Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 122 of 205
Found at i:36594514 original size:28 final size:27
Alignment explanation
Indices: 36594457--36594553 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
36594447 TAAATTGTGC
*
36594457 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
36594484 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGAATATGT
* *
36594512 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGAATATGT
*
36594539 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36594554 GACTTAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 38 0.59
28 26 0.41
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGAATATGT
Found at i:36599731 original size:13 final size:13
Alignment explanation
Indices: 36599713--36599738 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36599703 CAAAATCATA
36599713 ATTATAATAATTT
1 ATTATAATAATTT
36599726 ATTATAATAATTT
1 ATTATAATAATTT
36599739 CGGTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:36601994 original size:24 final size:23
Alignment explanation
Indices: 36601959--36602008 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
36601949 CATTAAATGC
36601959 TTACTAGATTTTCTTTACTCAGTT
1 TTACTAGATTTTCTTT-CTCAGTT
* *
36601983 TTACTAGGTTTTCTTTCTCTGTT
1 TTACTAGATTTTCTTTCTCAGTT
36602006 TTA
1 TTA
36602009 TTAGTGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.58
Consensus pattern (23 bp):
TTACTAGATTTTCTTTCTCAGTT
Found at i:36602737 original size:18 final size:18
Alignment explanation
Indices: 36602716--36602751 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
36602706 GACATGGGCT
36602716 AGGACACAGCCATGTGCC
1 AGGACACAGCCATGTGCC
*
36602734 AGGACACGGCCATGTGCC
1 AGGACACAGCCATGTGCC
36602752 TTACATCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.33, G:0.31, T:0.11
Consensus pattern (18 bp):
AGGACACAGCCATGTGCC
Found at i:36616542 original size:24 final size:25
Alignment explanation
Indices: 36616515--36616568 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 25
36616505 TTAAAATAAA
36616515 TATTTAAAGAGTTT-TT-TTTAATTT
1 TATTTAAA-AGTTTATTCTTTAATTT
36616539 TA-TT-AAAGTTTATTCCTTTAATTT
1 TATTTAAAAGTTTATT-CTTTAATTT
36616563 TATTTA
1 TATTTA
36616569 TTAATTGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 5 0.20
22 4 0.16
23 2 0.08
24 12 0.48
25 2 0.08
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (25 bp):
TATTTAAAAGTTTATTCTTTAATTT
Found at i:36622280 original size:262 final size:262
Alignment explanation
Indices: 36621815--36622342 Score: 993
Period size: 262 Copynumber: 2.0 Consensus size: 262
36621805 ATTTGGCATG
36621815 TTTTTGGTATGTTTTGATTCAATTAAAATTGGTTTTTGCTGTATATGTTGTATGGTTTGGTTGGA
1 TTTTTGGTATGTTTTGATTCAATTAAAATTGGTTTTTGCTGTATATGTTGTATGGTTTGGTTGGA
36621880 GATTATGAAATAGTCACTAAATGGTTCATTTTTACCAAAAGTAAGGGCCACGTCACAACCTCAGA
66 GATTATGAAATAGTCACTAAATGGTTCATTTTTACCAAAAGTAAGGGCCACGTCACAACCTCAGA
* *
36621945 TTTTGGATGTCACAACGTTGTCATTATAGTGAGTGACGTCGTGACGAGCTAGGGCTTGTCGTTAT
131 TTTTGGATGTCACAACGTTGTAATTACAGTGAGTGACGTCGTGACGAGCTAGGGCTTGTCGTTAT
* *
36622010 GACATGACATATTGTGATTGCCACAACGTGAAGAGAACTAGATGAAGTCGCGACGTCGATCCATA
196 GACATGACATATTGTGATGGCAACAACGTGAAGAGAACTAGATGAAGTCGCGACGTCGATCCATA
36622075 CA
261 CA
*
36622077 TTTTTGGTATGTTTTGATTCAATTAAAATTGGTTTTTGCTTTATATGTTGTATGGTTTGGTTGGA
1 TTTTTGGTATGTTTTGATTCAATTAAAATTGGTTTTTGCTGTATATGTTGTATGGTTTGGTTGGA
36622142 GATTATGAAATAGTCACTAAATGGTTCATTTTTACCAAAAGTAAGGGCCACGTCACAACCTCAGA
66 GATTATGAAATAGTCACTAAATGGTTCATTTTTACCAAAAGTAAGGGCCACGTCACAACCTCAGA
*
36622207 TTTTGGATGTCACAATGTTGTAATTACAGTGAGTGACGTCGTGACGAGCTAGGGCTTGTCGTTAT
131 TTTTGGATGTCACAACGTTGTAATTACAGTGAGTGACGTCGTGACGAGCTAGGGCTTGTCGTTAT
*
36622272 GACATGACATATTGTGATGGCAACAACGTGAAGAGAACTAGATGAAGTCTCGACGTCGATCCATA
196 GACATGACATATTGTGATGGCAACAACGTGAAGAGAACTAGATGAAGTCGCGACGTCGATCCATA
36622337 CA
261 CA
36622339 TTTT
1 TTTT
36622343 AAACATTACA
Statistics
Matches: 259, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
262 259 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (262 bp):
TTTTTGGTATGTTTTGATTCAATTAAAATTGGTTTTTGCTGTATATGTTGTATGGTTTGGTTGGA
GATTATGAAATAGTCACTAAATGGTTCATTTTTACCAAAAGTAAGGGCCACGTCACAACCTCAGA
TTTTGGATGTCACAACGTTGTAATTACAGTGAGTGACGTCGTGACGAGCTAGGGCTTGTCGTTAT
GACATGACATATTGTGATGGCAACAACGTGAAGAGAACTAGATGAAGTCGCGACGTCGATCCATA
CA
Found at i:36622957 original size:16 final size:19
Alignment explanation
Indices: 36622915--36622962 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 19
36622905 TGACTTTAAT
*
36622915 AAAATTAGAATTAAGTTGAG
1 AAAATTA-ATTTAAGTTGAG
36622935 AAAATT-ATTTAA-TTGAG
1 AAAATTAATTTAAGTTGAG
36622952 -AAATTAATTTA
1 AAAATTAATTTA
36622963 GTTAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.19
17 10 0.38
18 5 0.19
20 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
AAAATTAATTTAAGTTGAG
Found at i:36625645 original size:40 final size:40
Alignment explanation
Indices: 36625590--36625687 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
36625580 CACACCAGAG
* * *
36625590 AGAAGCTCATAAGAGCTGA-TCCAACCGAAATACGCCAAAC
1 AGAAGCTCATAAGAGCTGAGTCCAACCAAAACAAGCC-AAC
*
36625630 AGAAGCTCATAAGAGCT-AGTCCACCCAAAACAAGCCAAC
1 AGAAGCTCATAAGAGCTGAGTCCAACCAAAACAAGCCAAC
* *
36625669 AGATGCTCAAAAGAGCTGA
1 AGAAGCTCATAAGAGCTGA
36625688 ACAGAAGCTC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
39 19 0.38
40 31 0.62
ACGTcount: A:0.43, C:0.27, G:0.18, T:0.12
Consensus pattern (40 bp):
AGAAGCTCATAAGAGCTGAGTCCAACCAAAACAAGCCAAC
Found at i:36625690 original size:21 final size:21
Alignment explanation
Indices: 36625666--36625707 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36625656 AAAACAAGCC
*
36625666 AACAGATGCTCAAAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
*
36625687 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCAAAAGAGCTG
36625708 GTCCACCCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTG
Found at i:36632416 original size:29 final size:29
Alignment explanation
Indices: 36632355--36632432 Score: 84
Period size: 29 Copynumber: 2.7 Consensus size: 29
36632345 GTCATTAGGG
* * * * *
36632355 ATTATCAGGCACTATGTGCCAGTGTTTAT
1 ATTATCAGGTACTATGTACCAATGATTAC
*
36632384 ATTATCAGGTACTATGTATCAATGATTAC
1 ATTATCAGGTACTATGTACCAATGATTAC
* *
36632413 ATTATTAGGTACTTTGTACC
1 ATTATCAGGTACTATGTACC
36632433 GGTGTTCATG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (29 bp):
ATTATCAGGTACTATGTACCAATGATTAC
Found at i:36635866 original size:27 final size:27
Alignment explanation
Indices: 36635506--36635865 Score: 404
Period size: 27 Copynumber: 13.4 Consensus size: 27
36635496 GTAATGGGCC
** *
36635506 TAAAATGACCAAAATACCCTCAAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** * * *
36635533 TAATCTAACAGAAATACCCTCGAATGG
1 TAAAATGACTGAAATACCCTCGAAGGG
** * *
36635560 TAAAATGACCAAAAT-CTTCTCAAAGGG
1 TAAAATGACTGAAATAC-CCTCGAAGGG
*
36635587 TAAAATGACTGAAATACCCTCGAAGGT
1 TAAAATGACTGAAATACCCTCGAAGGG
*
36635614 TAAAATGACTGAAATACCCTTGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
36635641 TAAAATGACCGAAGTACCCTCGAACGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
36635668 TAAAATGGCTGAAATACCCCCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
36635695 TAAAATGA-TCGAAATATCCTCGAATGG
1 TAAAATGACT-GAAATACCCTCGAAGGG
*
36635722 TAAAATGACTAAAATACCCT-GAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
36635748 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* * *
36635775 TAAAATAATTGAAATACCCCCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
*
36635802 TAAAATGACCGAAATACCCTCGAAGGG
1 TAAAATGACTGAAATACCCTCGAAGGG
* *
36635829 TAAAATGACTAAAATACGCC-CGAATGG
1 TAAAATGACTGAAATAC-CCTCGAAGGG
36635856 TAAAATGACT
1 TAAAATGACT
36635866 ATTATACCCC
Statistics
Matches: 276, Mismatches: 51, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.09
27 247 0.89
28 4 0.01
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
TAAAATGACTGAAATACCCTCGAAGGG
Found at i:36636079 original size:26 final size:26
Alignment explanation
Indices: 36636043--36636113 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
36636033 AAATATACTG
36636043 TTACTGGCAGCTTTGCTGCATCACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
36636069 TTACTAGCAGCTTTACTGCATCACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
36636095 TTATTGGCAACTTTGCTGC
1 TTACTGGCAGCTTTGCTGC
36636114 GATATTGGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCACTA
Found at i:36636261 original size:28 final size:28
Alignment explanation
Indices: 36636220--36636330 Score: 150
Period size: 28 Copynumber: 4.0 Consensus size: 28
36636210 ACTGCATTGT
* *
36636220 ACTGTTAATGTATTGGGCTAAGGCCTAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
36636248 GCTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
*
36636276 ACTGTTACTGTATTGGGTTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* ** *
36636304 ACTGTTGCTGTATAAGGCTTAGGCCCA
1 ACTGTTACTGTATTGGGCTAAGGCCCA
36636331 GACTACTACT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.31
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:36643229 original size:27 final size:27
Alignment explanation
Indices: 36643199--36643386 Score: 238
Period size: 27 Copynumber: 7.0 Consensus size: 27
36643189 AAAATAAACG
*
36643199 AAATACCCTCGACGGGTAAAATGACTA
1 AAATACCCTCGAAGGGTAAAATGACTA
* * *
36643226 AAATACCCCCGAAGGGTAAAGTGACTG
1 AAATACCCTCGAAGGGTAAAATGACTA
* *
36643253 AAATACCCTTGAAGGGTAAAATGA-TCG
1 AAATACCCTCGAAGGGTAAAATGACT-A
36643280 AAATACCCTCGAAGGGTAAAATGAC-A
1 AAATACCCTCGAAGGGTAAAATGACTA
* * *
36643306 AAATTACCCCCAAAGGGTAAAATGACTG
1 AAA-TACCCTCGAAGGGTAAAATGACTA
36643334 AAATACCCTCGAAGGGTAAAATGACTA
1 AAATACCCTCGAAGGGTAAAATGACTA
*
36643361 AAATA-CCTGCAAAGGGTAAAATGACT
1 AAATACCCT-CGAAGGGTAAAATGACT
36643387 GTTACACCCC
Statistics
Matches: 140, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
26 7 0.05
27 130 0.93
28 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (27 bp):
AAATACCCTCGAAGGGTAAAATGACTA
Found at i:36643323 original size:81 final size:80
Alignment explanation
Indices: 36643196--36643386 Score: 278
Period size: 81 Copynumber: 2.4 Consensus size: 80
36643186 CCTAAAATAA
* * *
36643196 ACGAAATACCCTCGACGGGTAAAATGACTAAAATACCCCCGAAGGGTAAAGTGACTGAAATACCC
1 ACGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTAAAATGACTGAAATACCC
*
36643261 TTGAAGGGTAAAATG
66 TCGAAGGGTAAAATG
36643276 ATCGAAATACCCTCGAAGGGTAAAATGAC-AAAATTACCCCCAAAGGGTAAAATGACTGAAATAC
1 A-CGAAATACCCTCGAAGGGTAAAATGACTAAAA-TACCCCCAAAGGGTAAAATGACTGAAATAC
36643340 CCTCGAAGGGTAAAATG
64 CCTCGAAGGGTAAAATG
* *
36643357 ACTAAAATA-CCTGCAAAGGGTAAAATGACT
1 AC-GAAATACCCT-CGAAGGGTAAAATGACT
36643387 GTTACACCCC
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
80 9 0.09
81 91 0.91
ACGTcount: A:0.42, C:0.19, G:0.20, T:0.18
Consensus pattern (80 bp):
ACGAAATACCCTCGAAGGGTAAAATGACTAAAATACCCCCAAAGGGTAAAATGACTGAAATACCC
TCGAAGGGTAAAATG
Found at i:36643578 original size:27 final size:26
Alignment explanation
Indices: 36643547--36643632 Score: 91
Period size: 26 Copynumber: 3.3 Consensus size: 26
36643537 TGTATTGGTG
* *
36643547 GCTTTGCCACATAGACTGTTACTGGCA
1 GCTTTGCCACAT-CACTATTACTGGCA
**
36643574 GCTTTGCTGCATCACTATTACTGGCA
1 GCTTTGCCACATCACTATTACTGGCA
** *
36643600 GCTTTGCTGCATCACTATTACTAGCA
1 GCTTTGCCACATCACTATTACTGGCA
*
36643626 GTTTTGC
1 GCTTTGC
36643633 TGCGATATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 43 0.81
27 10 0.19
ACGTcount: A:0.20, C:0.26, G:0.20, T:0.35
Consensus pattern (26 bp):
GCTTTGCCACATCACTATTACTGGCA
Found at i:36643597 original size:26 final size:26
Alignment explanation
Indices: 36643565--36643635 Score: 124
Period size: 26 Copynumber: 2.7 Consensus size: 26
36643555 ACATAGACTG
36643565 TTACTGGCAGCTTTGCTGCATCACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
36643591 TTACTGGCAGCTTTGCTGCATCACTA
1 TTACTGGCAGCTTTGCTGCATCACTA
* *
36643617 TTACTAGCAGTTTTGCTGC
1 TTACTGGCAGCTTTGCTGC
36643636 GATATTGGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCATCACTA
Found at i:36656093 original size:37 final size:37
Alignment explanation
Indices: 36656043--36656121 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
36656033 TTATTACGAA
* * *
36656043 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
36656080 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
36656117 GTCTT
1 GTCTT
36656122 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:36656318 original size:47 final size:47
Alignment explanation
Indices: 36656240--36656650 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
36656230 CCCTTCGGGA
* * * * * *
36656240 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36656287 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656428 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656475 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656522 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656569 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36656616 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
36656651 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36657875 original size:85 final size:85
Alignment explanation
Indices: 36657746--36658009 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
36657736 TATTTTATTG
*
36657746 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
36657811 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
36657831 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
36657896 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
36657916 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
36657981 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
36658001 CCCATGCTC
1 CCCATGCTC
36658010 ATGGCCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:36659479 original size:40 final size:40
Alignment explanation
Indices: 36659422--36659607 Score: 266
Period size: 40 Copynumber: 4.7 Consensus size: 40
36659412 TGATTACTCT
* ** *
36659422 TCGGGACCTAGCCCGGATATAAAACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * * *
36659462 TCGAGG-TTTAGCACGGATATATTACTAGCACGAATGCTCT
1 TCG-GGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
36659502 TCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
36659542 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
36659582 TCGGGACTTAGCCCGGATATATCACT
1 TCGGGACTTAGCCCGGATATATCACT
36659608 CTCAATTCTC
Statistics
Matches: 131, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 128 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:36659793 original size:23 final size:23
Alignment explanation
Indices: 36659767--36659834 Score: 58
Period size: 23 Copynumber: 3.1 Consensus size: 23
36659757 TTAAAATTGC
36659767 ATCACTTATACCCTTATAATTCA
1 ATCACTTATACCCTTATAATTCA
* *
36659790 ATCACTCT-T----TCAAAATTGC-
1 ATCACT-TATACCCTTATAATT-CA
36659809 ATCACTTATACCCTTATAATTCA
1 ATCACTTATACCCTTATAATTCA
36659832 ATC
1 ATC
36659835 CAAATCGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 16
0.62 0.08 0.30
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
20 1 0.03
22 1 0.03
23 16 0.48
24 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.01, T:0.38
Consensus pattern (23 bp):
ATCACTTATACCCTTATAATTCA
Found at i:36659797 original size:42 final size:42
Alignment explanation
Indices: 36659750--36659834 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
36659740 ATAGTCATAA
*
36659750 CACTCTTTTAAAATTGCATCACTTATACCCTTATAATTCAAT
1 CACTCTTTCAAAATTGCATCACTTATACCCTTATAATTCAAT
36659792 CACTCTTTCAAAATTGCATCACTTATACCCTTATAATTCAAT
1 CACTCTTTCAAAATTGCATCACTTATACCCTTATAATTCAAT
36659834 C
1 C
36659835 CAAATCGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.33, C:0.26, G:0.02, T:0.39
Consensus pattern (42 bp):
CACTCTTTCAAAATTGCATCACTTATACCCTTATAATTCAAT
Found at i:36670926 original size:15 final size:16
Alignment explanation
Indices: 36670898--36670927 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
36670888 CTGTTGAAAC
36670898 TTATTTTCCTTTTATG
1 TTATTTTCCTTTTATG
36670914 TTATTTT-CTTTTAT
1 TTATTTTCCTTTTAT
36670928 TCTTAGTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.73
Consensus pattern (16 bp):
TTATTTTCCTTTTATG
Found at i:36680313 original size:182 final size:182
Alignment explanation
Indices: 36680001--36680370 Score: 677
Period size: 182 Copynumber: 2.0 Consensus size: 182
36679991 TAGATTTAAC
* *
36680001 TAAAAATCAAGAAGATAAACTTATTTTAGTGCTGAAACAATTCAAGAAGGCTACTAGATGGACCA
1 TAAAGATCAAGAAGATAAACTTATTTTAGTGCTGAAACAATTCAAGAAGGCTACCAGATGGACCA
*
36680066 TAGTTGATATTCTTGGTATTAGTCCATCCGTGTACATGCACAAGATCATCTTAGAATATGGTAAG
66 TAGCTGATATTCTTGGTATTAGTCCATCCGTGTACATGCACAAGATCATCTTAGAATATGGTAAG
36680131 AAATGGATGATTGATAAACAATAGAGACTGAACCCTATTATCATGGATGTGT
131 AAATGGATGATTGATAAACAATAGAGACTGAACCCTATTATCATGGATGTGT
*
36680183 TAAAGATCAAGAAGATAAACTTATTTTAGTGCTGAAATAATTCAAGAAGGCTACCAGATGGACCA
1 TAAAGATCAAGAAGATAAACTTATTTTAGTGCTGAAACAATTCAAGAAGGCTACCAGATGGACCA
*
36680248 TAGCTGATATTCTTGGTATTAGTCCATTCGTGTACATGCACAAGATCATCTTAGAATATGGTAAG
66 TAGCTGATATTCTTGGTATTAGTCCATCCGTGTACATGCACAAGATCATCTTAGAATATGGTAAG
* *
36680313 AAATGGATGATTGATAGACAATAGAGACTGAACCCTATTATGATGGATGTGT
131 AAATGGATGATTGATAAACAATAGAGACTGAACCCTATTATCATGGATGTGT
36680365 TAAAGA
1 TAAAGA
36680371 AAGAAATCAT
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.29
Consensus pattern (182 bp):
TAAAGATCAAGAAGATAAACTTATTTTAGTGCTGAAACAATTCAAGAAGGCTACCAGATGGACCA
TAGCTGATATTCTTGGTATTAGTCCATCCGTGTACATGCACAAGATCATCTTAGAATATGGTAAG
AAATGGATGATTGATAAACAATAGAGACTGAACCCTATTATCATGGATGTGT
Found at i:36685858 original size:18 final size:18
Alignment explanation
Indices: 36685832--36685866 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
36685822 AAATTAAATC
*
36685832 AAAATATGAAAATAGGGT
1 AAAAAATGAAAATAGGGT
36685850 AAAAAATGAAAATAGGG
1 AAAAAATGAAAATAGGG
36685867 ATCACATAGT
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:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAAAATGAAAATAGGGT
Found at i:36686993 original size:39 final size:40
Alignment explanation
Indices: 36686950--36687091 Score: 200
Period size: 39 Copynumber: 3.6 Consensus size: 40
36686940 TCATATTCAC
* * *
36686950 TTTTAAGCATGTCTCACATTACACATATAATCACATAA-A
1 TTTTAAGCATGTATCACAATACTCATATAATCACATAACA
* *
36686989 TTTTAGGCATATATCACAATACTCATATAATCACATAACA
1 TTTTAAGCATGTATCACAATACTCATATAATCACATAACA
36687029 -TTTAAGCATGTATCACAATACTCATATAATCACATAACA
1 TTTTAAGCATGTATCACAATACTCATATAATCACATAACA
* *
36687068 -TTCAAGCATATATCACAATACTCA
1 TTTTAAGCATGTATCACAATACTCA
36687092 AAAACATGTT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 92 0.99
40 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (40 bp):
TTTTAAGCATGTATCACAATACTCATATAATCACATAACA
Found at i:36689103 original size:17 final size:17
Alignment explanation
Indices: 36689062--36689094 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
36689052 TGTCATACAA
36689062 CCGTGTGGGGCACACAG
1 CCGTGTGGGGCACACAG
36689079 CCGTGTGGGGCACACA
1 CCGTGTGGGGCACACA
36689095 TCTGTGTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.30, G:0.39, T:0.12
Consensus pattern (17 bp):
CCGTGTGGGGCACACAG
Found at i:36692822 original size:102 final size:100
Alignment explanation
Indices: 36692575--36692777 Score: 253
Period size: 101 Copynumber: 2.0 Consensus size: 100
36692565 TGTAATGTTT
* ** * * **
36692575 GATGCTATTAATTGAAGTTGACTTTTTAGGTTTTTTTTAAAAAAATAAACTATGTTATCAAAGAA
1 GATGCCATTAATTGAAGTTGACTACTCAGGTGTTCGTT-AAAAAATAAACTATGTTATCAAAGAA
36692640 AAAAAAGAAGAAGAAAAGAAAACTCATGAGCACCGC
65 AAAAAAGAAGAAGAAAAGAAAACTCATGAGCACCGC
* ** * * **
36692676 GATGCTATTAATTGAAGTTGACTTTTTAGGTTTTTTTTTAAAAAATAAACTATGTTATCAAAGAA
1 GATGCCATTAATTGAAGTTGACTACTCAGG-TGTTCGTTAAAAAATAAACTATGTTATCAAAG-A
36692741 AAAAAAAGAAGAAGAAAAGAAAACTCATGAGCACCGC
64 AAAAAAAGAAGAAGAAAAGAAAACTCATGAGCACCGC
36692778 ATTTCCCTTG
Statistics
Matches: 100, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
101 54 0.54
102 46 0.46
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (100 bp):
GATGCCATTAATTGAAGTTGACTACTCAGGTGTTCGTTAAAAAATAAACTATGTTATCAAAGAAA
AAAAAGAAGAAGAAAAGAAAACTCATGAGCACCGC
Found at i:36699213 original size:8 final size:8
Alignment explanation
Indices: 36699200--36699235 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
36699190 ATATTTTGTG
36699200 AAACCCTA
1 AAACCCTA
36699208 AAACCCTA
1 AAACCCTA
36699216 AAACCCTA
1 AAACCCTA
36699224 AAACCCTA
1 AAACCCTA
36699232 AAAC
1 AAAC
36699236 ACTATATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.53, C:0.36, G:0.00, T:0.11
Consensus pattern (8 bp):
AAACCCTA
Found at i:36705820 original size:19 final size:20
Alignment explanation
Indices: 36705782--36705820 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
36705772 TTGGTTACAT
36705782 AAGTCCCTACGGCCGTGTGG
1 AAGTCCCTACGGCCGTGTGG
* *
36705802 AAGTGCCTA-GGCTGTGTGG
1 AAGTCCCTACGGCCGTGTGG
36705821 GGGTCTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (20 bp):
AAGTCCCTACGGCCGTGTGG
Found at i:36716551 original size:24 final size:24
Alignment explanation
Indices: 36716524--36716605 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
36716514 GCTTCCAAAT
*
36716524 TTTAAAGGATGTATAATGCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
* *
36716548 TTTAAATGA--CATAA--CAACTCC
1 TTTAAATGATGTATAATGC-TCTCC
*
36716569 TTTAAATGATGTAAAATGCTCTCC
1 TTTAAATGATGTATAATGCTCTCC
*
36716593 TTTAATTGATGTA
1 TTTAAATGATGTA
36716606 ATAGCCCATT
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
20 1 0.02
21 13 0.28
22 4 0.09
23 3 0.07
24 24 0.52
25 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (24 bp):
TTTAAATGATGTATAATGCTCTCC
Found at i:36716724 original size:11 final size:11
Alignment explanation
Indices: 36716708--36716740 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
36716698 ACCTATAATC
36716708 AAAACACATTA
1 AAAACACATTA
36716719 AAAACACATT-
1 AAAACACATTA
36716729 -AAACACATTA
1 AAAACACATTA
36716739 AA
1 AA
36716741 TACATTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.18, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAACACATTA
Found at i:36716734 original size:9 final size:9
Alignment explanation
Indices: 36716709--36716755 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
36716699 CCTATAATCA
36716709 AAACACATT
1 AAACACATT
36716718 AAAAACACATT
1 --AAACACATT
36716729 AAACACATT
1 AAACACATT
*
36716738 AAATACATTT
1 AAACACA-TT
36716748 AAACACAT
1 AAACACAT
36716756 AATAAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 16 0.48
10 8 0.24
11 9 0.27
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.23
Consensus pattern (9 bp):
AAACACATT
Found at i:36716734 original size:20 final size:19
Alignment explanation
Indices: 36716709--36716755 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
36716699 CCTATAATCA
36716709 AAACACATTAAAAACACATT
1 AAACACATTAAAAACA-ATT
* *
36716729 AAACACATTAAATACATTT
1 AAACACATTAAAAACAATT
36716748 AAACACAT
1 AAACACAT
36716756 AATAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.57, C:0.19, G:0.00, T:0.23
Consensus pattern (19 bp):
AAACACATTAAAAACAATT
Found at i:36716764 original size:17 final size:19
Alignment explanation
Indices: 36716709--36716766 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
36716699 CCTATAATCA
*
36716709 AAACACATTAAA-AACACATT
1 AAACACATTAAATAA-A-TTT
*
36716729 AAACACATTAAATACATTT
1 AAACACATTAAATAAATTT
36716748 AAACACA-T-AATAAATTT
1 AAACACATTAAATAAATTT
36716765 AA
1 AA
36716767 TAAGCTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 10 0.29
18 1 0.03
19 9 0.26
20 13 0.38
21 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.26
Consensus pattern (19 bp):
AAACACATTAAATAAATTT
Found at i:36716969 original size:39 final size:39
Alignment explanation
Indices: 36716894--36716969 Score: 116
Period size: 39 Copynumber: 1.9 Consensus size: 39
36716884 ATGAAAATAA
* *
36716894 AGTCCAACAACTCAATTATTAACTAAGATGAGTTTATAT
1 AGTCCAACAACTCAATTATTAACTAAGATAACTTTATAT
* *
36716933 AGTCCAGCGACTCAATTATTAACTAAGATAACTTTAT
1 AGTCCAACAACTCAATTATTAACTAAGATAACTTTAT
36716970 TAAAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (39 bp):
AGTCCAACAACTCAATTATTAACTAAGATAACTTTATAT
Found at i:36718443 original size:70 final size:70
Alignment explanation
Indices: 36718330--36718468 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
36718320 CCCAAATTAT
* *
36718330 CTTAGCGATACAATAAAAAGAAGGAAAATAAATGGGGTAAGCATAAAGCTTAGTAAGTTTACAAG
1 CTTAGCGATACAATAAAAAGAAGGAAAATAAAGGGGGTAAGCATAAAACTTAGTAAGTTTACAAG
36718395 CAAAA
66 CAAAA
*
36718400 CTTAGCGATACTATAAAAAGAAGGAAAATAAAGGGGGTAAGCATAAAACTTAGTAAGTTTACAAG
1 CTTAGCGATACAATAAAAAGAAGGAAAATAAAGGGGGTAAGCATAAAACTTAGTAAGTTTACAAG
36718465 CAAA
66 CAAA
36718469 TAAATAACAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (70 bp):
CTTAGCGATACAATAAAAAGAAGGAAAATAAAGGGGGTAAGCATAAAACTTAGTAAGTTTACAAG
CAAAA
Found at i:36718925 original size:50 final size:50
Alignment explanation
Indices: 36718871--36718977 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
36718861 ACATGGGAGT
* * * * * * *
36718871 TCTCATATCGGTGCCCATGCCATGTGCCAGACGTGGTCTTATGGGGGACC
1 TCTCATATCGGTACCAACGCCAAGTCCCAGACATGGTCGTATGGGGGACC
* **
36718921 TCTCATCTCGGTACCAACGCCAAGTCCCAGACATGGTCGTATTTGGGACC
1 TCTCATATCGGTACCAACGCCAAGTCCCAGACATGGTCGTATGGGGGACC
36718971 TCTCATA
1 TCTCATA
36718978 ACCTCAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TCTCATATCGGTACCAACGCCAAGTCCCAGACATGGTCGTATGGGGGACC
Found at i:36723195 original size:69 final size:69
Alignment explanation
Indices: 36723084--36723223 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
36723074 AATTCATGTT
* *
36723084 AGAGTTCATATTTGGAAAAATACCCATAGGTGAAATGTGTTTATTTTGATGTTTTATGGTAGAAT
1 AGAGTTCATATTTGGAAAAATACCCATAGGCGAAATGTGTTTATTTTGATGTTTTATGATAGAAT
36723149 ATGA
66 ATGA
36723153 AGAGTTCATATTTGGAAAAATACCCATAGGCGAAATGTGTTTATTTTGATGTTTTATGATAGAAT
1 AGAGTTCATATTTGGAAAAATACCCATAGGCGAAATGTGTTTATTTTGATGTTTTATGATAGAAT
36723218 ATGA
66 ATGA
36723222 AG
1 AG
36723224 CTTGAAATTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.38
Consensus pattern (69 bp):
AGAGTTCATATTTGGAAAAATACCCATAGGCGAAATGTGTTTATTTTGATGTTTTATGATAGAAT
ATGA
Found at i:36723931 original size:50 final size:53
Alignment explanation
Indices: 36723812--36723949 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 53
36723802 AGGGATGAGA
* *
36723812 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGGGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGG-A-TATTGAGG-TATGAGAGG
* * *
36723868 TTCCACGTGAGACCATGTCTGGGACATGGCGTTGG-TATTGA-G-ATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGATATTGAGGTATGAGAGG
* * *
36723918 TCCCTCGTAAGACCATGTCCGAGACATGGCAT
1 TCCCACGTAAGACCATGTCTGGGACATGGCAT
36723950 GGGCACTAAT
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
50 33 0.46
52 1 0.01
53 6 0.08
56 31 0.44
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (53 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGATATTGAGGTATGAGAGG
Found at i:36724280 original size:20 final size:20
Alignment explanation
Indices: 36724255--36724293 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36724245 TGAGTTATTT
36724255 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36724275 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36724294 GAAGCAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36729530 original size:50 final size:50
Alignment explanation
Indices: 36729459--36729600 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 50
36729449 CAGTACTGCA
* * * ** *
36729459 AATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACC
* * ** *
36729509 CATGCCATGTGCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTACC
1 AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACC
* * ***
36729559 AACGCCATGTCCCAGACATGGTCGTATTTGGGACCTCTCATA
1 AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATA
36729601 ACCTCAATAA
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATATCGGTACC
Found at i:36736503 original size:24 final size:23
Alignment explanation
Indices: 36736476--36736558 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 23
36736466 GTTGTCGAAT
*
36736476 TTTAAAGGATGTATAATGCTCTCC
1 TTTAAATGATGTA-AATGCTCTCC
*
36736500 TTTAAATGACGTAACA-G--CTCC
1 TTTAAATGATGTAA-ATGCTCTCC
36736521 TTTAAATGATGTAAAATGCTCTCC
1 TTTAAATGATGT-AAATGCTCTCC
*
36736545 TTTAATTGATGTAA
1 TTTAAATGATGTAA
36736559 TAGCCCCTTG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
21 16 0.32
22 3 0.06
23 4 0.08
24 27 0.54
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (23 bp):
TTTAAATGATGTAAATGCTCTCC
Found at i:36736540 original size:45 final size:45
Alignment explanation
Indices: 36736476--36736567 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
36736466 GTTGTCGAAT
* *
36736476 TTTAAAGGATGTATAATGCTCTCCTTTAAATGACGTAACAGCTCC
1 TTTAAAGGATGTAAAATGCTCTCCTTTAAATGACGTAACAGCCCC
* * * *
36736521 TTTAAATGATGTAAAATGCTCTCCTTTAATTGATGTAATAGCCCC
1 TTTAAAGGATGTAAAATGCTCTCCTTTAAATGACGTAACAGCCCC
36736566 TT
1 TT
36736568 GTATGTAACC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.37
Consensus pattern (45 bp):
TTTAAAGGATGTAAAATGCTCTCCTTTAAATGACGTAACAGCCCC
Found at i:36750266 original size:16 final size:18
Alignment explanation
Indices: 36750239--36750271 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
36750229 TAAAATTGTG
36750239 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
36750256 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
36750272 TTTACATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:36752732 original size:24 final size:26
Alignment explanation
Indices: 36752664--36752745 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 26
36752654 TTGAAAACAA
* *
36752664 AATTTAATAAAAAAATTAAAATATTATT
1 AATTTAAT--AAATATTAAAATAATATT
*
36752692 ATTTTAATAAATA--AAAATAAT-TT
1 AATTTAATAAATATTAAAATAATATT
*
36752715 AATTT-ATAAATATTAAAA-AATAAT
1 AATTTAATAAATATTAAAATAATATT
*
36752739 AAATTAA
1 AATTTAA
36752746 GTTAGAAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
22 7 0.16
23 9 0.20
24 16 0.36
25 1 0.02
26 4 0.09
28 7 0.16
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (26 bp):
AATTTAATAAATATTAAAATAATATT
Found at i:36756107 original size:19 final size:19
Alignment explanation
Indices: 36756080--36756118 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
36756070 GTCTACCCAT
* *
36756080 ACGGTCTGCCTGATTTCAC
1 ACGGCCTGCATGATTTCAC
36756099 ACGGCCTGCATGATTTCAC
1 ACGGCCTGCATGATTTCAC
36756118 A
1 A
36756119 TGGTTGTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.28
Consensus pattern (19 bp):
ACGGCCTGCATGATTTCAC
Found at i:36774518 original size:44 final size:45
Alignment explanation
Indices: 36774453--36774543 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
36774443 ACCTCTATTC
* * *
36774453 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
36774497 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
36774542 CA
1 CA
36774544 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:36784579 original size:40 final size:40
Alignment explanation
Indices: 36784496--36784758 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
36784486 TTGAATGCTG
* * * * * *
36784496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
36784536 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
36784576 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
36784616 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
36784656 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36784696 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
36784735 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36784759 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:36784778 original size:79 final size:80
Alignment explanation
Indices: 36784535--36784793 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
36784525 AAGTGAATAT
* * * * * *
36784535 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
36784599 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
36784615 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
36784680 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
36784695 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
36784759 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
36784774 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
36784794 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:36789314 original size:686 final size:686
Alignment explanation
Indices: 36787996--36789366 Score: 2530
Period size: 686 Copynumber: 2.0 Consensus size: 686
36787986 CCTAACATCG
* *
36787996 TGAGTTGTATATTTTGATACAGTCAAACGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTT
1 TGAGTAGTATATTATGATACAGTCAAACGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTT
* * *
36788061 GGATATACCACAATCTATGTAGAGGGATATGGTTGGTCGATATAGGATAAGTCCCTCCTACATAA
66 GGATATACCACAATCTATGTAAAGAGATATGGTTGGTCGATATAGAATAAGTCCCTCCTACATAA
36788126 TGGGAGTAATATCTTAGGCCACTTGATTAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAG
131 TGGGAGTAATATCTTAGGCCACTTGATTAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAG
36788191 TTGATATTAGATGTCATACTTATTTGTATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAAT
196 TTGATATTAGATGTCATACTTATTTGTATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAAT
36788256 GGACAATGCAAGTGTGACTATTCCATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTA
261 GGACAATGCAAGTGTGACTATTCCATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTA
36788321 TTGCATAAAAGGTTAATCATAAAAAGGTTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAA
326 TTGCATAAAAGGTTAATCATAAAAAGGTTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAA
* * *
36788386 TGATGCATTGCTAGATGCCACTCATTGTTCGTAGCATTAGAATCGTTCTAGTGTTACTGCTAACG
391 TGATGCATTGCTAGATGCCACTCATTGTTCGTAACATTAGAATCATTCTAGTATTACTGCTAACG
*
36788451 TTACAAGAACCTACAGGGTCACACCCTATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTG
456 TTACAAGAACCTACAAGGTCACACCCTATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTG
*
36788516 TTTTTGGGGTCGCTTGAATTAAATTAATTATAGAATTAATTTAATTCGGTAATCAAATTTCCAAC
521 TTTTTGGGGTCACTTGAATTAAATTAATTATAGAATTAATTTAATTCGGTAATCAAATTTCCAAC
* *
36788581 ACATTATGTACAATGTTGTTGTACGCATAATAAGGACATGAATTTGGTTAGCATGTGAATTCAAA
586 ACATTATGTACAAGGTTGTTGTACGCACAATAAGGACATGAATTTGGTTAGCATGTGAATTCAAA
36788646 TAAATATATGGTTTACCGAAATTATATTATAATTAT
651 TAAATATATGGTTTACCGAAATTATATTATAATTAT
* *
36788682 TGAGTAGTATATTATGATACAGTCAAACGTATACCGTAACTGGTTGTTCTATAAAGGCTGATGTT
1 TGAGTAGTATATTATGATACAGTCAAACGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTT
*
36788747 GGATATACCATAAT-TGATGTAAAGAGATATGGTTGGTCGATATAGAATAAGTCCCTCCTACATA
66 GGATATACCACAATCT-ATGTAAAGAGATATGGTTGGTCGATATAGAATAAGTCCCTCCTACATA
36788811 ATGGGAGTAATATCTTAGGCCACTTGATTAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAA
130 ATGGGAGTAATATCTTAGGCCACTTGATTAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAA
36788876 GTTGATATTAGATGTCATACTTATTTGTATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAA
195 GTTGATATTAGATGTCATACTTATTTGTATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAA
*
36788941 TGGACTATGCAAGTGTGACTATTCCATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATT
260 TGGACAATGCAAGTGTGACTATTCCATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATT
36789006 ATTGCATAAAAGGTTAATCA-AAAAAGGTTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCA
325 ATTGCATAAAAGGTTAATCATAAAAAGGTTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCA
* *
36789070 ATGATGCATTGCTAGATGCCACTCATTGTTTGTAACATTGGAATCATTCTAGTATTACTGCTAAC
390 ATGATGCATTGCTAGATGCCACTCATTGTTCGTAACATTAGAATCATTCTAGTATTACTGCTAAC
*
36789135 GTTACAGGAACCTACAAGGTCACACCCTATAGTTGAAATGAACGGAATAAACCATAGTTGGTATT
455 GTTACAAGAACCTACAAGGTCACACCCTATAGTTGAAATGAACGGAATAAACCATAGTTGGTATT
*
36789200 GTTTTTAGGGGTCACTTGAATTAAATTAATTATAGATTTAATTTAATTCGGTAATCAAATTTCCA
520 GTTTTT-GGGGTCACTTGAATTAAATTAATTATAGAATTAATTTAATTCGGTAATCAAATTTCCA
36789265 ACACATTATGTACAAGGTTGTTGTACGCACAATAAGGACATGAATTTGGTTAGCATGTGAATTCA
584 ACACATTATGTACAAGGTTGTTGTACGCACAATAAGGACATGAATTTGGTTAGCATGTGAATTCA
36789330 AATAAATATATGGTTTACCGAAATTATATTATAATTA
649 AATAAATATATGGTTTACCGAAATTATATTATAATTA
36789367 ATGTAATTAT
Statistics
Matches: 663, Mismatches: 20, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
685 174 0.26
686 489 0.74
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.33
Consensus pattern (686 bp):
TGAGTAGTATATTATGATACAGTCAAACGTACACCGTAACTGGTTGTTCTATAAAGACTGATGTT
GGATATACCACAATCTATGTAAAGAGATATGGTTGGTCGATATAGAATAAGTCCCTCCTACATAA
TGGGAGTAATATCTTAGGCCACTTGATTAAGTGAGACTAGAAATGCATGGCCATGCTCAAATAAG
TTGATATTAGATGTCATACTTATTTGTATATCGTAGTCTGCTTAAGATATCAAGGAACATGGAAT
GGACAATGCAAGTGTGACTATTCCATGACTTGTGTCCAATCCAGAGATAAAGGACTTAAGGATTA
TTGCATAAAAGGTTAATCATAAAAAGGTTATGTCGAATCATGATCTCTTGTGACTTAGGTAGCAA
TGATGCATTGCTAGATGCCACTCATTGTTCGTAACATTAGAATCATTCTAGTATTACTGCTAACG
TTACAAGAACCTACAAGGTCACACCCTATAGTTGAAATGAACGGAATAAACCATAGTTGGTATTG
TTTTTGGGGTCACTTGAATTAAATTAATTATAGAATTAATTTAATTCGGTAATCAAATTTCCAAC
ACATTATGTACAAGGTTGTTGTACGCACAATAAGGACATGAATTTGGTTAGCATGTGAATTCAAA
TAAATATATGGTTTACCGAAATTATATTATAATTAT
Found at i:36790853 original size:27 final size:27
Alignment explanation
Indices: 36790815--36791582 Score: 446
Period size: 27 Copynumber: 28.3 Consensus size: 27
36790805 GATTCATGGG
* *
36790815 AAAATGATCGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36790842 AAAATGACCGAAATATCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * *
36790869 AAAATGACTGAAATACCCCCAAAGGAT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36790896 AAAATGACCGAAATACTCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36790923 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
36790950 AAAATGACTAAAATACCCTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36790977 AAAATGACCAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
**
36791004 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36791031 AAAATGACTGAAATACCCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
36791058 AAAATGATCGAAAGACCCTCTAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36791085 AAAATTACCGAAATAACCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * * * *
36791112 AAAATTATCAAAATACCCCCGGAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36791139 AAAATGACTGAAATGCCCTC-ATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
** ** * * *
36791166 AAAATGATTGTTATACTCCTAGGA-GTT
1 AAAATGACCGAAATAC-CCTCGAAGGGT
* ** * ***
36791193 GAAATGAGTG-TATGA--C-CGATTTGT
1 AAAATGACCGAAAT-ACCCTCGAAGGGT
*** * ** * ** *
36791217 TCTATG-TC-ATTTA-CAT-GACTGTT
1 AAAATGACCGAAATACCCTCGAAGGGT
* ** * * ** *
36791240 ACTAAGTATGACATACTACGTACACGTATGATCGCT
1 A--AA--ATGAC---CGAAATAC-CCT-CGAAGGGT
* * * * **** *
36791276 CAAGTGGAAGCCCAACTTGTGATTC-ATGGG-
1 AAAAT-G-A-CCGAA-AT-ACCCTCGAAGGGT
* *
36791306 CAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* **
36791333 AAAATGATCGAAATACCCTCGAAGGAC
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36791360 AAAATGATCGAAATACCCTCGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
** * *
36791387 AAAATGATTGAAATACTCTTGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
36791414 CAAATAATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36791441 AAAATGACTGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36791468 AAAATGACCGAAAGACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
36791495 AAAATTATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
36791522 AAAATGATCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
36791549 AAAATTACTGAAATACCCTC-ATAGTGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
36791576 AAAATGA
1 AAAATGA
36791583 TTGTTATACT
Statistics
Matches: 577, Mismatches: 135, Indels: 58
0.75 0.18 0.08
Matches are distributed among these distances:
22 1 0.00
23 7 0.01
24 5 0.01
25 2 0.00
26 9 0.02
27 520 0.90
28 5 0.01
29 1 0.00
30 4 0.01
31 4 0.01
32 6 0.01
33 3 0.01
34 5 0.01
35 1 0.00
36 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:36791664 original size:410 final size:410
Alignment explanation
Indices: 36790897--36791681 Score: 1284
Period size: 410 Copynumber: 1.9 Consensus size: 410
36790887 CCAAAGGATA
* * **
36790897 AAATGACCGAAATACTCTTGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGACTAAA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACTAAA
* *
36790962 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATTGAAATACCCTCGAA
66 ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
* * *
36791027 GGGTAAAATGACTGAAATACCCTTGAAGGGTAAAATGATCGAAAGACCCTCTAAGGGTAAAATTA
131 GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
* * *
36791092 CCGAAATAACCTCGAAGGGTAAAATTATCAAAATACCCCCGGAGGGTAAAATGACTGAAATGCCC
196 CCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
36791157 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
261 TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
* *
36791222 GTCATTTACATGACTGTTACTAAGTATGACATACTACGTACACGTATGATCGCTCAAGTGGAAGC
326 GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
36791287 CCAACTTGTGATTCATGGGC
391 CCAACTTGTGATTCATGGGC
* *
36791307 AAATGATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGA-TCGA
1 AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACT-AA
*** * * *
36791371 AATACCCTCGAATGGTAAAATGATTGAAATACTCTTGAAGGGTCAAATAATCGAAATACCCTCGA
65 AATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGA
36791436 AGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATT
130 AGGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATT
* * * * *
36791501 ATCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATTACTGAAATACC
195 ACCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACC
*
36791566 CTCATAGTGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTA
260 CTCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTA
* *
36791631 TGTTATTTACATGACTATTACTGAGTATGACATACTACATACACGTATGAT
325 TGTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGAT
36791682 TTATGACATG
Statistics
Matches: 344, Mismatches: 30, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
409 1 0.00
410 343 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (410 bp):
AAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCGAAGGACAAAATGACTAAA
ATACCCTCGAATGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAA
GGGTAAAATGACTGAAATACCCTCGAAGGGTAAAATGACCGAAAGACCCTCGAAGGGTAAAATTA
CCGAAATAACCTCGAAGGGTAAAATGATCAAAATACCCCCGAAGGGTAAAATGACTGAAATACCC
TCATAGGGTAAAATGATTGTTATACTCCTAGGAGTTGAAATGAGTGTATGACCGATTTGTTCTAT
GTCATTTACATGACTATTACTAAGTATGACATACTACATACACGTATGATCGCTCAAGTGGAAGC
CCAACTTGTGATTCATGGGC
Found at i:36791814 original size:26 final size:26
Alignment explanation
Indices: 36791732--36791831 Score: 89
Period size: 26 Copynumber: 3.8 Consensus size: 26
36791722 AGGGGAAGTA
** * *
36791732 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTACGT
* *
36791757 ATACTGTTACTGGAAGCTATGCTACGT
1 -TACTGTTACTGGCAGCTTTGCTACGT
36791784 TACTGTTACTGGCAGCTTTG-T-CGT
1 TACTGTTACTGGCAGCTTTGCTACGT
*
36791808 ATCACTGTTACTAGCAGCTTTGCT
1 -T-ACTGTTACTGGCAGCTTTGCT
36791832 GCGATATTGG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
24 3 0.05
25 2 0.03
26 41 0.66
27 16 0.26
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACGT
Found at i:36791980 original size:28 final size:28
Alignment explanation
Indices: 36791938--36792029 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
36791928 TTACTGCATT
*
36791938 ACACTGATTATTGTATTGGGCTAAGGCCC
1 ACACT-ATTACTGTATTGGGCTAAGGCCC
*
36791967 CCACTATTACTGTATTGGGCTAAGGCCTAC
1 ACACTATTACTGTATTGGGCTAAGGCC--C
* *
36791997 ACACTATCACTGTAATGGGCTAAGGCCC
1 ACACTATTACTGTATTGGGCTAAGGCCC
36792025 ACACT
1 ACACT
36792030 GTACTGATAC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
28 27 0.48
29 4 0.07
30 25 0.45
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (28 bp):
ACACTATTACTGTATTGGGCTAAGGCCC
Found at i:36792009 original size:30 final size:29
Alignment explanation
Indices: 36791949--36792029 Score: 112
Period size: 30 Copynumber: 2.8 Consensus size: 29
36791939 CACTGATTAT
* *
36791949 TGTATTGGGCTAAGGCC-CCCACTATTAC
1 TGTATTGGGCTAAGGCCACACACTATCAC
36791977 TGTATTGGGCTAAGGCCTACACACTATCAC
1 TGTATTGGGCTAAGGCC-ACACACTATCAC
*
36792007 TGTAATGGGCTAAGGCC-CACACT
1 TGTATTGGGCTAAGGCCACACACT
36792030 GTACTGATAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
28 23 0.48
30 25 0.52
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (29 bp):
TGTATTGGGCTAAGGCCACACACTATCAC
Found at i:36798788 original size:27 final size:27
Alignment explanation
Indices: 36798758--36799004 Score: 343
Period size: 27 Copynumber: 9.1 Consensus size: 27
36798748 ATTCATTAGC
*
36798758 AAATGACCAAAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
36798785 AAATGACCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
36798812 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
36798839 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
36798866 AAATGACCGAAATACTCTTGAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* *
36798893 AAATGATCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
36798920 AAATGACCGAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
* * *
36798947 AAATAACCAAAATACCCTCAAAGGGTA
1 AAATGACCGAAATACCCTCGAAGGGTA
*
36798974 AAATGACCGAAATACCC-CTAAAGGGTA
1 AAATGACCGAAATACCCTC-GAAGGGTA
36799001 AAAT
1 AAAT
36799005 TATCAAAATC
Statistics
Matches: 203, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
26 1 0.00
27 202 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGAAGGGTA
Found at i:36800805 original size:28 final size:27
Alignment explanation
Indices: 36800754--36800806 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
36800744 GTTTATTGAT
**
36800754 TTTAGTCATTTGTTATTTTCTTTCTTG
1 TTTAGTCATTTGTTATTTAATTTCTTG
*
36800781 TTTATTCATTTAGTTATTTAATTTCT
1 TTTAGTCATTT-GTTATTTAATTTCT
36800807 CTTAATTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.17, C:0.09, G:0.08, T:0.66
Consensus pattern (27 bp):
TTTAGTCATTTGTTATTTAATTTCTTG
Found at i:36810885 original size:2 final size:2
Alignment explanation
Indices: 36810878--36810918 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
36810868 TAGCATTAGC
36810878 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
36810919 GCTTTATGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:36811410 original size:19 final size:19
Alignment explanation
Indices: 36811386--36811422 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
36811376 AATGTAACTT
*
36811386 TTTTATATTTTTTTAAAAG
1 TTTTATAATTTTTTAAAAG
36811405 TTTTATAATTTTTTAAAA
1 TTTTATAATTTTTTAAAA
36811423 TATAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTAAAAG
Found at i:36812552 original size:43 final size:43
Alignment explanation
Indices: 36812446--36812671 Score: 226
Period size: 43 Copynumber: 5.3 Consensus size: 43
36812436 GGCGCTTTCC
* * * * **
36812446 CACAAGCGCTGCTATAGACCATGACCTTTAG-CGCGATTTTCC
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* *
36812488 CACAAACGCCGCTATAAACCATGACCTTTAGTGGCGCTTTTTT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* * *
36812531 CACTAATGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTAT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
* *
36812574 CACAAACGCCACTATAGACCATGACCTTTATTGGCGCTTTTAT
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
** * ** * *
36812617 TTCAAACG--GCTAAAGACCATGATATTTAGCGGCGCTTCTT-G
1 CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTT-TTAT
*
36812658 CAAAAACGCCGCTA
1 CACAAACGCCGCTA
36812672 AAAACATAAC
Statistics
Matches: 151, Mismatches: 29, Indels: 7
0.81 0.16 0.04
Matches are distributed among these distances:
41 28 0.19
42 30 0.20
43 93 0.62
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (43 bp):
CACAAACGCCGCTATAGACCATGACCTTTAGTGGCGCTTTTAT
Found at i:36812558 original size:85 final size:86
Alignment explanation
Indices: 36812456--36812614 Score: 257
Period size: 86 Copynumber: 1.9 Consensus size: 86
36812446 CACAAGCGCT
* *
36812456 GCTATAGACCATGACCTTTAGC-GCGATTTTCCCACAAACGCCGCTATAAACCATGACCTTTAGT
1 GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
36812520 GGCGCTTTTTTCACTAATGCC
66 GGCGCTTTTTTCACTAATGCC
* * * *
36812541 GCTATAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCACTATAGACCATGACCTTTATT
1 GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
36812606 GGCGCTTTT
66 GGCGCTTTT
36812615 ATTTCAAACG
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
85 22 0.33
86 45 0.67
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (86 bp):
GCTATAGACCATGACCTTTAGCGGCGATTTTACCACAAACGCCACTATAAACCATGACCTTTAGT
GGCGCTTTTTTCACTAATGCC
Found at i:36814464 original size:106 final size:101
Alignment explanation
Indices: 36814345--36814553 Score: 312
Period size: 106 Copynumber: 2.0 Consensus size: 101
36814335 AGCAATTTTT
* *
36814345 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATTCTAAATTTTTTTTATTTTATTTTTTATAAA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCT-AA-TTTTTTT-TTAT-TTTTTTATAAA
*
36814410 TTGATTTA-TTTTTGCGGCGTTTTTTTATAAAAACGCCGCTA
62 TTGATTTATTTTTTGCGGCG--CTTTTATAAAAACGCCGCTA
*
36814451 TTTCATTTTGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
1 TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
*
36814516 TTTATTTTTTGCGGCGCTTTTATAAAAGCGCCGCTA
66 TTTATTTTTTGCGGCGCTTTTATAAAAACGCCGCTA
36814552 TT
1 TT
36814554 GCTTACCTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
101 20 0.21
102 19 0.20
103 14 0.14
104 7 0.07
105 2 0.02
106 35 0.36
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (101 bp):
TTTCATTTGGAACAAAATGACGCCGTTTTGCTATGCTAATTTTTTTTTATTTTTTTATAAATTGA
TTTATTTTTTGCGGCGCTTTTATAAAAACGCCGCTA
Found at i:36814769 original size:75 final size:76
Alignment explanation
Indices: 36814690--36814837 Score: 244
Period size: 75 Copynumber: 2.0 Consensus size: 76
36814680 CGTTTTTATA
* * *
36814690 AAAAACGCCGCTATTTTATTTTGAACAAATTGACGCCGTTTTGCTATGCT-AAAATTTTTTATTT
1 AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
36814754 TATTTTTTGCT
66 TATTTTTTGCT
* *
36814765 AAAAACGCCGCTATTTCATTTTGAAAAAAATGATGCCGTTTTGCTATGTTAAAAATTTTTTATTT
1 AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
36814830 TATTTTTT
66 TATTTTTT
36814838 TTGTAAATTG
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
75 45 0.67
76 22 0.33
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (76 bp):
AAAAACGCCGCTATTTCATTTTGAAAAAAATGACGCCGTTTTGCTATGCTAAAAATTTTTTATTT
TATTTTTTGCT
Found at i:36815628 original size:21 final size:22
Alignment explanation
Indices: 36815589--36815629 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36815579 ATCTAACCCC
36815589 TAAACCCCTAACCCCTAAACAT
1 TAAACCCCTAACCCCTAAACAT
* *
36815611 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
36815630 CATAATCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACAT
Found at i:36815647 original size:14 final size:14
Alignment explanation
Indices: 36815629--36815670 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
36815619 AACCCTTAAA
36815629 CCATAATCCCTAAT
1 CCATAATCCCTAAT
*
36815643 TCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
36815658 CCATACTCCCTAA
1 CCATAATCCCTAA
36815671 ACCTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:36815667 original size:15 final size:15
Alignment explanation
Indices: 36815625--36815671 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
36815615 TCCCAACCCT
36815625 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
*
36815639 T-AATTCATAATCCC
1 TAAATCCATAATCCC
*
36815653 TAAATCCATACTCCC
1 TAAATCCATAATCCC
36815668 TAAA
1 TAAA
36815672 CCTTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 2 0.07
14 11 0.39
15 15 0.54
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:36816384 original size:113 final size:113
Alignment explanation
Indices: 36816182--36816396 Score: 369
Period size: 113 Copynumber: 1.9 Consensus size: 113
36816172 TAAAATATTT
** *
36816182 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCCCCGAAAGCTAACAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTAACAAAACGGCGTCGTTGGGCT
36816247 TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
66 TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
*
36816295 TTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCAACAAAAGC-ACACAAAACGGCGTCGTTGGGC
1 TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTA-ACAAAACGGCGTCGTTGGGC
*
36816359 TTAGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
65 TTAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAA
36816397 TGCTTATTTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
112 1 0.01
113 95 0.99
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (113 bp):
TTAGCGGCGCTTTCCTAAAAACGCCGCTAAATCAACAAAAGCTAACAAAACGGCGTCGTTGGGCT
TAGGTTTTTTGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTAAGCA
Found at i:36819377 original size:60 final size:59
Alignment explanation
Indices: 36819288--36819405 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 59
36819278 TGTTTTTTTA
*
36819288 TAATTATTTTAAAATAATTTGTTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
1 TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
36819347 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAA-TAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTT
36819406 AGTTTAGTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
59 14 0.25
60 43 0.75
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (59 bp):
TAATTATTTTAAAATAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTTTG
Found at i:36819691 original size:21 final size:21
Alignment explanation
Indices: 36819658--36819698 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
36819648 GGGAACCAAT
*
36819658 AAAATAATATTTAA-AAAAAC
1 AAAAAAATATTTAATAAAAAC
36819678 AAAAAAATATTTTAATAAAAA
1 AAAAAAATA-TTTAATAAAAA
36819699 AAGTGGTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAAATATTTAATAAAAAC
Found at i:36820631 original size:22 final size:22
Alignment explanation
Indices: 36820606--36820653 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
36820596 TTTATTCAGG
*
36820606 AATTTAGTCTTCATATATTTGA
1 AATTTAGTCTTCATACATTTGA
*
36820628 AATTTAGTCTTCGTACATTTGA
1 AATTTAGTCTTCATACATTTGA
36820650 AATT
1 AATT
36820654 ATAGAGTAAA
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:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (22 bp):
AATTTAGTCTTCATACATTTGA
Found at i:36826428 original size:60 final size:61
Alignment explanation
Indices: 36826356--36826509 Score: 177
Period size: 61 Copynumber: 2.5 Consensus size: 61
36826346 CGAAAGTTTA
* * *
36826356 CCCTTCAAGAGTTTTACCACAAAGGCATT-TTTTACATCCAATACTCGCCACTAAGG-TTT
1 CCCTTCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
* * * * *
36826415 CCCTGTCTGGAGTTGTACCACAAAGGCATTCTTTAATATTCAATACTTGCCACCAAGGCTTT
1 CCCT-TCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
* * * *
36826477 CCCTTCTAGAGTTTTTCCATAGAGGCTTTCTTT
1 CCCTTCTAGAGTTTTACCACAAAGGCATTCTTT
36826510 TGACAGAGAT
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
59 4 0.05
60 22 0.28
61 45 0.58
62 7 0.09
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (61 bp):
CCCTTCTAGAGTTTTACCACAAAGGCATTCTTTAACATCCAATACTCGCCACCAAGGCTTT
Found at i:36826489 original size:61 final size:59
Alignment explanation
Indices: 36826342--36826489 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 59
36826332 TAAAAGGTTT
* * * * *
36826342 GCCACGAAAGTTTACCCTTCAAGAGTTTTACCACAAAGGCATTTTTTACATCCAATACTC
1 GCCACCAAGGTTT-CCCTTCTAGAGTTGTACCACAAAGGCATTTTTAACATCCAATACTC
* * * * *
36826402 GCCACTAAGGTTTCCCTGTCTGGAGTTGTACCACAAAGGCATTCTTTAATATTCAATACTT
1 GCCACCAAGGTTTCCCT-TCTAGAGTTGTACCACAAAGGCATT-TTTAACATCCAATACTC
36826463 GCCACCAAGGCTTTCCCTTCTAGAGTT
1 GCCACCAAGG-TTTCCCTTCTAGAGTT
36826490 TTTCCATAGA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
59 4 0.05
60 33 0.45
61 30 0.41
62 7 0.09
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (59 bp):
GCCACCAAGGTTTCCCTTCTAGAGTTGTACCACAAAGGCATTTTTAACATCCAATACTC
Found at i:36830567 original size:31 final size:32
Alignment explanation
Indices: 36830531--36830595 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
36830521 CTTAGATAAT
36830531 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
*
36830562 TTTAAAGAGTTTTTGTTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
36830594 TT
1 TT
36830596 GTAATTTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 9 0.28
32 23 0.72
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:36830950 original size:29 final size:27
Alignment explanation
Indices: 36830902--36830959 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
36830892 ATCCTTTTTA
36830902 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
36830931 TTTATTTATTCTCA-TT-TTATTTCTAAT
1 TTTATTTATT-T-ATTTATTATTTCTAAT
36830958 TT
1 TT
36830960 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 3 0.11
31 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:36831235 original size:46 final size:45
Alignment explanation
Indices: 36831115--36831235 Score: 215
Period size: 45 Copynumber: 2.7 Consensus size: 45
36831105 AATTAGTTAA
* *
36831115 TAAAAAAAAGCAAAAAGCGCAAAAAAAAAAAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
36831160 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
36831205 TAAAAAAAAAGCAAACAGCGCAAAAAAAAAG
1 T-AAAAAAAAGCAAACAGCGCAAAAAAAAAG
36831236 TTACCTACCT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 44 0.60
46 29 0.40
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (45 bp):
TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
Found at i:36831658 original size:29 final size:27
Alignment explanation
Indices: 36831610--36831667 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
36831600 ATCCTTTTTA
36831610 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
36831639 TTTATTTATTCTCA-TT-TTATTTCTAAT
1 TTTATTTATT-T-ATTTATTATTTCTAAT
36831666 TT
1 TT
36831668 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 3 0.11
31 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:36831910 original size:708 final size:707
Alignment explanation
Indices: 36830554--36832681 Score: 3449
Period size: 708 Copynumber: 3.0 Consensus size: 707
36830544 ATTAGGATTC
36830554 AATTACTCTTTAAAGAGTTTTTGTTAGGATTCAATTACTCTTGTAATTTGTCTATAAATAGGCTT
1 AATTACTCTTTAAAGAGTTTTTGTTAGGATTCAATTACTCTTGTAATTTGTCTATAAATAGGCTT
36830619 GTTTTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTCTTTCAAATTTGTGTGAGGC
66 GTTTTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTCTTTCAAATTTGTGTGAGGC
36830684 AAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTAGAGG
131 AAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTAGAGG
36830749 ATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGGTGTTTCTAGAGGTTCTTCTT
196 ATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGGTGTTTCTAGAGGTTCTTCTT
36830814 CTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCC
261 CTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCC
36830879 ATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTC
326 ATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTC
36830944 ATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGT
391 ATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGT
36831009 TTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAAACGAGTTAAAATATCAAAAA
456 TTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAAACGAGTTAAAATATCAAAAA
36831074 CACTTTTCATCGGTTTCGTCGATTTAAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAA
521 CACTTTTCATCGGTTTCGTCGATTTAAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAA
36831139 AAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATC
586 AAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATC
36831204 TTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCTCATACGTAGGTTT
651 TTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCTCATACGTAGGTTT
36831261 AAATTACTCTTTAAAGAGTTTTTGTTAGGATTCAATTACTCTTGTAATTTGTCTATAAATAGGCT
1 -AATTACTCTTTAAAGAGTTTTTGTTAGGATTCAATTACTCTTGTAATTTGTCTATAAATAGGCT
36831326 TGTTTTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTCTTTCAAATTTGTGTGAGG
65 TGTTTTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTCTTTCAAATTTGTGTGAGG
36831391 CAAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTAGAG
130 CAAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTAGAG
36831456 GATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGGTGTTTCTAGAGGTTCTTCT
195 GATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGGTGTTTCTAGAGGTTCTTCT
36831521 TCTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTC
260 TCTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTC
36831586 CATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCT
325 CATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCT
36831651 CATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAG
390 CATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAG
36831716 TTTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAAACGAGTTAAAATATCAAAA
455 TTTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAAACGAGTTAAAATATCAAAA
36831781 ACACTTTTCATCGGTTTCGTCGATTTAAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAA
520 ACACTTTTCATCGGTTTCGTCGATTTAAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAA
36831846 AAAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAAT
585 AAAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAAT
36831911 CTTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCTCATACGTAGGTTT
650 CTTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCTCATACGTAGGTTT
** ** * * * ** * ** * **
36831969 TTTCTTTTCCTATTATTATTATTATTTTATTTTTTCCAAAATTGAATTTTTTTCTTCTTCTTT-T
1 AAT-TACT-CT-TTA--A--A-GA-GTT-TTTGTT--AGGATTCAA--TTACTCTTGTAATTTGT
* * * * ** ****** **** * ** **
36832033 CT-TGACTCAAG-TATAATTAAAGCTACA-ATTTTTTTTGAA-AATCTTAAGA-CA-CCG--AAC
52 CTATAAAT-AGGCT-T-GTT--TTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTC
** * ****** *
36832090 GTTTCTGATTTTTGTTTTTTTATATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTG
112 -TTTCAAATTTGTGTGAGGCAAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTG
36832155 GAGTTTGTTACTTTTAGAGGATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGG
176 GAGTTTGTTACTTTTAGAGGATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGG
* *
36832220 TGTTTCTAGAGGTTCTTCTTCTAGGGGTTTCGTAGGGAGCCGCTCAATCATTGGCGTTTTTGGTT
241 TGTTTCTAGAGGTTCTTCTTCTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTT
36832285 ACAAGTTAACCAAGGGTTCCATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTT
306 ACAAGTTAACCAAGGGTTCCATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTT
36832350 AACTAATTTTATTTATTCTCATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATT
371 AACTAATTTTATTTATTCTCATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATT
*
36832415 CCGCATCAGTTGGTATCAGTTTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATACCTGAA
436 CCGCATCAGTTGGTATCAGTTTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAA
* *
36832480 ACGAGTCAAAATATCAAAAACACTTTTCATCGATTTCGTCGATTTAAAAAAAAATTAGTTAATAA
501 ACGAGTTAAAATATCAAAAACACTTTTCATCGGTTTCGTCGATTT-AAAAAAAATTAGTTAATAA
* *
36832545 AAAAAAGCAAACAGCGC---AAAAAAAAGTTGAGAAAAATCTAAAAAAAAAGCAAACAGCGC-AA
565 AAAAAAGCAAAAAGCGCAAAAAAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAA
* * *
36832606 AAAAAA-AGTTGAGAAAAATC-TGAAAAAAAAGTAAACAGCGCAAAAAAAAAGTTGCCTACCTCT
630 AAAAAAGAGTTGAGAAAAATCTTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCT
36832669 CATACGTAGGTTT
695 CATACGTAGGTTT
36832682 CTTCTTTTCC
Statistics
Matches: 1343, Mismatches: 56, Indels: 37
0.94 0.04 0.03
Matches are distributed among these distances:
707 1 0.00
708 709 0.53
709 2 0.00
710 3 0.00
712 1 0.00
713 53 0.04
714 15 0.01
715 9 0.01
716 43 0.03
717 6 0.00
718 419 0.31
719 46 0.03
720 7 0.01
721 18 0.01
722 6 0.00
723 5 0.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (707 bp):
AATTACTCTTTAAAGAGTTTTTGTTAGGATTCAATTACTCTTGTAATTTGTCTATAAATAGGCTT
GTTTTCTACACATTGGGGAGGAATAAAAAGAAGAGTATTTGTTTTCTTTCAAATTTGTGTGAGGC
AAAATTTTTTAGAGTAGATTGATTCTTCTCTTGCTATTTAGTTTGGAGTTTGTTACTTTTAGAGG
ATATTTCGGAGTTGCAAATATTCAAATTTCTTTCCCGTTCATCGGTGTTTCTAGAGGTTCTTCTT
CTAGGGGTTTCATAGGGAGCCGTTCAATCATTGGCGTTTTTGGTTACAAGTTAACCAAGGGTTCC
ATAGGGCAAATCTATCCTTTTTATTTATTTATTTATTTATTATTTAACTAATTTTATTTATTCTC
ATTTTATTTCTAATTTGTGTTTCTCTTGTGTCTAGATCCGGGATTCCGCATCAGTTGGTATCAGT
TTCAGGCCATTCGGTGTTATTTTTGAAGCTAAAATCATATCTGAAACGAGTTAAAATATCAAAAA
CACTTTTCATCGGTTTCGTCGATTTAAAAAAAATTAGTTAATAAAAAAAAGCAAAAAGCGCAAAA
AAAAAAAGTTGAGAAAAATCTTAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATC
TTAAAAAAAAAGCAAACAGCGCAAAAAAAAAGTTACCTACCTCTCATACGTAGGTTT
Found at i:36831943 original size:46 final size:45
Alignment explanation
Indices: 36831823--36831943 Score: 215
Period size: 45 Copynumber: 2.7 Consensus size: 45
36831813 AATTAGTTAA
* *
36831823 TAAAAAAAAGCAAAAAGCGCAAAAAAAAAAAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
36831868 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
1 TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
36831913 TAAAAAAAAAGCAAACAGCGCAAAAAAAAAG
1 T-AAAAAAAAGCAAACAGCGCAAAAAAAAAG
36831944 TTACCTACCT
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 44 0.60
46 29 0.40
ACGTcount: A:0.66, C:0.11, G:0.14, T:0.09
Consensus pattern (45 bp):
TAAAAAAAAGCAAACAGCGCAAAAAAAAAGAGTTGAGAAAAATCT
Found at i:36832376 original size:29 final size:27
Alignment explanation
Indices: 36832328--36832385 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
36832318 ATCCTTTTTA
36832328 TTTATTTATTTATTTATTATTTAACTAAT
1 TTTATTTATTTATTTATTATTT--CTAAT
36832357 TTTATTTATTCTCA-TT-TTATTTCTAAT
1 TTTATTTATT-T-ATTTATTATTTCTAAT
36832384 TT
1 TT
36832386 GTGTTTCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 7 0.26
29 16 0.59
30 3 0.11
31 1 0.04
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTATTTATTTATTTATTATTTCTAAT
Found at i:36832609 original size:43 final size:43
Alignment explanation
Indices: 36832543--36832659 Score: 209
Period size: 43 Copynumber: 2.7 Consensus size: 43
36832533 ATTAGTTAAT
36832543 AAAAAAAAGCAAACAGCGC-AAAAAAAAGTTGAGAAAAATCTA
1 AAAAAAAAGCAAACAGCGCAAAAAAAAAGTTGAGAAAAATCTA
*
36832585 AAAAAAAAGCAAACAGCGCAAAAAAAAAGTTGAGAAAAATCTG
1 AAAAAAAAGCAAACAGCGCAAAAAAAAAGTTGAGAAAAATCTA
*
36832628 AAAAAAAAGTAAACAGCGCAAAAAAAAAGTTG
1 AAAAAAAAGCAAACAGCGCAAAAAAAAAGTTG
36832660 CCTACCTCTC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
42 19 0.26
43 53 0.74
ACGTcount: A:0.64, C:0.11, G:0.15, T:0.09
Consensus pattern (43 bp):
AAAAAAAAGCAAACAGCGCAAAAAAAAAGTTGAGAAAAATCTA
Found at i:36838207 original size:31 final size:31
Alignment explanation
Indices: 36838171--36838392 Score: 340
Period size: 31 Copynumber: 7.1 Consensus size: 31
36838161 CTTAGATAAT
36838171 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
36838202 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
36838234 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
36838265 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
* *
36838296 TTTAAAGAGTTTTTATTAGGATTTTAGA-TAAT-
1 TTTAAAGAG-TTTTATTAGGA-TTCA-ATTACTC
36838328 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
*
36838359 TTTAAAGAGTTTTTATTAGGATTCAGTTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
36838391 TT
1 TT
36838393 GTAATTTGCC
Statistics
Matches: 177, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
29 1 0.01
30 6 0.03
31 90 0.51
32 73 0.41
33 6 0.03
34 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:36838246 original size:63 final size:63
Alignment explanation
Indices: 36838171--36838392 Score: 344
Period size: 63 Copynumber: 3.5 Consensus size: 63
36838161 CTTAGATAAT
36838171 TTTAAAGAG-TTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTCTTTAAAGAG-TTTTATTAGGATTCAATTACTC
* *
36838234 TTGAAAGAG-TTTTATTAGGATTCAATTACTCTTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTATTAGGATTCAATTACTC
* *
36838296 TTTAAAGAGTTTTTATTAGGATTTTAGA-TAAT-TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGA-TTCA-ATTACTCTTTAAAGAGTTTTATTAGGATTCAATTACTC
*
36838359 TTTAAAGAGTTTTTATTAGGATTCAGTTACTCTT
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTCTT
36838393 GTAATTTGCC
Statistics
Matches: 145, Mismatches: 9, Indels: 10
0.88 0.05 0.06
Matches are distributed among these distances:
62 36 0.25
63 102 0.70
64 6 0.04
65 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (63 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:36838335 original size:94 final size:94
Alignment explanation
Indices: 36838174--36838392 Score: 352
Period size: 94 Copynumber: 2.3 Consensus size: 94
36838164 AGATAATTTT
*
36838174 AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTCAATTACTCTTGAA
1 AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTCAATTAATCTTGAA
36838239 AGAGTTTTATTAGGATTCAATTACTCTTG
66 AGAGTTTTATTAGGATTCAATTACTCTTG
* *
36838268 AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTTTAGA-TAAT-TTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGA-TTCA-ATTAATCTTG
*
36838331 AAAGAGTTTTATTAGGATTCAATTACTCTTT
64 AAAGAGTTTTATTAGGATTCAATTACTCTTG
*
36838362 AAAGAGTTTTTATTAGGATTCAGTTACTCTT
1 AAAGAG-TTTTATTAGGATTCAATTACTCTT
36838393 GTAATTTGCC
Statistics
Matches: 117, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
94 87 0.74
95 29 0.25
96 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (94 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTTAAAGAGTTTTTATTAGGATTCAATTAATCTTGAA
AGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:36841145 original size:16 final size:18
Alignment explanation
Indices: 36841124--36841158 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
36841114 AGTTGACTAT
36841124 TTAAATTG-TAAA-AAAA
1 TTAAATTGATAAATAAAA
36841140 TTAAATTGATAAATAAAA
1 TTAAATTGATAAATAAAA
36841158 T
1 T
36841159 GCCAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (18 bp):
TTAAATTGATAAATAAAA
Found at i:36844605 original size:7 final size:7
Alignment explanation
Indices: 36844595--36844620 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36844585 ACTAAACATA
36844595 AATAATT
1 AATAATT
36844602 AATAATT
1 AATAATT
36844609 AATAATT
1 AATAATT
36844616 AATAA
1 AATAA
36844621 CAAAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AATAATT
Found at i:36845064 original size:12 final size:11
Alignment explanation
Indices: 36845041--36845070 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
36845031 GACAAACGCG
36845041 ACCCGTTTTTT
1 ACCCGTTTTTT
36845052 ACCCGTATTTTT
1 ACCCGT-TTTTT
36845064 ACCCGTT
1 ACCCGTT
36845071 GACCGTATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.13, C:0.30, G:0.10, T:0.47
Consensus pattern (11 bp):
ACCCGTTTTTT
Found at i:36852891 original size:23 final size:23
Alignment explanation
Indices: 36852843--36852884 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
36852833 AACTTTTATA
36852843 TAAATTTTATTGTTGATTTTTTT
1 TAAATTTTATTGTTGATTTTTTT
36852866 TAAATTTTATT-TT-ATTTTT
1 TAAATTTTATTGTTGATTTTT
36852885 AGTTTAATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 2 0.11
23 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (23 bp):
TAAATTTTATTGTTGATTTTTTT
Found at i:36855084 original size:19 final size:19
Alignment explanation
Indices: 36855055--36855111 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 19
36855045 TGATAACGTT
36855055 TAACATAAAATTTAAAAGAA
1 TAAC-TAAAATTTAAAAGAA
36855075 TAACTAAAATTTTAAAAAGAA
1 TAACTAAAA-TTT-AAAAGAA
* * *
36855096 TGATTAAACTTTAAAA
1 TAACTAAAATTTAAAA
36855112 AGTTTAAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 9 0.28
20 10 0.31
21 13 0.41
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
TAACTAAAATTTAAAAGAA
Found at i:36855094 original size:21 final size:20
Alignment explanation
Indices: 36855055--36855113 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
36855045 TGATAACGTT
36855055 TAACATAAAATTT-AAAAGAA
1 TAAC-TAAAATTTAAAAAGAA
36855075 TAACTAAAATTTTAAAAAGAA
1 TAACTAAAA-TTTAAAAAGAA
* * *
36855096 TGATTAAACTTTAAAAAG
1 TAACTAAAATTTAAAAAG
36855114 TTTAAATGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.15
20 16 0.47
21 13 0.38
ACGTcount: A:0.59, C:0.05, G:0.07, T:0.29
Consensus pattern (20 bp):
TAACTAAAATTTAAAAAGAA
Found at i:36858100 original size:38 final size:38
Alignment explanation
Indices: 36858053--36858143 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 38
36858043 GCAAAAGTTG
* * * * *
36858053 AAAACCACAATTCACCCTAACGGTAGTGGGTCAGAACA
1 AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
** * *
36858091 AAAATCACAATTCACCCCAGTAGTAATGGGTTAAAACG
1 AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
36858129 AAAATCACAATTCAC
1 AAAATCACAATTCAC
36858144 TAGAAGTGAG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.43, C:0.24, G:0.14, T:0.19
Consensus pattern (38 bp):
AAAATCACAATTCACCCCAACAGTAATGGGTCAAAACA
Found at i:36858417 original size:21 final size:21
Alignment explanation
Indices: 36858387--36858429 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
36858377 ATAAACAATA
*
36858387 TAATGATTTTGCCTTTTAACT
1 TAATGATTTTGACTTTTAACT
*
36858408 TAATGGTTTTGACTTTTAACT
1 TAATGATTTTGACTTTTAACT
36858429 T
1 T
36858430 TAGAAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAATGATTTTGACTTTTAACT
Found at i:36865483 original size:24 final size:24
Alignment explanation
Indices: 36865446--36865507 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
36865436 GGAAGCTCAT
*
36865446 AAAGAGC-CTATAACGAGTAGCTCT
1 AAAGAGCACT-TAACGAGTAGCTCC
* *
36865470 GAAGAGCACTTAACGGGTAGCTCC
1 AAAGAGCACTTAACGAGTAGCTCC
36865494 AAAGAGCACTTAAC
1 AAAGAGCACTTAAC
36865508 AGGAAGCACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 31 0.94
25 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (24 bp):
AAAGAGCACTTAACGAGTAGCTCC
Found at i:36871753 original size:24 final size:25
Alignment explanation
Indices: 36871726--36871773 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
36871716 GGATGCTCCG
*
36871726 AAGAGCTAT-TAACAGGAAGCTCGC
1 AAGAACTATATAACAGGAAGCTCGC
*
36871750 AAGAACTATATAACGGGAAGCTCG
1 AAGAACTATATAACAGGAAGCTCG
36871774 AGAGGGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.17
Consensus pattern (25 bp):
AAGAACTATATAACAGGAAGCTCGC
Found at i:36873048 original size:29 final size:29
Alignment explanation
Indices: 36872999--36873073 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
36872989 AGGAAGAATG
*
36872999 TATATATGAAATATATA-AAAAAGGATAAA
1 TATATAT-ATATATATATAAAAAGGATAAA
* ** *
36873028 TATATATATATATATATAAAATGTTTCAA
1 TATATATATATATATATAAAAAGGATAAA
*
36873057 TATATAAATATATATAT
1 TATATATATATATATAT
36873074 GAGTATGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 8 0.21
29 31 0.79
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (29 bp):
TATATATATATATATATAAAAAGGATAAA
Found at i:36873266 original size:3 final size:3
Alignment explanation
Indices: 36873258--36873337 Score: 79
Period size: 3 Copynumber: 26.7 Consensus size: 3
36873248 AAGCGAAAAC
* * * * * *
36873258 ATA ATA ATA ATA ACA ATA ATA TTA ATA CTA ATA CTA ATA ATA ATA GTG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
** *
36873306 AGG ATA ATA ATA ATA ATA GTA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
36873338 GAAGGTAATG
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36873345 original size:18 final size:17
Alignment explanation
Indices: 36873292--36873346 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
36873282 ATACTAATAC
*
36873292 TAATAATAATAGTGAGG
1 TAATAATAATAATGAGG
36873309 ATAATAATAATAAT-A-G
1 -TAATAATAATAATGAGG
36873325 TAATAATAATAATGAAGG
1 TAATAATAATAATG-AGG
36873343 TAAT
1 TAAT
36873347 GTACGAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 13 0.39
16 1 0.03
17 2 0.06
18 17 0.52
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.31
Consensus pattern (17 bp):
TAATAATAATAATGAGG
Found at i:36874425 original size:18 final size:18
Alignment explanation
Indices: 36874402--36874438 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36874392 TTTGGGCTTC
36874402 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
36874420 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
36874438 G
1 G
36874439 TAGGCTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:36875279 original size:44 final size:44
Alignment explanation
Indices: 36875210--36875377 Score: 144
Period size: 44 Copynumber: 3.8 Consensus size: 44
36875200 GGAGGTGGAA
*
36875210 TTTG-TATCTTCAACTTGC-CTACTACAACTTCATGGGGATAAGG
1 TTTGATAT-TTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
* * * * *
36875253 TTTGCTATTTTAACCTGCTCTACTACAACTTCA-GAGAGACAAAG
1 TTTGATATTTCAACCTGCTCTACTACAACTTCATG-GGGATAAGG
* * * * *
36875297 TTTGAAATGATCTTCAACTTGCCCCATTGCAACTTCATGGGGATAAGG
1 TTTG--AT-AT-TTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
* *
36875345 CTTGTTATTTCAACCTGCTCTACTACAACTTCA
1 TTTGATATTTCAACCTGCTCTACTACAACTTCA
36875378 GAGAGACAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
43 13 0.14
44 47 0.49
45 2 0.02
46 2 0.02
47 2 0.02
48 28 0.29
49 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.34
Consensus pattern (44 bp):
TTTGATATTTCAACCTGCTCTACTACAACTTCATGGGGATAAGG
Found at i:36875341 original size:92 final size:91
Alignment explanation
Indices: 36875215--36875401 Score: 311
Period size: 92 Copynumber: 2.0 Consensus size: 91
36875205 TGGAATTTGT
* * *
36875215 ATCTTCAACTTGCCTACTACAACTTCATGGGGATAAGGTTTGCTATTTTAACCTGCTCTACTACA
1 ATCTTCAACTTGCCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTACA
36875280 ACTTCAGAGAGACAAAGTTTGAAATG
66 ACTTCAGAGAGACAAAGTTTGAAATG
* * *
36875306 ATCTTCAACTTGCCCCATTGCAACTTCATGGGGATAAGGCTTGTTATTTCAACCTGCTCTACTAC
1 ATCTTCAACTTG-CCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTAC
36875371 AACTTCAGAGAGACAAAGTTTGAAATG
65 AACTTCAGAGAGACAAAGTTTGAAATG
36875398 ATCT
1 ATCT
36875402 GCTCTACTGC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 12 0.13
92 77 0.87
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.32
Consensus pattern (91 bp):
ATCTTCAACTTGCCCACTACAACTTCATGGGGATAAGGCTTGCTATTTCAACCTGCTCTACTACA
ACTTCAGAGAGACAAAGTTTGAAATG
Found at i:36875818 original size:46 final size:46
Alignment explanation
Indices: 36875744--36876078 Score: 530
Period size: 46 Copynumber: 7.3 Consensus size: 46
36875734 GGGTGACAGA
*
36875744 ATCTGCAATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
* * * *
36875790 ATCTACTATCTTTGATCTGCTCCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
* ** *
36875836 ATCTACTATCTTCGATCTACTTCATTGCCAAAGACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
36875882 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
36875928 ATCTGCTATCTTCGATCTAC-TCTGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-GCTGCCAAATACAGGAAGACAAG
* *
36875974 ATCTG-TAATCTTCGACCTACTTCGCTGCCAAATACAAGAAGACAAG
1 ATCTGCT-ATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
*
36876020 ATCTGCAATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
36876066 ATCTGCTATCTTC
1 ATCTGCTATCTTC
36876079 AACCAGCTCT
Statistics
Matches: 264, Mismatches: 21, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
45 3 0.01
46 259 0.98
47 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAG
Found at i:36876261 original size:176 final size:174
Alignment explanation
Indices: 36876028--36876764 Score: 814
Period size: 174 Copynumber: 4.2 Consensus size: 174
36876018 AGATCTGCAA
* * ** * * *
36876028 TCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * *
36876093 TAACCCAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCGAGATCT
65 CAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCT
*
36876158 GTTGTCTTCAACCAGCTCCACTACAACCGAAAGAGGCAAAG-TTTGT
130 GCTGTCTTCAACCAGCTCCACTACAACCG--AGAGGCAAAGATTTGT
* * *
36876204 ATCTTCAATCTGCTTCGCTGTCAAGGCAAGAAGACAAGATCTGTTGTCTTCAACCAGCTGCACTA
1 -TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * *
36876269 TAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTACTTTGCTGTCAAGGCAGGAAGGCAAGATCT
65 CAACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCT
*
36876334 GTTGTCTTCAACCAGCTCCACTACAACCGAGAGGC-AAGATTTGT
130 GCTGTCTTCAACCAGCTCCACTACAACCGAGAGGCAAAGATTTGT
* * * *
36876378 GTCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTG
1 -TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTA
* * * * *
36876443 CAACCGATG-GAGGCAATGTTT-TGTTTTCGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATC
65 CAACC-AAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATC
* * * * * *
36876506 TGCT-TCTTTAACCAGCTCCACTGCAACCGGTGGAGGTAAGGCTTTGT
129 TGCTGTCTTCAACCAGCTCCACTACAACC-G-AGAGGCAAAGATTTGT
* * * *
36876553 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTT-T-TTTAACCAGCTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTG-TTGTCTTCAACCAGCTCCACTA
* *
36876615 CAACCAATAGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATC
65 CAACCAAGAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATC
* ** * * * *
36876678 TGCTATCTTTGACCTGCTCCACTACAACCGGTGGAGG-AAAGGCTCATG-
129 TGCTGTCTTCAACCAGCTCCACTACAACC-G-AGAGGCAAA-GAT-TTGT
* *
36876726 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGAT
36876765 GTGTAATCTT
Statistics
Matches: 491, Mismatches: 56, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
171 1 0.00
172 94 0.19
173 117 0.24
174 126 0.26
175 9 0.02
176 126 0.26
177 18 0.04
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (174 bp):
TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTAC
AACCAAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAACGCAGGAAGGCAAGATCTG
CTGTCTTCAACCAGCTCCACTACAACCGAGAGGCAAAGATTTGT
Found at i:36876409 original size:86 final size:87
Alignment explanation
Indices: 36876028--36876764 Score: 801
Period size: 88 Copynumber: 8.4 Consensus size: 87
36876018 AGATCTGCAA
* * ** * * * *
36876028 TCTTCGATCTACTTCGCTGCCAAATACAGGAAGACAAGATCTGCTATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCGCTGTC-AAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTA
*
36876093 TAACCCAGAGAGGCAAGGTTTGTG
65 CAA-CCAGAGAGGCAAGGTTTGTG
*
36876117 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCGAGATCTGTTGTCTTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * *
36876182 AACCGAAAGAGGCAAAGTTTGTA
66 AACC-AGAGAGGCAAGGTTTGTG
* * * * *
36876205 TCTTCAATCTGCTTCGCTGTCAAGGCAAGAAGACAAGATCTGTTGTCTTCAACCAGCTGCACTAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
36876270 AACCAAGAGAGGCAAGGTTTGTG
66 AACC-AGAGAGGCAAGGTTTGTG
* *
36876293 TCTTCGATCTACTTTGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
*
36876358 AACC-GAGAGGCAAGATTTGTG
66 AACCAGAGAGGCAAGGTTTGTG
* * *
36876379 TCTTCGATCTGCTTCGCTGTCAAGGTAGGAAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
*
36876444 AACC-GATGGAGGCAATGTTT-TG
66 AACCAGA--GAGGCAAGGTTTGTG
* * * * * * *
36876466 TTTTCGATCTGCTTCGCTATTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * *
36876530 AACCGGTGGAGGTAAGGCTTTGT-
66 AACCAG-AGAGGCAAGG-TTTGTG
* * * * *
36876553 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGACAAGATCTGCTT-T-TTTAACCAGCTCCACTG
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTG-TTGTCTTCAACCAGCTCCACTA
*
36876615 CAACCAATAGAGGCAAGGCTTTGT-
65 CAACC-AGAGAGGCAAGG-TTTGTG
* * * * ** *
36876639 T-TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTGACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
* * * * **
36876703 AACCGGTGGAGGAAAGGCTCATG
66 AACCAG-AGAGGCAAGGTTTGTG
*
36876726 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT
1 TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGAT
36876765 GTGTAATCTT
Statistics
Matches: 564, Mismatches: 70, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
85 1 0.00
86 229 0.41
87 76 0.13
88 239 0.42
89 19 0.03
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTAC
AACCAGAGAGGCAAGGTTTGTG
Found at i:36876457 original size:44 final size:43
Alignment explanation
Indices: 36876323--36876458 Score: 127
Period size: 44 Copynumber: 3.1 Consensus size: 43
36876313 CAAGGCAGGA
*
36876323 AGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA--G
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTGCAACCGATGG
* * * * * * *
36876365 AGGCAAGATTTGTGTCTTCGATCTGCTTCGCTGTCAA--GGTAGG
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACTG-CAACCGAT-GG
36876408 AAGGCAAGATCTGTGGTCTTCAACCAGCTCCACTGCAACCGATGG
1 -AGGCAAGATCTGT-GTCTTCAACCAGCTCCACTGCAACCGATGG
36876453 AGGCAA
1 AGGCAA
36876459 TGTTTTGTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
40 1 0.01
41 15 0.21
42 14 0.20
43 1 0.01
44 21 0.30
45 17 0.24
46 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (43 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTCCACTGCAACCGATGG
Found at i:36876673 original size:43 final size:43
Alignment explanation
Indices: 36876543--36876674 Score: 110
Period size: 43 Copynumber: 3.1 Consensus size: 43
36876533 CGGTGGAGGT
*
36876543 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGAC
1 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * * * * * * **
36876586 AAGATCTGCTT-TTTT-AACCAGCTCCACTG-CAAC-CAATAGAGGC
1 AAG-GCT--TTGTTTTCGATCTGCTTCGCTGTTAACGCAGGA-AGGC
36876629 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
36876672 AAG
1 AAG
36876675 ATCTGCTATC
Statistics
Matches: 62, Mismatches: 19, Indels: 16
0.64 0.20 0.16
Matches are distributed among these distances:
40 2 0.03
41 4 0.06
42 14 0.23
43 22 0.35
44 14 0.23
45 4 0.06
46 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (43 bp):
AAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
Found at i:36877788 original size:102 final size:104
Alignment explanation
Indices: 36877544--36877863 Score: 482
Period size: 102 Copynumber: 3.0 Consensus size: 104
36877534 AAAATGCTTC
* * * *
36877544 AAAAAGATTATCAAAATGGACAAGATGAAATTTTATTGAGAACAATGCTCAAAATGAATAAATCA
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTC-AAA-GAATAAATTA
* * *
36877609 ATCAAGATAGCAAATCTTGCTAAGATACGAACTGGATAAGATG
64 ATCAAGATAGCAAATTTTGCTAAGATAAG-A-TGAATAAGATG
*
36877652 AAAAAGATTATCACAATGGATAAGATGAAGTTTTATTGAGAACAAGGCTC-AA-AATAAATTAAT
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAGAATAAATTAAT
36877715 CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
66 CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
*
36877754 AAAAAGATTATCACAATAGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAATGAATAAATTA
1 AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTC-AAA-GAATAAATTA
*
36877819 ATCAAGATAGCAAATTTTGTTAAGATAAGATGAATAAGATG
64 ATCAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
36877860 AAAA
1 AAAA
36877864 TAGGTGCCCC
Statistics
Matches: 197, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
102 58 0.29
103 1 0.01
104 37 0.19
106 55 0.28
108 46 0.23
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.26
Consensus pattern (104 bp):
AAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAACAAGGCTCAAAGAATAAATTAAT
CAAGATAGCAAATTTTGCTAAGATAAGATGAATAAGATG
Found at i:36878145 original size:5 final size:5
Alignment explanation
Indices: 36878135--36878227 Score: 99
Period size: 5 Copynumber: 19.0 Consensus size: 5
36878125 CTCCTTTTTC
*
36878135 TTCTT TTCTT TTCTT TT-TT CTTCTT TTCTT TTCTT TT-TT CTCTT TTCTT
1 TTCTT TTCTT TTCTT TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTCTT
36878184 TT-TT CTT-TT TT-TT TTCTT TTCTT TT-TT TTCTTTT TTCTT TTCTT
1 TTCTT -TTCTT TTCTT TTCTT TTCTT TTCTT TTC--TT TTCTT TTCTT
36878228 CTTTTTGTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 16
0.81 0.02 0.17
Matches are distributed among these distances:
4 17 0.22
5 54 0.69
6 2 0.03
7 5 0.06
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTCTT
Found at i:36878152 original size:20 final size:20
Alignment explanation
Indices: 36878129--36878232 Score: 137
Period size: 20 Copynumber: 5.2 Consensus size: 20
36878119 TGGCCTCTCC
36878129 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTTCTTTTCT
36878149 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTTCTTTTCT
36878169 TTTTTC-TCTTTTCTTTT-T
1 TTTTTCTTCTTTTCTTTTCT
36878187 TCTTTT-TT-TTTTCTTTTCT
1 T-TTTTCTTCTTTTCTTTTCT
36878206 TTTTT-TTCTTTTTTCTTTTCT
1 TTTTTCTTC--TTTTCTTTTCT
36878227 TCTTTT
1 T-TTTT
36878233 TGTTTGTTTT
Statistics
Matches: 77, Mismatches: 0, Indels: 12
0.87 0.00 0.13
Matches are distributed among these distances:
18 17 0.22
19 18 0.23
20 26 0.34
21 12 0.16
22 4 0.05
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTCTTTTCTTTTCT
Found at i:36878243 original size:46 final size:43
Alignment explanation
Indices: 36878143--36878244 Score: 102
Period size: 45 Copynumber: 2.3 Consensus size: 43
36878133 TCTTCTTTTC
36878143 TTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTCTCTTTTCTT-TTTT
1 TTTTCTTTTTTCTTCTTTTCTTTTC-TTTTT-T-TTTTCTTCTTTT
36878188 CTTTT-TTTTTTCTTTTCTTTT-TTTTCTTTTTTCTTTTCTTCTTTT
1 -TTTTCTTTTTTC--TTCTTTTCTTTTCTTTTTT-TTTTCTTCTTTT
*
36878233 TGTTTGTTTTTT
1 T-TTTCTTTTTT
36878245 TATTTGAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
44 10 0.20
45 19 0.37
46 15 0.29
47 7 0.14
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (43 bp):
TTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTTTTTCTTCTTTT
Found at i:36878245 original size:21 final size:19
Alignment explanation
Indices: 36878129--36878224 Score: 86
Period size: 21 Copynumber: 4.7 Consensus size: 19
36878119 TGGCCTCTCC
*
36878129 TTTTTCTTCTTTTCTTTTCT
1 TTTTTCTTCTTTT-TTTTTT
36878149 TTTTTCTTCTTTTCTTTTCTT
1 TTTTTCTTCTTTT-TTTT-TT
36878170 TTTTCTCTT-TTCTTTTTTCTT
1 TTTT-TCTTCTT-TTTTTT-TT
*
36878191 TTTTTTTTCTTTTCTTTTTT
1 TTTTTCTTCTTTT-TTTTTT
*
36878211 TTCTTTTTTCTTTT
1 TT-TTTCTTCTTTT
36878225 CTTCTTTTTG
Statistics
Matches: 68, Mismatches: 2, Indels: 11
0.84 0.02 0.14
Matches are distributed among these distances:
20 27 0.40
21 35 0.51
22 6 0.09
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTCTTCTTTTTTTTTT
Found at i:36878260 original size:1 final size:1
Alignment explanation
Indices: 36878138--36878245 Score: 54
Period size: 1 Copynumber: 108.0 Consensus size: 1
36878128 CTTTTTCTTC
* * * * * * * * * * *
36878138 TTTTCTTTTCTTTTTTCTTCTTTTCTTTTCTTTTTTCTCTTTTCTTTTTTCTTTTTTTTTTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * *
36878203 TCTTTTTTTTCTTTTTTCTTTTCTTCTTTTTGTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
36878246 ATTTGAACAT
Statistics
Matches: 71, Mismatches: 36, Indels: 0
0.66 0.34 0.00
Matches are distributed among these distances:
1 71 1.00
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (1 bp):
T
Found at i:36878365 original size:18 final size:18
Alignment explanation
Indices: 36878342--36878378 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
36878332 ATAAAGCCTC
36878342 GGTTTGGGTTGTAATTGG
1 GGTTTGGGTTGTAATTGG
*
36878360 GGTTTGGGTTGTATTTGG
1 GGTTTGGGTTGTAATTGG
36878378 G
1 G
36878379 TAGGGTTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (18 bp):
GGTTTGGGTTGTAATTGG
Found at i:36880104 original size:4 final size:4
Alignment explanation
Indices: 36880095--36880119 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36880085 AATAAACTAA
36880095 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
36880120 TAAAATATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:36881278 original size:12 final size:12
Alignment explanation
Indices: 36881261--36881285 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36881251 TTTCTATTCT
36881261 TTGTGGAAAACA
1 TTGTGGAAAACA
36881273 TTGTGGAAAACA
1 TTGTGGAAAACA
36881285 T
1 T
36881286 GAGACATGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TTGTGGAAAACA
Found at i:36881682 original size:18 final size:18
Alignment explanation
Indices: 36881647--36881682 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36881637 TATGTTTTAC
*
36881647 TTATATATTATATTATTT
1 TTATATATTATATAATTT
*
36881665 TTATATATTATGTAATTT
1 TTATATATTATATAATTT
36881683 ATTTCACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTATATATTATATAATTT
Found at i:36882496 original size:62 final size:62
Alignment explanation
Indices: 36882399--36882522 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
36882389 AACACACATG
36882399 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
* *
36882461 TTTTCCTCTATTGTTGGAATATAGTTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
1 TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
36882523 GGACATTATT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.28, C:0.10, G:0.14, T:0.48
Consensus pattern (62 bp):
TTTTCCTCTATTGTTGGAATACAATTCATTCTTTATTGGGAAAGGAAATTCTAATTAATTTT
Found at i:36883861 original size:21 final size:19
Alignment explanation
Indices: 36883835--36883877 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
36883825 ATTTTTTAAA
36883835 ATTTTAAAAAATTTAAAAAAT
1 ATTTT-AAAAA-TTAAAAAAT
* *
36883856 ATTTTATAAATTAAAAATT
1 ATTTTAAAAATTAAAAAAT
36883875 ATT
1 ATT
36883878 AAAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 4 0.20
21 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAAAAATTAAAAAAT
Found at i:36883887 original size:19 final size:18
Alignment explanation
Indices: 36883865--36883900 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
36883855 TATTTTATAA
*
36883865 ATTAAAAATTATTAAAATT
1 ATTAAAAAGTA-TAAAATT
36883884 ATTAAAAAGTATAAAAT
1 ATTAAAAAGTATAAAAT
36883901 ATATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (18 bp):
ATTAAAAAGTATAAAATT
Found at i:36884930 original size:27 final size:27
Alignment explanation
Indices: 36884895--36884958 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
36884885 GTCTTTAACA
*
36884895 TTTAT-TTTATAATTAA-TTATT-ATT
1 TTTATATTTATAATAAAGTTATTAATT
36884919 TAATTATATTTA-AATAAAGTTATTAATT
1 T--TTATATTTATAATAAAGTTATTAATT
36884947 TTT-TATTTATAA
1 TTTATATTTATAA
36884959 GTCGTCCACT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 1 0.03
25 6 0.18
26 13 0.39
27 9 0.27
28 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTATATTTATAATAAAGTTATTAATT
Done.