Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008425.1 Hibiscus syriacus cultivar Beakdansim tig00111208_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: 2340112
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 12
Found at i:1439805 original size:15 final size:15
Alignment explanation
Indices: 1439785--1439820 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
1439775 AAAAAAATAA
1439785 CTAGCCATTTAGTAC
1 CTAGCCATTTAGTAC
1439800 CTAGCCATTTAGTAC
1 CTAGCCATTTAGTAC
1439815 CTAGCC
1 CTAGCC
1439821 TATCAGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.31
Consensus pattern (15 bp):
CTAGCCATTTAGTAC
Found at i:1440532 original size:13 final size:14
Alignment explanation
Indices: 1440503--1440536 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1440493 TGTTATTTTC
*
1440503 TTTAAATTATATGT
1 TTTAATTTATATGT
1440517 TTTAATTTATAT-T
1 TTTAATTTATATGT
1440530 TTTAATT
1 TTTAATT
1440537 CATCACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (14 bp):
TTTAATTTATATGT
Found at i:1441627 original size:2 final size:2
Alignment explanation
Indices: 1441620--1441654 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1441610 CCCAACATGA
1441620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1441655 AAATTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1443527 original size:3 final size:3
Alignment explanation
Indices: 1443519--1443551 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1443509 TGTATTGCAA
*
1443519 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1443552 GCAAAAGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1444908 original size:20 final size:20
Alignment explanation
Indices: 1444885--1444936 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1444875 AACGCGATCC
1444885 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
1444905 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
1444925 CCAAAATCGCAA
1 CCAGAATCGCAA
1444937 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:1445017 original size:20 final size:20
Alignment explanation
Indices: 1444992--1445185 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
1444982 GATTTTCCAT
* *
1444992 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
1445012 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
1445032 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1445052 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
1445072 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
1445092 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
1445112 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
1445132 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
1445153 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
1445173 AATCGCAACGCGA
1 AATCGCAACGCGA
1445186 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:1445037 original size:40 final size:39
Alignment explanation
Indices: 1444988--1445185 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
1444978 TTGCGATTTT
* ** *
1444988 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
1445026 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
1445067 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
1445107 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
1445146 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1445186 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:1445075 original size:60 final size:60
Alignment explanation
Indices: 1444992--1445184 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
1444982 GATTTTCCAT
* ** * *
1444992 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
1445052 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
1445112 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
1445173 AATCGCAACGCG
1 AATCGCAACGCG
1445185 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:1445890 original size:20 final size:21
Alignment explanation
Indices: 1445865--1445903 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1445855 CTCTTTATAT
*
1445865 ATTATTTTT-TTAATTAAATC
1 ATTATTTTTATTAAATAAATC
1445885 ATTATTTTTATTAAATAAA
1 ATTATTTTTATTAAATAAA
1445904 AATAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATTTTTATTAAATAAATC
Found at i:1448657 original size:21 final size:20
Alignment explanation
Indices: 1448607--1448657 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1448597 TAAGCTGTTG
*
1448607 GTATTGATACTCCTGGGTCA
1 GTATTGATACTCATGGGTCA
** *
1448627 GTATCAATACTGATGGGTTCA
1 GTATTGATACTCATGGG-TCA
1448648 GTATTGATAC
1 GTATTGATAC
1448658 CAACTCAGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (20 bp):
GTATTGATACTCATGGGTCA
Found at i:1450174 original size:14 final size:14
Alignment explanation
Indices: 1450155--1450182 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1450145 TATAATCCAT
1450155 CAAAGGAATAAATA
1 CAAAGGAATAAATA
1450169 CAAAGGAATAAATA
1 CAAAGGAATAAATA
1450183 TAAATGATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
CAAAGGAATAAATA
Found at i:1452983 original size:23 final size:23
Alignment explanation
Indices: 1452955--1453020 Score: 123
Period size: 23 Copynumber: 2.9 Consensus size: 23
1452945 TGTACTTTGA
*
1452955 TGCTGAATCATTCAGCACTGTTT
1 TGCTGAATCAGTCAGCACTGTTT
1452978 TGCTGAATCAGTCAGCACTGTTT
1 TGCTGAATCAGTCAGCACTGTTT
1453001 TGCTGAATCAGTCAGCACTG
1 TGCTGAATCAGTCAGCACTG
1453021 AATCATTCAG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (23 bp):
TGCTGAATCAGTCAGCACTGTTT
Found at i:1462400 original size:36 final size:36
Alignment explanation
Indices: 1462351--1462421 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
1462341 TTTTTCAAGT
1462351 CAAGTAGAATTTATGAAATTACGACTCGAAGTCAAC
1 CAAGTAGAATTTATGAAATTACGACTCGAAGTCAAC
* *
1462387 CAAGTTGACTTTATGAAATTACGACTCGAAGTCAA
1 CAAGTAGAATTTATGAAATTACGACTCGAAGTCAA
1462422 TCGAGTCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (36 bp):
CAAGTAGAATTTATGAAATTACGACTCGAAGTCAAC
Found at i:1462443 original size:18 final size:18
Alignment explanation
Indices: 1462420--1462461 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1462410 ACTCGAAGTC
1462420 AATCGAGTCGAATCGAAA
1 AATCGAGTCGAATCGAAA
* *
1462438 AATCGATTTGAATCGAAA
1 AATCGAGTCGAATCGAAA
1462456 AATCGA
1 AATCGA
1462462 TTTTTCGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.19, T:0.21
Consensus pattern (18 bp):
AATCGAGTCGAATCGAAA
Found at i:1462462 original size:18 final size:18
Alignment explanation
Indices: 1462429--1462464 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1462419 CAATCGAGTC
1462429 GAATCGAAAAATCGATTT
1 GAATCGAAAAATCGATTT
1462447 GAATCGAAAAATCGATTT
1 GAATCGAAAAATCGATTT
1462465 TTCGAGTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (18 bp):
GAATCGAAAAATCGATTT
Found at i:1470236 original size:23 final size:23
Alignment explanation
Indices: 1470210--1470271 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
1470200 ATATAACCAC
1470210 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1470233 TACCTATTACA-TATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1470255 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1470272 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
22 20 0.57
23 15 0.43
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1470661 original size:23 final size:23
Alignment explanation
Indices: 1470635--1470697 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1470625 ATATAACCAC
1470635 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1470658 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1470681 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1470698 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:1470848 original size:426 final size:427
Alignment explanation
Indices: 1469855--1471313 Score: 2601
Period size: 426 Copynumber: 3.4 Consensus size: 427
1469845 TATTACATTA
1469855 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1469920 TTATGTTTCAATTTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAA-TTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1469985 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTAAGAA-TTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTAGAATTTTTAATTT
* *
1470049 AATAATAATATATCGTAACGTAAAAAATAAATCATTAGTCGCCTATAATTACTAAATTAATATCT
194 AATAATAATATATCGTAACGTAAAAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCT
*
1470114 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTT
259 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
1470179 TA-AAAAA-GATAGATAC-TTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
324 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
1470241 ACA-TATATAAGCGCTACCTATTACATCATATTTTTACC
389 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
* *
1470279 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTTTTTTAAA-TATATGTAA
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGT-TATGTAA
*
1470343 TTTATGTTTCAATTTTTTTAAGTATGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTC
65 TTTATGTTTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1470408 ATTTGCAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTTTAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTAGAATTTTTAATTT
1470472 AATAATAATATATCGTAACGTAAAAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCT
194 AATAATAATATATCGTAACGTAAAAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCT
1470537 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACACTTT
259 TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTT
1470601 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
324 TATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATT
1470666 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
389 ACATTATATAAGCGCTACCTATTACATCATATTTTTACC
1470705 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1470770 TTATGTTTCAATTTTTTTAA-TAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
*
1470833 ATTTGCACAAAAAATTATTTGATTATTTTGATATTTATAAAAT-ATATTTAGAATTTTTAATTTA
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTTTAATTTA
*
1470897 ATAATAATATATATCGTGACGTAAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
195 ATAAT-A-ATATATCGTAACGTAAAAAAA-AAATCATTAGACGCCTATAATTACTAAATTAATAT
*
1470962 CTTAAAACTCACTCAAAGGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
257 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
*
1471027 TTTATAAAAAGGATAGATACTTTACAATATAATCACTACCTATTACATTATATAAACGATACCTA
322 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
1471092 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
387 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
*
1471133 TA-T-TATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTATGTAA-
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1471195 TTATGTTTCAATTTTTTTAA-TAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTAAGTA-TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
1471259 ATTTGCACAAAAAATTATTTGATTG-TTTGATATTTATAAAATAATA-TTAGAATTT
130 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTT
1471314 AAATTAAAAA
Statistics
Matches: 1002, Mismatches: 18, Indels: 29
0.96 0.02 0.03
Matches are distributed among these distances:
422 63 0.06
423 184 0.18
424 106 0.11
425 159 0.16
426 283 0.28
427 84 0.08
428 123 0.12
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (427 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTAAGTATGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCA
TTTGCACAAAAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTTTAATTTAA
TAATAATATATCGTAACGTAAAAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTA
TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTAC
ATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:1471089 original size:23 final size:23
Alignment explanation
Indices: 1471063--1471125 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1471053 ATATAATCAC
1471063 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1471086 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1471109 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1471126 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:1471591 original size:39 final size:39
Alignment explanation
Indices: 1471537--1471623 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1471527 TCAAGTTGTA
*
1471537 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
1471576 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1471615 GATTTTGAT
1 GATTTTGAT
1471624 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:1471918 original size:18 final size:18
Alignment explanation
Indices: 1471895--1471931 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1471885 CGAAATATAT
1471895 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1471913 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
1471931 A
1 A
1471932 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1472350 original size:25 final size:25
Alignment explanation
Indices: 1472316--1472363 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
1472306 ATTATTTTTC
*
1472316 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
1472341 CAAATAATGTACCCACAACAATG
1 CAAATAATGTACCCACAACAATG
1472364 ATTAATTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1472701 original size:23 final size:23
Alignment explanation
Indices: 1472639--1472710 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1472629 ATACTTTACA
* *
1472639 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
1472662 ATATAAACG-TACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
1472684 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
1472707 ATAT
1 ATAT
1472711 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 21 0.48
23 23 0.52
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1472751 original size:21 final size:22
Alignment explanation
Indices: 1472727--1472773 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
1472717 CTATTATTTG
1472727 AAAGTG-TCCATACTTTTTATA
1 AAAGTGATCCATACTTTTTATA
* *
1472748 AAAG-GATCGATACTTTTTTTA
1 AAAGTGATCCATACTTTTTATA
1472769 AAAGT
1 AAAGT
1472774 TATGTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
AAAGTGATCCATACTTTTTATA
Found at i:1476245 original size:183 final size:183
Alignment explanation
Indices: 1475593--1476212 Score: 1125
Period size: 183 Copynumber: 3.4 Consensus size: 183
1475583 TAAATGGTAT
* *
1475593 CGACACAATATTAGAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
* *
1475658 ATACCGGTTATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
* *
1475723 CATTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
131 CACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
* *
1475776 CGACAGAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACTGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
*
1475841 ATACCGTTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
*
1475906 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTAGACATAAAGTAC
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
1475959 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
*
1476024 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATTTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
1476089 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
131 CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
1476142 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
1 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
1476207 ATACCG
66 ATACCG
1476213 ATAGCATTGC
Statistics
Matches: 421, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
183 418 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAATGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTAC
Found at i:1476629 original size:23 final size:23
Alignment explanation
Indices: 1476603--1476665 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1476593 ATATAACCAC
1476603 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1476626 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1476649 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1476666 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:1478256 original size:9 final size:9
Alignment explanation
Indices: 1478242--1478285 Score: 52
Period size: 9 Copynumber: 4.6 Consensus size: 9
1478232 CTTGTTTGGA
1478242 TCATCATCT
1 TCATCATCT
1478251 TCATCATCAT
1 TCATCATC-T
*
1478261 CATCATCATCG
1 --TCATCATCT
1478272 TCATCATCT
1 TCATCATCT
1478281 TCATC
1 TCATC
1478286 GTCAGCTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 21 0.70
10 1 0.03
12 8 0.27
ACGTcount: A:0.25, C:0.34, G:0.02, T:0.39
Consensus pattern (9 bp):
TCATCATCT
Found at i:1478260 original size:6 final size:6
Alignment explanation
Indices: 1478241--1478318 Score: 75
Period size: 6 Copynumber: 13.0 Consensus size: 6
1478231 ACTTGTTTGG
* * * *
1478241 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
1478289 AGCTTC ATCGTC ATCATC GTCATC TTCATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC
1478319 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:1478307 original size:9 final size:9
Alignment explanation
Indices: 1478254--1478312 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
1478244 ATCATCTTCA
*
1478254 TCATCATCA
1 TCATCATCG
1478263 TCATCATCG
1 TCATCATCG
*
1478272 TCATCATCT
1 TCATCATCG
*
1478281 TCATCGTCAG
1 TCATCATC-G
*
1478291 -CTTCATCG
1 TCATCATCG
1478299 TCATCATCG
1 TCATCATCG
1478308 TCATC
1 TCATC
1478313 TTCATCGTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
8 1 0.02
9 40 0.98
ACGTcount: A:0.22, C:0.34, G:0.08, T:0.36
Consensus pattern (9 bp):
TCATCATCG
Found at i:1478319 original size:12 final size:12
Alignment explanation
Indices: 1478245--1478330 Score: 79
Period size: 12 Copynumber: 7.4 Consensus size: 12
1478235 GTTTGGATCA
* *
1478245 TCATCTTCATCA
1 TCATCGTCATCT
* *
1478257 TCATCATCATCA
1 TCATCGTCATCT
* *
1478269 TCGTCATCATCT
1 TCATCGTCATCT
*
1478281 TCATCGTCAGCT
1 TCATCGTCATCT
1478293 TCATCGTCA---
1 TCATCGTCATCT
1478302 TCATCGTCATCT
1 TCATCGTCATCT
*
1478314 TCATCGTCAGCT
1 TCATCGTCATCT
1478326 TCATC
1 TCATC
1478331 TTCTGCGACC
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
9 9 0.14
12 55 0.86
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1478322 original size:21 final size:21
Alignment explanation
Indices: 1478245--1478318 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
1478235 GTTTGGATCA
*
1478245 TCATCTTCATCATCATCATCA
1 TCATCTTCATCATCATCATCG
* *
1478266 TCATCGTCATCATCTTCATCG
1 TCATCTTCATCATCATCATCG
* *
1478287 TCAGCTTCATCGTCATCATCG
1 TCATCTTCATCATCATCATCG
1478308 TCATCTTCATC
1 TCATCTTCATC
1478319 GTCAGCTTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.22, C:0.34, G:0.07, T:0.38
Consensus pattern (21 bp):
TCATCTTCATCATCATCATCG
Found at i:1478333 original size:6 final size:6
Alignment explanation
Indices: 1478245--1478333 Score: 61
Period size: 6 Copynumber: 14.3 Consensus size: 6
1478235 GTTTGGATCA
* * * * * * *
1478245 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * *
1478293 TCATCGT CATCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATC-T --TCATCT TCATCT TCATCT TCATCT TCATCT TC
1478334 TGCGACCGCT
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
6 60 0.91
7 1 0.02
9 5 0.08
ACGTcount: A:0.20, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:1480524 original size:393 final size:396
Alignment explanation
Indices: 1479799--1480764 Score: 1760
Period size: 393 Copynumber: 2.4 Consensus size: 396
1479789 TTTAAATTAG
*
1479799 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATGC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
1479864 TTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
1479929 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
* *
1479994 AAATATCGACACCAACTAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
196 AAATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
* *
1480059 TATTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGG
261 TACTTGTACCGGTTAAATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGG
*
1480124 ATCGACAC-TTTT-TATATGGATCGACACTTTAT-GTTGCACCCTGTTTTCCATTCATTCTGGAC
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAA
1480186 CAAAAA
391 CAAAAA
*
1480192 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1480257 TTGTACCGGTTAGATTGAAAAATTACAT-TTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
1480321 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
1480386 AAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
1480451 ATACTTGTACCGGTTAAATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGG
260 ATACTTGTACCGGTTAAATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGG
1480516 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGA
1480581 ACAAAAA
390 ACAAAAA
*
1480588 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1480653 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
1480718 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1480765 GGCCATATTG
Statistics
Matches: 552, Mismatches: 14, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
392 120 0.22
393 203 0.37
394 4 0.01
395 20 0.04
396 52 0.09
397 73 0.13
398 17 0.03
399 63 0.11
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (396 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAATATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
TACTTGTACCGGTTAAATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAA
CAAAAA
Found at i:1480557 original size:199 final size:198
Alignment explanation
Indices: 1479799--1480764 Score: 1760
Period size: 199 Copynumber: 4.9 Consensus size: 198
1479789 TTTAAATTAG
*
1479799 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATGC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
1479864 TTGTACCGGTTAGATTGAAAAATTATATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
1479929 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
1479994 AAA
196 AAA
* * *
1479997 TATCGACACCAACTAAAACGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAT
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
1480062 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
1480127 GACAC-TTTT-TATATGGATCGACACTTTAT-GTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
1480189 AAA
196 AAA
*
1480192 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1480257 TTGTACCGGTTAGATTGAAAAATTACAT-TTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
1480321 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
1480386 AAA
196 AAA
1480389 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1480454 CTTGTACCGGTTAAATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
1480519 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
1480584 AAAA
195 AAAA
*
1480588 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1480653 CTTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
1480718 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1480765 GGCCATATTG
Statistics
Matches: 745, Mismatches: 17, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
194 40 0.05
195 130 0.17
196 40 0.05
197 57 0.08
198 203 0.27
199 212 0.28
200 63 0.08
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:1480930 original size:19 final size:19
Alignment explanation
Indices: 1480883--1480930 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
1480873 TTATATTCAC
*
1480883 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1480902 ATAC-AAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1480920 ATACAAAATTA
1 ATACAAAATTA
1480931 ACCCTACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1482855 original size:21 final size:21
Alignment explanation
Indices: 1482830--1482873 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1482820 CCCCTTATGC
1482830 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1482851 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1482872 CT
1 CT
1482874 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1485105 original size:17 final size:18
Alignment explanation
Indices: 1485083--1485125 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
1485073 ATATATCCGG
1485083 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
1485100 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
1485120 TATCAT
1 TATCAT
1485126 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:1485143 original size:20 final size:19
Alignment explanation
Indices: 1485088--1485134 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1485078 TCCGGTATCA
1485088 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1485107 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
1485128 TTTTACC
1 TTTTACC
1485135 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1485359 original size:181 final size:183
Alignment explanation
Indices: 1485055--1485529 Score: 697
Period size: 181 Copynumber: 2.6 Consensus size: 183
1485045 CGTACTTACG
* *
1485055 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTG-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
1485119 TTATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATTTTTTTAAAGTATCGACACATTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
* *
1485184 TAGGCGCTAAAACTGCTTCTCTTTTAACTTCACAAAGTGTCGATCCTTATA-T
131 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
1485236 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTA-ACTGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * *
1485300 TTATCATATTTTTACCAGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
* ** *
1485365 TAGTATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
131 TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * *
1485418 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCA-TTTCTATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
* * * *
1485482 TTGTCATAGTTTTACCTGTTATATCATTTTGGATCGACACATTTTTTA
66 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTA
1485530 TTTGGATCGA
Statistics
Matches: 263, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 168 0.64
182 95 0.36
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (183 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTATACCGGTT
TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTA
TAGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:1485497 original size:20 final size:18
Alignment explanation
Indices: 1485452--1485511 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 18
1485442 CCGGTAGCGC
1485452 TTTACCGGTTTTATCATT
1 TTTACCGGTTTTATCATT
*
1485470 TCTATACCGGTTTTGTCATAGT
1 T-T-TACCGGTTTTATCAT--T
* *
1485492 TTTACCTGTTATATCATT
1 TTTACCGGTTTTATCATT
1485510 TT
1 TT
1485512 GGATCGACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 26 0.76
21 1 0.03
22 2 0.06
ACGTcount: A:0.18, C:0.17, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTACCGGTTTTATCATT
Found at i:1486046 original size:227 final size:227
Alignment explanation
Indices: 1485598--1486084 Score: 847
Period size: 227 Copynumber: 2.1 Consensus size: 227
1485588 ACTTTTATAC
*
1485598 GTATGTACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGTACACTTTTATAAAAATGATATATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
1485663 TTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
66 TTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
*
1485728 ATTTGATTATTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATA
131 ATTTGATTATTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
*
1485793 TAATAATAAATATGTTTTCTACAGTGAAATAA
196 TAATAATAAATATATTTTCTACAGTGAAATAA
1485825 GTAT-TGACACTTTTATAAAAATGATATATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGT-ACACTTTTATAAAAATGATATATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATT
1485889 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAA
65 TTTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACACA-AAA
* *
1485954 ATTATTTGATTGTTTTGATA-TTTAT-AAATATTATTTAGAATTTAAATTTAACAATATTAACCA
128 ATTATTTGATT-ATTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
1486017 AAGATAATAATAAATATATTTTC-ACAGTGAAATAA
192 AAGATAATAATAAATATATTTTCTACAGTGAAATAA
* *
1486052 GTATGTACACTTTTATAAAAAGGATAGATACTT
1 GTATGTACACTTTTATAAAAATGATATATACTT
1486085 TACAATATAA
Statistics
Matches: 248, Mismatches: 7, Indels: 10
0.94 0.03 0.04
Matches are distributed among these distances:
226 1 0.00
227 122 0.49
228 100 0.40
229 19 0.08
230 6 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (227 bp):
GTATGTACACTTTTATAAAAATGATATATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
ATTTGATTATTTAATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
TAATAATAAATATATTTTCTACAGTGAAATAA
Found at i:1491462 original size:83 final size:81
Alignment explanation
Indices: 1491308--1491523 Score: 254
Period size: 83 Copynumber: 2.6 Consensus size: 81
1491298 ACCATGCGGT
* * * * *
1491308 TGATATGCC-TATGAGCTGAATGAAATCGAAATCGAAGGTCTTTGATGACAGATAGCCCTTATCG
1 TGATATGCCAT-TGAGCTGAATGTAATCGAACTCG-AGG-GTTTGTTGACAGATAACCCTTATCG
**
1491372 CCTTGAGTTATGCTGTAAA
63 CCTTGAGTTATGCTACAAA
* *
1491391 TTTGATATTCCATTGAGCTGAATGTAATCGAACTCGAGGGTTTGTTGACAGATAACCCTTCTCGC
1 --TGATATGCCATTGAGCTGAATGTAATCGAACTCGAGGGTTTGTTGACAGATAACCCTTATCGC
1491456 CTTGAGTTATGCTACAAA
64 CTTGAGTTATGCTACAAA
* * *
1491474 TGATGTGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGGTTGACA
1 TGATATGCCATTGAGCTGAATGTAATCGAACTCGAGGGT-TT-GTTGACA
1491524 TATCGCCTTG
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
81 35 0.30
82 2 0.02
83 45 0.39
84 3 0.03
85 29 0.25
86 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (81 bp):
TGATATGCCATTGAGCTGAATGTAATCGAACTCGAGGGTTTGTTGACAGATAACCCTTATCGCCT
TGAGTTATGCTACAAA
Found at i:1491985 original size:170 final size:170
Alignment explanation
Indices: 1491780--1492122 Score: 551
Period size: 170 Copynumber: 2.0 Consensus size: 170
1491770 TCAAAAGATG
*
1491780 AATGTTGCTGGTGGACACGATATCCTTCGTCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
1 AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
*
1491845 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAATCTGGGAAGCCCCTTCACTGTGAAGTTG
66 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGCCCCTTCACTGTGAAGTTG
* * *
1491910 AGCTTTGAATTGGATATCCTTCGCTGTGAAGTTGAAATCC
131 AGCTTTGAATTGGATATCATTCGCTATAAAGTTGAAATCC
* * * * *
1491950 AATGTTGTTTGTGGGCACGATATCCTTCATCGTGAAGTTGAAATCATGGATGTTTCGAGTCCAAT
1 AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
* * * *
1492015 ATCCTTCGTCGTGAAGTTGAAATTGGCTTTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTG
66 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGCCCCTTCACTGTGAAGTTG
*
1492080 AGCTTTGAATTGGATATCATTCGTTATAAAGTTGAAATCC
131 AGCTTTGAATTGGATATCATTCGCTATAAAGTTGAAATCC
1492120 AAT
1 AAT
1492123 CTTCAGTATA
Statistics
Matches: 158, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
170 158 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (170 bp):
AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGCCCCTTCACTGTGAAGTTG
AGCTTTGAATTGGATATCATTCGCTATAAAGTTGAAATCC
Found at i:1492230 original size:14 final size:14
Alignment explanation
Indices: 1492211--1492248 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1492201 TTATGCATAT
1492211 ATGCGATGCTATGG
1 ATGCGATGCTATGG
1492225 ATGCGATGCTATGG
1 ATGCGATGCTATGG
*
1492239 ATGCAATGCT
1 ATGCGATGCT
1492249 CTTAGGTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.29
Consensus pattern (14 bp):
ATGCGATGCTATGG
Found at i:1493009 original size:17 final size:17
Alignment explanation
Indices: 1492987--1493031 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
1492977 CCCTAAACGT
1492987 TTTTCTCTTTTTTGTTC
1 TTTTCTCTTTTTTGTTC
*
1493004 TTTTCT-TTTTCTTTTTC
1 TTTTCTCTTTT-TTGTTC
1493021 TTTT-TCTTTTT
1 TTTTCTCTTTTT
1493032 CTTTTTCGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (17 bp):
TTTTCTCTTTTTTGTTC
Found at i:1493015 original size:6 final size:6
Alignment explanation
Indices: 1492986--1493038 Score: 74
Period size: 6 Copynumber: 9.0 Consensus size: 6
1492976 ACCCTAAACG
*
1492986 TTTTTC TCTTTT- TTGTTC -TTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1 TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1493033 TTTTTC
1 TTTTTC
1493039 GAATTAGGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 7 0.17
6 31 0.74
7 4 0.10
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:1499713 original size:39 final size:39
Alignment explanation
Indices: 1499659--1499740 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
1499649 TTAATAGTAG
* *
1499659 ATGCAGCTTTCCCTTTGGTAGAAGATGAGTCACCGGGTA
1 ATGCAACTTTCCCTTTAGTAGAAGATGAGTCACCGGGTA
** *
1499698 ATGCAACTTTCCCTTTAGTAGCGGATGAGTCCCCGGGTA
1 ATGCAACTTTCCCTTTAGTAGAAGATGAGTCACCGGGTA
1499737 ATGC
1 ATGC
1499741 TCTGGGTGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (39 bp):
ATGCAACTTTCCCTTTAGTAGAAGATGAGTCACCGGGTA
Found at i:1502407 original size:17 final size:17
Alignment explanation
Indices: 1502359--1502410 Score: 63
Period size: 17 Copynumber: 3.0 Consensus size: 17
1502349 AAAAAGTTAG
1502359 TAAAAAAAATA-AACAAA
1 TAAAAAAAATACAA-AAA
1502376 TAAAAAAAATGACAAAAGA
1 TAAAAAAAAT-ACAAAA-A
1502395 -AAAAAAAATACAAAAA
1 TAAAAAAAATACAAAAA
1502411 ACATGGTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 1 0.03
17 16 0.50
18 12 0.38
19 3 0.09
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.10
Consensus pattern (17 bp):
TAAAAAAAATACAAAAA
Found at i:1511182 original size:65 final size:66
Alignment explanation
Indices: 1511016--1511187 Score: 192
Period size: 65 Copynumber: 2.6 Consensus size: 66
1511006 GACAATTATT
* * *
1511016 CTTTTGAATATGTCAAATTAAAAGGTATTCATTATTTATTTAACTTTGAATATTAAGAGATAATT
1 CTTTTGAATATTTCAAATTAAAA--TATT-ATTATTTATTTAACTTTGAATAGTAAAAGAT-ATT
*
1511081 GTATA
62 ATATA
* *
1511086 CTTTTGAATATTTCAAA--AATAA-ATTAATATTTATTTAAGTTTGAATAGTAAAAGAGT-TTAT
1 CTTTTGAATATTTCAAATTAA-AATATTATTATTTATTTAACTTTGAATAGTAAAAGA-TATTAT
1511147 ATA
64 ATA
*
1511150 -TTTTGAATATTTCAAATTAAAATATTATTATTTGTTTA
1 CTTTTGAATATTTCAAATTAAAATATTATTATTTATTTA
1511188 CATTTAGATT
Statistics
Matches: 89, Mismatches: 8, Indels: 15
0.79 0.07 0.13
Matches are distributed among these distances:
63 16 0.18
64 8 0.09
65 41 0.46
66 4 0.04
68 2 0.02
69 2 0.02
70 16 0.18
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (66 bp):
CTTTTGAATATTTCAAATTAAAATATTATTATTTATTTAACTTTGAATAGTAAAAGATATTATAT
A
Found at i:1514059 original size:2 final size:2
Alignment explanation
Indices: 1514052--1514081 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1514042 ACTAAAAACA
1514052 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1514082 ATTAAAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1514345 original size:60 final size:59
Alignment explanation
Indices: 1514247--1514435 Score: 159
Period size: 60 Copynumber: 3.1 Consensus size: 59
1514237 GCATCATATG
* * * * *
1514247 TCCCTAAAATATAACTCTCATTTTAAATTGGTCCTTAAACTTTGGAATATTCTAATTACA
1 TCCCCAAAATATGACCCTCATTCTAAATTAGTCCTTAAACTTTGGAATATTCTAATT-CA
*
1514307 TCCCCAAAATATGACCCTCATTCTAAATTAATCCTTAAACTTTTGGACATA--CTAATTTCA
1 TCCCCAAAATATGACCCTCATTCTAAATTAGTCCTTAAAC-TTTGGA-ATATTCTAA-TTCA
* * * * * ** *
1514367 TACCTAAACTATGACCAT-ATTTCTAAATTTGTCCCCCAAACTTTTGAATATTCCTAATTCA
1 TCCCCAAAATATGACCCTCA-TTCTAAATTAGT-CCTTAAACTTTGGAATATT-CTAATTCA
*
1514428 TCCTCAAA
1 TCCCCAAA
1514436 TTCATCCAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
59 4 0.04
60 69 0.67
61 23 0.22
62 7 0.07
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (59 bp):
TCCCCAAAATATGACCCTCATTCTAAATTAGTCCTTAAACTTTGGAATATTCTAATTCA
Found at i:1514686 original size:52 final size:52
Alignment explanation
Indices: 1514587--1514686 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
1514577 GGAATGTTAA
* *
1514587 AAAAGTTTGGGACCAATTTAGAAATGAATGTCATAGTTTGGCGATGAATTTC
1 AAAAGTTTGGGACCAATTTAGAAATGAATATCATAGTTTGGCAATGAATTTC
* * *
1514639 AAAAGTTTGGGGACTAATTTAG-AATTATTATCATAGTTTTGG-AATGAA
1 AAAAGTTT-GGGACCAATTTAGAAATGAATATCATAG-TTTGGCAATGAA
1514687 ATTGAACCAG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
52 24 0.59
53 17 0.41
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (52 bp):
AAAAGTTTGGGACCAATTTAGAAATGAATATCATAGTTTGGCAATGAATTTC
Found at i:1515638 original size:31 final size:31
Alignment explanation
Indices: 1515603--1515683 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
1515593 AACGACATCC
1515603 GTCCGTTCGATTTAAGTCTCC-AACATTATCG
1 GTCCGTTCGATTTAAGTC-CCTAACATTATCG
* * *
1515634 GTCCGTCCGATTTCAGTCCCTAACATTATTG
1 GTCCGTTCGATTTAAGTCCCTAACATTATCG
1515665 GT-CGTTCGATTTAA-TCCCT
1 GTCCGTTCGATTTAAGTCCCT
1515684 CGTCCATGTT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 5 0.11
30 12 0.27
31 27 0.61
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (31 bp):
GTCCGTTCGATTTAAGTCCCTAACATTATCG
Found at i:1516701 original size:22 final size:22
Alignment explanation
Indices: 1516676--1516723 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
1516666 AATATTTAAG
*
1516676 AAATAGGTTAAATTAATAAAAA
1 AAATAAGTTAAATTAATAAAAA
*
1516698 AAATAAGTTAATTTAATAAAAA
1 AAATAAGTTAAATTAATAAAAA
1516720 AAAT
1 AAAT
1516724 TACTTAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (22 bp):
AAATAAGTTAAATTAATAAAAA
Found at i:1516730 original size:22 final size:22
Alignment explanation
Indices: 1516683--1516732 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1516673 AAGAAATAGG
* *
1516683 TTAAATTAATAAAAAAAATAAG
1 TTAATTTAATAAAAAAAATAAC
*
1516705 TTAATTTAATAAAAAAAATTAC
1 TTAATTTAATAAAAAAAATAAC
1516727 TTAATT
1 TTAATT
1516733 GATATTACTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TTAATTTAATAAAAAAAATAAC
Found at i:1517077 original size:22 final size:21
Alignment explanation
Indices: 1517043--1517085 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1517033 GCCTAAATTT
1517043 ATTTTTAGATATAATTTTAAC
1 ATTTTTAGATATAATTTTAAC
* *
1517064 ATTTCTTATATATATTTTTAAC
1 ATTT-TTAGATATAATTTTAAC
1517086 TTATGACGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTTAGATATAATTTTAAC
Found at i:1517506 original size:2 final size:2
Alignment explanation
Indices: 1517499--1517524 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1517489 TAATACAATC
1517499 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
1517525 AATTAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1526201 original size:30 final size:27
Alignment explanation
Indices: 1526137--1526220 Score: 78
Period size: 30 Copynumber: 2.9 Consensus size: 27
1526127 ATAAACACTC
1526137 AAAATATTATTATTTTATATATTTAATA
1 AAAATA-TATTATTTTATATATTTAATA
** *
1526165 TTAATATATTATTTTAGTGTCATTTTAATA
1 AAAATATATTATTTTA-TAT-A-TTTAATA
*
1526195 AAAATATTAATTATTATATATATTTA
1 AAAATA-T-ATTATTTTATATATTTA
1526221 TTGATAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
27 10 0.23
28 6 0.14
29 5 0.11
30 12 0.27
31 3 0.07
32 8 0.18
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (27 bp):
AAAATATATTATTTTATATATTTAATA
Found at i:1526243 original size:5 final size:5
Alignment explanation
Indices: 1526233--1526284 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
1526223 GATAATTTTA
* * * *
1526233 ATAAT ATAAT ATAAT ATAAT ATTATT ATAATT ATATT ATCAT AAAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT A-TAAT ATAA-T ATAAT ATAAT ATAAT ATAAT
1526285 TTTTATAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
5 29 0.78
6 8 0.22
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:1526293 original size:30 final size:32
Alignment explanation
Indices: 1526240--1526315 Score: 95
Period size: 30 Copynumber: 2.4 Consensus size: 32
1526230 TTAATAATAT
*
1526240 AATATAATATAATATTATTATAATTATATTATC
1 AATAAAATATAATATTATTATAATTATATT-TC
*
1526273 -ATAAAATATAAT-TT-TTATAATTTTATTTC
1 AATAAAATATAATATTATTATAATTATATTTC
*
1526302 AATAATATATAATA
1 AATAAAATATAATA
1526316 AATTATTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
29 2 0.05
30 23 0.61
31 2 0.05
32 11 0.29
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
AATAAAATATAATATTATTATAATTATATTTC
Found at i:1526631 original size:20 final size:20
Alignment explanation
Indices: 1526606--1526647 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1526596 TTGACATAAA
1526606 ATAATATT-AAATAAATAATT
1 ATAATATTCAAA-AAATAATT
*
1526626 ATAATATTCAAAAAATTATT
1 ATAATATTCAAAAAATAATT
1526646 AT
1 AT
1526648 TATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATATTCAAAAAATAATT
Found at i:1535457 original size:27 final size:27
Alignment explanation
Indices: 1535419--1535472 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
1535409 CCGAAGGTGC
*
1535419 AACTTTGATGATCAAGATCTTTCCTTT
1 AACTTTAATGATCAAGATCTTTCCTTT
*
1535446 AACTTTAATGATTAAGATCTTTCCTTT
1 AACTTTAATGATCAAGATCTTTCCTTT
1535473 TACGTAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (27 bp):
AACTTTAATGATCAAGATCTTTCCTTT
Found at i:1537293 original size:4 final size:4
Alignment explanation
Indices: 1537284--1537332 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
1537274 TCAATGGAGT
* * * * *
1537284 TATA TATA TACA TACA TACA TACA TACA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
1537332 T
1 T
1537333 TTCGATGTGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (4 bp):
TATA
Found at i:1537332 original size:12 final size:12
Alignment explanation
Indices: 1537287--1537329 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
1537277 ATGGAGTTAT
1537287 ATATATACATAC
1 ATATATACATAC
*
1537299 ATACATACATAC
1 ATATATACATAC
* *
1537311 ATATATATATAT
1 ATATATACATAC
1537323 ATATATA
1 ATATATA
1537330 TATTTCGATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (12 bp):
ATATATACATAC
Found at i:1537776 original size:30 final size:30
Alignment explanation
Indices: 1537741--1537802 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
1537731 TAATTCTAAT
*
1537741 AACTTAAATATAACTCAAATTTAAAAAAAA
1 AACTTAAATATAACTCAAATTAAAAAAAAA
*
1537771 AACTTAAATTTAACTCAAATTAAAAAAAAA
1 AACTTAAATATAACTCAAATTAAAAAAAAA
1537801 AA
1 AA
1537803 TGTTTGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (30 bp):
AACTTAAATATAACTCAAATTAAAAAAAAA
Found at i:1542726 original size:21 final size:20
Alignment explanation
Indices: 1542688--1542731 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
1542678 GAAGAAAAAA
1542688 TTATTTATTATTATATTATAT
1 TTATTTATTATTATATTAT-T
*
1542709 TTATTTTTTATT-TAATTATT
1 TTATTTATTATTAT-ATTATT
1542729 TTA
1 TTA
1542732 CTAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTATTTATTATTATATTATT
Found at i:1545940 original size:21 final size:21
Alignment explanation
Indices: 1545916--1545966 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1545906 ATGTACAATA
1545916 GATCGATCCTTTATTAAAAGG
1 GATCGATCCTTTATTAAAAGG
*
1545937 GATCGATTCTTTATTAAAAGG
1 GATCGATCCTTTATTAAAAGG
1545958 GATCGATCC
1 GATCGATCC
1545967 CAAACTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (21 bp):
GATCGATCCTTTATTAAAAGG
Found at i:1547221 original size:21 final size:21
Alignment explanation
Indices: 1547196--1547251 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1547186 TACATATATC
*
1547196 ATCATCTACT-TTCTTAACATT
1 ATCATCTA-TATTATTAACATT
* *
1547217 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAACATT
*
1547238 ATCATC-ACATTATT
1 ATCATCTATATTATT
1547252 TATCACATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
ATCATCTATATTATTAACATT
Found at i:1547507 original size:23 final size:23
Alignment explanation
Indices: 1547481--1547571 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
1547471 CACCATAGCT
*
1547481 CGTATAAATGCACCGAAGTACCG
1 CGTAGAAATGCACCGAAGTACCG
* * *
1547504 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTACCG
* *
1547527 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTACCG
*
1547550 CGTAGAAATGCACCGTAGTACC
1 CGTAGAAATGCACCGAAGTACC
1547572 ATATAATAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.31, C:0.26, G:0.25, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTACCG
Found at i:1549216 original size:20 final size:23
Alignment explanation
Indices: 1549191--1549233 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1549181 CGATGCACTC
1549191 AACCC-AAAA-TC-CTCTTTTTG
1 AACCCAAAAATTCACTCTTTTTG
1549211 AACCCAAAAATTCACTCTTTTTG
1 AACCCAAAAATTCACTCTTTTTG
1549234 GATTAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 2 0.10
23 9 0.45
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (23 bp):
AACCCAAAAATTCACTCTTTTTG
Found at i:1552322 original size:21 final size:21
Alignment explanation
Indices: 1552297--1552352 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
1552287 TACATATATC
*
1552297 ATCATCTACT-TTCTTAACATT
1 ATCATCTA-TATTATTAACATT
* *
1552318 ATCATATATATTATTATCATT
1 ATCATCTATATTATTAACATT
*
1552339 ATCATC-ACATTATT
1 ATCATCTATATTATT
1552353 TATCACATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (21 bp):
ATCATCTATATTATTAACATT
Found at i:1552608 original size:23 final size:23
Alignment explanation
Indices: 1552582--1552626 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1552572 CACCACAGCT
* *
1552582 CGTATAAATGCACTGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
*
1552605 CGTAGAAATGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1552627 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1553055 original size:2 final size:2
Alignment explanation
Indices: 1553038--1553089 Score: 79
Period size: 2 Copynumber: 26.5 Consensus size: 2
1553028 ATACCAAATC
* *
1553038 AT AT AA AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1553079 AT AT AT AT AT A
1 AT AT AT AT AT A
1553090 GTTTATGCCA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1553095 original size:19 final size:19
Alignment explanation
Indices: 1553038--1553089 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 19
1553028 ATACCAAATC
* *
1553038 ATATAAATAAATATATA-T
1 ATATATATATATATATATT
1553056 ATATATATATATATATATT
1 ATATATATATATATATATT
1553075 ATATATATATATATA
1 ATATATATATATATA
1553090 GTTTATGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATATATATATATATT
Found at i:1554359 original size:16 final size:16
Alignment explanation
Indices: 1554338--1554369 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1554328 GATTAAATCC
1554338 TTCATATTCCTAACTT
1 TTCATATTCCTAACTT
1554354 TTCATATTCCTAACTT
1 TTCATATTCCTAACTT
1554370 ACATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCATATTCCTAACTT
Found at i:1557475 original size:46 final size:46
Alignment explanation
Indices: 1557408--1557529 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 46
1557398 TCCCAAATCT
* *
1557408 AAAATGACATGCCACATAAGTACAAACATGTCAGCGTAAGAATGTG
1 AAAATGATATGCCACATAAGTACAAACATGTCAACGTAAGAATGTG
* * * * *
1557454 AAAATGATTTGCCACAGAAGTACAGACATATCAACGTGAGAATGTG
1 AAAATGATATGCCACATAAGTACAAACATGTCAACGTAAGAATGTG
* * * *
1557500 CAAATGATCTCCCACATAAATACAAACATG
1 AAAATGATATGCCACATAAGTACAAACATG
1557530 CCACATAAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 62 1.00
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.20
Consensus pattern (46 bp):
AAAATGATATGCCACATAAGTACAAACATGTCAACGTAAGAATGTG
Found at i:1557535 original size:19 final size:19
Alignment explanation
Indices: 1557511--1557548 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1557501 AAATGATCTC
1557511 CCACATAAATACAAACATG
1 CCACATAAATACAAACATG
* *
1557530 CCACATAAGTACAGACATG
1 CCACATAAATACAAACATG
1557549 TCAGCGTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.26, G:0.11, T:0.16
Consensus pattern (19 bp):
CCACATAAATACAAACATG
Found at i:1557545 original size:65 final size:63
Alignment explanation
Indices: 1557463--1557592 Score: 170
Period size: 65 Copynumber: 2.0 Consensus size: 63
1557453 GAAAATGATT
* * *
1557463 TGCCACAGAAGTACAGACATATCAACGTGAGAATGTGCAAATGATCTCCCACATAAATACAAACA
1 TGCCACAGAAGTACAGACATATCAACGTAAAAATGTGCAAATGACCTCCCAC--AAATACAAACA
* * * * *
1557528 TGCCACATAAGTACAGACATGTCAGCGTAAAAATGTGCAAATGACCTTCCACAAGTACAAACA
1 TGCCACAGAAGTACAGACATATCAACGTAAAAATGTGCAAATGACCTCCCACAAATACAAACA
1557591 TG
1 TG
1557593 TTCCAAAACG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 12 0.21
65 45 0.79
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (63 bp):
TGCCACAGAAGTACAGACATATCAACGTAAAAATGTGCAAATGACCTCCCACAAATACAAACA
Found at i:1558122 original size:20 final size:18
Alignment explanation
Indices: 1558099--1558145 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
1558089 CGATATACCA
1558099 GGTAAAAATATGATAAAACC
1 GGTAAAAATA--ATAAAACC
1558119 GGTATCAAAATAATAAAACC
1 GGTA--AAAATAATAAAACC
1558139 GGTAAAA
1 GGTAAAA
1558146 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
20 16 0.64
22 6 0.24
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (18 bp):
GGTAAAAATAATAAAACC
Found at i:1558222 original size:181 final size:182
Alignment explanation
Indices: 1557887--1558359 Score: 714
Period size: 181 Copynumber: 2.6 Consensus size: 182
1557877 GATCCAAATT
* * * **
1557887 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
1557952 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
1558017 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
1558069 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATAATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
1558134 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
1558198 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * * *
1558250 AAAAATATATCGATCCACAATGATATAACATGTAAAAATATGATAAAACCGGTACCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
*
1558315 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
1558360 CGTAAGTACG
Statistics
Matches: 264, Mismatches: 27, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
181 166 0.63
182 98 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:1560778 original size:21 final size:21
Alignment explanation
Indices: 1560752--1560816 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1560742 AAGACAATCA
*
1560752 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
1560773 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1560794 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1560815 AG
1 AG
1560817 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1560892 original size:33 final size:33
Alignment explanation
Indices: 1560850--1560915 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1560840 AAATAGATGG
*
1560850 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1560883 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1560916 TATTAAGATG
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:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1562729 original size:19 final size:19
Alignment explanation
Indices: 1562705--1562753 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1562695 AATGTAGGGT
1562705 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1562724 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1562743 TAATTTTGTAT
1 TAATTTTGTAT
1562754 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1563569 original size:200 final size:200
Alignment explanation
Indices: 1562987--1563546 Score: 969
Period size: 200 Copynumber: 2.8 Consensus size: 200
1562977 AATTTACAAT
*
1562987 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1563052 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1563117 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
1563182 AATAA
196 AATAA
* *
1563187 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
1563252 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATAGC-AGTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGA-TTT
* *
1563316 TATGAGAGAATAGGTCTAAATAATATGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
* *
1563381 GATTGA
195 GAATAA
*
1563387 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
1563452 CTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACCAGTACAAGTATACCGATTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
1563517 ATGAGAGAATAGGTCTAAATAATGTATCGA
131 ATGAGAGAATAGGTCTAAATAATGTATCGA
1563547 AATTGTTTAA
Statistics
Matches: 338, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
200 337 1.00
201 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGATTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATAA
Found at i:1565073 original size:24 final size:24
Alignment explanation
Indices: 1565045--1565114 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
1565035 CAAGCGGTCA
*
1565045 ATGAAGATGAAGCTGACGATGAAG
1 ATGAAGATGAAGATGACGATGAAG
1565069 ATGAAGATGAAGATGACGATGAAG
1 ATGAAGATGAAGATGACGATGAAG
* *
1565093 ATGACGATGAAGATGATGATGA
1 ATGAAGATGAAGATGACGATGA
1565115 TCCAAACAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.43, C:0.06, G:0.33, T:0.19
Consensus pattern (24 bp):
ATGAAGATGAAGATGACGATGAAG
Found at i:1565115 original size:6 final size:6
Alignment explanation
Indices: 1565045--1565114 Score: 95
Period size: 6 Copynumber: 11.7 Consensus size: 6
1565035 CAAGCGGTCA
* * *
1565045 ATGAAG ATGAAG CTGACG ATGAAG ATGAAG ATGAAG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
1565093 ATGACG ATGAAG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGA
1565115 TCCAAACAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.43, C:0.06, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:1566633 original size:183 final size:183
Alignment explanation
Indices: 1566325--1566729 Score: 765
Period size: 183 Copynumber: 2.2 Consensus size: 183
1566315 CAAAGTTTTC
*
1566325 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATTTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
*
1566390 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
1566455 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
1566508 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
1566573 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
*
1566638 AACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1566691 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1566730 TATAATGTAC
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 216 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATATGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1566820 original size:120 final size:120
Alignment explanation
Indices: 1566607--1566850 Score: 443
Period size: 120 Copynumber: 2.0 Consensus size: 120
1566597 CGGAACCCAA
*
1566607 AATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
1566672 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
* * *
1566727 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
*
1566792 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
1566847 AATT
1 AATT
1566851 GAAGAAAAAT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (120 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAG
Found at i:1566967 original size:303 final size:303
Alignment explanation
Indices: 1566420--1567921 Score: 2808
Period size: 303 Copynumber: 5.0 Consensus size: 303
1566410 ACATCGGAAC
* * *
1566420 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
* *
1566485 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1566550 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
1566615 TGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
1566680 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
1566723 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
*
1566788 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATTGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1566853 AGAAAAATGTGTCGATACCTTGTCAAAAGGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
1566918 TGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
1566983 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
*
1567026 CCAGAATTATAATGTGCTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1567091 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1567156 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
1567221 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
1567286 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
* *
1567329 ACAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACC-GTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1567393 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1567458 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
1567523 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
1567588 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
1567631 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1567696 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
** *
1567761 AGAAAAATGTGTCGATACCTTGTCAAAAAGTAACGACATTTACACATCGGAACCCAGAATTATTA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
1567826 TGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGACTAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
1567891 AACCTATATCGACACTTTTTAATATTGTGTC
261 AACCTATATCGACACTTTTTAATTTTGTGTC
1567922 ACTAATTTTA
Statistics
Matches: 1172, Mismatches: 26, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
302 300 0.26
303 872 0.74
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:1567119 original size:120 final size:120
Alignment explanation
Indices: 1566906--1567152 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
1566896 ACATCGGAAC
*
1566906 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
1566971 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
** * * *
1567026 CCAGAATTATAATGTGCTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
1567091 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
1567146 CCAGAAT
1 CCAGAAT
1567153 GGAAGAAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1567434 original size:119 final size:120
Alignment explanation
Indices: 1567210--1567454 Score: 420
Period size: 119 Copynumber: 2.0 Consensus size: 120
1567200 CATCGGAACC
*
1567210 CAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCG
1 CAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGCG
*
1567275 AATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTA
66 AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTA
* * *
1567330 CAGAATTATAATGTACTAGATAATTTTGTAATATAACCAGTATAAGTATACC-GTTTTATTAGCG
1 CAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGCG
* *
1567394 AATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTC
66 AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTA
1567449 CAGAAT
1 CAGAAT
1567455 GGAAGAAAAA
Statistics
Matches: 118, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
119 69 0.58
120 49 0.42
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CAGAATTATAATGTAATAGATAATTTTGTAATATAACCAGTATAAATATACCGGTTTTATGAGCG
AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTA
Found at i:1567688 original size:605 final size:606
Alignment explanation
Indices: 1566420--1567921 Score: 2817
Period size: 605 Copynumber: 2.5 Consensus size: 606
1566410 ACATCGGAAC
* * *
1566420 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
* *
1566485 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1566550 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAAAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
1566615 TGTAATAGATAATTTTGTAATATAACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
1566680 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATTATAATGTACTAGAT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTACAGAATTATAATGTACTAGAT
*
1566745 AATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTC
326 AATTTTGTAATATAACCAGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTC
*
1566810 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATTGAAGAAAAATGTGTCGATACCTTG
391 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
*
1566875 TCAAAAGGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
456 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
1566940 TAACTGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
521 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
1567005 TTTTGTGTCGGTACTTTATGT
586 TTTTGTGTCGGTACTTTATGT
*
1567026 CCAGAATTATAATGTGCTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1567091 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1567156 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
1567221 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
1567286 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTACAGAATTATAATGTACTAGAT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTACAGAATTATAATGTACTAGAT
1567351 AATTTTGTAATATAACCAGTATAAGTATACC-GTTTTATTAGCGAATAGGTCTACAACCTATGTC
326 AATTTTGTAATATAACCAGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTC
1567415 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
391 GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
1567480 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
456 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
1567545 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
521 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
1567610 TTTTGTGTCGGTACTTTATGT
586 TTTTGTGTCGGTACTTTATGT
1567631 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1567696 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
** *
1567761 AGAAAAATGTGTCGATACCTTGTCAAAAAGTAACGACATTTACACATCGGAACCCAGAATTATTA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
1567826 TGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGAGCGACTAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
1567891 AACCTATATCGACACTTTTTAATATTGTGTC
261 AACCTATATCGACACTTTTTAATATTGTGTC
1567922 ACTAATTTTA
Statistics
Matches: 874, Mismatches: 22, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
605 529 0.61
606 345 0.39
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (606 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTACAGAATTATAATGTACTAGAT
AATTTTGTAATATAACCAGTATAAGTATACCGGTTTTATTAGCGAATAGGTCTACAACCTATGTC
GACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
TTTTGTGTCGGTACTTTATGT
Found at i:1567724 original size:120 final size:120
Alignment explanation
Indices: 1567511--1567757 Score: 449
Period size: 120 Copynumber: 2.1 Consensus size: 120
1567501 ACATCGGAAC
1567511 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1567576 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
1567631 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1567696 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
1567751 CCAGAAT
1 CCAGAAT
1567758 GGAAGAAAAA
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1570678 original size:23 final size:23
Alignment explanation
Indices: 1570647--1570719 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
1570637 ATAGGTAAAA
*
1570647 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1570670 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1570693 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1570716 ATAT
1 ATAT
1570720 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1571167 original size:23 final size:23
Alignment explanation
Indices: 1571136--1571208 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1571126 ATAGGTAAAA
* *
1571136 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
1571159 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
1571182 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
1571205 ATAT
1 ATAT
1571209 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:1571311 original size:489 final size:489
Alignment explanation
Indices: 1570461--1571610 Score: 2113
Period size: 489 Copynumber: 2.4 Consensus size: 489
1570451 GACCCAAATT
*
1570461 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
1570526 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTTCATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
*
1570591 AAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAATATGGACACTTTCAATATAATAGGTAAAAATATGATGT
*
1570656 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATATGTAGTGCTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
* *
1570721 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
* *
1570786 GGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
*
1570851 TTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
391 TTACGTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
1570916 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
456 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
1570950 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
*
1571015 ATATTGTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
1571080 AAAAGTATCGATCCTTTTTATAAAAAATATGGACACTTTCAATATAATAGGTAAAAATATGATGT
131 AAAAGTATCGATCCTTTTTATAAAAAATATGGACACTTTCAATATAATAGGTAAAAATATGATGT
*
1571145 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGTTTATATT
196 AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
*
1571210 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCAGTGTGGAAAACATTAATTTAA
261 GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
* *
1571275 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTT
326 GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
* * *
1571340 TTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAACATATATATTGCATATTTATTAT
391 TTACGTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
1571405 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
456 TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
1571439 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
1 AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
* *
1571504 ATATTGTAGGTGAAAAACATGAAACACTATT-AAAAAATTAAAACATAAATTACATAACTTTAAA
66 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
1571568 AAAAGTATCGATCCTTTTTATAAAAAAGTATGGACACTTTCAA
131 AAAAGTATCGATCCTTTTTATAAAAAA-TATGGACACTTTCAA
1571611 CATATTATAA
Statistics
Matches: 640, Mismatches: 20, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
488 59 0.09
489 581 0.91
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
AATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAA
AAAAGTATCGATCCTTTTTATAAAAAATATGGACACTTTCAATATAATAGGTAAAAATATGATGT
AATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATT
GTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATTAATTTAA
GGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATAGGCATCTAATGATTTATTTT
TTACGTTACGATATATATTATCATTAAATTAAAAACAATAAACATATATATTACATATTTATTAT
TATCTTTGGTTAATATTGTTAAATTTAAATTCTA
Found at i:1572592 original size:2 final size:2
Alignment explanation
Indices: 1572585--1572649 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
1572575 CTTGTTTGGG
1572585 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1572627 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
1572650 TAACACAAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1576428 original size:13 final size:13
Alignment explanation
Indices: 1576410--1576438 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1576400 AGGCTTGGGA
1576410 GGGGTTGTGCCCT
1 GGGGTTGTGCCCT
1576423 GGGGTTGTGCCCT
1 GGGGTTGTGCCCT
1576436 GGG
1 GGG
1576439 CCAGTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.21, G:0.52, T:0.28
Consensus pattern (13 bp):
GGGGTTGTGCCCT
Found at i:1578438 original size:21 final size:22
Alignment explanation
Indices: 1578404--1578446 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
1578394 GTCATAAAAT
1578404 CCTGTGGTGATGGCATC-GAAA
1 CCTGTGGTGATGGCATCTGAAA
* *
1578425 CCTGTTGTGGTGGCATCTGAAA
1 CCTGTGGTGATGGCATCTGAAA
1578447 TAGAGGTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (22 bp):
CCTGTGGTGATGGCATCTGAAA
Found at i:1578476 original size:21 final size:21
Alignment explanation
Indices: 1578414--1578488 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 21
1578404 CCTGTGGTGA
*
1578414 TGGCATC-GAAACCTGTTGTGG
1 TGGCATCTGAAA-CAGTTGTGG
* **
1578435 TGGCATCTGAAATAGAGGTGG
1 TGGCATCTGAAACAGTTGTGG
* *
1578456 TGGCGTTTGAAACAGTTGTGG
1 TGGCATCTGAAACAGTTGTGG
* *
1578477 AGCCATCTGAAA
1 TGGCATCTGAAA
1578489 TGGTTGCATC
Statistics
Matches: 40, Mismatches: 13, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
21 36 0.90
22 4 0.10
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (21 bp):
TGGCATCTGAAACAGTTGTGG
Found at i:1579632 original size:79 final size:79
Alignment explanation
Indices: 1579501--1579658 Score: 271
Period size: 79 Copynumber: 2.0 Consensus size: 79
1579491 TCGGCGAGGT
*
1579501 GACACAACCACATACAATGAACTTGGTTGCGAGATTTATCAGGCATCAAGATCCCTCATATGAGT
1 GACACAACCACATACAATGAACTTAGTTGCGAGATTTATCAGGCATCAAGATCCCTCATATGAGT
1579566 CGTAATATGCAAGC
66 CGTAATATGCAAGC
* ** *
1579580 GACACAACCACATATAATGAACTTAGTTGCGAGATTTATTGGGCATCAAGATCCCTCCTATGAGT
1 GACACAACCACATACAATGAACTTAGTTGCGAGATTTATCAGGCATCAAGATCCCTCATATGAGT
1579645 CGTAATATGCAAGC
66 CGTAATATGCAAGC
1579659 CCGGACAAAT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (79 bp):
GACACAACCACATACAATGAACTTAGTTGCGAGATTTATCAGGCATCAAGATCCCTCATATGAGT
CGTAATATGCAAGC
Found at i:1581957 original size:2 final size:2
Alignment explanation
Indices: 1581950--1581976 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1581940 CTTGTTTGTG
1581950 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 T
1581977 TATTGTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1585112 original size:2 final size:2
Alignment explanation
Indices: 1585107--1585134 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1585097 TTTTTCTTTA
1585107 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1585135 CATTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1586103 original size:2 final size:2
Alignment explanation
Indices: 1586047--1586085 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1586037 TTTAGTAATA
1586047 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1586086 GGGTTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1587316 original size:30 final size:28
Alignment explanation
Indices: 1587259--1587318 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 28
1587249 TACAATGATG
*
1587259 AGACTTAAACTAAAATCCTAAAATTTAA
1 AGACCTAAACTAAAATCCTAAAATTTAA
* *
1587287 AGACCTAAACCTATAAATCTTAAAGTTTAA
1 AGACCTAAA-CTA-AAATCCTAAAATTTAA
1587317 AG
1 AG
1587319 TATTAATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 8 0.30
29 3 0.11
30 16 0.59
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (28 bp):
AGACCTAAACTAAAATCCTAAAATTTAA
Found at i:1587409 original size:27 final size:29
Alignment explanation
Indices: 1587367--1587430 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
1587357 GCGATGAACT
*
1587367 AAATTAAAATAATTAAAAAAACAA-CAAA
1 AAATAAAAATAATTAAAAAAACAACCAAA
* *
1587395 TAATAAAAAT-ATTAAGAAAACAACCAAA
1 AAATAAAAATAATTAAAAAAACAACCAAA
1587423 AAATAAAA
1 AAATAAAA
1587431 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 12 0.39
28 19 0.61
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.17
Consensus pattern (29 bp):
AAATAAAAATAATTAAAAAAACAACCAAA
Found at i:1587431 original size:27 final size:26
Alignment explanation
Indices: 1587371--1587432 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
1587361 TGAACTAAAT
*
1587371 TAAAATAATTAAAAAAACAACAAATAA
1 TAAAAT-ATTAAAAAAACAACAAAAAA
*
1587398 TAAAAATATTAAGAAAACAACCAAAAAA
1 T-AAAATATTAAAAAAACAA-CAAAAAA
1587426 TAAAATA
1 TAAAATA
1587433 AAATAAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 19 0.61
28 12 0.39
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.18
Consensus pattern (26 bp):
TAAAATATTAAAAAAACAACAAAAAA
Found at i:1588181 original size:2 final size:2
Alignment explanation
Indices: 1588174--1588211 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1588164 CAAAGCTCAA
1588174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1588212 TCGAAACCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1589251 original size:21 final size:19
Alignment explanation
Indices: 1589212--1589253 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
1589202 AATGTAAAAT
*
1589212 GTGTATCGATACTGTTACA
1 GTGTATCGATACTGCTACA
1589231 GTGTATCGATACACTGCTACA
1 GTGTATCGAT--ACTGCTACA
1589252 GT
1 GT
1589254 AATTTCAGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (19 bp):
GTGTATCGATACTGCTACA
Found at i:1590341 original size:15 final size:16
Alignment explanation
Indices: 1590323--1590352 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1590313 CCACTATTAA
1590323 AAATAA-AAAATTATC
1 AAATAATAAAATTATC
1590338 AAATAATAAAATTAT
1 AAATAATAAAATTAT
1590353 TGGTAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATAATAAAATTATC
Found at i:1590686 original size:14 final size:14
Alignment explanation
Indices: 1590667--1590693 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1590657 AAATAAAAAT
1590667 ATAAAAAATATTTA
1 ATAAAAAATATTTA
1590681 ATAAAAAATATTT
1 ATAAAAAATATTT
1590694 TTTTATATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAAAAAATATTTA
Found at i:1595454 original size:84 final size:84
Alignment explanation
Indices: 1595345--1595515 Score: 306
Period size: 84 Copynumber: 2.0 Consensus size: 84
1595335 TGAGGTGATT
*
1595345 AAAGTGTAGTTGAACCTATAAAAAAATGATACTTGATGTTAATTCTAATTCGAATTGATCGAAAC
1 AAAGTGTAGTTGAACCTATAAAAAAATGATACTTGATGTTAATTCTAATTCGAATTGATCAAAAC
1595410 CAGACACAGATTAGCCTGG
66 CAGACACAGATTAGCCTGG
* *
1595429 AAAGTGTAGTTGAGCCTATAAAAAAATGATACTTGATGTTAATTCTAATTCGAGTTGATCAAAAC
1 AAAGTGTAGTTGAACCTATAAAAAAATGATACTTGATGTTAATTCTAATTCGAATTGATCAAAAC
*
1595494 CAGACACAGATTCGCCTGG
66 CAGACACAGATTAGCCTGG
1595513 AAA
1 AAA
1595516 ACAAGCAGCC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 83 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (84 bp):
AAAGTGTAGTTGAACCTATAAAAAAATGATACTTGATGTTAATTCTAATTCGAATTGATCAAAAC
CAGACACAGATTAGCCTGG
Found at i:1598064 original size:29 final size:30
Alignment explanation
Indices: 1598003--1598066 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
1597993 AATCCTACAT
*
1598003 ACCATGACCCTATTATAAACTCTAAACCCTAA
1 ACCATGACCCTATTAT--ACTCTAAACCATAA
*
1598035 ACCATTACCCTATTAT-CTCTAAACCATAA
1 ACCATGACCCTATTATACTCTAAACCATAA
1598064 ACC
1 ACC
1598067 TTAAATCCTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 15 0.50
32 15 0.50
ACGTcount: A:0.39, C:0.33, G:0.02, T:0.27
Consensus pattern (30 bp):
ACCATGACCCTATTATACTCTAAACCATAA
Found at i:1598636 original size:45 final size:45
Alignment explanation
Indices: 1598577--1598683 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
1598567 TATTAATACG
*
1598577 ATTAATAGTAATTAATACTTAATGCTTAAAATATTCAATACTATAT
1 ATTAATA-TAATTAATACTTAATGCTTAAAATATTAAATACTATAT
* * * * * *
1598623 ATTAATATAATTAAGATTTGATGTTTAAAGTATTAAATACTATTT
1 ATTAATATAATTAATACTTAATGCTTAAAATATTAAATACTATAT
1598668 ATTAATATAATTAATA
1 ATTAATATAATTAATA
1598684 GTGTTAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
45 46 0.87
46 7 0.13
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.44
Consensus pattern (45 bp):
ATTAATATAATTAATACTTAATGCTTAAAATATTAAATACTATAT
Found at i:1598987 original size:17 final size:17
Alignment explanation
Indices: 1598965--1599003 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1598955 TGAATCAAAT
1598965 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1598982 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1598999 -AATTA
1 TAATTA
1599004 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:1601097 original size:2 final size:2
Alignment explanation
Indices: 1601090--1601125 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1601080 TACTTATTTG
* *
1601090 AT AT AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1601126 GACGGACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1606708 original size:17 final size:17
Alignment explanation
Indices: 1606668--1606702 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1606658 GCGTGAAAGA
1606668 ACAAATTTTTGCAAACC
1 ACAAATTTTTGCAAACC
1606685 ACAAATTTTTGCAAACC
1 ACAAATTTTTGCAAACC
1606702 A
1 A
1606703 AGAATTACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.29
Consensus pattern (17 bp):
ACAAATTTTTGCAAACC
Found at i:1607290 original size:21 final size:21
Alignment explanation
Indices: 1607251--1607291 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1607241 AGAAGTTTTA
* * *
1607251 TCTCGCTTGAGATAGTTTCTG
1 TCTCACTTGAGACAATTTCTG
1607272 TCTCACTTGAGACAATTTCT
1 TCTCACTTGAGACAATTTCT
1607292 CTCGAAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TCTCACTTGAGACAATTTCTG
Found at i:1607308 original size:58 final size:58
Alignment explanation
Indices: 1607209--1607324 Score: 153
Period size: 58 Copynumber: 2.0 Consensus size: 58
1607199 CAAGAACAAA
* * * * *
1607209 TTCTGTCTCACCTGAGACAATCTCCTTGAAATAGAAGTTTTATCTCGCTTGAGATAGT
1 TTCTGTCTCACCTGAGACAATCTCCTCGAAACAGAAATTTTATCTCACTGGAGATAGT
* *
1607267 TTCTGTCTCACTTGAGACAATTTCTCTCGAAACA-AAATTTTATCTCACTGGAGATAGT
1 TTCTGTCTCACCTGAGACAATCTC-CTCGAAACAGAAATTTTATCTCACTGGAGATAGT
1607325 CTTTCGACAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 43 0.86
59 7 0.14
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (58 bp):
TTCTGTCTCACCTGAGACAATCTCCTCGAAACAGAAATTTTATCTCACTGGAGATAGT
Found at i:1607446 original size:77 final size:75
Alignment explanation
Indices: 1607270--1607487 Score: 250
Period size: 75 Copynumber: 2.9 Consensus size: 75
1607260 AGATAGTTTC
* * *
1607270 TGTCTCACTTGAGACA-ATTTCTCTCGAAACAAAATTTTATCTCACTGGAGATAGTCTTTC--GA
1 TGTCTCACTCGAGACAGA-TTCTCTCGAAAC-AAA-TTTATCTCACTTGAGATAGTTTTTCTTGA
*
1607332 CAAAATCAATTTT
63 AAAAATCAATTTT
*
1607345 TGTCTCACTCGAGACAG-TTCCTCTCAAAAACAGAATCTTATCTCACTTGAGATAGTTTTTCTTG
1 TGTCTCACTCGAGACAGATT-CTCTC-GAAACA-AAT-TTATCTCACTTGAGATAGTTTTTCTTG
1607409 AAAAAAT-AATTTT
62 AAAAAATCAATTTT
* *
1607422 TGTTTCACTCGAGACAGATTCTCTCGAAACAAATTTCATCTCGCTTGAGATA-TTTTTCCTTGAA
1 TGTCTCACTCGAGACAGATTCTCTCGAAACAAATTT-ATCTCACTTGAGATAGTTTTT-CTTGAA
1607486 AA
64 AA
1607488 TTTGTCTCAC
Statistics
Matches: 125, Mismatches: 8, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
74 9 0.07
75 47 0.38
76 33 0.26
77 27 0.22
78 9 0.07
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (75 bp):
TGTCTCACTCGAGACAGATTCTCTCGAAACAAATTTATCTCACTTGAGATAGTTTTTCTTGAAAA
AATCAATTTT
Done.