Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, 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: 2129691
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 10
Found at i:1396076 original size:64 final size:65
Alignment explanation
Indices: 1395921--1396081 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
1395911 GAATTAATTG
* * ** *
1395921 AACATCGAATGCATTCCATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
1395986 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTCTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTT-TCA
1396049 A
65 A
*
1396050 AACATCGAATGCATTTCATACATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1396082 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1396096 original size:64 final size:64
Alignment explanation
Indices: 1395921--1396101 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
1395911 GAATTAATTG
* * *
1395921 AACATCGAATGCATTCCATGCACCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
1395986 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTCTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTT-TCAA
* *** *
1396050 AACATCGAATGCATTTCATACATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
1396102 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 53 0.54
65 46 0.46
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:1401859 original size:25 final size:25
Alignment explanation
Indices: 1401825--1401873 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
1401815 CTAGCTTAAG
1401825 ATTGATGATCAGGAAATATGAAGCC
1 ATTGATGATCAGGAAATATGAAGCC
1401850 ATTGATGATCAGGAAATATGAAGC
1 ATTGATGATCAGGAAATATGAAGC
1401874 TGTCAACTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (25 bp):
ATTGATGATCAGGAAATATGAAGCC
Found at i:1403898 original size:23 final size:23
Alignment explanation
Indices: 1403872--1403919 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1403862 ATAAAGTACA
*
1403872 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
1403895 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1403918 AT
1 AT
1403920 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1404367 original size:23 final size:23
Alignment explanation
Indices: 1404341--1404403 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1404331 ATATAACCAC
1404341 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1404364 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1404387 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1404404 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1404800 original size:23 final size:23
Alignment explanation
Indices: 1404774--1404836 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1404764 ATATAACCAC
1404774 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1404797 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1404820 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1404837 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1404917 original size:433 final size:431
Alignment explanation
Indices: 1403986--1405048 Score: 1978
Period size: 433 Copynumber: 2.5 Consensus size: 431
1403976 TATTACATTA
1403986 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
1404051 TTATGTTTCAA-TTTTTTGAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1404115 ATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
*
1404180 A-TA-A-T--AATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
196 ACAACATTAAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
*
1404240 ATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACAC
261 ATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAACAC
1404305 TTTTATAAAAAGGATAGACCTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
326 TTTTATAAAAAGGATAGACCTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
1404370 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
391 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1404411 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1404476 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATA-TAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1404540 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
1404605 ACAACATTAAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
196 ACAACATTAAA-ATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
* *
1404670 AATCTTAAAACTCACTCAAAAGATAATCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAAC
260 AATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAAC
1404735 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
324 ACTTTTATAAAAAGGATAGAC-CTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
1404800 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
388 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
1404844 TATTATATTGAAAGTGTCCATACCTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1404909 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1404974 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
131 ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
1405039 ACAACATTAA
196 ACAACATTAA
1405049 CCAAAGATAA
Statistics
Matches: 620, Mismatches: 8, Indels: 11
0.97 0.01 0.02
Matches are distributed among these distances:
425 156 0.25
426 37 0.06
427 1 0.00
428 1 0.00
430 1 0.00
431 70 0.11
432 65 0.10
433 199 0.32
434 90 0.15
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (431 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTA
ACAACATTAAAATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAA
ATCTTAAAACTCACTCAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAACAC
TTTTATAAAAAGGATAGACCTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:1407138 original size:198 final size:198
Alignment explanation
Indices: 1406028--1407507 Score: 2706
Period size: 198 Copynumber: 7.5 Consensus size: 198
1406018 TTTAAATTAG
*
1406028 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1406093 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1406158 CGACACTTTTTATATATGAATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T--TAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAA
** *
1406220 TTAG
195 AAAA
1406224 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1406289 ATTGTACCGGTTAGATTGAAAAATTACATATTACATATTACATTATACTTTTGGGTTCGATGATG
66 ATTGTACCGGTTAGATTG---AA--A-A-ATTACATATTACATTATACTTTTGGGTTCGATGATT
1406354 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCT
124 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCT
*
1406419 GG-AAATAAA
189 GGAAAAAAAA
1406428 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1406493 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1406557 CGACAC-TTTT-TATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1406620 AAA
196 AAA
1406623 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
1406688 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATGTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
1406753 CGACACTTTTTTTATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGG-AAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1406817 AAA
196 AAA
1406820 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1406885 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1406950 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1407015 AAA
196 AAA
1407018 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1407083 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
1407148 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCAATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1407213 AAA
196 AAA
1407216 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1407281 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
1407346 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
1407411 AAA
196 AAA
*
1407414 TATCAACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1407479 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
1407508 CCTTTTGGCC
Statistics
Matches: 1252, Mismatches: 17, Indels: 28
0.97 0.01 0.02
Matches are distributed among these distances:
194 48 0.04
195 93 0.07
196 181 0.14
197 198 0.16
198 541 0.43
199 2 0.00
200 1 0.00
201 1 0.00
202 2 0.00
203 97 0.08
204 88 0.07
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
AAA
Found at i:1407663 original size:19 final size:19
Alignment explanation
Indices: 1407632--1407680 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
1407622 TTATATTCAC
1407632 ATACGAAAA-TATAAATCGT
1 ATAC-AAAATTATAAATCGT
*
1407651 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1407670 ATACAAAATTA
1 ATACAAAATTA
1407681 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1409504 original size:33 final size:33
Alignment explanation
Indices: 1409467--1409532 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1409457 CATCTTAATA
*
1409467 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1409500 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
1409533 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1409606 original size:21 final size:21
Alignment explanation
Indices: 1409566--1409630 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1409556 CCCCTTATGC
* *
1409566 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
1409587 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
1409608 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
1409629 CT
1 CT
1409631 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:1411912 original size:20 final size:19
Alignment explanation
Indices: 1411858--1411903 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
1411848 TCCGGTATCA
1411858 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
1411877 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
1411898 TTTACC
1 TTTACC
1411904 TGTTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:1412051 original size:20 final size:20
Alignment explanation
Indices: 1412025--1412070 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
1412015 CACTTTTAAA
1412025 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
1412044 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
1412065 TTTACC
1 TTTACC
1412071 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:1412535 original size:228 final size:226
Alignment explanation
Indices: 1412135--1412582 Score: 781
Period size: 228 Copynumber: 2.0 Consensus size: 226
1412125 TTATAACTGC
1412135 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
1412200 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
1412265 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
*
1412330 GTATGGACAC-TTTATAAAAATGATATATACT
195 GTATGGACACTTTTATAAAAAGGATATATACT
*
1412361 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAA
1 TTTT-AAAGTTATGTAATTTATGTTTCAA-TTTATTTAATAGTGTTTCATGTTTTCCACCTACAA
*
1412426 TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATT
64 TATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATT
* *
1412491 ATTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATA
129 ATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATA
1412556 AGTATGGACACTTTTATAAAAAGGATA
194 AGTATGGACACTTTTATAAAAAGGATA
1412583 GATAATTTAC
Statistics
Matches: 210, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
226 4 0.02
227 46 0.22
228 160 0.76
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATACT
Found at i:1414683 original size:20 final size:20
Alignment explanation
Indices: 1414647--1414685 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1414637 GTTAGTTTTA
*
1414647 AATTCATAATTCTAAAATTC
1 AATTCATAATTCGAAAATTC
1414667 AATTCTATAATT-GAAAATT
1 AATTC-ATAATTCGAAAATT
1414686 TAATGATAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
AATTCATAATTCGAAAATTC
Found at i:1418864 original size:19 final size:19
Alignment explanation
Indices: 1418835--1418879 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
1418825 TTTATGTTTA
1418835 TTCGTTTATGTT-TGTTTACG
1 TTCG-TTATGTTCT-TTTACG
*
1418855 TTCGTTATGTTCTTTTATG
1 TTCGTTATGTTCTTTTACG
1418874 TTCGTT
1 TTCGTT
1418880 TTATCATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.09, C:0.11, G:0.18, T:0.62
Consensus pattern (19 bp):
TTCGTTATGTTCTTTTACG
Found at i:1420995 original size:8 final size:8
Alignment explanation
Indices: 1420982--1421014 Score: 66
Period size: 8 Copynumber: 4.1 Consensus size: 8
1420972 ACCTAACAAA
1420982 CGAAAAAC
1 CGAAAAAC
1420990 CGAAAAAC
1 CGAAAAAC
1420998 CGAAAAAC
1 CGAAAAAC
1421006 CGAAAAAC
1 CGAAAAAC
1421014 C
1 C
1421015 AGATACTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.61, C:0.27, G:0.12, T:0.00
Consensus pattern (8 bp):
CGAAAAAC
Found at i:1427863 original size:20 final size:20
Alignment explanation
Indices: 1427838--1427893 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1427828 CCCCTTGAAG
1427838 TGCATCGATGCATTCTACAA
1 TGCATCGATGCATTCTACAA
1427858 TGCATCGATGCATTCTACAA
1 TGCATCGATGCATTCTACAA
1427878 TGCATCGATGCATTCT
1 TGCATCGATGCATTCT
1427894 TTAACATGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
TGCATCGATGCATTCTACAA
Found at i:1431664 original size:24 final size:20
Alignment explanation
Indices: 1431595--1431668 Score: 103
Period size: 20 Copynumber: 3.5 Consensus size: 20
1431585 CCTTGAAGTT
*
1431595 CATCGATGCATTCTATAGTG
1 CATCGATGCATTCTACAGTG
1431615 CATCGATGCATTCTACAGTG
1 CATCGATGCATTCTACAGTG
1431635 CATCGATGCATTCTTTAACATGTG
1 CATCGATGCATTC--T-ACA-GTG
1431659 CATCGATGCA
1 CATCGATGCA
1431669 CTACCTATGA
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 32 0.65
22 1 0.02
23 3 0.06
24 13 0.27
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (20 bp):
CATCGATGCATTCTACAGTG
Found at i:1445281 original size:3 final size:3
Alignment explanation
Indices: 1445273--1445308 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1445263 CTTCTCACTC
1445273 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1445309 AGAGCAACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:1446260 original size:2 final size:2
Alignment explanation
Indices: 1446253--1446284 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1446243 TCATTGAAAC
1446253 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1446285 ATTCTTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1447429 original size:15 final size:15
Alignment explanation
Indices: 1447409--1447475 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
1447399 CTGCAAAAAG
1447409 TAATAAAATTTAATA
1 TAATAAAATTTAATA
1447424 TAATAAAATTTAATA
1 TAATAAAATTTAATA
* *
1447439 AAATAATAAATT-AT-
1 TAATAA-AATTTAATA
*
1447453 TAA-ATAATTATAATA
1 TAATAAAATT-TAATA
1447468 TAATAAAA
1 TAATAAAA
1447476 ATATTTTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 3 0.07
13 2 0.05
14 4 0.10
15 25 0.61
16 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATAAAATTTAATA
Found at i:1459599 original size:6 final size:6
Alignment explanation
Indices: 1459585--1459633 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
1459575 TTAAGTAAAT
*
1459585 TAAAAA TAAAGA TAAAGA TAAAGA TAAAGA T--A-A TAAAGA TAAAGA
1 TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA TAAAGA
1459630 TAAA
1 TAAA
1459634 ATGCAATACA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
3 2 0.05
4 1 0.03
5 1 0.03
6 35 0.90
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.18
Consensus pattern (6 bp):
TAAAGA
Found at i:1460446 original size:29 final size:29
Alignment explanation
Indices: 1460411--1460467 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
1460401 CCCAACCCAT
* * *
1460411 AGGTCGCCATGCACTCCGGGCGACCAAGA
1 AGGTCGCCATGCACGCCCGACGACCAAGA
1460440 AGGTCGCCATGCACGCCCGACGACCAAG
1 AGGTCGCCATGCACGCCCGACGACCAAG
1460468 CTTTAACCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.25, C:0.37, G:0.30, T:0.09
Consensus pattern (29 bp):
AGGTCGCCATGCACGCCCGACGACCAAGA
Found at i:1460585 original size:29 final size:29
Alignment explanation
Indices: 1460551--1460635 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
1460541 CAAGGAGACA
* * *
1460551 AGGTCGCCGGGCGTGCATGGCGACCTCCT
1 AGGTCGCCGGGAGTGCATGGCGACCTACG
* * *
1460580 TGGTCGCCCGGAGTGCATGGCGACCTAGG
1 AGGTCGCCGGGAGTGCATGGCGACCTACG
*
1460609 AGGTCGCTGGGAGTGCATGGCGACCTA
1 AGGTCGCCGGGAGTGCATGGCGACCTA
1460636 TGGGTTGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.14, C:0.28, G:0.40, T:0.18
Consensus pattern (29 bp):
AGGTCGCCGGGAGTGCATGGCGACCTACG
Found at i:1466267 original size:22 final size:22
Alignment explanation
Indices: 1466242--1466284 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1466232 GGAGTGTAGA
*
1466242 TGAGCAGGCGACTTTGTCTTGT
1 TGAGCAGGCGAATTTGTCTTGT
*
1466264 TGAGCAGGTGAATTTGTCTTG
1 TGAGCAGGCGAATTTGTCTTG
1466285 ATGCTATTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (22 bp):
TGAGCAGGCGAATTTGTCTTGT
Found at i:1476341 original size:22 final size:22
Alignment explanation
Indices: 1476284--1476342 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 22
1476274 AATGATAATA
* *
1476284 TTTAAAAGATAAAAATTGAGTG
1 TTTAAAACAAAAAAATTGAGTG
*
1476306 ATTAATTAATCAAAAAAATTGAGTG
1 TTTAA--AA-CAAAAAAATTGAGTG
1476331 TTTAAAACAAAA
1 TTTAAAACAAAA
1476343 GTAATATCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 2 0.07
25 17 0.57
ACGTcount: A:0.54, C:0.03, G:0.12, T:0.31
Consensus pattern (22 bp):
TTTAAAACAAAAAAATTGAGTG
Found at i:1476425 original size:32 final size:31
Alignment explanation
Indices: 1476320--1476431 Score: 134
Period size: 31 Copynumber: 3.6 Consensus size: 31
1476310 ATTAATCAAA
* * *
1476320 AAAATTGAGTGTTTAAAACAAAAGTAATATC
1 AAAAGTGAGTGATTAAAACAAAAATAATATC
* *
1476351 AAAAGTGAGTGGTTAAAATAAAAATAATATC
1 AAAAGTGAGTGATTAAAACAAAAATAATATC
* *
1476382 AAAAGTGAGTGATTAAGACAAAGAATCATATC
1 AAAAGTGAGTGATTAAAACAAA-AATAATATC
* *
1476414 AAAATTAAGTGATTAAAA
1 AAAAGTGAGTGATTAAAA
1476432 GCACAGTGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 46 0.67
32 23 0.33
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (31 bp):
AAAAGTGAGTGATTAAAACAAAAATAATATC
Found at i:1485830 original size:13 final size:13
Alignment explanation
Indices: 1485792--1485833 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1485782 ACTCAAAATA
1485792 ATATTATTTT-AT
1 ATATTATTTTAAT
*
1485804 ATATGTAATATTAAT
1 ATAT-T-ATTTTAAT
1485819 ATATTATTTTAAT
1 ATATTATTTTAAT
1485832 AT
1 AT
1485834 CATTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 4 0.16
13 10 0.40
14 5 0.20
15 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
ATATTATTTTAAT
Found at i:1485902 original size:21 final size:20
Alignment explanation
Indices: 1485876--1485945 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
1485866 TTTATTGATA
1485876 ATTTTAATAATATAATATAAT
1 ATTTTAAT-ATATAATATAAT
* * *
1485897 ATTTTATTGTTATAATTATATT
1 ATTTTAAT-ATATAA-TATAAT
* *
1485919 ATTATAATATATAATATTAT
1 ATTTTAATATATAATATAAT
1485939 ACTTTTA
1 A-TTTTA
1485946 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
20 5 0.14
21 21 0.57
22 11 0.30
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
ATTTTAATATATAATATAAT
Found at i:1485938 original size:29 final size:29
Alignment explanation
Indices: 1485906--1485963 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1485896 TATTTTATTG
*
1485906 TTATAATTATATTATTATAATATATAATA
1 TTATAATTATATTATTATAATAAATAATA
* * *
1485935 TTATACTTTTATTTTTATAATAAATAATA
1 TTATAATTATATTATTATAATAAATAATA
1485964 AATTATTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (29 bp):
TTATAATTATATTATTATAATAAATAATA
Found at i:1486080 original size:8 final size:8
Alignment explanation
Indices: 1486064--1486113 Score: 57
Period size: 8 Copynumber: 6.2 Consensus size: 8
1486054 ACATTATTTT
1486064 TATTTTAA
1 TATTTTAA
*
1486072 TATTATAA
1 TATTTTAA
1486080 T-TTTTAA
1 TATTTTAA
1486087 TATTTTAA
1 TATTTTAA
* *
1486095 TAATATTAT
1 T-ATTTTAA
1486104 TATTTTAA
1 TATTTTAA
1486112 TA
1 TA
1486114 AATAATTAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
7 6 0.18
8 22 0.65
9 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTTTAA
Found at i:1486086 original size:15 final size:15
Alignment explanation
Indices: 1486066--1486095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1486056 ATTATTTTTA
1486066 TTTTAATATTATAAT
1 TTTTAATATTATAAT
*
1486081 TTTTAATATTTTAAT
1 TTTTAATATTATAAT
1486096 AATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:1486109 original size:17 final size:17
Alignment explanation
Indices: 1486087--1486143 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 17
1486077 TAATTTTTAA
1486087 TATTTTAATAATATTAT
1 TATTTTAATAATATTAT
*
1486104 TATTTTAATAAATAATTAA
1 TATTTTAAT-AAT-ATTAT
*
1486123 TATAATTAATAATA-TAT
1 TAT-TTTAATAATATTAT
1486140 TATT
1 TATT
1486144 CTCATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 14 0.42
18 4 0.12
19 10 0.30
20 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTAATAATATTAT
Found at i:1486123 original size:25 final size:27
Alignment explanation
Indices: 1486068--1486130 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 27
1486058 TATTTTTATT
* **
1486068 TTAATATTATAATTTTTAATATTTTAA
1 TTAATATTATTATTTTTAATATAATAA
1486095 -TAATATTATTA-TTTTAATA-AATAA
1 TTAATATTATTATTTTTAATATAATAA
*
1486119 TTAATATAATTA
1 TTAATATTATTA
1486131 ATAATATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.10
25 18 0.58
26 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATATTATTATTTTTAATATAATAA
Found at i:1487986 original size:12 final size:13
Alignment explanation
Indices: 1487969--1487997 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1487959 ATCTCGTTTT
1487969 ACCCAAA-CCCAA
1 ACCCAAACCCCAA
1487981 ACCCAAACCCCAA
1 ACCCAAACCCCAA
1487994 ACCC
1 ACCC
1487998 TAAAACCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.55, G:0.00, T:0.00
Consensus pattern (13 bp):
ACCCAAACCCCAA
Found at i:1488139 original size:54 final size:56
Alignment explanation
Indices: 1488080--1488192 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 56
1488070 TTTAAACTCT
*
1488080 AACCCTAAAAAAG-AAAAAAAATA-TTTACTGTGAGCTAAAGAAATATTTATTTAG
1 AACCCTAAAAAAGAAAAAAAAATATTTTACTATGAGCTAAAGAAATATTTATTTAG
*
1488134 AACCCTAAAAAAGAAAAAAAAAATATTGTTTTACTATGAGTTAAAGAAATATTTATTTA
1 AACCCTAAAAAAG-AAAAAAAAATA---TTTTACTATGAGCTAAAGAAATATTTATTTA
1488193 TGGGTTATAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
54 13 0.25
56 10 0.20
60 28 0.55
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.30
Consensus pattern (56 bp):
AACCCTAAAAAAGAAAAAAAAATATTTTACTATGAGCTAAAGAAATATTTATTTAG
Found at i:1488791 original size:87 final size:88
Alignment explanation
Indices: 1488467--1488897 Score: 641
Period size: 88 Copynumber: 5.0 Consensus size: 88
1488457 ATCTAACCCT
*
1488467 GAGAGAGAGAGGGGTTAAGATCCACTTACACAATGTAAAACTCTTTAG-TTTACAC--ATTTACG
1 GAGAGAGAGAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACG
*
1488529 GTTGTTGGATGAGTGAAAAT-AA
66 GTCGTTGGATGAGTGAAAATAAA
*
1488551 -AGAGAGAGAGGGG-TAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAGATTTACG
1 GAGAGAGAGAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACG
1488614 GTCGTTGGATGAGTGAAAATAAA
66 GTCGTTGGATGAGTGAAAATAAA
* *
1488637 GAGAGAGAG-GGTGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTAC
1 GAGAGAGAGAGG-GGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTAC
*
1488701 GGTCGTTGGATGAGTGAAAATATA
65 GGTCGTTGGATGAGTGAAAATAAA
* * *
1488725 GAGAGAG-GGGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAACTTTT-CACAGATTTGC
1 GAGAGAGAGAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTT-AGTTTTACACAGATTTAC
1488788 GGTCGTTGGATGAGTGAAAATAGAA
65 GGTCGTTGGATGAGTGAAAATA-AA
* *
1488813 -AGAGAGACAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACA
1 GAGAGAGAGAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACG
*
1488877 G-CTATTGGATGAGTGAAAATA
66 GTC-GTTGGATGAGTGAAAATA
1488898 GATGGCTGAG
Statistics
Matches: 318, Mismatches: 16, Indels: 22
0.89 0.04 0.06
Matches are distributed among these distances:
82 32 0.10
83 19 0.06
85 26 0.08
86 4 0.01
87 87 0.27
88 150 0.47
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (88 bp):
GAGAGAGAGAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACG
GTCGTTGGATGAGTGAAAATAAA
Found at i:1488793 original size:175 final size:173
Alignment explanation
Indices: 1488467--1488897 Score: 633
Period size: 175 Copynumber: 2.5 Consensus size: 173
1488457 ATCTAACCCT
* *
1488467 GAGAGAGAGAGGGGTTAAGATCCACTTACACAATGTAAAACTCTTTAG--TT-TACACATTTACG
1 GAGAGAGAG-GGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTACG
*
1488529 GTTGTTGGATGAGTGAAAATAAAGAGAGAGAGGGGTAGGATCCACTTACACAATGTAAAACTCTT
65 GTCGTTGGATGAGTGAAAATAAAGAGAGAGAGGGGTAGGATCCACTTACACAATGTAAAACTCTT
* *
1488594 TAGTTTTATACAGATTTACGGTCGTTGGATGAGTGAAAATA-AA
130 TACTTTTACACAGATTTACGGTCGTTGGATGAGTGAAAATAGAA
1488637 GAGAGAGAGGGTGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTACG
1 GAGAGAGAGGG-GGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTACG
* *
1488702 GTCGTTGGATGAGTGAAAATATAGAGAGAGGGGGGGTTAGGATCCACTTACACAATGTAAAACTC
65 GTCGTTGGATGAGTGAAAATAAAGAGAGA-GAGGGG-TAGGATCCACTTACACAATGTAAAACTC
*
1488767 TTTAACTTTT-CACAGATTTGCGGTCGTTGGATGAGTGAAAATAGAA
128 TTT-ACTTTTACACAGATTTACGGTCGTTGGATGAGTGAAAATAGAA
* * * *
1488813 -AGAGAGACAGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTACACAGATTTACA
1 GAGAGAGA-GGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTACG
*
1488877 G-CTATTGGATGAGTGAAAATA
65 GTC-GTTGGATGAGTGAAAATA
1488898 GATGGCTGAG
Statistics
Matches: 238, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
169 2 0.01
170 44 0.18
172 2 0.01
173 38 0.16
174 6 0.03
175 137 0.58
176 9 0.04
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (173 bp):
GAGAGAGAGGGGGTTAGGATCCACTTACACAATGTAAAACTCTTTAGTTTTATACAAATTTACGG
TCGTTGGATGAGTGAAAATAAAGAGAGAGAGGGGTAGGATCCACTTACACAATGTAAAACTCTTT
ACTTTTACACAGATTTACGGTCGTTGGATGAGTGAAAATAGAA
Found at i:1489264 original size:2 final size:2
Alignment explanation
Indices: 1489257--1489287 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1489247 AAGTGAATCT
1489257 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
1489288 TGATAAATCA
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:1502793 original size:30 final size:28
Alignment explanation
Indices: 1502745--1502823 Score: 72
Period size: 29 Copynumber: 2.8 Consensus size: 28
1502735 CCATTATTTT
*
1502745 AATTATTAGTATT-TTATTAACATAATACCA
1 AATTATTAGTATTAATATTAA-AT-ATA-CA
*
1502775 AATTATTA-TATTAATATTAAATATATA
1 AATTATTAGTATTAATATTAAATATACA
* *
1502802 AATTAATATTACTTAATATTAA
1 AATTATTAGTA-TTAATATTAA
1502824 TAATTTGTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.19
28 5 0.12
29 16 0.37
30 14 0.33
ACGTcount: A:0.48, C:0.05, G:0.01, T:0.46
Consensus pattern (28 bp):
AATTATTAGTATTAATATTAAATATACA
Found at i:1503171 original size:42 final size:42
Alignment explanation
Indices: 1503109--1503190 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
1503099 TTACATTGAA
*
1503109 AAAAATAATTACAACGATCAAACACATAAAAATAATTTTCGT
1 AAAAATAATTACAACGATCAAACACAGAAAAATAATTTTCGT
* ** * * *
1503151 AAAACTAATTACAATTATCAACCGCCGAAAAATAATTTTC
1 AAAAATAATTACAACGATCAAACACAGAAAAATAATTTTC
1503191 AACTATCAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.51, C:0.17, G:0.05, T:0.27
Consensus pattern (42 bp):
AAAAATAATTACAACGATCAAACACAGAAAAATAATTTTCGT
Found at i:1505246 original size:20 final size:20
Alignment explanation
Indices: 1505221--1505274 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
1505211 TACTAGTTTG
1505221 TTTTTTTTCTTTCTCTGTA-
1 TTTTTTTTCTTTCTCTGTAC
* *
1505240 TTTTTTTTGTTT-TCTGTTTC
1 TTTTTTTTCTTTCTCTG-TAC
1505260 TGTTTTTTTCTTTCT
1 T-TTTTTTTCTTTCT
1505275 GTCTCTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 1 0.04
21 10 0.36
22 1 0.04
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTTTCTTTCTCTGTAC
Found at i:1505252 original size:24 final size:22
Alignment explanation
Indices: 1505221--1505298 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 22
1505211 TACTAGTTTG
1505221 TTTTTTTTCT-TTCTCTGTATTTT
1 TTTTTTTTCTGTT-TCTGT-TTTT
1505244 TTTTGTTTTCTGTTTCTG--TTT
1 TTTT-TTTTCTGTTTCTGTTTTT
*
1505265 TTTTCTTTCTGTCTCTCTGTCCTTTT
1 TTTTTTTTCTGT-T-TCTGT--TTTT
1505291 TTTTTTTT
1 TTTTTTTT
1505299 TTTTCAGGTG
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
20 7 0.16
21 8 0.18
22 4 0.09
23 4 0.09
24 10 0.22
25 2 0.04
26 10 0.22
ACGTcount: A:0.01, C:0.15, G:0.08, T:0.76
Consensus pattern (22 bp):
TTTTTTTTCTGTTTCTGTTTTT
Found at i:1505275 original size:20 final size:19
Alignment explanation
Indices: 1505221--1505276 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1505211 TACTAGTTTG
*
1505221 TTTTTTTTCTTTCTCTGTA
1 TTTTTTTTCTTTCTGTGTA
* * *
1505240 TTTTTTTTGTTTTCTGTTTC
1 TTTTTTTT-CTTTCTGTGTA
1505260 TGTTTTTTTCTTTCTGT
1 T-TTTTTTTCTTTCTGT
1505277 CTCTCTGTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.27
20 15 0.50
21 7 0.23
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTGTGTA
Found at i:1505736 original size:26 final size:26
Alignment explanation
Indices: 1505674--1505736 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
1505664 TAGTTAGTTT
* *
1505674 TGGACCGGTTCTGGTTGGTTTGTAAC
1 TGGACCGGTTTTAGTTGGTTTGTAAC
1505700 TGGACCGGTTTTAGTTGGTTTGTAAC
1 TGGACCGGTTTTAGTTGGTTTGTAAC
*
1505726 TGGGCCGGTTT
1 TGGACCGGTTT
1505737 AATTGTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.11, C:0.14, G:0.35, T:0.40
Consensus pattern (26 bp):
TGGACCGGTTTTAGTTGGTTTGTAAC
Found at i:1505785 original size:3 final size:3
Alignment explanation
Indices: 1505777--1505870 Score: 143
Period size: 3 Copynumber: 31.3 Consensus size: 3
1505767 TTAATATATT
* * *
1505777 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1505825 TAA TAA TAA TAT TAA TAA TGA 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
1505871 GGATAAAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1506716 original size:113 final size:113
Alignment explanation
Indices: 1506158--1506685 Score: 968
Period size: 113 Copynumber: 4.7 Consensus size: 113
1506148 AGGTAATATC
* * ** *
1506158 AAAC-AAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTT
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
* *
1506222 TCATTCATGAACTTTCTCTGGCAATGTTGATCCATCAAATGATGAATTT
66 TCATT-ATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
1506271 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1506336 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
1506384 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1506449 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
1506497 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1506562 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
66 TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
*
1506610 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC
1 AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
1506675 TCATTATGAAC
66 TCATTATGAAC
1506686 TCTACCTTGC
Statistics
Matches: 406, Mismatches: 8, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
113 346 0.85
114 60 0.15
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.38
Consensus pattern (113 bp):
AAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACCTCTTCTTCCTTCTTCAGATGAGTTCTTC
TCATTATGAACCTTCTCTGGTAATGTTGATCCATCAAATGATGAATTT
Found at i:1507475 original size:84 final size:84
Alignment explanation
Indices: 1507295--1507774 Score: 899
Period size: 84 Copynumber: 5.7 Consensus size: 84
1507285 GGTTCTGTAA
* *
1507295 GTTCTGCCAAATCAGATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATT-GGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
*
1507359 TTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
*
1507378 GTTCTGCCAAACCAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1507443 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
**
1507462 GTTCTGTAAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1507527 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
1507546 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1507611 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
1507630 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
1507695 CTTCTAAATTCAATGATTG
66 CTTCTAAATTCAATGATTG
1507714 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACAT
1 GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACAT
1507775 ATAAAAGGTT
Statistics
Matches: 387, Mismatches: 9, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
83 50 0.13
84 337 0.87
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (84 bp):
GTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCAT
CTTCTAAATTCAATGATTG
Found at i:1508708 original size:1 final size:1
Alignment explanation
Indices: 1508704--1508820 Score: 117
Period size: 1 Copynumber: 117.0 Consensus size: 1
1508694 CTTGACCCCC
* * * * * * *
1508704 TTTTTTTTTTTTCTTTTTTTTTTTTTATTTTCTATTTTTTTTCTTTTCTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * *
1508769 TCTTTTCTTTTTTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1508821 CTTTAAGCAT
Statistics
Matches: 90, Mismatches: 26, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 90 1.00
ACGTcount: A:0.02, C:0.09, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:1508722 original size:10 final size:10
Alignment explanation
Indices: 1508704--1508824 Score: 135
Period size: 10 Copynumber: 12.2 Consensus size: 10
1508694 CTTGACCCCC
1508704 TTTTTTTT-T
1 TTTTTTTTCT
*
1508713 TTTCTTTT-T
1 TTTTTTTTCT
*
1508722 TTTTTTTTAT
1 TTTTTTTTCT
1508732 TTTCTATTTT-T
1 TTT-T-TTTTCT
*
1508743 TTTCTTTTCT
1 TTTTTTTTCT
1508753 TTTTTTTTC-
1 TTTTTTTTCT
1508762 TTTTTTTTCTT
1 TTTTTTTTC-T
1508773 TTCTTTTTTCT
1 TT-TTTTTTCT
*
1508784 TTTCTTTTCT
1 TTTTTTTTCT
1508794 TTTTTTTT-T
1 TTTTTTTTCT
1508803 TTTTTTTTCT
1 TTTTTTTTCT
1508813 TTTTTTTTCT
1 TTTTTTTTCT
1508823 TT
1 TT
1508825 AAGCATAATA
Statistics
Matches: 98, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
9 37 0.38
10 40 0.41
11 10 0.10
12 11 0.11
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:1508756 original size:41 final size:40
Alignment explanation
Indices: 1508706--1508824 Score: 158
Period size: 36 Copynumber: 3.1 Consensus size: 40
1508696 TGACCCCCTT
*
1508706 TTTTTTTTTTCTTTTTTTTTTTTTATTTTCTATTTTTTTTC
1 TTTTCTTTTTCTTTTTTTTTTTTTATTTTCT-TTTTTTTTC
* *
1508747 TTTTCTTTTT-TTTTCTTTTTTTTCTTTTC---TTTTTTC
1 TTTTCTTTTTCTTTTTTTTTTTTTATTTTCTTTTTTTTTC
*
1508783 TTTTC-TTTTCTTTTTTTTTTTTTTTTTTCTTTTTTTTTC
1 TTTTCTTTTTCTTTTTTTTTTTTTATTTTCTTTTTTTTTC
1508822 TTT
1 TTT
1508825 AAGCATAATA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
35 4 0.06
36 29 0.42
39 10 0.14
40 17 0.25
41 9 0.13
ACGTcount: A:0.02, C:0.10, G:0.00, T:0.88
Consensus pattern (40 bp):
TTTTCTTTTTCTTTTTTTTTTTTTATTTTCTTTTTTTTTC
Found at i:1518399 original size:18 final size:18
Alignment explanation
Indices: 1518378--1518412 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1518368 TGCAAATAAA
1518378 ATGAAACAT-ATAAATATT
1 ATGAAA-ATAATAAATATT
1518396 ATGAAAATAATAAATAT
1 ATGAAAATAATAAATAT
1518413 ATATAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 2 0.12
18 14 0.88
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
ATGAAAATAATAAATATT
Found at i:1520062 original size:20 final size:20
Alignment explanation
Indices: 1520037--1520090 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
1520027 TACTAGTTTG
1520037 TTTTTTTTCTTTCTCTGTA-
1 TTTTTTTTCTTTCTCTGTAC
* *
1520056 TTTTTTTTGTTT-TCTGTTTC
1 TTTTTTTTCTTTCTCTG-TAC
1520076 TGTTTTTTTCTTTCT
1 T-TTTTTTTCTTTCT
1520091 GTCTCTCTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.14
19 12 0.43
20 1 0.04
21 10 0.36
22 1 0.04
ACGTcount: A:0.02, C:0.13, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTTTTTCTTTCTCTGTAC
Found at i:1520068 original size:24 final size:22
Alignment explanation
Indices: 1520037--1520115 Score: 65
Period size: 26 Copynumber: 3.4 Consensus size: 22
1520027 TACTAGTTTG
1520037 TTTTTTTTCT-TTCTCTGTATTTT
1 TTTTTTTTCTGTT-TCTGT-TTTT
1520060 TTTTGTTTTCTGTTTCTG--TTT
1 TTTT-TTTTCTGTTTCTGTTTTT
*
1520081 TTTTCTTTCTGTCTCTCTGTCCTTTT
1 TTTTTTTTCTGT-T-TCTGT--TTTT
1520107 TTTTTTTTC
1 TTTTTTTTC
1520116 AGGTGGTGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 13
0.75 0.03 0.21
Matches are distributed among these distances:
20 7 0.15
21 8 0.17
22 4 0.09
23 4 0.09
24 10 0.22
25 2 0.04
26 11 0.24
ACGTcount: A:0.01, C:0.16, G:0.08, T:0.75
Consensus pattern (22 bp):
TTTTTTTTCTGTTTCTGTTTTT
Found at i:1520091 original size:20 final size:19
Alignment explanation
Indices: 1520037--1520092 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
1520027 TACTAGTTTG
*
1520037 TTTTTTTTCTTTCTCTGTA
1 TTTTTTTTCTTTCTGTGTA
* * *
1520056 TTTTTTTTGTTTTCTGTTTC
1 TTTTTTTT-CTTTCTGTGTA
1520076 TGTTTTTTTCTTTCTGT
1 T-TTTTTTTCTTTCTGT
1520093 CTCTCTGTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 8 0.27
20 15 0.50
21 7 0.23
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (19 bp):
TTTTTTTTCTTTCTGTGTA
Found at i:1520547 original size:26 final size:26
Alignment explanation
Indices: 1520485--1520547 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
1520475 TAGTTAGTTT
* *
1520485 TGGACCGGTTCTGGTTGGTTTGTAAC
1 TGGACCGGTTTTAGTTGGTTTGTAAC
1520511 TGGACCGGTTTTAGTTGGTTTGTAAC
1 TGGACCGGTTTTAGTTGGTTTGTAAC
*
1520537 TGGGCCGGTTT
1 TGGACCGGTTT
1520548 AATTGTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.11, C:0.14, G:0.35, T:0.40
Consensus pattern (26 bp):
TGGACCGGTTTTAGTTGGTTTGTAAC
Found at i:1520596 original size:3 final size:3
Alignment explanation
Indices: 1520588--1520682 Score: 145
Period size: 3 Copynumber: 31.7 Consensus size: 3
1520578 TTAATATATT
* * *
1520588 TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1520636 TAA TAA TGA TAA TAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1520683 TGGATAAAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1521008 original size:12 final size:12
Alignment explanation
Indices: 1520993--1521051 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
1520983 CTCATAAATG
*
1520993 AACTTACAAACA
1 AACTTATAAACA
*
1521005 AACTTATAAACG
1 AACTTATAAACA
* * **
1521017 AGCTCATAAATG
1 AACTTATAAACA
*
1521029 AACTTACAAACA
1 AACTTATAAACA
1521041 AACTTATAAAC
1 AACTTATAAAC
1521052 GACATTGTTC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.53, C:0.20, G:0.05, T:0.22
Consensus pattern (12 bp):
AACTTATAAACA
Found at i:1521067 original size:36 final size:36
Alignment explanation
Indices: 1520974--1521053 Score: 160
Period size: 36 Copynumber: 2.2 Consensus size: 36
1520964 ATGAATATAA
1520974 ATAAACGAGCTCATAAATGAACTTACAAACAAACTT
1 ATAAACGAGCTCATAAATGAACTTACAAACAAACTT
1521010 ATAAACGAGCTCATAAATGAACTTACAAACAAACTT
1 ATAAACGAGCTCATAAATGAACTTACAAACAAACTT
1521046 ATAAACGA
1 ATAAACGA
1521054 CATTGTTCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (36 bp):
ATAAACGAGCTCATAAATGAACTTACAAACAAACTT
Found at i:1522431 original size:35 final size:35
Alignment explanation
Indices: 1522372--1522483 Score: 147
Period size: 35 Copynumber: 3.2 Consensus size: 35
1522362 AAAACATTCC
* *
1522372 TCAATTTCATTATAAATCCC-AAATTTCAAAGTAAT
1 TCAATTTCATTCTAAA-CCCTAAATTTCAAAATAAT
*
1522407 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
* *
1522442 TCAATTACATTCTAAACCCTAAA-TTCTAAAATACT
1 TCAATTTCATTCTAAACCCTAAATTTC-AAAATAAT
1522477 TCAATTT
1 TCAATTT
1522484 AAGGAGAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.07
35 63 0.93
ACGTcount: A:0.42, C:0.21, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTTCAAAATAAT
Found at i:1523271 original size:42 final size:42
Alignment explanation
Indices: 1523224--1523307 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
1523214 AACATAACTC
1523224 GTATATAAAATTTTGACTCTGTTATTTATGTAGTCTTAATAT
1 GTATATAAAATTTTGACTCTGTTATTTATGTAGTCTTAATAT
1523266 GTATATAAAATTTTGACTCTGTTATTTATGTAGTCTTAATAT
1 GTATATAAAATTTTGACTCTGTTATTTATGTAGTCTTAATAT
1523308 TTATGTGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (42 bp):
GTATATAAAATTTTGACTCTGTTATTTATGTAGTCTTAATAT
Found at i:1523577 original size:35 final size:34
Alignment explanation
Indices: 1523536--1523648 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
1523526 TAAAAAGATA
* * *
1523536 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTACTTTGGAATTTGGG-TTTAGAAT
*
1523571 GTAATTGAATTACTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTACTTTGGAATTT-GGGTTTAGAAT
1523606 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTACTTTGGAATTTG-GGTTTAGAAT
1523641 GAAATTGA
1 GAAATTGA
1523649 GAATTGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTACTTTGGAATTTGGGTTTAGAAT
Found at i:1524741 original size:15 final size:15
Alignment explanation
Indices: 1524721--1524793 Score: 64
Period size: 15 Copynumber: 4.9 Consensus size: 15
1524711 ATTCATTTTG
1524721 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
1524736 TTTTAAAATTAAAT-
1 TTTTAAAATTAAATA
*
1524750 TATTT---ATTCACACTA
1 T-TTTAAAATT-A-AATA
*
1524765 TTTTGAAATTAAATCA
1 TTTTAAAATTAAAT-A
1524781 TTTTAAAATTAAA
1 TTTTAAAATTAAA
1524794 ATCAAATCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
12 3 0.06
13 1 0.02
14 6 0.13
15 20 0.43
16 14 0.30
17 3 0.06
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (15 bp):
TTTTAAAATTAAATA
Found at i:1524774 original size:44 final size:45
Alignment explanation
Indices: 1524698--1524795 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 45
1524688 AATTTGAATT
*** *
1524698 AATTAAAATATTTATTCATTTTGTTTTAAAATTAAAT-ATTTTAA
1 AATTAAAATATTTATTCACACTATTTTAAAATTAAATCATTTTAA
* *
1524742 AATTAAATTATTTATTCACACTATTTTGAAATTAAATCATTTTAA
1 AATTAAAATATTTATTCACACTATTTTAAAATTAAATCATTTTAA
1524787 AATTAAAAT
1 AATTAAAAT
1524796 CAAATCATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 31 0.67
45 15 0.33
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (45 bp):
AATTAAAATATTTATTCACACTATTTTAAAATTAAATCATTTTAA
Found at i:1524932 original size:25 final size:25
Alignment explanation
Indices: 1524904--1524955 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
1524894 AGTATAAAGA
* *
1524904 ATAAATAAATTACA-AAAATAATATT
1 ATAAATAAAGTAAAGAAAATAAT-TT
1524929 ATAAATAAAGTAAAGAAAATAATTT
1 ATAAATAAAGTAAAGAAAATAATTT
1524954 AT
1 AT
1524956 TCTTAGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
ATAAATAAAGTAAAGAAAATAATTT
Found at i:1531319 original size:13 final size:14
Alignment explanation
Indices: 1531296--1531351 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
1531286 AAATTATTCC
1531296 AATATTAAAAAATA
1 AATATTAAAAAATA
1531310 AATA-TAAAAAATA
1 AATATTAAAAAATA
* * *
1531323 CTAAAAATAAAAATTA
1 --AATATTAAAAAATA
1531339 AATTATTAAAAAA
1 AA-TATTAAAAAA
1531352 ATGAATAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 10 0.30
16 8 0.24
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
AATATTAAAAAATA
Found at i:1531322 original size:23 final size:22
Alignment explanation
Indices: 1531296--1531351 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
1531286 AAATTATTCC
*
1531296 AATATTAAAAAATAAATATAAAA
1 AATATTAAAAAATAAAAAT-AAA
* *
1531319 AATACT-AAAAATAAAAATTAA
1 AATATTAAAAAATAAAAATAAA
*
1531340 ATTATTAAAAAA
1 AATATTAAAAAA
1531352 ATGAATAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.22
22 16 0.59
23 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (22 bp):
AATATTAAAAAATAAAAATAAA
Found at i:1533207 original size:12 final size:12
Alignment explanation
Indices: 1533190--1533215 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1533180 TTGCACCGAT
1533190 ACGGATACGGGG
1 ACGGATACGGGG
1533202 ACGGATACGGGG
1 ACGGATACGGGG
1533214 AC
1 AC
1533216 AGGGACGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.19, G:0.46, T:0.08
Consensus pattern (12 bp):
ACGGATACGGGG
Found at i:1544575 original size:14 final size:15
Alignment explanation
Indices: 1544559--1544629 Score: 72
Period size: 16 Copynumber: 4.6 Consensus size: 15
1544549 CCTCTTTTTT
1544559 TATTTATATTATAT-
1 TATTTATATTATATA
*
1544573 TATTTTTATTATATA
1 TATTTATATTATATA
*
1544588 TATCTTATATCATTATA
1 TAT-TTATATTA-TATA
*
1544605 TATATATATATATATA
1 TATTTATAT-TATATA
*
1544621 TATATATAT
1 TATTTATAT
1544630 AGATGTATTA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
14 13 0.27
15 3 0.06
16 24 0.50
17 8 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:1544579 original size:23 final size:22
Alignment explanation
Indices: 1544514--1544590 Score: 61
Period size: 23 Copynumber: 3.4 Consensus size: 22
1544504 TATATATATA
1544514 TATTTA-ATTATATTTTTTTATT
1 TATTTATATTATATTTTTTT-TT
*
1544536 TATTTACTA-TAT-TCCTCTTTTTT
1 TATTTA-TATTATAT--TTTTTTTT
*
1544559 TATTTATATTATATTATTTTTAT
1 TATTTATATTATATT-TTTTTTT
*
1544582 TATATATAT
1 TATTTATAT
1544591 CTTATATCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 13
0.72 0.07 0.21
Matches are distributed among these distances:
22 10 0.23
23 27 0.61
24 7 0.16
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (22 bp):
TATTTATATTATATTTTTTTTT
Found at i:1544589 original size:2 final size:2
Alignment explanation
Indices: 1544582--1544630 Score: 66
Period size: 2 Copynumber: 25.0 Consensus size: 2
1544572 TTATTTTTAT
*
1544582 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
1544623 TA TA TA TA
1 TA TA TA TA
1544631 GATGTATTAA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
1 2 0.05
2 39 0.91
3 2 0.05
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1544684 original size:17 final size:17
Alignment explanation
Indices: 1544664--1544728 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
1544654 ACTATGTATA
1544664 TATATTTTTCTTAATAT
1 TATATTTTTCTTAATAT
**
1544681 TATATTTTATACGTTTTTAT
1 TATATTTT-T-C-TTAATAT
1544701 ATATATTTTTTCTTAATAT
1 -TATA-TTTTTCTTAATAT
*
1544720 TCTATTTTT
1 TATATTTTT
1544729 GTTTTATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
17 13 0.34
18 4 0.11
19 6 0.16
20 6 0.16
21 5 0.13
22 4 0.11
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (17 bp):
TATATTTTTCTTAATAT
Found at i:1544999 original size:26 final size:24
Alignment explanation
Indices: 1544970--1545036 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 24
1544960 TTATTTATTT
1544970 TGTTTATTTTATTATTATTTTTTACG
1 TGTTT-TTTTATTATTATTTTTT-CG
* * *
1544996 TGTTTTGTTATTTTTTATTTTTTCT
1 TGTTTTTTTA-TTATTATTTTTTCG
1545021 TGTTTTATTTATTATT
1 TGTTTT-TTTATTATT
1545037 CTCACGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 15 0.44
26 19 0.56
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (24 bp):
TGTTTTTTTATTATTATTTTTTCG
Found at i:1547700 original size:10 final size:10
Alignment explanation
Indices: 1547680--1547710 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
1547670 AGATTCAATC
1547680 AGAACAAAAAG
1 AGAA-AAAAAG
1547691 AGAAAAAAAG
1 AGAAAAAAAG
1547701 AGAAAAAAAG
1 AGAAAAAAAG
1547711 CAAAGAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:1547717 original size:15 final size:13
Alignment explanation
Indices: 1547693--1547746 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
1547683 ACAAAAAGAG
1547693 AAAAAAAGAGAAA
1 AAAAAAAGAGAAA
1547706 AAAAGCAAAGAGAAA
1 AAAA--AAAGAGAAA
*
1547721 ATAAAAAGAGAAA
1 AAAAAAAGAGAAA
*
1547734 AAACAAAG-GAAA
1 AAAAAAAGAGAAA
1547746 A
1 A
1547747 TTGAAGAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
12 5 0.14
13 19 0.53
15 12 0.33
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAAAAAGAGAAA
Found at i:1547720 original size:25 final size:26
Alignment explanation
Indices: 1547687--1547747 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 26
1547677 ATCAGAACAA
*
1547687 AAAGAGAAAA-AAAGAGA-AAAAAAGC
1 AAAGAGAAAATAAAAAGAGAAAAAA-C
1547712 AAAGAGAAAATAAAAAGAGAAAAAAC
1 AAAGAGAAAATAAAAAGAGAAAAAAC
1547738 AAAG-GAAAAT
1 AAAGAGAAAAT
1547748 TGAAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
25 16 0.48
26 11 0.33
27 6 0.18
ACGTcount: A:0.75, C:0.03, G:0.18, T:0.03
Consensus pattern (26 bp):
AAAGAGAAAATAAAAAGAGAAAAAAC
Found at i:1547732 original size:28 final size:25
Alignment explanation
Indices: 1547695--1547747 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 25
1547685 AAAAAGAGAA
1547695 AAAAAGAGAAAAAAAGCAAAGAGAAAAT
1 AAAAAGAG-AAAAAA-CAAAG-GAAAAT
1547723 AAAAAGAGAAAAAACAAAGGAAAAT
1 AAAAAGAGAAAAAACAAAGGAAAAT
1547748 TGAAGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
26 5 0.20
27 6 0.24
28 8 0.32
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (25 bp):
AAAAAGAGAAAAAACAAAGGAAAAT
Found at i:1549456 original size:37 final size:37
Alignment explanation
Indices: 1549404--1549475 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
1549394 TAAAAAGAAG
* *
1549404 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
* * *
1549441 ATTTTGTCTCCCTTGAGACAGTTTCTCTTTAAACA
1 ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACA
1549476 TAAACATTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:1549538 original size:36 final size:36
Alignment explanation
Indices: 1549491--1549716 Score: 225
Period size: 36 Copynumber: 6.4 Consensus size: 36
1549481 ATTGAAAACA
*
1549491 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
1549527 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACGG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
1549563 TTTCCCTTGAAACAAA-----T-TAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
*** * * *
1549592 TTTTATTTGAAACAAATTTCATCTCCCTTAAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
1549628 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
1549665 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1549701 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
1549717 ATCTTTGAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
28 1 0.01
29 18 0.12
30 2 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 99 0.64
37 31 0.20
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:1549602 original size:101 final size:101
Alignment explanation
Indices: 1549404--1549682 Score: 317
Period size: 101 Copynumber: 2.8 Consensus size: 101
1549394 TAAAAAGAAG
* * * *
1549404 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* ** * *
1549469 TTAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACA-AATTATTGAAAACATTTCACTTGAAACAA
* * * *
1549506 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACGGTTTCCCT
1 ATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
* ** * *
1549570 TGAAACAAATTATTTGAATATGTTTTATTTGAAACAA
66 TGAAACAAATTA-TTGAAAACATTTCACTTGAAACAA
* ** * * *
1549607 ATTTCATCTCCCTTAAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
1 ATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
1549672 TGAAACAAATT
66 TGAAACAAATT
1549683 TCGTCTCTCT
Statistics
Matches: 149, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
100 3 0.02
101 78 0.52
102 68 0.46
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (101 bp):
ATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACAAATTATTGAAAACATTTCACTTGAAACAA
Found at i:1549764 original size:138 final size:138
Alignment explanation
Indices: 1549511--1549770 Score: 376
Period size: 138 Copynumber: 1.9 Consensus size: 138
1549501 AATAAATTTC
* *
1549511 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACGGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * * ** * *
1549576 AAATTATTTGAATATGTTTTATTTGAAACAAATTTCATCTCCCTTAAGACAGTTTCTTTTGGAAC
66 AAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTAAGACAATTTCTTTTGGAAC
1549641 TAAGTTTT
131 TAAGTTTT
*
1549649 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * * ** *
1549714 AAAATCTTTGAATTTATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAATTTCT
66 AAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTAAGACAATTTCT
1549771 CTTGAAACAC
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 106 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (138 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAAATATTTGAATATATTTCACCTAAAACAAATTTCATCTCCCTTAAGACAATTTCTTTTGGAAC
TAAGTTTT
Found at i:1549778 original size:65 final size:67
Alignment explanation
Indices: 1549674--1549831 Score: 221
Period size: 65 Copynumber: 2.4 Consensus size: 67
1549664 GTTTCTCTTG
* * * **
1549674 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
1549737 TA
66 TA
* *
1549739 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
1549804 TA
66 TA
*
1549806 AAACAAAATTTTGTTTCCCTTGAGAC
1 AAAC-AAATTTTGTCTCCCTTGAGAC
1549832 CGTTTTCATG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 32 0.39
66 2 0.02
67 28 0.34
68 20 0.24
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTTCCCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:1549844 original size:67 final size:67
Alignment explanation
Indices: 1549674--1549846 Score: 208
Period size: 67 Copynumber: 2.6 Consensus size: 67
1549664 GTTTCTCTTG
* * * * * **
1549674 AAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
1549737 TA
66 TA
* *
1549739 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAATTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
1549804 TA
66 TA
* **
1549806 AAACAAAATTTTGTTTCCCTTGAGACCGTTT-TCATGAAACA
1 AAAC-AAATTTTGTCTCCCTTGAGACAATTTCTCATGAAACA
1549847 ACAGATATCT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
65 32 0.34
66 2 0.02
67 37 0.39
68 23 0.24
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAATTTCTCATGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:1551860 original size:14 final size:14
Alignment explanation
Indices: 1551841--1551880 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
1551831 CTCTTTTTTT
1551841 TTATTTATATTATA
1 TTATTTATATTATA
*
1551855 TTATTTTTATTATA
1 TTATTTATATTATA
1551869 TATATCTTATAT
1 T-TAT-TTATAT
1551881 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:1551951 original size:17 final size:17
Alignment explanation
Indices: 1551931--1551992 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 17
1551921 TGTTATAGAT
1551931 TTTTTCTTAATATTATA
1 TTTTTCTTAATATTATA
*
1551948 TTTTATACGTTTTTATATATATA
1 TTTT-T-C---TTAATAT-TATA
*
1551971 TTTTTCTTAATATTCTA
1 TTTTTCTTAATATTATA
1551988 TTTTT
1 TTTTT
1551993 GTTTTTATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
17 12 0.33
18 7 0.19
19 1 0.03
21 1 0.03
22 7 0.19
23 8 0.22
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (17 bp):
TTTTTCTTAATATTATA
Found at i:1552323 original size:26 final size:27
Alignment explanation
Indices: 1552265--1552324 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
1552255 TTGTTTTTAA
*
1552265 TTTTATTTTATTATTTTTTACGTGTTT
1 TTTTATTTTATCATTTTTTACGTGTTT
* *
1552292 TGTTATTTT-TCATTTTTT-CTTGTTT
1 TTTTATTTTATCATTTTTTACGTGTTT
1552317 TATTTATT
1 T-TTTATT
1552325 ATTCTCACGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 7 0.25
26 13 0.46
27 8 0.29
ACGTcount: A:0.13, C:0.05, G:0.07, T:0.75
Consensus pattern (27 bp):
TTTTATTTTATCATTTTTTACGTGTTT
Found at i:1554011 original size:19 final size:19
Alignment explanation
Indices: 1553987--1554034 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
1553977 AAATAATATA
*
1553987 ATAAAAAAAATTTAAAAGT
1 ATAAAAAAAATTTAAAAAT
1554006 AT--AAAAAATTTAAAAAT
1 ATAAAAAAAATTTAAAAAT
* *
1554023 TTAATAAAAATT
1 ATAAAAAAAATT
1554035 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 15 0.62
19 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAAAAATTTAAAAAT
Found at i:1556119 original size:158 final size:156
Alignment explanation
Indices: 1555791--1556372 Score: 546
Period size: 160 Copynumber: 3.7 Consensus size: 156
1555781 AAATTTGGTC
* * * * * * * * *
1555791 CATAATTTCATTCTTCCTTCAATCCCTCCTTCATTT-AACTCCAAAT-TTTACTAAATTTGAACC
1 CATAATTTCCTTATTTCTTCAATTCATCCTTTATTTCAAGTCCATATATTTACCAAATTTGAACC
* *
1555854 ACATGCTCCTAAACCACCATAATAGAATACATATGTAATTTC-A-T-T-TTTTTGATAA-AAA-T
66 ACATGCTCCT-AA--A-CAT-ATAGAATACATATGTACTTTCAATTCTCTTTTTAATAACAAATT
* *
1555913 TTC-ATTTTTCAATTTAGTCCTTTAATTTTT
126 TTCTATTTTTCAATTTAGTCCCTCAATTTTT
* *
1555943 CATAATTTCCTTATTTCTTCAATTTC-TTCTTTATTTGAAGTCCA-ATATTTACCAAATTTGAAC
1 CATAATTTCCTTATTTCTTCAA-TTCATCCTTTATTTCAAGTCCATATATTTACCAAATTTGAAC
* *
1556006 CACGTGCTCCTAAATCATCATACAATACATATGTACTTTCAATTCCTCTTTTTAATAACAAATTT
65 CACATGCTCCTAAA-CAT-ATAGAATACATATGTACTTTCAATT-CTCTTTTTAATAACAAATTT
* *
1556071 TCTATTTTTCTATTTAGTCCCTCAATTGTT
127 TCTATTTTTCAATTTAGTCCCTCAATTTTT
* * * *
1556101 CTTAATTTCCTTATTTCTTCAATTCATCCTTTATTTTAAGT-CATTTTTTTTTACCAAATTTGAA
1 CATAATTTCCTTATTTCTTCAATTCATCCTTTATTTCAAGTCCA--TATATTTACCAAATTTGAA
* * *
1556165 CCACATGCTACTAAACTATAGTAGAATACATATGTACTATCAATTCATCCTTTTGAA-AACAAAT
64 CCACATGCTCCTAAAC-ATA-TAGAATACATATGTACTTTCAATTC-T-CTTTTTAATAACAAAT
* *
1556229 TTTCTATTTTTCAATTTAATCTCTCAATTTTT
125 TTTCTATTTTTCAATTTAGTCCCTCAATTTTT
** * * *
1556261 CATAATTTTATTTTTTCTTCAATTCATCCTTTATTTCAAGTCCATTTTTTTTTACCAAATTTGAA
1 CATAATTTCCTTATTTCTTCAATTCATCCTTTATTTCAAGTCCA--TATATTTACCAAATTTGAA
* * *
1556326 CAACATGCTCATATACCACA-ATAGAATACCTATGTAACTTT-AATTCT
64 CCACATGCTCCTA-A--ACATATAGAATACATATGT-ACTTTCAATTCT
1556373 TACTTTTTTT
Statistics
Matches: 364, Mismatches: 42, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
150 23 0.06
151 1 0.00
152 32 0.09
153 33 0.09
154 1 0.00
155 9 0.02
156 3 0.01
157 9 0.02
158 57 0.16
159 3 0.01
160 126 0.35
161 58 0.16
162 6 0.02
163 1 0.00
164 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.45
Consensus pattern (156 bp):
CATAATTTCCTTATTTCTTCAATTCATCCTTTATTTCAAGTCCATATATTTACCAAATTTGAACC
ACATGCTCCTAAACATATAGAATACATATGTACTTTCAATTCTCTTTTTAATAACAAATTTTCTA
TTTTTCAATTTAGTCCCTCAATTTTT
Found at i:1556232 original size:160 final size:159
Alignment explanation
Indices: 1555836--1556335 Score: 576
Period size: 160 Copynumber: 3.2 Consensus size: 159
1555826 TAACTCCAAA
* * * *
1555836 TTTTACTAAATTTGAACCACATGCTCCTAAACCACCATAATAGAATACATATGTAATTTC-ATT-
1 TTTTACCAAATTTGAACCACATGCTCCT-AA--ACTAT-ATAGAATACATATGTACTATCAATTC
* * *
1555899 -T-TTTTGATAA-AAA-TTTC-ATTTTTCAATTTAGTCCTTTAATTTTTCATAATTTCCTTATTT
62 ATCTTTTGAAAACAAATTTTCTATTTTTCAATTTAGTCCCTCAATTTTTCATAATTTCCTTATTT
* * *
1555959 CTTCAATTTC-TTCTTTATTTGAAGTCCA---AT
127 CTTCAA-TTCATCCTTTATTTCAAGTCCATTTTT
* * * * *
1555989 ATTTACCAAATTTGAACCACGTGCTCCTAAA-TCATCATACAATACATATGTACTTTCAATTCCT
1 TTTTACCAAATTTGAACCACATGCTCCTAAACT-AT-ATAGAATACATATGTACTATCAATTCAT
* * * *
1556053 CTTTTTAATAACAAATTTTCTATTTTTCTATTTAGTCCCTCAATTGTTCTTAATTTCCTTATTTC
64 CTTTTGAA-AACAAATTTTCTATTTTTCAATTTAGTCCCTCAATTTTTCATAATTTCCTTATTTC
*
1556118 TTCAATTCATCCTTTATTTTAAGT-CATTTTT
128 TTCAATTCATCCTTTATTTCAAGTCCATTTTT
*
1556149 TTTTACCAAATTTGAACCACATGCTACTAAACTATAGTAGAATACATATGTACTATCAATTCATC
1 TTTTACCAAATTTGAACCACATGCTCCTAAACTATA-TAGAATACATATGTACTATCAATTCAT-
* * ** *
1556214 CTTTTGAAAACAAATTTTCTATTTTTCAATTTAATCTCTCAATTTTTCATAATTTTATTTTTTCT
64 CTTTTGAAAACAAATTTTCTATTTTTCAATTTAGTCCCTCAATTTTTCATAATTTCCTTATTTCT
1556279 TCAATTCATCCTTTATTTCAAGTCCATTTTT
129 TCAATTCATCCTTTATTTCAAGTCCATTTTT
*
1556310 TTTTACCAAATTTGAACAACATGCTC
1 TTTTACCAAATTTGAACCACATGCTC
1556336 ATATACCACA
Statistics
Matches: 295, Mismatches: 35, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
150 22 0.07
151 3 0.01
152 2 0.01
153 26 0.09
154 5 0.02
155 2 0.01
156 3 0.01
157 9 0.03
158 57 0.19
159 1 0.00
160 126 0.43
161 39 0.13
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.46
Consensus pattern (159 bp):
TTTTACCAAATTTGAACCACATGCTCCTAAACTATATAGAATACATATGTACTATCAATTCATCT
TTTGAAAACAAATTTTCTATTTTTCAATTTAGTCCCTCAATTTTTCATAATTTCCTTATTTCTTC
AATTCATCCTTTATTTCAAGTCCATTTTT
Found at i:1559964 original size:11 final size:11
Alignment explanation
Indices: 1559948--1559973 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1559938 ATTTATTATT
1559948 TTTTAAAATTA
1 TTTTAAAATTA
1559959 TTTTAAAATTA
1 TTTTAAAATTA
1559970 TTTT
1 TTTT
1559974 GGTTTGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:1563492 original size:22 final size:22
Alignment explanation
Indices: 1563467--1563562 Score: 146
Period size: 22 Copynumber: 4.5 Consensus size: 22
1563457 GGGTATATTA
1563467 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
1563489 GTCCTTCGGGACGTATTCAGTG
1 GTCCTTCGGGACGTATCCAGTG
1563511 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
1563533 GTCATTCGGGAC--AT--AGTG
1 GTCCTTCGGGACGTATCCAGTG
1563551 GTCCTTCGGGAC
1 GTCCTTCGGGAC
1563563 AAATACTGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.21
20 2 0.03
22 53 0.76
ACGTcount: A:0.15, C:0.25, G:0.32, T:0.28
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:1563552 original size:18 final size:18
Alignment explanation
Indices: 1563529--1563563 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1563519 GGACGTATCC
1563529 AGTGGTCATTCGGGACAT
1 AGTGGTCATTCGGGACAT
*
1563547 AGTGGTCCTTCGGGACA
1 AGTGGTCATTCGGGACA
1563564 AATACTGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.20, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCATTCGGGACAT
Found at i:1564784 original size:16 final size:16
Alignment explanation
Indices: 1564763--1564796 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1564753 AGGATGTCTA
1564763 GTAATCAAGTAACTTG
1 GTAATCAAGTAACTTG
1564779 GTAATCAAGTAACTTG
1 GTAATCAAGTAACTTG
1564795 GT
1 GT
1564797 CTTTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (16 bp):
GTAATCAAGTAACTTG
Found at i:1570254 original size:22 final size:22
Alignment explanation
Indices: 1570229--1570283 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1570219 GGTATATTAG
*
1570229 TCCTTCGGGACGTATCCAGTGA
1 TCCTTCGGGACGTATCCAATGA
*
1570251 TCCTTCGGGACGTATCCAATGG
1 TCCTTCGGGACGTATCCAATGA
1570273 TCCTTCGGGAC
1 TCCTTCGGGAC
1570284 ATAGTGGTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.27, T:0.27
Consensus pattern (22 bp):
TCCTTCGGGACGTATCCAATGA
Found at i:1572558 original size:288 final size:288
Alignment explanation
Indices: 1572039--1572620 Score: 1011
Period size: 288 Copynumber: 2.0 Consensus size: 288
1572029 TACATCTACA
* *
1572039 GGATTTGGCTGCTAGTCTGCCTGATTTGTTACACTTTTCATGTAGTTTTGTTTCAGGCGTGTGGA
1 GGATTTGGCTGCTAGTCTGCCTAATTTGTTACACTCTTCATGTAGTTTTGTTTCAGGCGTGTGGA
* * *
1572104 AGAGTGTGCAGGGCCAGGGGTTGAAGGTGCCCTGGGATAGGGTTGTGTGGCTTTTTAGGCATATT
66 AGAGTGTGCAGGGCCAAGGGTCGAAGGTGCCCTGGGATAGGGTTGTGTGGCATTTTAGGCATATT
* * *
1572169 TCTAAGTGTTCTATGATTACTTGGATGGTTGTTCTTAATAAATTTCATGCGAGGTATAGATTGTG
131 TCTAAGTGTTCTATGATTAATGGGATGGTTGTTCTTAATAAATTACATGCGAGGTATAGATTGTG
**
1572234 TTCTTTTGTTTTGAATGTGGAGGTTTTGTATTTGTTTTGCAGGTGTGAAGAGGAGACAAGGGATC
196 TTCTTTTGGCTTGAATGTGGAGGTTTTGTATTTGTTTTGCAGGTGTGAAGAGGAGACAAGGGATC
1572299 ACCTTCTCTTTCAATGTGATTTCTCGAG
261 ACCTTCTCTTTCAATGTGATTTCTCGAG
*
1572327 GGATTTGGCTGCTAGTCTGCCTAATTTGTTACACTCTTCATTTAGTTTTGTTTCAGGCGTGTGGA
1 GGATTTGGCTGCTAGTCTGCCTAATTTGTTACACTCTTCATGTAGTTTTGTTTCAGGCGTGTGGA
*
1572392 AGAGTGTGCGGGGCCAAGGGTCGAAGGTGCCCTGGGATAGGGTTGTGTGGCATTTTAGGCATATT
66 AGAGTGTGCAGGGCCAAGGGTCGAAGGTGCCCTGGGATAGGGTTGTGTGGCATTTTAGGCATATT
* * *
1572457 TTTAAGTGTTCTATGATTAATGGGATGGTTGTTCTTAATAAATTACCTGCGAGGTGTAGATTGTG
131 TCTAAGTGTTCTATGATTAATGGGATGGTTGTTCTTAATAAATTACATGCGAGGTATAGATTGTG
* *
1572522 TTCTTTTGGCTTGAATGTGGAGGTTTTGTGTTTGTTTTGCAGGTGTGAAGAGGAGACAATGGATC
196 TTCTTTTGGCTTGAATGTGGAGGTTTTGTATTTGTTTTGCAGGTGTGAAGAGGAGACAAGGGATC
1572587 ACCTTCTCTTTCAATGTGATTTCTCGAG
261 ACCTTCTCTTTCAATGTGATTTCTCGAG
1572615 GGATTT
1 GGATTT
1572621 ATGGAATGCT
Statistics
Matches: 277, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
288 277 1.00
ACGTcount: A:0.19, C:0.12, G:0.30, T:0.39
Consensus pattern (288 bp):
GGATTTGGCTGCTAGTCTGCCTAATTTGTTACACTCTTCATGTAGTTTTGTTTCAGGCGTGTGGA
AGAGTGTGCAGGGCCAAGGGTCGAAGGTGCCCTGGGATAGGGTTGTGTGGCATTTTAGGCATATT
TCTAAGTGTTCTATGATTAATGGGATGGTTGTTCTTAATAAATTACATGCGAGGTATAGATTGTG
TTCTTTTGGCTTGAATGTGGAGGTTTTGTATTTGTTTTGCAGGTGTGAAGAGGAGACAAGGGATC
ACCTTCTCTTTCAATGTGATTTCTCGAG
Found at i:1591969 original size:89 final size:89
Alignment explanation
Indices: 1591806--1592079 Score: 417
Period size: 89 Copynumber: 3.1 Consensus size: 89
1591796 CCAGAACAGC
* * * * *
1591806 GTCCATAGGGCTTACCCTAAGCACATAGCAAAACGGAGCCAACCTAAGGATATTCCTTGGGGCCT
1 GTCCGTAGGG-TTACCCTAAGCACACAAC-AAACGGAACCAACCTAAGGATATGCCTTGGGGCCT
1591871 ATGGGCCTACCCAAGGGTATCATTAG
64 ATGGGCCTACCCAAGGGTATCATTAG
*
1591897 GTCCGTAGGGTTACCCTAAGCACACAACAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
1 GTCCGTAGGGTTACCCTAAGCACACAACAAACGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
1591962 GGGCCTACCCAAGGGTATCATTAG
66 GGGCCTACCCAAGGGTATCATTAG
* * *
1591986 GTCCGTAGGGTTACCCTAAGCACACAA-AAATGGAACCAATCTAAGGATATGCCTTGGGGCATAT
1 GTCCGTAGGGTTACCCTAAGCACACAACAAACGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
* *
1592050 GGGCCT-CCCAAGGATATCCTTAG
66 GGGCCTACCCAAGGGTATCATTAG
1592073 GTCCGTA
1 GTCCGTA
1592080 AGGTCTTACC
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
87 22 0.13
88 40 0.23
89 85 0.49
90 16 0.09
91 9 0.05
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.21
Consensus pattern (89 bp):
GTCCGTAGGGTTACCCTAAGCACACAACAAACGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
GGGCCTACCCAAGGGTATCATTAG
Found at i:1600517 original size:28 final size:28
Alignment explanation
Indices: 1600477--1600535 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
1600467 TGTATCTTTT
1600477 CTTGCTAATATATTTGTTTTATT-ATTTA
1 CTTGCTAATATATTTGTTTTATTGA-TTA
*
1600505 CTTGCTACTATATTTGTTTTATTGATTA
1 CTTGCTAATATATTTGTTTTATTGATTA
1600533 CTT
1 CTT
1600536 TTAATTATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (28 bp):
CTTGCTAATATATTTGTTTTATTGATTA
Found at i:1601941 original size:24 final size:24
Alignment explanation
Indices: 1601912--1601960 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
1601902 TTTAAATTTT
1601912 AAAATTAT-TATATATTTT-TTAAAA
1 AAAATTATGTAT-T-TTTTATTAAAA
1601936 AAAATTATGTATTTTTTATTAAAA
1 AAAATTATGTATTTTTTATTAAAA
1601960 A
1 A
1601961 TTTATTTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 4 0.17
24 16 0.70
25 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
AAAATTATGTATTTTTTATTAAAA
Found at i:1601942 original size:21 final size:21
Alignment explanation
Indices: 1601918--1601962 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1601908 TTTTAAAATT
1601918 ATTATATATTTTTTAAAAAAA
1 ATTATATATTTTTTAAAAAAA
* **
1601939 ATTATGTATTTTTTATTAAAA
1 ATTATATATTTTTTAAAAAAA
1601960 ATT
1 ATT
1601963 TATTTCGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
ATTATATATTTTTTAAAAAAA
Found at i:1601998 original size:21 final size:21
Alignment explanation
Indices: 1601970--1602028 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
1601960 ATTTATTTCG
1601970 TTCG-TTAAAATTTTAATTTA
1 TTCGCTTAAAATTTTAATTTA
* *
1601990 TTCGCTTAAGATTTTAGTTTA
1 TTCGCTTAAAATTTTAATTTA
* * *
1602011 TCCTCTT-AAATTTAAATT
1 TTCGCTTAAAATTTTAATT
1602029 CACTCTCAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
20 12 0.39
21 19 0.61
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
TTCGCTTAAAATTTTAATTTA
Found at i:1603311 original size:9 final size:10
Alignment explanation
Indices: 1603286--1603310 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1603276 TATTCTTATT
1603286 AAAAAACTAA
1 AAAAAACTAA
1603296 AAAAAACTAA
1 AAAAAACTAA
1603306 AAAAA
1 AAAAA
1603311 CATAACAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAACTAA
Found at i:1604429 original size:21 final size:21
Alignment explanation
Indices: 1604391--1604434 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1604381 AAATTTATTA
* *
1604391 TTATTTTATTATATTTAATAT
1 TTATTTTATAATATTTAAAAT
1604412 TTATTTTATAAT-TATTAAAAT
1 TTATTTTATAATAT-TTAAAAT
1604433 TT
1 TT
1604435 TAATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTTTATAATATTTAAAAT
Found at i:1605420 original size:153 final size:152
Alignment explanation
Indices: 1605226--1605585 Score: 411
Period size: 155 Copynumber: 2.3 Consensus size: 152
1605216 ACAATTAAGT
* * * * * * * *
1605226 TACATATGTATTTTATTGTAGTATATGATCATGTGATTCAAATTTGGTAAAA-TGACTTAAAAT-
1 TACACATGTATTATATTGTGGTTTAGGAGCATGTGATTCAAATTTAGTAAAAGAGACTTAAAATA
** * *
1605289 AATCACAAATTGAAGGCATAAGGAGATTATGAAAAATTGAA-GACTAAATTGAAAAATAAAAAAT
66 AATCACAAATTGAAGAAATAAAGAGATTATGAAAAATTAAATGACTAAATTG--AAA-AAAAAA-
* *
1605353 TTGTTATCAAAAAGATTAATTGAAAG
127 TTGTTATCAAAAAAATGAATTGAAAG
*
1605379 TACACATGTATTATATTGTGGTTTAGGAGCATGTGACTCAAATTTAGTAAAAAAAGAGACTTAAA
1 TACACATGTATTATATTGTGGTTTAGGAGCATGTGATTCAAATTTAGT---AAAAGAGACTTAAA
* ** *
1605444 ATAAATGATGAATTGAAGAAATAAAGAGATTATGAAAAATTAAATGATTAAATTGAAAAAAAAAT
63 ATAAATCACAAATTGAAGAAATAAAGAGATTATGAAAAATTAAATGACTAAATTGAAAAAAAAAT
1605509 TGTTATCAAAAAAATGAATTGAAAG
128 TGTTATCAAAAAAATGAATTGAAAG
* * * * * *
1605534 TACACATGTATTCTAGTATGATTTAGAAGCATGTGGTTCAAATTTAGTAAAA
1 TACACATGTATTATATTGTGGTTTAGGAGCATGTGATTCAAATTTAGTAAAA
1605586 AAATGAGCTT
Statistics
Matches: 175, Mismatches: 26, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
152 4 0.02
153 40 0.23
155 65 0.37
156 10 0.06
157 13 0.07
158 34 0.19
159 9 0.05
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.32
Consensus pattern (152 bp):
TACACATGTATTATATTGTGGTTTAGGAGCATGTGATTCAAATTTAGTAAAAGAGACTTAAAATA
AATCACAAATTGAAGAAATAAAGAGATTATGAAAAATTAAATGACTAAATTGAAAAAAAAATTGT
TATCAAAAAAATGAATTGAAAG
Found at i:1605543 original size:155 final size:157
Alignment explanation
Indices: 1605279--1605631 Score: 441
Period size: 155 Copynumber: 2.3 Consensus size: 157
1605269 TTGGTAAAAT
* * ** * *
1605279 GACTTAAAAT-AATCACAAATTGAAGGCATAAGGAGATTATGAAAAATTGAAGACTAAATTGAAA
1 GACTTAAAATAAATGA-GAATTGAAGAAATAAAGAGATTATGAAAAATTAAAGACTAAATTG-AA
* * * * * *
1605343 AATAAAAAATTTGTTATCAAAAAGATTAATTGAAAGTACACATGTATTATATTGTGGTTTAGGAG
64 AATAAAAAATTTGTTATCAAAAAAATGAATTGAAAGTACACATGTATTATAGTATGATTTAGAAG
1605408 CATGTGACTCAAATTTAGTAAAAAAA-GA
129 CATGTGACTCAAATTTAGTAAAAAAATGA
*
1605436 GACTTAAAATAAATGATGAATTGAAGAAATAAAGAGATTATGAAAAATTAAATGATTAAATTG-A
1 GACTTAAAATAAATGA-GAATTGAAGAAATAAAGAGATTATGAAAAATTAAA-GACTAAATTGAA
*
1605500 AA-AAAAAA-TTGTTATCAAAAAAATGAATTGAAAGTACACATGTATTCTAGTATGATTTAGAAG
64 AATAAAAAATTTGTTATCAAAAAAATGAATTGAAAGTACACATGTATTATAGTATGATTTAGAAG
**
1605563 CATGTGGTTCAAATTTAGTAAAAAAATGA
129 CATGTGACTCAAATTTAGTAAAAAAATGA
* *
1605592 G-CTTAAAATGAAA-GAGAATTTGAAGAAATAATGAAATTAT
1 GACTTAAAAT-AAATGAGAA-TTGAAGAAATAAAGAGATTAT
1605632 ATACTAAATC
Statistics
Matches: 172, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
154 3 0.02
155 101 0.59
156 12 0.07
157 13 0.08
158 34 0.20
159 9 0.05
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (157 bp):
GACTTAAAATAAATGAGAATTGAAGAAATAAAGAGATTATGAAAAATTAAAGACTAAATTGAAAA
TAAAAAATTTGTTATCAAAAAAATGAATTGAAAGTACACATGTATTATAGTATGATTTAGAAGCA
TGTGACTCAAATTTAGTAAAAAAATGA
Found at i:1606899 original size:3 final size:3
Alignment explanation
Indices: 1606891--1606916 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1606881 AATTAATTAA
1606891 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
1606917 ACTGCAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:1609744 original size:36 final size:36
Alignment explanation
Indices: 1609702--1609798 Score: 185
Period size: 36 Copynumber: 2.7 Consensus size: 36
1609692 CACCATTCTT
1609702 CCCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
1 CCCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
*
1609738 CTCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
1 CCCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
1609774 CCCATGCATGAACCGATCCTTGGTC
1 CCCATGCATGAACCGATCCTTGGTC
1609799 ATCCTTGGTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.18, C:0.37, G:0.24, T:0.22
Consensus pattern (36 bp):
CCCATGCATGAACCGATCCTTGGTCGCCCCGAGTGC
Found at i:1617395 original size:21 final size:20
Alignment explanation
Indices: 1617367--1617405 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1617357 TGATCAAATG
1617367 ATATTATTTTAGT-ATTTTTT
1 ATATTATTTT-GTGATTTTTT
1617387 ATATATATTTTGTGATTTT
1 ATAT-TATTTTGTGATTTT
1617406 AGTAGAATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
ATATTATTTTGTGATTTTTT
Found at i:1618089 original size:167 final size:165
Alignment explanation
Indices: 1617763--1618096 Score: 616
Period size: 167 Copynumber: 2.0 Consensus size: 165
1617753 TTCTTCACTA
1617763 CAGCAATTCTAAAAGGGAGTTTTCTGGTTCAGTTCCTGGGGCTCCCACGATCAAATTGCTCCATC
1 CAGCAATTCTAAAAGGGAGTTTTCTGGTTCAGTTCCTGGGGCTCCCACGATCAAATTGCTCCATC
1617828 GGTCATGCAGGCTAGATCCAATACGGTACTTTATTAATTATCCTTTCTTGAAGCTGTAATATAAT
66 GGTCATGCAGGCTAGATCCAATACGGTACTTTATTAATTATCCTTTCTTGAAGCTGTAATATAAT
1617893 CTATAAACATTTAGCTGATAATTTTTTTTTCCTTCT
131 CTATAAACATTTAGCTGATAA-TTTTTTTTCCTTCT
1617929 CAGCAATTCTAAAAAGGGAG-TTTCTGGTTCAGTTCCTGGGGCTCCCACGATTCAAATTGCTCCA
1 CAGCAATTCT-AAAAGGGAGTTTTCTGGTTCAGTTCCTGGGGCTCCCACGA-TCAAATTGCTCCA
1617993 TCGGTCATGCAGGCTAGATCCAATACGGTACTTTATTAATTATGTCCTTTCTTGAAGCTGTAATA
64 TCGGTCATGCAGGCTAGATCCAATACGGTACTTTATTAATTA--TCCTTTCTTGAAGCTGTAATA
1618058 TAATCTATAAACATTTAGCTGATAATTTTTTTTCCTTCT
127 TAATCTATAAACATTTAGCTGATAATTTTTTTTCCTTCT
1618097 ACCAGACGGA
Statistics
Matches: 164, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
166 40 0.24
167 64 0.39
168 14 0.09
169 46 0.28
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.37
Consensus pattern (165 bp):
CAGCAATTCTAAAAGGGAGTTTTCTGGTTCAGTTCCTGGGGCTCCCACGATCAAATTGCTCCATC
GGTCATGCAGGCTAGATCCAATACGGTACTTTATTAATTATCCTTTCTTGAAGCTGTAATATAAT
CTATAAACATTTAGCTGATAATTTTTTTTCCTTCT
Found at i:1627113 original size:35 final size:36
Alignment explanation
Indices: 1627055--1627125 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
1627045 GTATTTGCAG
1627055 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1627091 GGGAACAGATT-CCCCCTGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
1627126 CTTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.69
36 11 0.31
ACGTcount: A:0.17, C:0.32, G:0.31, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCTGGGGGGTATCGATTCCCC
Found at i:1627725 original size:15 final size:15
Alignment explanation
Indices: 1627707--1627736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1627697 CGAGGGTATT
*
1627707 GTAGTCCTTCGGGAC
1 GTAGTCCTTCAGGAC
1627722 GTAGTCCTTCAGGAC
1 GTAGTCCTTCAGGAC
1627737 ATATATAGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.27
Consensus pattern (15 bp):
GTAGTCCTTCAGGAC
Found at i:1633820 original size:35 final size:35
Alignment explanation
Indices: 1633774--1633841 Score: 120
Period size: 35 Copynumber: 1.9 Consensus size: 35
1633764 ATGTGCAGGG
1633774 GAACAGATTCCCCCCT-GGGGGTATCGATTCCCCGA
1 GAACAGATT-CCCCCTGGGGGGTATCGATTCCCCGA
1633809 GAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1633842 CCCTAAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (35 bp):
GAACAGATTCCCCCTGGGGGGTATCGATTCCCCGA
Found at i:1634468 original size:15 final size:15
Alignment explanation
Indices: 1634450--1634480 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1634440 CGAGGGTATT
1634450 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1634465 GTAGTCCTTCGGGAC
1 GTAGTCCTTCGGGAC
1634480 G
1 G
1634481 AATACTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (15 bp):
GTAGTCCTTCGGGAC
Found at i:1637550 original size:2 final size:2
Alignment explanation
Indices: 1637543--1637573 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1637533 CACGTGGATG
*
1637543 TC TC TC TC TC TC TA TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1637574 TCCCCAGGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1638192 original size:22 final size:21
Alignment explanation
Indices: 1638153--1638193 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1638143 GGTGAAAAAA
**
1638153 CCGGATCGATTTTTATCCGGT
1 CCGGATCGATTTAAATCCGGT
1638174 CCGGATCGGATTTAAATCCG
1 CCGGATC-GATTTAAATCCG
1638194 ACTTTGTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (21 bp):
CCGGATCGATTTAAATCCGGT
Found at i:1644909 original size:41 final size:39
Alignment explanation
Indices: 1644859--1644935 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
1644849 ATTATTTATC
1644859 TATAATCTATAATATATCTATATAAAAAAATACAATTTTTA
1 TATAATCTATAATAT-T-TATATAAAAAAATACAATTTTTA
* *
1644900 TATAATCTATAATATTTTTATATAAAAATACAATTT
1 TATAATCTATAATATTTATATAAAAAAATACAATTT
1644936 GTTAAATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 18 0.53
40 1 0.03
41 15 0.44
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (39 bp):
TATAATCTATAATATTTATATAAAAAAATACAATTTTTA
Found at i:1645353 original size:23 final size:23
Alignment explanation
Indices: 1645323--1645374 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1645313 TTTGTTGCAC
1645323 GTTTTCATCGACTTTTATGATAT
1 GTTTTCATCGACTTTTATGATAT
*
1645346 GTTTTCATCGACTTTTATGGTAT
1 GTTTTCATCGACTTTTATGATAT
1645369 GTTTTC
1 GTTTTC
1645375 TTATGTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.54
Consensus pattern (23 bp):
GTTTTCATCGACTTTTATGATAT
Found at i:1645884 original size:20 final size:20
Alignment explanation
Indices: 1645859--1645919 Score: 122
Period size: 20 Copynumber: 3.0 Consensus size: 20
1645849 TGAAGGACTA
1645859 AAACTATGGAAGTGAAAGAT
1 AAACTATGGAAGTGAAAGAT
1645879 AAACTATGGAAGTGAAAGAT
1 AAACTATGGAAGTGAAAGAT
1645899 AAACTATGGAAGTGAAAGAT
1 AAACTATGGAAGTGAAAGAT
1645919 A
1 A
1645920 GGATCACTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.51, C:0.05, G:0.25, T:0.20
Consensus pattern (20 bp):
AAACTATGGAAGTGAAAGAT
Found at i:1652907 original size:45 final size:45
Alignment explanation
Indices: 1652853--1652938 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
1652843 CCTCCAGTAA
* *
1652853 CAGTATCATCAGCTATTGCACCATCCAAATGCTTCCCTTCAGCAG
1 CAGTATCATCAACTATTGCACCATCAAAATGCTTCCCTTCAGCAG
* * * *
1652898 CAGTGTCATCAATTATTGTACCATCAAAATGCTTTCCTTCA
1 CAGTATCATCAACTATTGCACCATCAAAATGCTTCCCTTCA
1652939 ATGAAAGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.31
Consensus pattern (45 bp):
CAGTATCATCAACTATTGCACCATCAAAATGCTTCCCTTCAGCAG
Found at i:1654432 original size:61 final size:61
Alignment explanation
Indices: 1654318--1654438 Score: 199
Period size: 61 Copynumber: 2.0 Consensus size: 61
1654308 GTTTTAAAAC
*
1654318 GATTTGTAAAGGATTGATGACGGCCAAACTTGGATTATTAGTTAATCCTACGGTGGGATAT
1 GATTTGTAAAGGATTGATGACGGCCAAACTTGGAATATTAGTTAATCCTACGGTGGGATAT
* *
1654379 GATTTGTAGAGGATTGATGAGGGCCAAAACTTGGAATATTAGTTAATCC-ACGGTGGGATA
1 GATTTGTAAAGGATTGATGACGGCC-AAACTTGGAATATTAGTTAATCCTACGGTGGGATA
1654439 CGACCTCAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 34 0.61
62 22 0.39
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (61 bp):
GATTTGTAAAGGATTGATGACGGCCAAACTTGGAATATTAGTTAATCCTACGGTGGGATAT
Done.