTAAACTAGTTCAATAAACAAATTTATTTTTTAAATCTCTTAGTTATTAATTTTC
66 CCATAACAATTTAAACTAGTTCAATAAACAAATTAACTTTTTAAATCTCTTACTTATTAATTTTC
**** * ** * *
15779805 ATAATATTATTGCATTAGTATTATTTTATTTTGAATAAACTTGTGTGAAT-
131 ATAATATTAGAAAATTAATATTATTTTATTTCAAAGAAACTTGTATG-ATG
* * * * *
15779855 AGAAATAATTGTTTTATGAGATAACAAAAGGTTATAACAATTTGAAATATATAATTGTTCAAATA
1 AAAAACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATA-ATAATTGTTCAAATA
** * * *
15779920 GTCATAACAATTTAAACTGGTTCAGTAAACAGATTAACTTTTTAAATCTCTTACTTATTAATTTT
65 CCCATAACAATTTAAACTAGTTCAATAAACAAATTAACTTTTTAAATCTCTTACTTATTAA-TTT
* **
15779985 TGA-AATATTAGAAAATTAATATTATTTTATTTCAAAGAGGCTTGTATGATG
129 TCATAATATTAGAAAATTAATATTATTTTATTTCAAAGAAACTTGTATGATG
* *
15780036 AAAAACAATTGTTTTATGATAAAAGAAAA-GTTCATAACGATTTGAAATAGATAATTGTT
1 AAAAACAATTGTTTTATGACAAAACAAAAGGTT-ATAACGATTTGAAATA-ATAATTGTT
15780095 ATGAACAATT
Statistics
Matches: 197, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
179 4 0.02
180 43 0.22
181 145 0.74
182 5 0.03
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (180 bp):
AAAAACAATTGTTTTATGACAAAACAAAAGGTTATAACGATTTGAAATAATAATTGTTCAAATAC
CCATAACAATTTAAACTAGTTCAATAAACAAATTAACTTTTTAAATCTCTTACTTATTAATTTTC
ATAATATTAGAAAATTAATATTATTTTATTTCAAAGAAACTTGTATGATG
Found at i:15780607 original size:181 final size:181
Alignment explanation
Indices: 15780392--15782523 Score: 606
Period size: 180 Copynumber: 11.8 Consensus size: 181
15780382 GAAGTTGAAA
* * * * * *
15780392 ATTTAAAAAATAAATAAGTTTATCGAATTAGTTCAAATAATTATGGCCATCTGAATAATTATCTA
1 ATTTAAAAAATAAATATGTTTAGCAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCTA
* **
15780457 TTTCAAATTGTTATGAACTTTTGTTTTGTCATAAAACAATTACTTT-TCATCATTTAAGCCTATT
66 TTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTA-TTTATCATCATACAAGCCTATT
* * * * * * *
15780521 TGGAATAAAGTAATACGAATTTATTAGTATT-TCAAAAATTAATGACTAGGAG
130 TGAAATAAAATAATACGAATCTAATAATATTAT-AAAAATTAATAACTAAGAG
* * * * * *
15780573 ATTTAAAAAATAAATCTGTTTAGCAAACTAGTTCAAATAATTATGACTATTTAAACAATTATATA
1 ATTTAAAAAATAAATATGTTTAGCAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCTA
* * * ** *
15780638 TTTCAAATCGTTAT-AATTTTTTGTTTTATCATAAAATAATTATTTATGTTCATACAAGCTTATT
66 TTTCAAATCGTTATGAA-CTTTTGTTTTGTCATAAAACAATTATTTATCATCATACAAGCCTATT
* *
15780702 TGAAATAAAATAATACTAATCTAATAATATTATGAAAATTAATAACTAAGAG
130 TGAAATAAAATAATACGAATCTAATAATATTATAAAAATTAATAACTAAGAG
* * * * * * * * * *
15780754 ATTT-AAAAA-AACTTTGTTT-GCCAAACCAATTCAAGTAGTAAAGGCTATATGAATGACTATCT
1 ATTTAAAAAATAAATATGTTTAG-CAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCT
* * * ** * ** *
15780816 ATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAAATGTTT-TGGTTCATATAAGTTTGT
65 ATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTAT-CATCATACAAGCCTAT
* ** * * *
15780880 TTGGAATAAAATAATATTAAAT-TATTAATATTTTGAAAATT-AT---TAAGAG
129 TTGAAATAAAATAATA-CGAATCTAATAATATTATAAAAATTAATAACTAAGAG
* * * * * * * * *
15780929 ATTT--AAAGTATATATGTTTACCAAACTAGTT-TAATTAGTATAG-TAATTTGAATAATTATTT
1 ATTTAAAAAATAAATATGTTTAGCAAACTAGTTCAAATAATTATGGCT-ATATGAATAATTATCT
* * * * * * * *
15780990 ATTTCCAATCGTTAT-AACTAATAT-TTTTGTTATAAAACAATTGTCTCTAT--TAATGCAATCT
65 ATTTCAAATCGTTATGAACT--TTTGTTTTGTCATAAAACAATTAT-T-TATCATCATACAAGCC
*** * * * * *
15781051 TATTTGAAATAAAATAATGTTAATTTATTAATATTCTAAAAACTAATAAGTAATG-G
126 TATTTGAAATAAAATAATACGAATCTAATAATATTATAAAAATTAATAACTAA-GAG
* * ** * * * * ** * * *
15781107 ATTTAAAAAATGAATATG-TTGGCCTGACAAGTACAAACAGTTATAACTGTTTGAATAATTATAT
1 ATTTAAAAAATAAATATGTTTAG-CAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCT
* * * ** * * * * *
15781171 ATTTTAAATCATTATGATA-TTTTATTTAATTAGAAAACAATTGTTT-TTATTCATACAAGCTTA
65 ATTTCAAATCGTTATGA-ACTTTTGTTTTGTCATAAAACAATTATTTATCA-TCATACAAGCCTA
** ** * * * *
15781234 TTCAAAATAGCATAATACTAATTTATTAATATTA-AAAAATTAATAAGTAAGAG
128 TTTGAAATAAAATAATACGAATCTAATAATATTATAAAAATTAATAACTAAGAG
* * *** * * * ** * * *
15781287 ATTTAAAAACTAAATCTGTTTATTGAACAAGTACAAATAGTTATGATTATTTGAACAATTAACTA
1 ATTTAAAAAATAAATATGTTTAGCAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCTA
* * * * * * * * *
15781352 TTTCAAATTGCTAT-AGCCTTT-TTTTGTCATAAAATAATTTTTTCTATTCATAATA-AAACAAT
66 TTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAA-TTATT-TA-TCATCATACAAGC--C
*** * * * * * ***
15781414 TATATCTAGTAATATAGGCTTATTCAAAATAAAATAATACTAATTTATTAATGTTCCTAAAATTT
126 TAT-T-T-G-AA-ATAAAATAATAC-GAAT---CTAATAAT-A-TTA-TAAAAAT--TAA-----
15781479 ATGAAC-AAGAG
172 -T-AACTAAGAG
* * * * * * * * ** *
15781490 ATTTAAAAAATGAATCTATTTACCAAA-TAAGTTCGAATAGTTATGACTATTTGAGCAATTTTCT
1 ATTTAAAAAATAAATATGTTTAGCAAACT-AGTTCAAATAATTATGGCTATATGAATAATTATCT
* * * * * * * *
15781554 TTTTTAAATCGTTATG-AC-ATT-TTTTGTCATAAAATAATTGTTTCT-ATTCATATAAGCTTAT
65 ATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCA-TCATACAAGCCTAT
** ** * * * *
15781615 TCCCAAATAAAATAATATTAATTTATTAATATT-TCAAAAATTTAATAAGTAA-AA
129 T-TGAAATAAAATAATACGAATCTAATAATATTAT-AAAAA-TTAATAACTAAGAG
* * * * * *
15781669 ATTTAATAAATAAATTTAT-TTTCTG-AACAC-A-TTCAAATAGTTATGACTATTTGAACAATTA
1 ATTTAAAAAATAAA--TATGTTT-AGCAA-ACTAGTTCAAATAATTATGGCTATATGAATAATTA
* * * * * * ** *
15781730 TCTATTTCAAATAGTTATGACCTTTTGTTTTATCATAAACCAATTGTTTTTGTTCATACAAGCGT
62 TCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCATCATACAAGCCT
* * * * ** *
15781795 ATCT-AAATAAAATAATA-GTAGTTTATTAATATTCCAAAAA--ATTAA-T-A-AG
127 ATTTGAAATAAAATAATACG-AATCTAATAATATTATAAAAATTAATAACTAAGAG
* * * * * * * *
15781844 ATTTAAAAAGATAACTCTGTTTA-CCAAGTAAGTTTAAATAGTTATTATGCCTATTTGAACAATT
1 ATTTAAAAA-ATAAATATGTTTAGCAAACT-AGTTCAAATA---ATTATGGCTATATGAATAATT
* * * * * * *
15781908 ATTTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAAAATAATTGTTTCT-ATTCATACAAGT
61 ATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCA-TCATACAAGC
* * * * * **
15781972 TTATTTGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAGGT-AGTAG
125 CTATTTGAAATAAAATAATACGAATCTAATAATATTATAAAAATTAATAACTAAG-AG
* * * * * * * * * *
15782029 ATTT-AAAAGTAAATCTATTTACCAAA-TAAGTTCAAATAGTCATGTCCATTTGAACAATTATCT
1 ATTTAAAAAATAAATATGTTTAGCAAACT-AGTTCAAATAATTATGGCTATATGAATAATTATCT
* * * * * * ** * ***
15782092 ATTTCAAATCGTTATGACCTTTTATTTTTTAATAAAACAATTGTTTTTGTTCATGCAAAATTATT
65 ATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCATCATACAAGCCTATT
* * *
15782157 T-AGAATAAAATAATACTG-ATTTATTAATATTTTAAAAA-T--TAA-TAAGAG
130 TGA-AATAAAATAATAC-GAATCTAATAATATTATAAAAATTAATAACTAAGAG
* * * * * * * *
15782205 ATTTAAAAATTAAATTTGTTTA-CTAAAATAGTTTAAATAGTTATGACTATGT-AAGCAATTATC
1 ATTTAAAAAATAAATATGTTTAGC-AAACTAGTTCAAATAATTATGGCTATATGAA-TAATTATC
* ** * * * ** * * * ** *
15782268 TATCTCAAATTATTGTGATC-TTTATTTCATCATAAAATAATT-GTT-TCTTTTTACAAGCTTA-
64 TATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCATCATACAAGCCTAT
* * * * *
15782329 TTCAGATTAAAATAATACTAAT-TCAATAATATTTTAAAAATTAATAAGTAAGAG
129 TTGA-AATAAAATAATACGAATCT-AATAATATTATAAAAATTAATAACTAAGAG
* * * * * * * *
15782383 ATTTAAAAGATAAATGTGTTT-GCCAAACCAATTCAAATAGTTAAGACTATA-GAATAATTATCA
1 ATTTAAAAAATAAATATGTTTAG-CAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCT
* * * * * * * *
15782446 ACTTCAAATCATTTTG-ACATGTTATTTAGTCATAAAACAATTATTT-TAATTCATACAAGCTTA
65 ATTTCAAATCGTTATGAAC-TTTTGTTTTGTCATAAAACAATTATTTATCA-TCATACAAGCCTA
15782509 TTT-AGAATAAAATAA
128 TTTGA-AATAAAATAA
15782524 AATAAATTTA
Statistics
Matches: 1488, Mismatches: 341, Indels: 245
0.72 0.16 0.12
Matches are distributed among these distances:
173 12 0.01
174 133 0.09
175 47 0.03
176 42 0.03
177 89 0.06
178 90 0.06
179 274 0.18
180 310 0.21
181 246 0.17
182 45 0.03
183 25 0.02
184 7 0.00
185 6 0.00
186 6 0.00
187 10 0.01
188 6 0.00
189 1 0.00
190 5 0.00
191 5 0.00
192 1 0.00
193 6 0.00
194 6 0.00
195 5 0.00
197 5 0.00
198 5 0.00
199 5 0.00
200 4 0.00
201 4 0.00
202 18 0.01
203 68 0.05
204 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (181 bp):
ATTTAAAAAATAAATATGTTTAGCAAACTAGTTCAAATAATTATGGCTATATGAATAATTATCTA
TTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTATCATCATACAAGCCTATTT
GAAATAAAATAATACGAATCTAATAATATTATAAAAATTAATAACTAAGAG
Found at i:15780851 original size:179 final size:176
Alignment explanation
Indices: 15780451--15780935 Score: 469
Period size: 179 Copynumber: 2.7 Consensus size: 176
15780441 TCTGAATAAT
* ** *
15780451 TATCTATTTCAAATTGTTATGAACTTTTGTTTTGTCATAAAACAATTACTTTTCATCATTTAAGC
1 TATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTA-TTTTGTTCATATAAGC
* * * * * *
15780516 CTATTTGGAATAAAGTAATACGAATTTATTAGTATTTCAAAAATTAATGACTAGGAGATTTAAAA
65 TTATTTGGAATAAAATAATACTAA-TTATTAATATTT-GAAAATTAAT-ACTAAGAGATTT-AAA
* * * * * *
15780581 AATAAATCTGTTTAGCAAACTAGTTCAAATAATTATGACTATTTAAACAAT
126 AATAAATCTGTTTAGCAAACCAATTCAAATAATAAAGACTATATAAACAAC
* * * * *
15780632 TATATATTTCAAATCGTTAT-AATTTTTTGTTTTATCATAAAATAATTATTTATGTTCATACAAG
1 TATCTATTTCAAATCGTTATGAA-CTTTTGTTTTGTCATAAAACAATTATTT-TGTTCATATAAG
* *
15780696 CTTATTTGAAATAAAATAATACTAATCTAATAATATTATGAAAATTAATAACTAAGAGATTTAAA
64 CTTATTTGGAATAAAATAATACTAAT-TATTAATATT-TGAAAATTAAT-ACTAAGAGATTTAAA
* * * * * * **
15780761 AA-AACTTTGTTT-GCCAAACCAATTCAAGTAGTAAAGGCTATATGAATGAC
126 AATAAATCTGTTTAG-CAAACCAATTCAAATAATAAAGACTATATAAACAAC
* * * *
15780811 TATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAAATGTTTTGGTTCATATAAGT
1 TATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTT-GTTCATATAAGC
* *
15780876 TTGTTTGGAATAAAATAATATTAAATTATTAATATTTTGAAAATT-AT--TAAGAGATTTAAA
65 TTATTTGGAATAAAATAATACT-AATTATTAATA-TTTGAAAATTAATACTAAGAGATTTAAA
15780936 GTATATATGT
Statistics
Matches: 250, Mismatches: 45, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
175 13 0.05
178 4 0.02
179 118 0.47
180 17 0.07
181 97 0.39
182 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (176 bp):
TATCTATTTCAAATCGTTATGAACTTTTGTTTTGTCATAAAACAATTATTTTGTTCATATAAGCT
TATTTGGAATAAAATAATACTAATTATTAATATTTGAAAATTAATACTAAGAGATTTAAAAATAA
ATCTGTTTAGCAAACCAATTCAAATAATAAAGACTATATAAACAAC
Found at i:15781202 original size:18 final size:17
Alignment explanation
Indices: 15781160--15781194 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
15781150 TAACTGTTTG
15781160 AATAATTATATATTTTA
1 AATAATTATATATTTTA
*
15781177 AATCATTATGATATTTTA
1 AATAATTAT-ATATTTTA
15781195 TTTAATTAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
AATAATTATATATTTTA
Found at i:15781579 original size:202 final size:202
Alignment explanation
Indices: 15781229--15781605 Score: 479
Period size: 203 Copynumber: 1.9 Consensus size: 202
15781219 ATTCATACAA
** *
15781229 GCTTATTCAAAATAGCATAATACTAATTTATTAATATTAAAAAATTAATAAGTAAGAGATTTAAA
1 GCTTATTCAAAATAAAATAATACTAATTTATTAATATTAAAAAATTAATAAGCAAGAGATTTAAA
* * *** *
15781294 AACTAAATCTGTTTATTGAACAAGTACAAATAGTTATGATTATTTGAACAATTAACTATTTCAAA
66 AAATAAATCTATTTACCAAACAAGTACAAATAGTTATGACTATTTGAACAATTAACTATTTCAAA
* * * *
15781359 TTGCTATAGCCTTTTTTTGTCATAAAATAATTTTTTCTATTCATAATAAAACAATTATATCTAGT
131 TCGCTATAGACATTTTTTGTCATAAAATAATTGTTTCTATTCATAATAAAACAATTATATCTAGT
15781424 AATATAG
196 AATATAG
* ** *
15781431 GCTTATTCAAAATAAAATAATACTAATTTATTAATGTTCCTAAAATTTATGAA-CAAGAGATTTA
1 GCTTATTCAAAATAAAATAATACTAATTTATTAATATT-AAAAAATTAAT-AAGCAAGAGATTTA
* * * * * ** * *
15781495 AAAAATGAATCTATTTACCAAATAAGTTCGAATAGTTATGACTATTTGAGCAATTTTCTTTTTTA
64 AAAAATAAATCTATTTACCAAACAAGTACAAATAGTTATGACTATTTGAACAATTAACTATTTCA
*
15781560 AATCGTTAT-GACATTTTTTGTCATAAAATAATTGTTTCTATTCATA
129 AATCGCTATAGACATTTTTTGTCATAAAATAATTGTTTCTATTCATA
15781606 TAAGCTTATT
Statistics
Matches: 146, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
202 69 0.47
203 75 0.51
204 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (202 bp):
GCTTATTCAAAATAAAATAATACTAATTTATTAATATTAAAAAATTAATAAGCAAGAGATTTAAA
AAATAAATCTATTTACCAAACAAGTACAAATAGTTATGACTATTTGAACAATTAACTATTTCAAA
TCGCTATAGACATTTTTTGTCATAAAATAATTGTTTCTATTCATAATAAAACAATTATATCTAGT
AATATAG
Found at i:15781670 original size:15 final size:15
Alignment explanation
Indices: 15781650--15781682 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15781640 TTAATATTTC
*
15781650 AAAAATTTAATAAGT
1 AAAAATTTAATAAAT
15781665 AAAAATTTAATAAAT
1 AAAAATTTAATAAAT
15781680 AAA
1 AAA
15781683 TTTATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAAAATTTAATAAAT
Found at i:15781710 original size:179 final size:178
Alignment explanation
Indices: 15781404--15782662 Score: 986
Period size: 180 Copynumber: 7.0 Consensus size: 178
15781394 TCTATTCATA
* * * * * * * *
15781404 ATAAAACAATTATATCTAGTAATATAGGCTTATTCAAAATAAAATAATACTAATTTATTAATGTT
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATT-TAAATAAAATAATACTAATTTATTAATATT
* * * * * * *
15781469 CCTAAAATTTATGAA-CAAGAGATTTAAAAAATGAATCTATTTACCAAATAAGTTCGAATAGTTA
65 TCAAAAATTAAT-AAGTAA-AGATTT-AAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTA
* * * * *
15781533 TGACTATTTGAGCAATTTTCTTTTTTAAATCGTTATGA-C-ATT-TTTTGTC
127 TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* * * *
15781582 ATAAAATAATTGTTTCTATTCATATAAGCTTATTCCCAAATAAAATAATATTAATTTATTAATAT
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATT--TAAATAAAATAATACTAATTTATTAATAT
* * * **
15781647 TTCAAAAATTTAATAAGTAAAAATTTAATAAATAAATTTATTTTCTGAACACA-TTCAAATAGTT
64 TTCAAAAA-TTAATAAGTAAAGATTTAA-AAATAAATCTATTTACCAAACA-AGTTCAAATAGTT
* *
15781711 ATGACTATTTGAACAATTATCTATTTCAAATAGTTATGACCTTTTGTTTTATC
126 ATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* * * * * * * *
15781764 ATAAACCAATTGTTTTTGTTCATACAAGCGTATCTAAATAAAATAATAGTAGTTTATTAATATTC
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAATAAAATAATACTAATTTATTAATATTT
* * * ** *
15781829 CAAAAA--ATTAA-T-AAGATTTAAAAAGATAACTCTGTTTACCAAGTAAGTTTAAATAGTTATT
66 CAAAAATTAATAAGTAAAGATTT-AAAA-ATAAATCTATTTACCAAACAAGTTCAAATAG---TT
* * * *
15781890 ATGCCTATTTGAACAATTATTTATTTCAAATAGTTATGATCTTTTGTTTTGTC
126 ATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* *
15781943 ATAAAATAATTGTTTCTATTCATACAAGTTTATTTGAAATAAAATAATACTAATTTATTAATA-T
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATTT-AAATAAAATAATACTAATTTATTAATATT
* * * * *
15782007 TCTAAAAATTAATAGGTAGTAGATTTAAAAGTAAATCTATTTACCAAATAAGTTCAAATAGTCAT
65 TC-AAAAATTAATAAGTA-AAGATTTAAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTAT
* * * * *
15782072 GTCCATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTATTTTTTA
128 GACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* * * ** *
15782123 ATAAAACAATTGTTTTTGTTCATGCAAAATTATTTAGAATAAAATAATACTGATTTATTAATATT
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATTTA-AATAAAATAATACTAATTTATTAATATT
* * * * *
15782188 TTAAAAATTAATAAG---AGATTTAAAAATTAAATTTGTTTACTAAA-ATAGTTTAAATAGTTAT
65 TCAAAAATTAATAAGTAAAGATTTAAAAA-TAAATCTATTTACCAAACA-AGTTCAAATAGTTAT
* * ** * * * **
15782249 GACTATGT-AAGCAATTATCTATCTCAAATTATTGTGATC-TTTATTTCATC
128 GACTATTTGAA-CAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* * * * * *
15782299 ATAAAATAATTGTTTCT-TT-TTACAAGCTTATTCAGATTAAAATAATACTAATTCAATAATATT
1 ATAAAACAATTGTTTCTATTCATACAAGCTTATTTA-AATAAAATAATACTAATTTATTAATATT
* * * *
15782362 TTAAAAATTAATAAGTAAGAGATTTAAAAGATAAATGTGTTTGCCAAACCAA-TTCAAATAGTTA
65 TCAAAAATTAATAAGTAA-AGATTTAAAA-ATAAATCTATTTACCAAA-CAAGTTCAAATAGTTA
* * * * * * * * * * *
15782426 AGACTA-TAGAATAATTATCAACTTCAAATCATTTTGACATGTTATTTAGTC
127 TGACTATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
* * *
15782477 ATAAAACAATTATTT-TAATTCATACAAGCTTATTTAGAATAAAATAA-AATAAATTTATTAACA
1 ATAAAACAATTGTTTCT-ATTCATACAAGCTTATTTA-AATAAAATAATACT-AATTTATTAATA
* * * * ** *
15782540 TTTGAAAAATTAATGAG-CAAGAGTTTAAAAAAATATATCTATTTACTGAACAAGTTTAAATAGA
63 TTTCAAAAATTAATAAGTAAAGA-TTT--AAAAATAAATCTATTTACCAAACAAGTTCAAATAG-
* * * * *
15782604 TT-TGACTATTTGTATAATTATCTATTT-AAAGTCATTA-AACCTTTTGTTTTGTT
124 TTATGACTATTTGAACAATTATCTATTTCAAA-TCGTTATGACCTTTTGTTTTGTC
15782657 ATAAAA
1 ATAAAA
15782663 TTGTAGACAC
Statistics
Matches: 868, Mismatches: 167, Indels: 90
0.77 0.15 0.08
Matches are distributed among these distances:
174 50 0.06
175 11 0.01
176 59 0.07
177 80 0.09
178 96 0.11
179 195 0.22
180 275 0.32
181 29 0.03
182 36 0.04
183 27 0.03
184 4 0.00
185 6 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (178 bp):
ATAAAACAATTGTTTCTATTCATACAAGCTTATTTAAATAAAATAATACTAATTTATTAATATTT
CAAAAATTAATAAGTAAAGATTTAAAAATAAATCTATTTACCAAACAAGTTCAAATAGTTATGAC
TATTTGAACAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTC
Found at i:15782483 original size:354 final size:355
Alignment explanation
Indices: 15781488--15782628 Score: 1061
Period size: 354 Copynumber: 3.2 Consensus size: 355
15781478 TATGAACAAG
* * * ** * * *
15781488 AGATTTAAAAA-ATGAATCTATTTACCAAATAAGTTCGAATAG-TTATGACTATTTGAGCAATTT
1 AGATTTAAAAAGATAAATCTGTTTACAAAATAAGTTTAAATAGTTTATGACTATGTGAACAATTA
* * * * * * *
15781551 TCTTTTTTAAATCGTTATGA-CATTT-TTT-GTCATAAAATAATTGTTTCTATTCATATAAGCTT
66 TCTATCTCAAATAGTTATGATCTTTTATTTCATCATAAAATAATTGTTTCTATTCATACAAGCTT
* * *
15781613 ATTCCCA-AATAAAATAATATTAATTTATTAATATTTCAAAAATTTAATAAGTAA-AAATTTAAT
131 ATT--CAGAATAAAATAATACTAATTTATTAATATTTTAAAAA-TTAATAAGTAAGAGATTTAA-
* * **
15781676 AA-ATAAATTTATTTTCTGAACACATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAA
192 AAGATAAATCTATTTACCAAACA-ATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAA
* * * *
15781740 AT-AGTTATGACCTTTTGTTTTATCATAAACCAATTGTTTTTGTTCATACAAGCGTATCTA-AAT
256 ATCA-TTATGACCTTTT-ATTTATCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTAGAAT
* *
15781803 AAAATAATAGTAGTTTATTAATATTCCAAAAAATTAATA
319 AAAATAATAATA-TTTATTAATATT-TAAAAAATTAATA
* * * * *
15781842 AGATTTAAAAAGATAACTCTGTTTACCAAGTAAGTTTAAATAGTTATTATGCCTATTTGAACAAT
1 AGATTTAAAAAGATAAATCTGTTTACAAAATAAGTTTAAATAG-T-TTATGACTATGTGAACAAT
* * * ** *
15781907 TATTTATTTCAAATAGTTATGATCTTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGT
64 TATCTATCTCAAATAGTTATGATCTTTTATTTCATCATAAAATAATTGTTTCTATTCATACAAGC
* * *
15781972 TTATT-TGAAATAAAATAATACTAATTTATTAATATTCTAAAAATTAATAGGT-AGTAGATTTAA
129 TTATTCAG-AATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTAAG-AGATTTAA
* * * *
15782035 AAG-TAAATCTATTTACCAAATAAGTTCAAATAGTCATGTCCATTTGAACAATTATCTATTTCAA
192 AAGATAAATCTATTTACCAAACAA-TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAA
* * * * **
15782099 ATCGTTATGACCTTTTATTTTTTAATAAAACAATTGTTTTTGTTCATGCAAAATTATTTAGAATA
256 ATCATTATGACCTTTTA-TTTATCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTAGAATA
* *
15782164 AAATAATACTGATTTATTAATATTTTAAAAATTAATAA
320 AAATAATAAT-ATTTATTAATATTTAAAAAATTAAT-A
* *
15782202 GAGATTTAAAAA-TTAAATTTGTTTACTAAAAT-AGTTTAAATAG-TTATGACTATGT-AAGCAA
1 -AGATTTAAAAAGATAAATCTGTTTAC-AAAATAAGTTTAAATAGTTTATGACTATGTGAA-CAA
* *
15782263 TTATCTATCTCAAATTA-TTGTGATC-TTTATTTCATCATAAAATAATTGTTTCT-TT-TTACAA
63 TTATCTATCTCAAA-TAGTTATGATCTTTTATTTCATCATAAAATAATTGTTTCTATTCATACAA
* * *
15782324 GCTTATTCAGATTAAAATAATACTAATTCAATAATATTTTAAAAATTAATAAGTAAGAGATTTAA
127 GCTTATTCAGAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTAAGAGATTTAA
* * * * * * * *
15782389 AAGATAAATGTGTTTGCCAAACCAATTCAAATAGTTAAGACTA-TAGAATAATTATCAACTTCAA
192 AAGATAAATCTATTTACCAAA-CAATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAA
* * * * **
15782453 ATCATTTTGACATGTTATTTAGTCATAAAACAATTATTTTAATTCATACAAGCTTATTTAGAATA
256 ATCATTATGACCTTTTATTTA-TCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTAGAATA
* *
15782518 AAATAA-AATAAATTTATTAACATTTGAAAAATTAATGAGCA
320 AAATAATAAT--ATTTATTAATATTTAAAAAATTAAT----A
* * * ** * * * * *
15782559 AGAGTTTAAAAAAATATATCTATTTACTGAACAAGTTTAAATAGATT-TGACTATTTGTATAATT
1 AGA-TTTAAAAAGATAAATCTGTTTACAAAATAAGTTTAAATAGTTTATGACTATGTGAACAATT
15782623 ATCTAT
65 ATCTAT
15782629 TTAAAGTCAT
Statistics
Matches: 648, Mismatches: 103, Indels: 68
0.79 0.13 0.08
Matches are distributed among these distances:
353 5 0.01
354 167 0.26
355 58 0.09
356 32 0.05
357 43 0.07
358 77 0.12
359 126 0.19
360 90 0.14
361 50 0.08
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (355 bp):
AGATTTAAAAAGATAAATCTGTTTACAAAATAAGTTTAAATAGTTTATGACTATGTGAACAATTA
TCTATCTCAAATAGTTATGATCTTTTATTTCATCATAAAATAATTGTTTCTATTCATACAAGCTT
ATTCAGAATAAAATAATACTAATTTATTAATATTTTAAAAATTAATAAGTAAGAGATTTAAAAGA
TAAATCTATTTACCAAACAATTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCAT
TATGACCTTTTATTTATCATAAAACAATTGTTTTTGTTCATACAAGCTTATTTAGAATAAAATAA
TAATATTTATTAATATTTAAAAAATTAATA
Found at i:15782759 original size:6 final size:6
Alignment explanation
Indices: 15782750--15782829 Score: 58
Period size: 6 Copynumber: 13.0 Consensus size: 6
15782740 TTTCTCTTCA
* * *
15782750 TTTATT TTTATT TTT-TAA TTTATT TTTATT TTGTATT TTGTATT TTACAAT
1 TTTATT TTTATT TTTAT-T TTTATT TTTATT TT-TATT TT-TATT TT-TATT
*
15782801 TTTA-T TTTA-T TTTATTT TTTATT ATTATT
1 TTTATT TTTATT TTTA-TT TTTATT TTTATT
15782830 ATTTTATATA
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
5 11 0.18
6 28 0.45
7 23 0.37
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:15782772 original size:18 final size:18
Alignment explanation
Indices: 15782749--15782834 Score: 70
Period size: 18 Copynumber: 4.8 Consensus size: 18
15782739 TTTTCTCTTC
15782749 ATTTATTTTTATTTTTTA
1 ATTTATTTTTATTTTTTA
*
15782767 ATTTATTTTTATTTTGTA
1 ATTTATTTTTATTTTTTA
* * **
15782785 TTTTGTATTTTACAATTTTA
1 ATTTAT-TTTTA-TTTTTTA
*
15782805 TTTTA-TTTTATTTTTT-
1 ATTTATTTTTATTTTTTA
*
15782821 A-TTATTATTATTTT
1 ATTTATTTTTATTTT
15782835 ATATATGTAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
15 3 0.06
16 8 0.15
17 4 0.07
18 26 0.48
19 5 0.09
20 8 0.15
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTATTTTTATTTTTTA
Found at i:15782809 original size:5 final size:5
Alignment explanation
Indices: 15782799--15782836 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
15782789 GTATTTTACA
15782799 ATTTT ATTTT ATTTT ATTTT -TTATT ATTATT ATTTT AT
1 ATTTT ATTTT ATTTT ATTTT ATT-TT ATT-TT ATTTT AT
15782837 ATATGTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 21 0.68
6 8 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:15783002 original size:21 final size:21
Alignment explanation
Indices: 15782963--15783009 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
15782953 ATTTATGTAA
15782963 TTATCTGTTATTTAATTTTAAT
1 TTATCTGTTATTT-ATTTTAAT
*
15782985 TTATCTGTTAATTT-TTTTGAT
1 TTATCTGTT-ATTTATTTTAAT
15783006 TTAT
1 TTAT
15783010 TTGACTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 9 0.39
23 4 0.17
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (21 bp):
TTATCTGTTATTTATTTTAAT
Found at i:15783855 original size:30 final size:30
Alignment explanation
Indices: 15783819--15783877 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15783809 TTCTTTTATC
*
15783819 TTTATTTTATTTTTGTTTT-ACTTTTATTTA
1 TTTA-TTTATTTTTCTTTTCACTTTTATTTA
15783849 TTTATTTATTTTTCTTTTCACTTTTATTT
1 TTTATTTATTTTTCTTTTCACTTTTATTT
15783878 TGCTTTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (30 bp):
TTTATTTATTTTTCTTTTCACTTTTATTTA
Found at i:15783857 original size:40 final size:40
Alignment explanation
Indices: 15783798--15783901 Score: 101
Period size: 40 Copynumber: 2.7 Consensus size: 40
15783788 TTAGATTAGG
* * *
15783798 TTTA-TTTAATATTCT-TTTATCTTTATTTT-ATTTTTGT
1 TTTACTTTATTATTCTATTTATCTTTATTTTCACTTTTAT
* *
15783835 TTTACTTTTATTTATT-TATTTATTTTTCTTTTCACTTTTAT
1 TTTAC-TTTA-TTATTCTATTTATCTTTATTTTCACTTTTAT
*
15783876 TTTGCTTTATTATTCTATTT-TCTTTA
1 TTTACTTTATTATTCTATTTATCTTTA
15783902 AATAAAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
37 4 0.08
39 14 0.26
40 25 0.47
41 10 0.19
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (40 bp):
TTTACTTTATTATTCTATTTATCTTTATTTTCACTTTTAT
Done.