Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 26 of 27
Found at i:5729522 original size:19 final size:19
Alignment explanation
Indices: 5729498--5729545 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
5729488 TCTACAGTTG
5729498 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
5729517 TCGTTGCGATTTTCCAAAT
1 TCGTTGCGATTTTCCAAAT
5729536 TCGTTGCGAT
1 TCGTTGCGAT
5729546 AGTCTACAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (19 bp):
TCGTTGCGATTTTCCAAAT
Found at i:5729689 original size:6 final size:6
Alignment explanation
Indices: 5729678--5729711 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
5729668 GAAGACACGT
5729678 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACC
5729712 CGAGACGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.50, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:5730211 original size:5 final size:5
Alignment explanation
Indices: 5730193--5730228 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
5730183 CCGCCGTCGC
*
5730193 CGTC- CGTCT CGTCT AGTCT CGTCT CGTCT CGTCT CG
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CG
5730229 GGTCGTGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.03, C:0.39, G:0.22, T:0.36
Consensus pattern (5 bp):
CGTCT
Found at i:5730398 original size:18 final size:18
Alignment explanation
Indices: 5730375--5730420 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
5730365 ACTGTAGACT
5730375 ATCGCAACAAAATGGAAA
1 ATCGCAACAAAATGGAAA
*
5730393 ATCGCAACGCGAAATGGAAA
1 ATCGCAA--CAAAATGGAAA
*
5730413 ATCACAAC
1 ATCGCAAC
5730421 GCGAAATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 8 0.33
20 16 0.67
ACGTcount: A:0.50, C:0.22, G:0.17, T:0.11
Consensus pattern (18 bp):
ATCGCAACAAAATGGAAA
Found at i:5730409 original size:20 final size:20
Alignment explanation
Indices: 5730384--5730428 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
5730374 TATCGCAACA
*
5730384 AAATGGAAAATCGCAACGCG
1 AAATGGAAAATCACAACGCG
5730404 AAATGGAAAATCACAACGCG
1 AAATGGAAAATCACAACGCG
5730424 AAATG
1 AAATG
5730429 CAACGCGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.49, C:0.18, G:0.22, T:0.11
Consensus pattern (20 bp):
AAATGGAAAATCACAACGCG
Found at i:5730502 original size:22 final size:22
Alignment explanation
Indices: 5730474--5730567 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 22
5730464 AATTTGCAAA
5730474 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
5730496 ATCGCAACAACACCTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
5730518 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
5730537 ATCGCAACGACAACTGTAGGCT
1 ATCGCAACGACAACTGTAGACT
5730559 ATCGCAACG
1 ATCGCAACG
5730568 CGAAATGAAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
19 13 0.23
20 1 0.02
21 2 0.04
22 40 0.71
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:5730578 original size:41 final size:42
Alignment explanation
Indices: 5730496--5730587 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
5730486 ACTGTAGACT
* * *
5730496 ATCGCAACAACACCTGTAGACTATCGCAACGAATTTGG-AAA
1 ATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAA
*
5730537 ATCGCAACGACAACTGTAGGCTATCGCAACGCGAA-AT-GAAAA
1 ATCGCAACGACAACTGTAGACTATCGCAA--CGAATATGGAAAA
5730579 ATCGCAACG
1 ATCGCAACG
5730588 CGATTTTCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
41 27 0.61
42 13 0.30
43 4 0.09
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (42 bp):
ATCGCAACGACAACTGTAGACTATCGCAACGAATATGGAAAA
Found at i:5730619 original size:21 final size:21
Alignment explanation
Indices: 5730557--5730619 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
5730547 CAACTGTAGG
5730557 CTATCGCAACGCGAAATG-AA
1 CTATCGCAACGCGAAATGCAA
** ** *
5730577 AAATCGCAACGCGATTTTCAA
1 CTATCGCAACGCGAAATGCAA
*
5730598 CTATCGCAATGCGAAATGCAA
1 CTATCGCAACGCGAAATGCAA
5730619 C
1 C
5730620 GCGAATTTGC
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
20 13 0.42
21 18 0.58
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (21 bp):
CTATCGCAACGCGAAATGCAA
Found at i:5730787 original size:23 final size:23
Alignment explanation
Indices: 5730757--5730812 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
5730747 TTATTTTCTC
*
5730757 TACATTATATAAACGCTACCTAT
1 TACATTATATAAACGATACCTAT
*
5730780 TACATTATATAACCGATACCTAT
1 TACATTATATAAACGATACCTAT
*
5730803 TACATGATAT
1 TACATTATAT
5730813 TTTTACCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
TACATTATATAAACGATACCTAT
Found at i:5730864 original size:22 final size:22
Alignment explanation
Indices: 5730830--5730874 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5730820 TATTATATTG
* *
5730830 AAAGTATCTATACTTTTTATAA
1 AAAGGATCGATACTTTTTATAA
*
5730852 AAAGGATCGATACTTTTTTTAA
1 AAAGGATCGATACTTTTTATAA
5730874 A
1 A
5730875 GTTATGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (22 bp):
AAAGGATCGATACTTTTTATAA
Found at i:5731255 original size:23 final size:23
Alignment explanation
Indices: 5731229--5731301 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
5731219 ATATTTTACA
*
5731229 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
5731252 ATATAAACGTTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
5731275 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
5731298 ATAT
1 ATAT
5731302 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:5731713 original size:21 final size:21
Alignment explanation
Indices: 5731675--5731714 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
5731665 TTTCACAGTG
* *
5731675 AAAAAAGTATGGACACTTTTA
1 AAAAAAGGATAGACACTTTTA
*
5731696 AAAAAAGGATAGATACTTT
1 AAAAAAGGATAGACACTTT
5731715 ACAATATAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (21 bp):
AAAAAAGGATAGACACTTTTA
Found at i:5731753 original size:23 final size:23
Alignment explanation
Indices: 5731718--5731790 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
5731708 ATACTTTACA
* *
5731718 ATATAATCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
5731741 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
5731764 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
5731787 ATAT
1 ATAT
5731791 TTTTACCTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:5732175 original size:488 final size:489
Alignment explanation
Indices: 5730757--5732698 Score: 3333
Period size: 489 Copynumber: 4.0 Consensus size: 489
5730747 TTATTTTCTC
* * *
5730757 TACATTATATAAACGCTACCTATTACATTATATAACCGATACCTATTACATGATATTTTTACCTA
1 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
* *
5730822 TTATATTGAAAGTATCTATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
66 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
5730887 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
131 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
* * *
5730952 TACACAAAAAATAATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAAAA
196 TACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
*
5731017 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAAT
261 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAAT
* * * *
5731082 ATATATCGCAACGTAACAAATAAATCATTAGACGCCTATAATTACTAAATTAATATTTTAAAACT
326 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
* *
5731147 CACTCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGGCACTTTTATAAAA
391 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
* *
5731212 AGAATAGATATTTTACAATATAAGCACTACCTAT
456 AGAATAGATACTTTACAATATAAACACTACCTAT
*
5731246 TACATTATATAAACGTTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
1 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
* *
5731311 TTATATTGAAAGTGTTCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAATTATGTAATTT
66 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
* *
5731376 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTAATT
131 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
5731441 TACACAAAAAATTATTTGATTGTTTTGATATTTTTATAAAATATTATTTAGAATTTAAATTTAAC
196 TACACAAAAAATTATTTGATTGTTTTGATA-TTTTATAAAATAATATTTAGAATTTAAATTTAAC
* * *
5731506 AATATTAACCAAAGATAATAATAAATATGTAATATAAATGTTTA-TTGTTTTAAATTAATAATAA
260 AATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAA
*
5731570 TATATACCGTAACGTAAAAAATAAATCATTAGATGCCTATAATTACTAAATTAATATCTTAAAAC
325 TATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAAC
* *
5731635 TCACTCAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATGGACACTTTTAAAAA
390 TCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAA
* *
5731700 AAGGATAGATACTTTACAATATAATCACTACCTAT
455 AAGAATAGATACTTTACAATATAAACACTACCTAT
5731735 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
1 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
* *
5731800 TTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTATTTTAAAGTTATGTAATTT
66 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
5731865 ATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
131 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
5731929 TGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
196 TACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
* *
5731994 ATATTAACCAAAGATAATAATAAATATGTAATATTTATGTTTATTTTTTTTAATTTAATGATAAT
261 ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAAT
* ** * * *
5732059 ATATACCGTAACATAAAAAATAAATCATTAGATACATATAATTATTAAATTGATATCTTAAAACT
326 ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
5732124 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
391 CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
5732189 ATG-ATAGATACTTTACAATATAAACACTACCTAT
456 A-GAATAGATACTTTACAATATAAACACTACCTAT
5732223 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
1 TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
*
5732288 TTATATTGAAAGTGTCTATACTTTTTATAAAAAGGATCGATACTTTTTTTTTAAAGTTATGTAAT
66 TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC--TTTTTTTAAAGTTATGTAAT
*
5732353 TTATGTTTCAATTTTTTTTAAAAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
129 TTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
5732418 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTAT---A-AA-ATTTAGAATTTAAATTTA
193 ATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTA
* * *
5732478 ACAATATTAACTAAAGATAATAATAAATATGTAATATATATTTTTATTATTTTTAATTTAATAAT
258 ACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAAT
*
5732543 AATATATACCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
323 AATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAA
* *
5732608 ACTCACACAAAAGATAACCTTAAATTAATGTTTTTCACAGTGAAAAAAGTATGGACACTTTTATA
388 ACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATA
5732673 AAAAGAATAGATACTTTACAATATAA
453 AAAAGAATAGATACTTTACAATATAA
5732699 CATGTAAAAA
Statistics
Matches: 1376, Mismatches: 69, Indels: 18
0.94 0.05 0.01
Matches are distributed among these distances:
486 1 0.00
487 298 0.22
488 362 0.26
489 520 0.38
490 106 0.08
492 89 0.06
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (489 bp):
TACATTATATAAACGCTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA
TTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTT
ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
TACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACA
ATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTTTTTTTAATTTAATAATAAT
ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACT
CACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAA
AGAATAGATACTTTACAATATAAACACTACCTAT
Found at i:5732236 original size:23 final size:23
Alignment explanation
Indices: 5732206--5732278 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
5732196 ATACTTTACA
*
5732206 ATATAAACACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
5732229 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
5732252 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
5732275 ATAT
1 ATAT
5732279 TTTTACCTAT
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:0.40, C:0.22, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:5738693 original size:23 final size:23
Alignment explanation
Indices: 5738667--5738724 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
5738657 TAAGCTACCA
5738667 AAAGACAGAGAAAAACATGCCAC
1 AAAGACAGAGAAAAACATGCCAC
* * * *
5738690 AAAGACAGAGATAAACGTGTCAT
1 AAAGACAGAGAAAAACATGCCAC
*
5738713 AAAGATAGAGAA
1 AAAGACAGAGAA
5738725 CATGTCACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.55, C:0.14, G:0.21, T:0.10
Consensus pattern (23 bp):
AAAGACAGAGAAAAACATGCCAC
Found at i:5739378 original size:20 final size:19
Alignment explanation
Indices: 5739331--5739369 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
5739321 ATGACCAACA
*
5739331 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
5739350 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
5739369 A
1 A
5739370 GTATCGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.23
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:5739476 original size:20 final size:20
Alignment explanation
Indices: 5739453--5739603 Score: 155
Period size: 20 Copynumber: 7.4 Consensus size: 20
5739443 GAATATGTAA
5739453 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
**
5739473 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
*
5739493 AATCACAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
* **
5739514 ATCACAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
5739534 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
**
5739555 ATCGCAACGCGATAAT-ACAT
1 ATCGCAACGCGATTCTGAC-T
5739575 AATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
5739596 ATCGCAAC
1 ATCGCAAC
5739604 ATGATAATAC
Statistics
Matches: 108, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
19 6 0.06
20 53 0.49
21 43 0.40
22 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:5739503 original size:21 final size:21
Alignment explanation
Indices: 5739452--5739623 Score: 135
Period size: 20 Copynumber: 8.4 Consensus size: 21
5739442 CGAATATGTA
**
5739452 AATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
5739473 -ATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
* **
5739493 AATCACAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
*
5739514 -ATCACAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
**
5739534 AATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
5739555 -ATCGCAACGCGATAATACAT
1 AATCGCAACGCGATAATACAT
**
5739575 AATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
** *
5739596 -ATCGCAACATGATAATACAA
1 AATCGCAACGCGATAATACAT
5739616 AATCGCAA
1 AATCGCAA
5739624 TACGATTTTC
Statistics
Matches: 121, Mismatches: 19, Indels: 22
0.75 0.12 0.14
Matches are distributed among these distances:
19 8 0.07
20 57 0.47
21 50 0.41
22 6 0.05
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATAATACAT
Found at i:5739630 original size:41 final size:41
Alignment explanation
Indices: 5739452--5739623 Score: 299
Period size: 41 Copynumber: 4.2 Consensus size: 41
5739442 CGAATATGTA
5739452 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
* *
5739493 AATCACAACGCGATTCTGACTATCACAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
5739534 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
** *
5739575 AATCGCAACGCGATTCTGACTATCGCAACATGATAATACAA
1 AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
5739616 AATCGCAA
1 AATCGCAA
5739624 TACGATTTTC
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (41 bp):
AATCGCAACGCGATTCTGACTATCGCAACGCGATAATACAT
Found at i:5739799 original size:22 final size:22
Alignment explanation
Indices: 5739774--5739824 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
5739764 CTACGGTGAC
5739774 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
5739796 ATCCGTCCCCATCTCTGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
5739818 ATCCGTC
1 ATCCGTC
5739825 TATCTCTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:5740849 original size:14 final size:14
Alignment explanation
Indices: 5740830--5740866 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
5740820 GCTAGTTTAA
5740830 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
5740844 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
5740858 TTGATTTGT
1 TTGATTTGT
5740867 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:5741011 original size:20 final size:20
Alignment explanation
Indices: 5740986--5741063 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 20
5740976 AGGTACACTT
*
5740986 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
5741006 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
*
5741026 TCGCAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
* * *
5741046 ACGCAACGTGAAAGTCAA
1 TCGCAACGCGAAACTCAA
5741064 TTCGCATTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:5741030 original size:40 final size:40
Alignment explanation
Indices: 5740986--5741063 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
5740976 AGGTACACTT
* * *
5740986 TCGCAACGCTAAA-CTCAAAATCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAAGC-CAAAAACGCAACGCGAAAGTCAAAA
* *
5741026 TCGCAATGCGAAAGCCAAAAACGCAACGTGAAAGTCAA
1 TCGCAACGCGAAAGCCAAAAACGCAACGCGAAAGTCAA
5741064 TTCGCATTGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.45, C:0.24, G:0.18, T:0.13
Consensus pattern (40 bp):
TCGCAACGCGAAAGCCAAAAACGCAACGCGAAAGTCAAAA
Found at i:5741127 original size:20 final size:20
Alignment explanation
Indices: 5741102--5741168 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
5741092 GCGATTTTCT
5741102 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
5741122 CGTTGCGAT--TCAAATTCA
1 CGTTGCGATAGTCAAATTCG
*
5741140 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
5741160 CGTTGCGAT
1 CGTTGCGAT
5741169 TTTTGAGTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 16 0.39
20 25 0.61
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:5741180 original size:14 final size:14
Alignment explanation
Indices: 5741161--5741193 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
5741151 TCAAATTCGC
5741161 GTTGCGATTTTTGA
1 GTTGCGATTTTTGA
5741175 GTTGCGATTTTTGA
1 GTTGCGATTTTTGA
5741189 GTTGC
1 GTTGC
5741194 AATAGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTGCGATTTTTGA
Found at i:5741446 original size:140 final size:140
Alignment explanation
Indices: 5741194--5741477 Score: 532
Period size: 140 Copynumber: 2.0 Consensus size: 140
5741184 TTTGAGTTGC
*
5741194 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACATATC
1 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATC
* *
5741259 ATAGCAATGTTCAAACTTAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 ATAGCAATGATCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
5741324 AAATACACAT
131 AAATACACAT
5741334 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATC
1 AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATC
5741399 ATAGCAATGATCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 ATAGCAATGATCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
*
5741464 AAATACATAT
131 AAATACACAT
5741474 AATA
1 AATA
5741478 CAACGTTTGC
Statistics
Matches: 140, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 140 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (140 bp):
AATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATC
ATAGCAATGATCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
AAATACACAT
Found at i:5741558 original size:18 final size:18
Alignment explanation
Indices: 5741535--5741569 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5741525 AAGCCGGTTG
*
5741535 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
5741553 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
5741570 ACCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:5743233 original size:30 final size:29
Alignment explanation
Indices: 5743169--5743253 Score: 127
Period size: 29 Copynumber: 2.9 Consensus size: 29
5743159 GTAAACACCA
* *
5743169 TTTTTCAACACCAACACCTACCACCCCAT
1 TTTTTCAACACCAACACCCATCACCCCAT
*
5743198 TTTTTCAACACCAACACCCATCATCCCATT
1 TTTTTCAACACCAACACCCATCACCCCA-T
5743228 TTTTTCAACACCAAC-CCCATCACCCC
1 TTTTTCAACACCAACACCCATCACCCC
5743254 TTGTTCCCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 35 0.69
30 16 0.31
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (29 bp):
TTTTTCAACACCAACACCCATCACCCCAT
Found at i:5746051 original size:24 final size:24
Alignment explanation
Indices: 5745973--5746052 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
5745963 CTGAAACATC
* *
5745973 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAATTCCGGGTATTGACCAAG
*
5745997 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAATTCCGGGTATTGACCAAG
*
5746021 ATCAAATTCCGGGTATTGACGAAG
1 ATCAAATTCCGGGTATTGACCAAG
5746045 ATCAAATT
1 ATCAAATT
5746053 TCGAATACTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (24 bp):
ATCAAATTCCGGGTATTGACCAAG
Found at i:5746064 original size:24 final size:24
Alignment explanation
Indices: 5745973--5746064 Score: 76
Period size: 24 Copynumber: 3.8 Consensus size: 24
5745963 CTGAAACATC
* * *
5745973 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAATTCCGAATACTGACCAAG
* ** *
5745997 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAATTCCGAATACTGACCAAG
** * *
5746021 ATCAAATTCCGGGTATTGACGAAG
1 ATCAAATTCCGAATACTGACCAAG
*
5746045 ATCAAATTTCGAATACTGAC
1 ATCAAATTCCGAATACTGAC
5746065 TAGTACTCAC
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (24 bp):
ATCAAATTCCGAATACTGACCAAG
Found at i:5746891 original size:20 final size:20
Alignment explanation
Indices: 5746866--5746911 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
5746856 TTGAAATTCA
5746866 GCGTTGCGACAGTCAAAATC
1 GCGTTGCGACAGTCAAAATC
* **
5746886 GCGTTGCGATAGTCAGGATC
1 GCGTTGCGACAGTCAAAATC
5746906 GCGTTG
1 GCGTTG
5746912 TGAATCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.24
Consensus pattern (20 bp):
GCGTTGCGACAGTCAAAATC
Found at i:5751241 original size:2 final size:2
Alignment explanation
Indices: 5751234--5751258 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5751224 AGGCAGAAGG
5751234 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 A
5751259 AATTAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5761337 original size:13 final size:13
Alignment explanation
Indices: 5761319--5761343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5761309 TTCTAGAAAT
5761319 AAAAACAGAAAAC
1 AAAAACAGAAAAC
5761332 AAAAACAGAAAA
1 AAAAACAGAAAA
5761344 TATTTTCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAACAGAAAAC
Found at i:5761772 original size:21 final size:21
Alignment explanation
Indices: 5761748--5761794 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5761738 ATTCTGACTA
5761748 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
5761769 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
5761790 TCGCA
1 TCGCA
5761795 ACGCGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:5761815 original size:20 final size:20
Alignment explanation
Indices: 5761790--5761882 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
5761780 TTTTCCTAAT
5761790 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
* *
5761810 TCGCAACACGATTACGTAAA
1 TCGCAACGCGAATACGTAAA
* *
5761830 TCGCAACACGATTACGTAAA
1 TCGCAACGCGAATACGTAAA
*
5761850 TCGCAATGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
*
5761870 TCGCAATGCGAAT
1 TCGCAACGCGAAT
5761883 CTGACTATCG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.19
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:5762103 original size:22 final size:22
Alignment explanation
Indices: 5762078--5762139 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
5762068 GGCGACATCC
5762078 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5762100 GTCCCCA----CGACGATAA-CA
1 GTCCCCATCTCCGACGA-AATCA
* *
5762118 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
5762140 TTCACGGTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
21 2 0.06
22 14 0.44
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.18
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:5762496 original size:20 final size:20
Alignment explanation
Indices: 5762471--5762519 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
5762461 CAACGAGTGA
5762471 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
5762491 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
5762511 ATCGCAACG
1 ATCGCAACG
5762520 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:5762618 original size:20 final size:20
Alignment explanation
Indices: 5762595--5762632 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5762585 TGCGATAGTT
*
5762595 ATTTTCGTGTTGCGATTTTC
1 ATTTTCATGTTGCGATTTTC
5762615 ATTTTCATGTTGCGATTT
1 ATTTTCATGTTGCGATTT
5762633 AAAGTTTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.18, T:0.55
Consensus pattern (20 bp):
ATTTTCATGTTGCGATTTTC
Found at i:5762640 original size:20 final size:20
Alignment explanation
Indices: 5762597--5762641 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
5762587 CGATAGTTAT
* ** *
5762597 TTTCGTGTTGCGATTTTCAT
1 TTTCATGTTGCGATTTAAAG
5762617 TTTCATGTTGCGATTTAAAG
1 TTTCATGTTGCGATTTAAAG
5762637 TTTCA
1 TTTCA
5762642 GAAACTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (20 bp):
TTTCATGTTGCGATTTAAAG
Found at i:5764125 original size:6 final size:6
Alignment explanation
Indices: 5764114--5764161 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
5764104 TCTCCATGTT
5764114 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC
5764162 GGGATGAGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.67, G:0.00, T:0.17
Consensus pattern (6 bp):
CTCCAC
Found at i:5764568 original size:20 final size:20
Alignment explanation
Indices: 5764543--5764706 Score: 205
Period size: 20 Copynumber: 8.5 Consensus size: 20
5764533 AGAATAGTTT
*
5764543 ACTATCGCAATGCGGAAATG
1 ACTATCGCAATGCGAAAATG
* * *
5764563 ACTATCGTAACGCAAAAATG
1 ACTATCGCAATGCGAAAATG
*
5764583 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
5764599 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
5764617 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
5764637 ACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATG
5764657 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
5764677 ACTATTGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
5764697 ACTATCGCAA
1 ACTATCGCAA
5764707 CGAAAGAATC
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
14 7 0.06
16 4 0.03
17 4 0.03
18 3 0.02
20 106 0.85
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:5764635 original size:54 final size:54
Alignment explanation
Indices: 5764546--5764744 Score: 229
Period size: 54 Copynumber: 3.6 Consensus size: 54
5764536 ATAGTTTACT
* * * * *
5764546 ATCGCAATGCGGAAATGACTATCGTAACGCAAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
*
5764600 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGTGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
* **
5764658 CTATCGCAATGCGAAAATGACTATTGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
5764714 ATCGCAATGC-AAAATGAAAATCGCATTGCGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGA
5764745 TTCTCTCGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
53 17 0.14
54 53 0.42
56 3 0.02
57 5 0.04
58 3 0.02
60 44 0.35
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:5764655 original size:40 final size:40
Alignment explanation
Indices: 5764543--5764744 Score: 205
Period size: 40 Copynumber: 5.4 Consensus size: 40
5764533 AGAATAGTTT
* * * *
5764543 ACTATCGCAATGCGGAAATGACTATCGTAACGCAAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
5764583 ACTATCGCAA--CG-AGA-GA--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
*
5764617 ACTATCGCAATGCGAAAATGACTATCGCAATGTGAAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
* **
5764657 ACTATCGCAATGCGAAAATGACTATTGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
5764697 ACTATCGCAA--CG-AAA-GA--ATCGCAATGC-AAAATG
1 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
** *
5764730 AAAATCGCATTGCGA
1 ACTATCGCAATGCGA
5764745 TTCTCTCGTT
Statistics
Matches: 137, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
33 11 0.08
34 33 0.24
35 2 0.01
36 6 0.04
37 7 0.05
38 6 0.04
40 72 0.53
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.20
Consensus pattern (40 bp):
ACTATCGCAATGCGAAAATGACTATCGCAATGCGAAAATG
Found at i:5764796 original size:20 final size:20
Alignment explanation
Indices: 5764751--5764799 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
5764741 GCGATTCTCT
5764751 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
5764771 CATTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAAATT-CG
5764791 CGTTGCGAT
1 CGTTGCGAT
5764800 TTTGTTGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:5764865 original size:20 final size:20
Alignment explanation
Indices: 5764840--5764926 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
5764830 GATTCTCTCG
*
5764840 TTGCGATAGTCAAATTT-GCA
1 TTGCGATAGTC-ATTTTCGCA
5764860 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
5764880 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
5764900 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
5764920 TTGCGAT
1 TTGCGAT
5764927 TTTAAGTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
19 4 0.06
20 58 0.94
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:5766888 original size:14 final size:14
Alignment explanation
Indices: 5766869--5766904 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5766859 ATTGTTTAAT
5766869 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
5766883 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
5766897 TGATTTGT
1 TGATTTGT
5766905 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5767066 original size:19 final size:19
Alignment explanation
Indices: 5767039--5767145 Score: 134
Period size: 19 Copynumber: 5.8 Consensus size: 19
5767029 GCAACGAGAG
5767039 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5767058 AATCACAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
5767077 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
5767096 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
5767110 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
* *
5767130 AATTGCAACGCGAAAT
1 AATCGCAATGCGAAAT
5767146 TAGTTTCGCG
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
14 8 0.11
16 5 0.07
17 2 0.03
18 3 0.04
19 48 0.63
20 10 0.13
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:5767090 original size:38 final size:33
Alignment explanation
Indices: 5767006--5767132 Score: 121
Period size: 38 Copynumber: 3.6 Consensus size: 33
5766996 AAAACAGACT
* ** *
5767006 ATCGCAACGCGGAAATGACTATCGCAACGAGA-GA
1 ATCGCAATGC-GAAATGAAAATCACAACGA-ATGA
5767040 ATCGCAATGCGAAATGAAAATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAAATCACAA--CG-AATG--A
* *
5767078 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCACAACGAATGA
5767111 ATCGCAATGCGAAAATGAAAAT
1 ATCGCAATGCG-AAATGAAAAT
5767133 TGCAACGCGA
Statistics
Matches: 80, Mismatches: 6, Indels: 14
0.80 0.06 0.14
Matches are distributed among these distances:
33 25 0.31
34 19 0.24
35 6 0.08
36 4 0.05
38 26 0.32
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCACAACGAATGA
Found at i:5767193 original size:33 final size:33
Alignment explanation
Indices: 5767149--5767229 Score: 117
Period size: 33 Copynumber: 2.4 Consensus size: 33
5767139 GCGAAATTAG
**
5767149 TTTCGCGTTGCGATTCACTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCACTCGTTGCGATAGTCA
* *
5767182 TTTCGCATTGCGATTCTCTCGTTGCGATAGTCA
1 TTTCGCGTTGCGATTCACTCGTTGCGATAGTCA
5767215 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
5767230 AGTCAATTCC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 32 0.76
34 10 0.24
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCACTCGTTGCGATAGTCA
Found at i:5767226 original size:20 final size:20
Alignment explanation
Indices: 5767201--5767289 Score: 135
Period size: 20 Copynumber: 4.5 Consensus size: 20
5767191 GCGATTCTCT
5767201 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
5767221 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
5767241 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
5767261 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
5767281 CGTTGCGAT
1 CGTTGCGAT
5767290 TTCCGCGTTG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 60 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:5769603 original size:24 final size:24
Alignment explanation
Indices: 5769576--5769622 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
5769566 CAAAATCCGA
5769576 GTATTGACCAAGATCAAAGTTCGG
1 GTATTGACCAAGATCAAAGTTCGG
*
5769600 GTATTGACCAAGATCAAATTTCG
1 GTATTGACCAAGATCAAAGTTCG
5769623 AATACTGACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (24 bp):
GTATTGACCAAGATCAAAGTTCGG
Found at i:5769631 original size:24 final size:24
Alignment explanation
Indices: 5769580--5769631 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
5769570 ATCCGAGTAT
** *
5769580 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
*
5769604 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
5769628 TGAC
1 TGAC
5769632 TAGTACTCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:5770461 original size:20 final size:19
Alignment explanation
Indices: 5770440--5770594 Score: 175
Period size: 20 Copynumber: 7.7 Consensus size: 19
5770430 GCGATAGTCA
*
5770440 GAATCTCATTGCGATTTAC
1 GAATCGCATTGCGATTTAC
*
5770459 AGATTCGCATTGCGATTTAC
1 -GAATCGCATTGCGATTTAC
* *
5770479 GTATTCGTATTGCGATTTAC
1 G-AATCGCATTGCGATTTAC
5770499 GTAATCGCATTGCGATTTAC
1 G-AATCGCATTGCGATTTAC
5770519 GTAATCGCATTGCGATTTAC
1 G-AATCGCATTGCGATTTAC
*
5770539 GTAATCGCATTGCGATTTTCC
1 G-AATCGCATTGCGA-TTTAC
*
5770560 AAATTCGCATTGCGATTTAC
1 GAA-TCGCATTGCGATTTAC
*
5770580 GTATTCGCATTGCGA
1 G-AATCGCATTGCGA
5770595 ATTAGGAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
19 1 0.01
20 104 0.86
21 16 0.13
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (19 bp):
GAATCGCATTGCGATTTAC
Found at i:5770510 original size:60 final size:60
Alignment explanation
Indices: 5770441--5770594 Score: 220
Period size: 60 Copynumber: 2.5 Consensus size: 60
5770431 CGATAGTCAG
* * * **
5770441 AATCTCATTGCGATTTACAG-ATTCGCATTGCGATTTACGTATTCGTATTGCGATTTACGT
1 AATCGCATTGCGATTTAC-GTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCA
* *
5770501 AATCGCATTGCGATTTACGTAATCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCA
1 AATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCA
5770561 AATTCGCATTGCGATTTACGTATTCGCATTGCGA
1 AA-TCGCATTGCGATTTACGTATTCGCATTGCGA
5770595 ATTAGGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
59 1 0.01
60 53 0.63
61 30 0.36
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (60 bp):
AATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCA
Found at i:5770615 original size:21 final size:21
Alignment explanation
Indices: 5770591--5770636 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
5770581 TATTCGCATT
5770591 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
5770612 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
5770633 GCGA
1 GCGA
5770637 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:5772174 original size:20 final size:19
Alignment explanation
Indices: 5772135--5772186 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
5772125 TTTCTTTGAT
5772135 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
5772154 ATTAAAATAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
5772174 ATTTATAAAATAA
1 A-TTAAAAAATAA
5772187 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:5772262 original size:120 final size:118
Alignment explanation
Indices: 5772038--5772272 Score: 289
Period size: 120 Copynumber: 2.0 Consensus size: 118
5772028 ATAATTATGG
* *
5772038 AAAATATTAATTTATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGAATT
1 AAAATATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGAATT
* * *
5772103 CTAGGTGCCTTAAGACAACTCTTTTCTTTGATATTAAAAAATAAATAAATAATT
66 CCAGGTGCCTTAAGACAACTCCTTTCTTTAATATT-AAAAATAAATAAATAATT
*
5772157 AAAATAATTAATATATA-ATTTATAAAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGA
1 AAAAT-ATTAATATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGA
* ** **
5772221 CA-TCCAGTTGTTTTAAGACTGC-CCTTTC-TTAATATTGAAAAATAAATAAATA
63 -ATTCCAGGTGCCTTAAGACAACTCCTTTCTTTAATATT-AAAAATAAATAAATA
5772273 TATATTAAAA
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
119 33 0.33
120 49 0.49
121 17 0.17
122 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (118 bp):
AAAATATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGAATT
CCAGGTGCCTTAAGACAACTCCTTTCTTTAATATTAAAAATAAATAAATAATT
Found at i:5772384 original size:16 final size:14
Alignment explanation
Indices: 5772368--5772410 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
5772358 TATTTATATA
5772368 AATAATAAGAATAAT
1 AATAATAA-AATAAT
*
5772383 AATAA-AAAGTAAT
1 AATAATAAAATAAT
5772396 AATAATAAAATAAT
1 AATAATAAAATAAT
5772410 A
1 A
5772411 TTGCAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 10 0.40
14 10 0.40
15 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (14 bp):
AATAATAAAATAAT
Found at i:5772424 original size:3 final size:3
Alignment explanation
Indices: 5772368--5772410 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
5772358 TATTTATATA
* *
5772368 AAT AAT AAG AAT AAT AAT AAA AAGT AAT AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
5772411 TTGCAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:5772430 original size:12 final size:12
Alignment explanation
Indices: 5772368--5772432 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
5772358 TATTTATATA
5772368 AATAA-TAAGAAT
1 AATAATTAA-AAT
*
5772380 AATAATAAAAAGT
1 AATAATTAAAA-T
5772393 AATAATAATAAAAT
1 AATAAT--TAAAAT
*
5772407 AAT-ATTGCAAAT
1 AATAATT-AAAAT
5772419 AATAATTAAAAT
1 AATAATTAAAAT
5772431 AA
1 AA
5772433 AAGGAATTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
11 1 0.02
12 20 0.47
13 14 0.33
14 4 0.09
15 4 0.09
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (12 bp):
AATAATTAAAAT
Found at i:5773751 original size:3 final size:3
Alignment explanation
Indices: 5773743--5773822 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
5773733 GGCCTGTTTG
* * *
5773743 TAA TAA TAA TAA TTA T-T TAT TTAA TAA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* *
5773786 TAA TAA TAA TAT TAA -AA CAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5773823 ATAAAACAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
2 9 0.14
3 55 0.83
4 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:5773787 original size:16 final size:15
Alignment explanation
Indices: 5773766--5773826 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 15
5773756 TATTTATTTA
5773766 ATAATAATAATATAAT
1 ATAATAATAA-ATAAT
5773782 ATAATAAT-AATAAT
1 ATAATAATAAATAAT
*
5773796 ATTAA-AACAAAATAAT
1 A-TAATAA-TAAATAAT
5773812 AATAATAATAAATAA
1 -ATAATAATAAATAA
5773827 AACAAATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.21
15 4 0.11
16 23 0.61
17 3 0.08
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAATAATAAATAAT
Found at i:5773792 original size:22 final size:22
Alignment explanation
Indices: 5773743--5773825 Score: 82
Period size: 22 Copynumber: 3.9 Consensus size: 22
5773733 GGCCTGTTTG
* *
5773743 TAATAATAATAAT-T-ATTTATT
1 TAATAATAATAATATAATATA-A
5773764 TAATAATAATAATATAATATAA
1 TAATAATAATAATATAATATAA
* * * *
5773786 TAATAATAATATTAAAACAAAA
1 TAATAATAATAATATAATATAA
5773808 TAATAATAATAATA-AATA
1 TAATAATAATAATATAATA
5773826 AAACAAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
21 16 0.31
22 32 0.62
23 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAATAATAATATAATATAA
Found at i:5773810 original size:25 final size:25
Alignment explanation
Indices: 5773764--5773832 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
5773754 ATTATTTATT
* * *
5773764 TAATAATAATAATATAATATAATAA
1 TAATAATAATAAAACAAAATAATAA
*
5773789 TAATAATATTAAAACAAAATAATAA
1 TAATAATAATAAAACAAAATAATAA
5773814 TAATAATAAATAAAACAAA
1 TAATAAT-AATAAAACAAA
5773833 TGAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
25 28 0.74
26 10 0.26
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (25 bp):
TAATAATAATAAAACAAAATAATAA
Found at i:5774345 original size:113 final size:113
Alignment explanation
Indices: 5774205--5774835 Score: 1055
Period size: 113 Copynumber: 5.6 Consensus size: 113
5774195 GAATTCGAGC
* * * *
5774205 AACAAGTTCTTCTTATTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
* * *
5774270 GCCCTGGCAATGCTGGTCCATCGAATGATAAATTCAAGCGAAAAGTTG
66 GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
*
5774318 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
* * *
5774383 GCCCTGGCAATTCTGGTCCATCGAATGATGAATTCAAGCGAAAAAGTTG
66 GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCG-AAAAGTTG
*
5774432 AACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
*
5774497 GACCTGGCAGTGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
66 GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
*
5774545 AACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
* *
5774610 GACCTGGCAATGCTGATCCATCGAATGATGAATCCAAGCGAAAATTTG
66 GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
5774658 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
* * *
5774723 GACCTGGTAATGTTGATCCATCGAATGATAAATTCAAGCGAAAAGTTG
66 GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
* * *
5774771 AACAAGTTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGAACTC
1 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
5774836 TTCTAGAAAT
Statistics
Matches: 494, Mismatches: 23, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
113 387 0.78
114 107 0.22
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (113 bp):
AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
GACCTGGCAATGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTG
Found at i:5774520 original size:227 final size:226
Alignment explanation
Indices: 5774093--5774835 Score: 1130
Period size: 227 Copynumber: 3.3 Consensus size: 226
5774083 AGAATCATGC
* *
5774093 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCC-TCTTCAGATGAATTCTTCTCAT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
5774157 TATGAACTCTCTCTGGAAAAGT-TGATCCATCGAGTGATGAATT----CG---AG--CAACAAGT
65 TATGAACTCGCCCTGG-CAATTCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGT
* * * *
5774212 TCTTCTTATTATGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGG
129 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGG
*
5774277 CAATGCTGGTCCATCGAATGATAAATTCAAGCG
194 CAATGCTGATCCATCGAATGATAAATTCAAGCG
*
5774310 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
5774375 ATGAACTCGCCCTGGCAATTCTGGTCCATCGAATGATGAATTCAAGCGAAAAAGTTGAACAAGTT
66 ATGAACTCGCCCTGGCAATTCTGATCCATCGAATGATGAATTCAAGCG-AAAAGTTGAACAAGTT
5774440 CTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGC
130 CTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGC
* *
5774505 AGTGCTGATCCATCGAATGATGAATTCAAGCG
195 AATGCTGATCCATCGAATGATAAATTCAAGCG
*
5774537 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
5774602 ATGAACTCGACCTGGCAATGCTGATCCATCGAATGATGAATCCAAGCGAAAATTTGAACAAGTTC
66 ATGAACTCGCCCTGGCAATTCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
* *
5774667 TTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTA
131 TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCA
*
5774732 ATGTTGATCCATCGAATGATAAATTCAAGCG
196 ATGCTGATCCATCGAATGATAAATTCAAGCG
* * *
5774763 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
5774828 ATGAACTC
66 ATGAACTC
5774836 TTCTAGAAAT
Statistics
Matches: 481, Mismatches: 33, Indels: 15
0.91 0.06 0.03
Matches are distributed among these distances:
216 38 0.08
217 58 0.12
221 2 0.00
225 2 0.00
226 176 0.37
227 205 0.43
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (226 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTCGCCCTGGCAATTCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTC
TTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCA
ATGCTGATCCATCGAATGATAAATTCAAGCG
Found at i:5774746 original size:340 final size:329
Alignment explanation
Indices: 5774093--5774864 Score: 1109
Period size: 340 Copynumber: 2.3 Consensus size: 329
5774083 AGAATCATGC
* * *
5774093 AAAAGATTGAACAAGTTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAATTCTTCTCATT
1 AAAAG-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATT
* * * *
5774158 ATGAACTCTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCGAGCAACAAGTTCTTCTTATTA
65 ATGAACTCACTCTGGAAAAGCTGATCCATCGAATGATGAATTCGAGCAACAAGTTCTTCTCATTA
* * * *
5774223 TGAATTTCTTCTTCTTTCTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGGCAATGCTGGTC
130 TGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATC
*
5774288 CATCGAATGATAAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
195 CATCGAATGATAAATCCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTT
* * * *
5774353 CTTCAGATGAGTTCTTCTTATTATGAACTCGCCCTGGCAATTCTGGTCCATCGAATGATGAATTC
260 CTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATTCTGATCCATCGAATGATAAATTC
5774418 AAGCG
325 AAGCG
5774423 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCAT
1 -AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCAT
* ** *
5774488 TATGAACTCGAC-CTGGCAGTGCTGATCCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGT
64 TATGAACTC-ACTCTGGAAAAGCTGATCCATCGAATGATGAATT----CG---AG--CAACAAGT
5774552 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGG
119 TCTTCTCATTATGAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGG
* *
5774617 CAATGCTGATCCATCGAATGATGAATCCAAGCGAAAATTTGAACAAGTTCTTCTCATTATGAACT
184 CAATGCTGATCCATCGAATGATAAATCCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACT
*
5774682 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGTAATGT-TGATCCATCG
249 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAAT-TCTGATCCATCG
5774746 AATGATAAATTCAAGCG
313 AATGATAAATTCAAGCG
* * *
5774763 AAAAGTTGAACAAGTTCTTCTTATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTATTCTCATT
1 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATT
* * * * *
5774828 ATGAACTC-TTCTAGAAATGTTGATCCATTGAATGATG
65 ATGAACTCACTCTGGAAAAGCTGATCCATCGAATGATG
5774865 GATTTGAACT
Statistics
Matches: 395, Mismatches: 32, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
330 34 0.09
331 61 0.15
332 1 0.00
335 2 0.01
338 24 0.06
339 68 0.17
340 204 0.52
341 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (329 bp):
AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCACTCTGGAAAAGCTGATCCATCGAATGATGAATTCGAGCAACAAGTTCTTCTCATTAT
GAACTTCTTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATGCTGATCC
ATCGAATGATAAATCCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTC
TTCAGATGAGTTCTTCTCATTATGAACTCGACCTGGCAATTCTGATCCATCGAATGATAAATTCA
AGCG
Found at i:5775296 original size:22 final size:22
Alignment explanation
Indices: 5775271--5775326 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
5775261 GATAAAGCTT
* *
5775271 TCATCTTTGAAAAGAGAATTTG
1 TCATCTTTGAAAAGAGAATCTA
* *
5775293 TCATCTTTTAAAAAGGGAATCTA
1 TCATC-TTTGAAAAGAGAATCTA
5775316 TCATCTTTGAA
1 TCATCTTTGAA
5775327 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:5776782 original size:76 final size:76
Alignment explanation
Indices: 5776612--5776782 Score: 218
Period size: 76 Copynumber: 2.3 Consensus size: 76
5776602 GATGTGGGCC
* * *
5776612 TTCAGCATGCCCCAACA-ATTACTGATACGAACATTCAAAATACATCAACATTCTTCATTCTGAT
1 TTCAGCATGCCCCAACATTTTACTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAT
5776676 TGAAAAAGGCT
66 TGAAAAAGGCT
** ** * ** *
5776687 TTCAGCATGCCCCCGCATTTTGTTGATATAAACATTCAGGATACATCAACATTCCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTTACTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAT
* *
5776752 TGAAAAGGGTT
66 TGAAAAAGGCT
5776763 TTCAGCATGCCCCAACATTT
1 TTCAGCATGCCCCAACATTT
5776783 GCTTCTTGTT
Statistics
Matches: 80, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
75 15 0.19
76 65 0.81
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTTACTGATACAAACATTCAAAATACATCAACATTCCTCATTCTGAT
TGAAAAAGGCT
Found at i:5782993 original size:14 final size:15
Alignment explanation
Indices: 5782959--5782997 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
5782949 CATAAAAATA
*
5782959 CAAATGCAAAGATGC
1 CAAATGTAAAGATGC
*
5782974 CAAATGTAAATATG-
1 CAAATGTAAAGATGC
5782988 CAAATGTAAA
1 CAAATGTAAA
5782998 AATGTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (15 bp):
CAAATGTAAAGATGC
Found at i:5783006 original size:14 final size:14
Alignment explanation
Indices: 5782951--5783006 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
5782941 AAAGTAAACA
*
5782951 TAAAAATACAAATG
1 TAAAAATGCAAATG
* *
5782965 CAAAGATGCCAAATG
1 TAAAAATG-CAAATG
*
5782980 TAAATATGCAAATG
1 TAAAAATGCAAATG
*
5782994 TAAAAATGTAAAT
1 TAAAAATGCAAAT
5783007 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.23
Consensus pattern (14 bp):
TAAAAATGCAAATG
Found at i:5785353 original size:120 final size:119
Alignment explanation
Indices: 5785147--5785369 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 119
5785137 TATGGAAAAT
* * * *
5785147 ATTAATTTATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGG
1 ATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
** *
5785212 TACCTTAAGACAGCTTTTTTCTTTGATATTAAAAAATAATTAATTAATTAAAACA
66 TACCTTAAGACAGCTACTTTC-TTAATATTAAAAAATAATTAATTAATTAAAACA
*
5785267 ATTAATATATA-ATTTATAAAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 ATTAATATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCA
* *** * *
5785331 GTTGTTTTAAGACTGC-ACTTTCTTAATATTGAAAAATAA
64 GGTACCTTAAGACAGCTACTTTCTTAATATTAAAAAATAA
5785370 ATAAATATAT
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 21 0.24
120 48 0.55
121 18 0.21
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (119 bp):
ATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGG
TACCTTAAGACAGCTACTTTCTTAATATTAAAAAATAATTAATTAATTAAAACA
Found at i:5785483 original size:13 final size:12
Alignment explanation
Indices: 5785470--5785534 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
5785460 TTTTTATATA
*
5785470 AATAATAAGAAT
1 AATAATAAAAAT
5785482 AATAATAAAAAGT
1 AATAATAAAAA-T
5785495 AATAATAATATAAT
1 AATAATAA-A-AAT
* **
5785509 AATATTGCAAAT
1 AATAATAAAAAT
*
5785521 AATAATTAAAAT
1 AATAATAAAAAT
5785533 AA
1 AA
5785535 AAGGAATTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
12 24 0.56
13 10 0.23
14 7 0.16
15 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:5785498 original size:16 final size:15
Alignment explanation
Indices: 5785470--5785504 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
5785460 TTTTTATATA
*
5785470 AATAATAAGAATAAT
1 AATAAAAAGAATAAT
5785485 AATAAAAAGTAATAAT
1 AATAAAAAG-AATAAT
5785501 AATA
1 AATA
5785505 TAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAAAAAGAATAAT
Found at i:5785526 original size:3 final size:3
Alignment explanation
Indices: 5785470--5785512 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
5785460 TTTTTATATA
* *
5785470 AAT AAT AAG AAT AAT AAT AAA AAGT AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
5785513 TTGCAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.88
4 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:5786818 original size:3 final size:3
Alignment explanation
Indices: 5786810--5786890 Score: 71
Period size: 3 Copynumber: 28.0 Consensus size: 3
5786800 GGCCTGTTTG
* * *
5786810 TAA TAA TAA TAA TTA T-T TAT TTAA TAA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * *
5786854 TGA TAA TAA TAA TAT TAA -AA CAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5786891 ATAAAACAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
2 7 0.11
3 57 0.86
4 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5786899 original size:23 final size:23
Alignment explanation
Indices: 5786832--5786900 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 23
5786822 TTATTTATTT
* *
5786832 AATAATAATAATATAATAATA-AT
1 AATAATAATAATA-AATAAAACAA
* *
5786855 GATAATAATAAT-ATTAAAACAA
1 AATAATAATAATAAATAAAACAA
5786877 AATAATAATAATAAATAAAACAA
1 AATAATAATAATAAATAAAACAA
5786900 A
1 A
5786901 TGAAATAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
21 5 0.13
22 12 0.32
23 21 0.55
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (23 bp):
AATAATAATAATAAATAAAACAA
Found at i:5795035 original size:18 final size:18
Alignment explanation
Indices: 5795012--5795046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
5795002 GATTTTTGAT
* *
5795012 TTCTTTTTTTTTTAATTC
1 TTCTTTTGTTTTAAATTC
5795030 TTCTTTTGTTTTAAATT
1 TTCTTTTGTTTTAAATT
5795047 TTTTTTAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (18 bp):
TTCTTTTGTTTTAAATTC
Found at i:5795313 original size:20 final size:21
Alignment explanation
Indices: 5795288--5795338 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
5795278 GTGATTTTTC
5795288 TAAATCGCAATGCGAA-TACG
1 TAAATCGCAATGCGAATTACG
*
5795308 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAATTACG
*
5795329 AAAATCGCAA
1 TAAATCGCAA
5795339 CGATATTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (21 bp):
TAAATCGCAATGCGAATTACG
Found at i:5795579 original size:19 final size:19
Alignment explanation
Indices: 5795555--5795596 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
5795545 CAGTTGTTAT
*
5795555 CGATTTT-AGTTTCGCGTTG
1 CGATTTTCA-TTTCGCATTG
5795574 CGATTTTCATTTCGCATTG
1 CGATTTTCATTTCGCATTG
5795593 CGAT
1 CGAT
5795597 AGTCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.95
20 1 0.05
ACGTcount: A:0.14, C:0.19, G:0.21, T:0.45
Consensus pattern (19 bp):
CGATTTTCATTTCGCATTG
Found at i:5795602 original size:19 final size:19
Alignment explanation
Indices: 5795564--5795604 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
5795554 TCGATTTTAG
* **
5795564 TTTCGCGTTGCGATTTTCA
1 TTTCGCATTGCGATAGTCA
5795583 TTTCGCATTGCGATAGTCA
1 TTTCGCATTGCGATAGTCA
5795602 TTT
1 TTT
5795605 TTGCCTTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATAGTCA
Found at i:5795722 original size:14 final size:14
Alignment explanation
Indices: 5795703--5795739 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5795693 TATCAATTAA
5795703 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5795717 ACAAATCATCTTTT
1 ACAAATCAACTTTT
5795731 ACAAATCAA
1 ACAAATCAA
5795740 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:5797651 original size:19 final size:19
Alignment explanation
Indices: 5797629--5797692 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
5797619 AAAAATGACT
5797629 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
5797648 ATCGCAA--TG--A-CAAA
1 ATCGCAACGCGAAATGAAA
5797662 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
5797681 ATCGCAACGCGA
1 ATCGCAACGCGA
5797693 TTATAGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 10 0.28
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 22 0.61
ACGTcount: A:0.45, C:0.23, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:5797711 original size:19 final size:19
Alignment explanation
Indices: 5797689--5797773 Score: 93
Period size: 19 Copynumber: 4.4 Consensus size: 19
5797679 AAATCGCAAC
*
5797689 GCGATTATAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
5797708 GCGATTTTCA-TTTCGTGTT
1 GCGATTTT-AGTTTCGCGTT
*
5797727 GCGATTTTCGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
*
5797746 GCGATTTTCA-TTCTCTCGTT
1 GCGATTTT-AGTT-TCGCGTT
5797766 GCGATTTT
1 GCGATTTT
5797774 TATTTCAACC
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
19 41 0.73
20 15 0.27
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:5797740 original size:38 final size:39
Alignment explanation
Indices: 5797689--5797773 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 39
5797679 AAATCGCAAC
*
5797689 GCGATTATAGTTTCGCGTTGCGATTTTCATT-TCGT-GTT
1 GCGATTTTAGTTTCGCGTTGCGATTTTCATTCTC-TCGTT
*
5797727 GCGATTTTCGTTTCGCGTTGCGATTTTCATTCTCTCGTT
1 GCGATTTTAGTTTCGCGTTGCGATTTTCATTCTCTCGTT
5797766 GCGATTTT
1 GCGATTTT
5797774 TATTTCAACC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
38 30 0.70
39 13 0.30
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (39 bp):
GCGATTTTAGTTTCGCGTTGCGATTTTCATTCTCTCGTT
Found at i:5797767 original size:20 final size:19
Alignment explanation
Indices: 5797699--5797779 Score: 101
Period size: 19 Copynumber: 4.2 Consensus size: 19
5797689 GCGATTATAG
*
5797699 TTTCGCGTTGCGATTTTCA
1 TTTCTCGTTGCGATTTTCA
*
5797718 TTTCGT-GTTGCGATTTTCG
1 TTTC-TCGTTGCGATTTTCA
*
5797737 TTTCGCGTTGCGATTTTCA
1 TTTCTCGTTGCGATTTTCA
*
5797756 TTCTCTCGTTGCGATTTTTA
1 TT-TCTCGTTGCGATTTTCA
5797776 TTTC
1 TTTC
5797780 AACCAAAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 36 0.68
20 17 0.32
ACGTcount: A:0.09, C:0.20, G:0.20, T:0.52
Consensus pattern (19 bp):
TTTCTCGTTGCGATTTTCA
Found at i:5797982 original size:94 final size:93
Alignment explanation
Indices: 5797870--5798149 Score: 419
Period size: 94 Copynumber: 3.1 Consensus size: 93
5797860 ATAGATTGCA
* * *
5797870 TTACTTCAACCAAAAGACAAAACAAATACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
*
5797935 TAGCAGAATTGGCAGCAAACGAACAAAT
66 TAGCAGAATTGGCAGCAAACGAATAAAT
5797963 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
5798028 TTAGCAGAATTGGCAGC-AACTAAATAAAT
65 TTAGCAGAATTGGCAGCAAAC-GAATAAAT
* *
5798057 TTACTTCAACCAAAAGACAACA-AAAGACAAATACTAACTTCACAGTGTT----AATAAACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* *
5798117 TAGCAGTATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAAACGAATAAAT
5798145 TTACT
1 TTACT
5798150 AAACAATCTA
Statistics
Matches: 174, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
88 37 0.21
89 2 0.01
92 27 0.16
93 24 0.14
94 84 0.48
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAAACGAATAAAT
Found at i:5799863 original size:20 final size:20
Alignment explanation
Indices: 5799838--5799880 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
5799828 TTTTGGTTGA
*
5799838 AATGAAAATCGCAACGGGAG
1 AATGAAAATCGCAACGAGAG
5799858 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
5799878 AAT
1 AAT
5799881 CACAACGCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.26, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:5799895 original size:33 final size:33
Alignment explanation
Indices: 5799844--5799937 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
5799834 TTGAAATGAA
*
5799844 AATCGCAACGGGAGAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGAGAG
*
5799878 AATCACAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
5799911 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
5799938 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 46 0.81
34 11 0.19
ACGTcount: A:0.47, C:0.20, G:0.23, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:5799916 original size:14 final size:14
Alignment explanation
Indices: 5799864--5799920 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
5799854 GGAGAATGAA
5799864 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
5799878 AATCACAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
5799897 AATCGCAACGAGAG
1 AATCGCAACGAGAG
5799911 AATCGCAACG
1 AATCGCAACG
5799921 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:5799993 original size:21 final size:20
Alignment explanation
Indices: 5799969--5800040 Score: 92
Period size: 20 Copynumber: 3.5 Consensus size: 20
5799959 CGATTATATC
5799969 GTTGCGATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCAT
** *
5799989 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCAT
5800010 GTTGCGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCAT
5800030 GTTGCGATTTT
1 GTTGCGATTTT
5800041 AAGTTTAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 30 0.67
21 15 0.33
ACGTcount: A:0.12, C:0.17, G:0.19, T:0.51
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCAT
Found at i:5800617 original size:21 final size:20
Alignment explanation
Indices: 5800571--5800644 Score: 121
Period size: 20 Copynumber: 3.6 Consensus size: 20
5800561 ATAGTCAGAT
5800571 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* *
5800591 TCGCATTGCGATTTTCCTAA
1 TCGCATTGCGATTTACGTAA
5800611 TTCGCATTGCGATTTACGTAA
1 -TCGCATTGCGATTTACGTAA
5800632 TCGCATTGCGATT
1 TCGCATTGCGATT
5800645 CGCAACGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 31 0.63
21 18 0.37
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:5801234 original size:15 final size:15
Alignment explanation
Indices: 5801214--5801258 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
5801204 AATTGGTTTT
5801214 CTGGAAAATGAATTA
1 CTGGAAAATGAATTA
**
5801229 CTGGAATTTGAATT-
1 CTGGAAAATGAATTA
*
5801243 CTGAAAAATGAATTA
1 CTGGAAAATGAATTA
5801258 C
1 C
5801259 ATTTTTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (15 bp):
CTGGAAAATGAATTA
Found at i:5801256 original size:14 final size:14
Alignment explanation
Indices: 5801212--5801256 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
5801202 GTAATTGGTT
5801212 TTCTGGAAAATGAA
1 TTCTGGAAAATGAA
**
5801226 TTACTGGAATTTGAA
1 TT-CTGGAAAATGAA
*
5801241 TTCTGAAAAATGAA
1 TTCTGGAAAATGAA
5801255 TT
1 TT
5801257 ACATTTTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.40, C:0.07, G:0.18, T:0.36
Consensus pattern (14 bp):
TTCTGGAAAATGAA
Found at i:5801596 original size:23 final size:23
Alignment explanation
Indices: 5801547--5801597 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
5801537 GTGTTATATT
**
5801547 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
5801570 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
5801593 ATATT
1 ATATT
5801598 ATTAGATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:5802045 original size:42 final size:42
Alignment explanation
Indices: 5801986--5802072 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
5801976 ACCAAGCACA
*
5801986 GGAAAACATTTTCCGGAAAACGAATTACGCGAAACAAACACG
1 GGAAAACATTTTCCGGAAAACGAATTACACGAAACAAACACG
*
5802028 GGAAAACATTTTCCGGAAAACGAATTACATGAAACAAACACG
1 GGAAAACATTTTCCGGAAAACGAATTACACGAAACAAACACG
5802070 GGA
1 GGA
5802073 TTTCGGGGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.15
Consensus pattern (42 bp):
GGAAAACATTTTCCGGAAAACGAATTACACGAAACAAACACG
Found at i:5802356 original size:71 final size:72
Alignment explanation
Indices: 5802267--5802403 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 72
5802257 AACATCAATT
* *
5802267 ATATTACATCTGACTTAATTCAAATGAAATTTAAATGATAAGA-TTATTTGTAAACTTAAATAAC
1 ATATTACATCTGACTTAATTCAAATAAAATTTAAATGATAAGATTTATTTATAAACTTAAATAAC
5802331 TCAACAA
66 TCAACAA
* * *
5802338 ATATTACATTTGACTTAATTTAAATAAAATTTAAATGATAAGATTTATTTATAAATTTAAATAAC
1 ATATTACATCTGACTTAATTCAAATAAAATTTAAATGATAAGATTTATTTATAAACTTAAATAAC
5802403 T
66 T
5802404 TGAATTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
71 40 0.67
72 20 0.33
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (72 bp):
ATATTACATCTGACTTAATTCAAATAAAATTTAAATGATAAGATTTATTTATAAACTTAAATAAC
TCAACAA
Found at i:5802791 original size:14 final size:14
Alignment explanation
Indices: 5802772--5802832 Score: 113
Period size: 14 Copynumber: 4.4 Consensus size: 14
5802762 CGTTGGGCAT
5802772 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
5802786 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
5802800 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
5802814 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
5802828 ACGAG
1 CCGAG
5802833 CTATGCGAGG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
14 46 1.00
ACGTcount: A:0.23, C:0.41, G:0.30, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:5802853 original size:10 final size:10
Alignment explanation
Indices: 5802838--5802894 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
5802828 ACGAGCTATG
5802838 CGAGGGCATC
1 CGAGGGCATC
*
5802848 CGAGGGCAAC
1 CGAGGGCATC
*
5802858 CGAGCGAGCTATG
1 CGAG-G-GC-ATC
*
5802871 CGAGGGAATC
1 CGAGGGCATC
*
5802881 CGAGGGCAAC
1 CGAGGGCATC
5802891 CGAG
1 CGAG
5802895 CGAGGGTAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 27 0.73
11 2 0.05
12 3 0.08
13 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.40, T:0.07
Consensus pattern (10 bp):
CGAGGGCATC
Found at i:5802866 original size:33 final size:33
Alignment explanation
Indices: 5802814--5802898 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
5802804 GGCCATCCGA
* * * *
5802814 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
5802847 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
5802880 CCGAGGGCAACCGAGCGAG
1 CCGAGGGCAACCGAGCGAG
5802899 GGTAGGTCGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.26, C:0.28, G:0.38, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:5803017 original size:20 final size:20
Alignment explanation
Indices: 5802992--5803045 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
5802982 TATAACTCGT
5802992 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
* *
5803012 TCGGATGGCATCGGATGCTT
1 TCGGATGGCCTCGGATGCTC
5803032 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
5803046 TCGGATGGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:5803051 original size:14 final size:14
Alignment explanation
Indices: 5803032--5803059 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5803022 TCGGATGCTT
5803032 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
5803046 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
5803060 ATGACCTAAA
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:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:5803062 original size:10 final size:10
Alignment explanation
Indices: 5802992--5803045 Score: 58
Period size: 10 Copynumber: 5.4 Consensus size: 10
5802982 TATAACTCGT
5802992 TCGGATGGCC
1 TCGGATGGCC
5803002 TCGGAT-GCTC
1 TCGGATGGC-C
*
5803012 TCGGATGGCA
1 TCGGATGGCC
*
5803022 TCGGAT-GCTT
1 TCGGATGGC-C
5803032 TCGGATGGCC
1 TCGGATGGCC
5803042 TCGG
1 TCGG
5803046 TCGGATGGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
9 4 0.11
10 29 0.78
11 4 0.11
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:5803305 original size:13 final size:13
Alignment explanation
Indices: 5803287--5803314 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5803277 GATGCCATGG
5803287 CGACCTCCAAGGT
1 CGACCTCCAAGGT
5803300 CGACCTCCAAGGT
1 CGACCTCCAAGGT
5803313 CG
1 CG
5803315 CCCGGATGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.25, T:0.14
Consensus pattern (13 bp):
CGACCTCCAAGGT
Found at i:5803541 original size:61 final size:61
Alignment explanation
Indices: 5803466--5803588 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
5803456 CGAGACTAAA
5803466 CACTTAAAAGGTTATTAAAGAAAGAAAAAGCTGATACTTTAAGGCATCGAACCACTTAATT
1 CACTTAAAAGGTTATTAAAGAAAGAAAAAGCTGATACTTTAAGGCATCGAACCACTTAATT
5803527 CACTTAAAAGGTTATTAAAGAAAGAAAAAGCTGATACTTTAAGGCATCGAACCACTTAATT
1 CACTTAAAAGGTTATTAAAGAAAGAAAAAGCTGATACTTTAAGGCATCGAACCACTTAATT
5803588 C
1 C
5803589 CAACGCGGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (61 bp):
CACTTAAAAGGTTATTAAAGAAAGAAAAAGCTGATACTTTAAGGCATCGAACCACTTAATT
Found at i:5807143 original size:15 final size:16
Alignment explanation
Indices: 5807125--5807162 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
5807115 TTAAAAAAAA
*
5807125 ATATTTTTTATT-ATT
1 ATATTTTTAATTCATT
5807140 ATATTTTTAATTCATT
1 ATATTTTTAATTCATT
*
5807156 TTATTTT
1 ATATTTT
5807163 GATAATTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (16 bp):
ATATTTTTAATTCATT
Found at i:5808675 original size:20 final size:20
Alignment explanation
Indices: 5808650--5808699 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
5808640 CCTATTCCCT
5808650 GGTAATCTTACATTTCCACC
1 GGTAATCTTACATTTCCACC
*
5808670 GGTAATCTTACATTTCCACT
1 GGTAATCTTACATTTCCACC
*
5808690 GATAATCTTA
1 GGTAATCTTA
5808700 TATTCATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (20 bp):
GGTAATCTTACATTTCCACC
Found at i:5809565 original size:32 final size:27
Alignment explanation
Indices: 5809493--5809554 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
5809483 AATTAAATAT
5809493 TCAGA-AT-GATTAATTTGTTTTATAA
1 TCAGATATAGATTAATTTGTTTTATAA
*
5809518 TCATATATAGATTAATTTGTTTTATAA
1 TCAGATATAGATTAATTTGTTTTATAA
5809545 TCAGATATAG
1 TCAGATATAG
5809555 GATTTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 4 0.12
26 2 0.06
27 27 0.82
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (27 bp):
TCAGATATAGATTAATTTGTTTTATAA
Found at i:5812998 original size:24 final size:24
Alignment explanation
Indices: 5812966--5813011 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
5812956 ATATATATTG
*
5812966 CACCGAAGTGCCGCGTAGAAATTA
1 CACCGAAGTGCCACGTAGAAATTA
*
5812990 CACCGAAGTGCTACGTAGAAAT
1 CACCGAAGTGCCACGTAGAAAT
5813012 ATCCCGAAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
CACCGAAGTGCCACGTAGAAATTA
Found at i:5813031 original size:23 final size:23
Alignment explanation
Indices: 5813005--5813062 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
5812995 AAGTGCTACG
*
5813005 TAGAAATATCCCGAAGGACCACA
1 TAGAAATGTCCCGAAGGACCACA
* *
5813028 TAGATATGTCCCGTAGGACCACA
1 TAGAAATGTCCCGAAGGACCACA
5813051 TAGAAATGTCCC
1 TAGAAATGTCCC
5813063 AAAGTGCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (23 bp):
TAGAAATGTCCCGAAGGACCACA
Found at i:5821547 original size:33 final size:33
Alignment explanation
Indices: 5821499--5821569 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5821489 ATGATTTGAG
*
5821499 AAAACATTGAAAGTTTAAGTACTAAAATAGATT
1 AAAACATTAAAAGTTTAAGTACTAAAATAGATT
*
5821532 AAAATATTAAAAGTTTAAGTACTAAAATAGATT
1 AAAACATTAAAAGTTTAAGTACTAAAATAGATT
5821565 AAAAC
1 AAAAC
5821570 TGATAGTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.30
Consensus pattern (33 bp):
AAAACATTAAAAGTTTAAGTACTAAAATAGATT
Found at i:5836534 original size:26 final size:26
Alignment explanation
Indices: 5836498--5836549 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
5836488 CCGAAAGTAA
5836498 GCAGCCTATAGAAAAAGTTCTTGATG
1 GCAGCCTATAGAAAAAGTTCTTGATG
5836524 GCAGCCTATAGAAAAAGTTCTTGATG
1 GCAGCCTATAGAAAAAGTTCTTGATG
5836550 TTAGGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (26 bp):
GCAGCCTATAGAAAAAGTTCTTGATG
Found at i:5840945 original size:18 final size:19
Alignment explanation
Indices: 5840910--5840946 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
5840900 TACGAAATGT
5840910 AATATTATCAGTGGGAATAA
1 AATATTATCAG-GGGAATAA
5840930 AATATTATCA-GGGAATA
1 AATATTATCAGGGGAATA
5840947 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (19 bp):
AATATTATCAGGGGAATAA
Found at i:5841169 original size:37 final size:38
Alignment explanation
Indices: 5841092--5841170 Score: 92
Period size: 37 Copynumber: 2.1 Consensus size: 38
5841082 AACAAGTTGG
* *
5841092 AAAATATTAATATATTTTCTTTAAAAATTTAAATTCAT
1 AAAATATTAATATATTTTCTTTAAAAATTGAAAATCAT
*
5841130 AAAAT-TT-ATATAATTTTTTTTACAAAATTGAAAAT-AT
1 AAAATATTAATAT-ATTTTCTTTA-AAAATTGAAAATCAT
5841167 AAAA
1 AAAA
5841171 AGGTTTAATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
36 4 0.11
37 17 0.47
38 15 0.42
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
AAAATATTAATATATTTTCTTTAAAAATTGAAAATCAT
Found at i:5843126 original size:21 final size:21
Alignment explanation
Indices: 5843096--5843402 Score: 198
Period size: 21 Copynumber: 15.0 Consensus size: 21
5843086 GATTTACATA
*
5843096 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
5843117 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
** *
5843138 TTCGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
5843159 TT--CGTTGC-----TCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
5843173 TTCGCGTTGCGATTTATTTCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
5843196 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
5843215 TTCACGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
5843238 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
5843257 TTCGCGTTGTGATATTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
5843278 TTCGCATTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
5843301 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
5843320 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
5843343 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
5843362 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
5843385 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
5843403 AATCGCAACG
Statistics
Matches: 226, Mismatches: 35, Indels: 52
0.72 0.11 0.17
Matches are distributed among these distances:
14 6 0.03
16 6 0.03
19 47 0.21
21 126 0.56
23 41 0.18
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:5843279 original size:63 final size:62
Alignment explanation
Indices: 5843198--5843353 Score: 224
Period size: 63 Copynumber: 2.5 Consensus size: 62
5843188 ATTTCAAATT
* *
5843198 CGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATATTCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
* * *
5843261 CGTTGTGATATTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATATTCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
5843324 CGTTGCGATTTATTCCAAGTT-CGTTGCGAT
1 CGTTGCGA--TATTCCAAGTTCCGTTGCGAT
5843354 AGTCGAAGTT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
63 72 0.88
65 10 0.12
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (62 bp):
CGTTGCGATATTCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCG
Found at i:5843309 original size:105 final size:105
Alignment explanation
Indices: 5843167--5843370 Score: 372
Period size: 105 Copynumber: 1.9 Consensus size: 105
5843157 AATTCGTTGC
* *
5843167 TCGAAGTTCGCGTTGCGATTTATTTCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTAT
1 TCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTAT
5843232 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTGATAT
66 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTGATAT
* *
5843272 TCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTAT
5843337 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
66 TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTG
5843371 CGATTTATTC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 95 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (105 bp):
TCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTAT
TCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGTGATAT
Found at i:5843375 original size:42 final size:42
Alignment explanation
Indices: 5843261--5843399 Score: 242
Period size: 42 Copynumber: 3.3 Consensus size: 42
5843251 TCGAAGTTCG
* * *
5843261 CGTTGTGATATTCGAAGTTCGCATTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
*
5843303 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
5843345 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
5843387 CGTTGCGATAGTC
1 CGTTGCGATAGTC
5843400 CAAAATCGCA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 92 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.37
Consensus pattern (42 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:5843393 original size:105 final size:103
Alignment explanation
Indices: 5843177--5843395 Score: 348
Period size: 105 Copynumber: 2.1 Consensus size: 103
5843167 TCGAAGTTCG
*
5843177 CGTTGCGATTTATTTCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCCAAGTTCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCCAAGTTCG
* * *
5843242 TTGCGATAGTCGAAGTTCGCGTTGTGATATTCGAAGTT
66 TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATT
* *
5843280 CGCATTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CG--TTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCCAAGTT
5843345 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
64 CGTTGCGATAGTCGAAGTTCGCGTTGCGA--TATTCCAAATT
5843387 CGTTGCGAT
1 CGTTGCGAT
5843396 AGTCCAAAAT
Statistics
Matches: 106, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
103 2 0.02
105 93 0.88
107 11 0.10
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (103 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCACGTTGCGATTTATTCCAAGTTCG
TTGCGATAGTCGAAGTTCGCGTTGCGATATTCCAAATT
Done.