Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 523 of 770
Found at i:162369760 original size:80 final size:80
Alignment explanation
Indices: 162369676--162369824 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
162369666 TATGGTAACC
* * * *
162369676 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
162369740 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
162369756 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
162369821 CCGG
66 CCGG
162369825 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:162369766 original size:40 final size:38
Alignment explanation
Indices: 162369717--162369824 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
162369707 ATCACGATTT
*
162369717 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
162369757 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
162369797 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
162369825 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:162377876 original size:80 final size:80
Alignment explanation
Indices: 162377792--162377940 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
162377782 TATGGTAACC
* * * *
162377792 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
162377856 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
162377872 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
162377937 CCGG
66 CCGG
162377941 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:162377882 original size:40 final size:38
Alignment explanation
Indices: 162377833--162377940 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
162377823 ATCACGATTT
*
162377833 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
162377873 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
162377913 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
162377941 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:162389466 original size:34 final size:32
Alignment explanation
Indices: 162389386--162389489 Score: 118
Period size: 34 Copynumber: 3.1 Consensus size: 32
162389376 CTAATTGCAT
* * * *
162389386 ACTGTACTGATACTGTAATGGGCTTAGGCCCC
1 ACTGTACTGTTACTGAAATGGGCTAAGGCCCA
* *
162389418 ACTGATACTGTTACTGAAATAGGCTCAGGCCCAA
1 ACTG-TACTGTTACTGAAATGGGCTAAGGCCC-A
162389452 ACTGTTACTGTTACTGAAATGGGCTAAGGCCCTA
1 ACTG-TACTGTTACTGAAATGGGCTAAGGCCC-A
162389486 ACTG
1 ACTG
162389490 AGACTGAAAG
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 4 0.07
33 23 0.38
34 34 0.56
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (32 bp):
ACTGTACTGTTACTGAAATGGGCTAAGGCCCA
Found at i:162401158 original size:40 final size:40
Alignment explanation
Indices: 162401050--162401299 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
162401040 CGGGATTTAA
* * * * *
162401050 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
162401090 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162401130 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162401170 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162401210 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162401250 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162401290 CCGGATATAT
1 CCGGATATAT
162401300 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:162409331 original size:40 final size:40
Alignment explanation
Indices: 162409223--162409432 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
162409213 CGGGATTTAA
* * * * *
162409223 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
162409263 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162409303 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162409343 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162409383 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
162409423 CCGGATATAT
1 CCGGATATAT
162409433 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:162414799 original size:27 final size:27
Alignment explanation
Indices: 162414217--162414798 Score: 753
Period size: 27 Copynumber: 21.6 Consensus size: 27
162414207 AAAGTACTCC
162414217 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162414244 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
162414271 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162414298 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
162414325 CGATTTGTAAAATTA-CGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
162414351 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
162414378 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
162414405 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
162414432 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
162414459 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162414486 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
162414513 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
162414540 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
162414567 C-AGTTTACAGAATTAATATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
162414594 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
162414620 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
162414648 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
162414675 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162414702 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162414729 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162414756 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162414783 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
162414799 TAAAATACCC
Statistics
Matches: 489, Mismatches: 55, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
26 28 0.06
27 456 0.93
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:162416054 original size:24 final size:24
Alignment explanation
Indices: 162416022--162416068 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
162416012 TTATAACATG
* * *
162416022 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
162416046 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
162416069 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:162416119 original size:9 final size:9
Alignment explanation
Indices: 162416107--162416163 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
162416097 TTTGATAAAC
162416107 ATGATATGT
1 ATGATATGT
*
162416116 ATGATATGCAC
1 ATGATATG--T
*
162416127 ATGACATGT
1 ATGATATGT
*
162416136 ATGATATGCAC
1 ATGATATG--T
162416147 ATGATATGT
1 ATGATATGT
162416156 ATGATATG
1 ATGATATG
162416164 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:162416130 original size:20 final size:20
Alignment explanation
Indices: 162416105--162416175 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
162416095 ATTTTGATAA
162416105 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
162416125 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
162416145 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
162416165 ACATGAGATGT
1 ACATGATATGT
162416176 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:162416152 original size:11 final size:11
Alignment explanation
Indices: 162416116--162416170 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
162416106 CATGATATGT
162416116 ATGATATGCAC
1 ATGATATGCAC
* *
162416127 ATGACATG--T
1 ATGATATGCAC
162416136 ATGATATGCAC
1 ATGATATGCAC
*
162416147 ATGATATG--T
1 ATGATATGCAC
162416156 ATGATATGCAC
1 ATGATATGCAC
162416167 ATGA
1 ATGA
162416171 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:162416274 original size:24 final size:24
Alignment explanation
Indices: 162416217--162416383 Score: 241
Period size: 24 Copynumber: 7.0 Consensus size: 24
162416207 GGAGGAAGTG
162416217 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
162416241 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
162416264 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
162416288 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
162416312 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
162416335 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
162416359 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
162416384 ATGATAAAGC
Statistics
Matches: 132, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.33
24 77 0.58
25 11 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:162416286 original size:47 final size:47
Alignment explanation
Indices: 162416217--162416383 Score: 239
Period size: 47 Copynumber: 3.5 Consensus size: 47
162416207 GGAGGAAGTG
162416217 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
162416264 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
162416312 -TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTAT
* *
162416359 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
162416384 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
47 67 0.61
48 31 0.28
49 11 0.10
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:162416333 original size:71 final size:71
Alignment explanation
Indices: 162416217--162416383 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
162416207 GGAGGAAGTG
162416217 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
162416282 AGTTAT
66 AGTTAT
* *
162416288 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
162416353 AGTTAT
66 AGTTAT
* *
162416359 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
162416384 ATGATAAAGC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 79 0.88
72 11 0.12
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:162416609 original size:30 final size:31
Alignment explanation
Indices: 162416575--162416637 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
162416565 CGTTTACAGT
162416575 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
162416605 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
162416636 AA
1 AA
162416638 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:162419493 original size:27 final size:27
Alignment explanation
Indices: 162419460--162420041 Score: 706
Period size: 27 Copynumber: 21.6 Consensus size: 27
162419450 AAAGTACTCC
*
162419460 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
162419487 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
162419514 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162419541 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
162419568 CGATTTGTAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162419595 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
162419622 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
162419649 CGATTTACAGAATTACCGTTTAACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
162419676 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
162419703 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162419730 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
162419757 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
162419784 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
162419811 C-AGTTTACAGAATTAATATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
162419838 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
162419865 TAATTTACATAATTACCATTTTACCCC
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162419892 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162419919 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162419946 CGATTTACAGAATTACCATTTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162419972 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
162419999 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
162420026 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
162420042 TAAAATACCC
Statistics
Matches: 481, Mismatches: 65, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
26 27 0.06
27 450 0.94
28 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:162421032 original size:9 final size:9
Alignment explanation
Indices: 162421020--162421076 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
162421010 TTTGATAAAC
162421020 ATGATATGT
1 ATGATATGT
*
162421029 ATGATATGCAC
1 ATGATATG--T
*
162421040 ATGACATGT
1 ATGATATGT
*
162421049 ATGATATGCAC
1 ATGATATG--T
162421060 ATGATATGT
1 ATGATATGT
162421069 ATGATATG
1 ATGATATG
162421077 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:162421043 original size:20 final size:20
Alignment explanation
Indices: 162421018--162421088 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
162421008 ATTTTGATAA
162421018 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
162421038 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
162421058 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
162421078 ACATGAGATGT
1 ACATGATATGT
162421089 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:162421065 original size:11 final size:11
Alignment explanation
Indices: 162421029--162421083 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
162421019 CATGATATGT
162421029 ATGATATGCAC
1 ATGATATGCAC
* *
162421040 ATGACATG--T
1 ATGATATGCAC
162421049 ATGATATGCAC
1 ATGATATGCAC
*
162421060 ATGATATG--T
1 ATGATATGCAC
162421069 ATGATATGCAC
1 ATGATATGCAC
162421080 ATGA
1 ATGA
162421084 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:162421165 original size:23 final size:23
Alignment explanation
Indices: 162421135--162421299 Score: 253
Period size: 23 Copynumber: 7.1 Consensus size: 23
162421125 AGGAAGTGCA
162421135 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
162421158 AAAGGGCTTATGCCCCAATTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
162421182 AAAGGGCTTATG-CCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
162421205 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
162421228 -AAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
162421250 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
162421273 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
162421297 AAA
1 AAA
162421300 AGAGGCTAGG
Statistics
Matches: 133, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
22 22 0.17
23 68 0.51
24 43 0.32
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:162421209 original size:47 final size:47
Alignment explanation
Indices: 162421133--162421306 Score: 246
Period size: 47 Copynumber: 3.7 Consensus size: 47
162421123 GGAGGAAGTG
* *
162421133 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
162421180 CAAAAGGGCTTATG-CCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTAT
* *
162421227 --TAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
* *
162421272 TAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCT
1 CAAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCT
162421307 AGGCCTCTAG
Statistics
Matches: 114, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
45 33 0.29
46 18 0.16
47 54 0.47
48 5 0.04
49 4 0.04
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT
Found at i:162423691 original size:40 final size:40
Alignment explanation
Indices: 162423646--162423813 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
162423636 CGGAATATAA
162423646 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
162423686 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
162423726 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
162423766 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
162423806 CCGGATAT
1 CCGGATAT
162423814 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:162431451 original size:14 final size:14
Alignment explanation
Indices: 162431432--162431460 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
162431422 ACAGATGGAT
162431432 TCGTATAATTCTTA
1 TCGTATAATTCTTA
162431446 TCGTATAATTCTTA
1 TCGTATAATTCTTA
162431460 T
1 T
162431461 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:162435692 original size:20 final size:21
Alignment explanation
Indices: 162435626--162435694 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
162435616 TCACTTCGTT
162435626 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
162435647 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
162435668 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
162435689 -CTTTTT
1 TCTTTTT
162435695 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:162438093 original size:18 final size:18
Alignment explanation
Indices: 162438060--162438153 Score: 131
Period size: 18 Copynumber: 5.4 Consensus size: 18
162438050 AAGGTTTTCT
162438060 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
162438075 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
*
162438093 TATTGATGCTAGTGACGA
1 TATTGATGATAGTGACGA
* *
162438111 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
*
162438129 TATTGATGATAGTGACGC
1 TATTGATGATAGTGACGA
162438147 TATTGAT
1 TATTGAT
162438154 CGTGACCTTG
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
15 11 0.15
16 1 0.01
18 61 0.84
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.36
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:162446420 original size:14 final size:14
Alignment explanation
Indices: 162446401--162446428 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
162446391 TATATTAGTA
162446401 TTTTCTATTCTATT
1 TTTTCTATTCTATT
162446415 TTTTCTATTCTATT
1 TTTTCTATTCTATT
162446429 AGTATTAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTCTATTCTATT
Found at i:162446436 original size:6 final size:6
Alignment explanation
Indices: 162446425--162446503 Score: 66
Period size: 5 Copynumber: 14.2 Consensus size: 6
162446415 TTTTCTATTC
* *
162446425 TATTAG TATTAGAG TATTAG -ATTAG TATT-C TATT-C TATTAG TATTAG
1 TATTAG TATT--AG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
162446472 -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG T
162446504 TAGTGATCCC
Statistics
Matches: 64, Mismatches: 2, Indels: 14
0.80 0.03 0.17
Matches are distributed among these distances:
4 4 0.06
5 28 0.44
6 26 0.41
8 6 0.09
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:162446451 original size:11 final size:11
Alignment explanation
Indices: 162446426--162446507 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
162446416 TTTCTATTCT
162446426 ATTAGTATTAG
1 ATTAGTATTAG
162446437 ---AGTATTAG
1 ATTAGTATTAG
**
162446445 ATTAGTATTCT
1 ATTAGTATTAG
*
162446456 ATT-CTATTAG
1 ATTAGTATTAG
162446466 TATTAG-ATTAG
1 -ATTAGTATTAG
162446477 TATTAGTTAGATTAG
1 -ATTAG-T--ATTAG
162446492 ATTAGTATTAG
1 ATTAGTATTAG
162446503 -TTAGT
1 ATTAGT
162446508 GATCCCGGCT
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
8 8 0.14
10 9 0.16
11 28 0.50
13 1 0.02
14 5 0.09
15 5 0.09
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:162446492 original size:20 final size:21
Alignment explanation
Indices: 162446462--162446507 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
162446452 TTCTATTCTA
162446462 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
162446483 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
162446503 TTAGT
1 TTAGT
162446508 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:162454721 original size:32 final size:32
Alignment explanation
Indices: 162454680--162454741 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
162454670 CATCTATTTT
162454680 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
162454712 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
162454742 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:162462053 original size:13 final size:13
Alignment explanation
Indices: 162462035--162462062 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
162462025 TGAAAATTCG
162462035 TTAATGGTACATT
1 TTAATGGTACATT
162462048 TTAATGGTACATT
1 TTAATGGTACATT
162462061 TT
1 TT
162462063 CCCCTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (13 bp):
TTAATGGTACATT
Found at i:162480835 original size:39 final size:39
Alignment explanation
Indices: 162480661--162480818 Score: 262
Period size: 39 Copynumber: 4.1 Consensus size: 39
162480651 TGTGAATATA
*
162480661 TATATGCAAGAATTATATCCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
162480700 TATAAGCGAGAATTATATCCGGAGTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
162480739 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
162480778 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCCGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
162480817 TA
1 TA
162480819 CGTGCTGGAC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 110 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.27
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:162483174 original size:27 final size:27
Alignment explanation
Indices: 162483144--162483250 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
162483134 GGCTGCTAGA
*
162483144 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGTCACCAGAT
*
162483171 ACAGATAATCGTGGCAGA-TCCACCA-AA
1 ACAGATAAT-GTGGCAGAGT-CACCAGAT
* *
162483198 ATAGATATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGTCACCAGAT
* *
162483226 -CAGATAATTGTGGCATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGTCACCAG
162483251 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
26 1 0.01
27 51 0.76
28 15 0.22
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.19
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGTCACCAGAT
Found at i:162483239 original size:54 final size:54
Alignment explanation
Indices: 162483146--162483249 Score: 147
Period size: 54 Copynumber: 1.9 Consensus size: 54
162483136 CTGCTAGAAC
* *
162483146 AGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGATCCACCAAAAT
1 AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAAAAT
* * *
162483200 AGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCA
1 AGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCA
162483250 GGACGCTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
54 26 0.59
55 18 0.41
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (54 bp):
AGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACCAAAAT
Found at i:162487439 original size:12 final size:12
Alignment explanation
Indices: 162487422--162487448 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
162487412 ATACATGCCT
162487422 GTGTGCTAGGCC
1 GTGTGCTAGGCC
162487434 GTGTGCTAGGCC
1 GTGTGCTAGGCC
162487446 GTG
1 GTG
162487449 CCAAACCAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:162493271 original size:43 final size:43
Alignment explanation
Indices: 162493134--162493306 Score: 183
Period size: 43 Copynumber: 4.0 Consensus size: 43
162493124 GCCATAGGAT
* *
162493134 TCGATATGTGTTTTCATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
* * * * * **
162493177 TCGACT-TATGATTTACGTGTAAGACCATGTCTAGGACATCAGCA
1 TCGA-TATTTGATTT-CATGTAAGACCACGTCTGGGACGTTGGCA
*
162493221 TCG-TATTTGATTTCATGTAAGAACC-TGTCTGGGACAG-TGGCA
1 TCGATATTTGATTTCATGTAAG-ACCACGTCTGGGAC-GTTGGCA
*
162493263 TCGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
162493306 T
1 T
162493307 TGTACGAGCT
Statistics
Matches: 106, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
42 27 0.25
43 52 0.49
44 27 0.25
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATTTGATTTCATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:162493861 original size:23 final size:24
Alignment explanation
Indices: 162493835--162493880 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
162493825 AGCCATCTGA
* *
162493835 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTCGTATATGAT
*
162493858 TATGGTTTGATTTTCGTATATGA
1 TATGGCTTGATTTTCGTATATGA
162493881 AATGTGATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.17, C:0.04, G:0.26, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTCGTATATGAT
Found at i:162495625 original size:19 final size:19
Alignment explanation
Indices: 162495601--162495639 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
162495591 CAAAGACAAA
162495601 ACATATTTATCTATTACGT
1 ACATATTTATCTATTACGT
162495620 ACATATTTATCTATTACGT
1 ACATATTTATCTATTACGT
162495639 A
1 A
162495640 TCTTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.46
Consensus pattern (19 bp):
ACATATTTATCTATTACGT
Found at i:162495841 original size:10 final size:10
Alignment explanation
Indices: 162495826--162495872 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
162495816 GAACATGTTG
162495826 AATTTTAATT
1 AATTTTAATT
162495836 AATTTTATAATT
1 AA-TTT-TAATT
*
162495848 AATTTTTATT
1 AATTTTAATT
*
162495858 AATTTTGATT
1 AATTTTAATT
162495868 -ATTTT
1 AATTTT
162495873 TGATAGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 5 0.15
10 15 0.45
11 6 0.18
12 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
AATTTTAATT
Found at i:162495848 original size:12 final size:11
Alignment explanation
Indices: 162495828--162495863 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
162495818 ACATGTTGAA
162495828 TTTTAATTAAT
1 TTTTAATTAAT
162495839 TTTATAATTAAT
1 TTT-TAATTAAT
162495851 TTTT-ATTAAT
1 TTTTAATTAAT
162495861 TTT
1 TTT
162495864 GATTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.38
11 4 0.17
12 11 0.46
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTAATTAAT
Found at i:162498014 original size:41 final size:41
Alignment explanation
Indices: 162497957--162498108 Score: 198
Period size: 41 Copynumber: 3.7 Consensus size: 41
162497947 ATAGCGCTGA
*
162497957 CTCAAGAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGG
1 CTCAA-AAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
* * * * * * * *
162497999 CCCGAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTAG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
*
162498039 CTCAAAAGCCCTTCGAGACCAAGCTCAGATTATGACACTGG
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
162498080 CTCAAAAGCCCTTCGAGACCAAGCTCGGA
1 CTCAAAAGCCCTTCGAGACCAAGCTCGGA
162498109 ATTAAACCCT
Statistics
Matches: 90, Mismatches: 19, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
40 30 0.33
41 57 0.63
42 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
CTCAAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGG
Found at i:162500391 original size:29 final size:29
Alignment explanation
Indices: 162500358--162500546 Score: 229
Period size: 29 Copynumber: 6.5 Consensus size: 29
162500348 GTGACGAGAT
162500358 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162500387 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
162500416 TGGCACTAATTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
162500445 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
162500474 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
162500503 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
162500532 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
162500547 GAAATCGAGT
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
28 2 0.01
29 135 0.98
30 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:162510488 original size:46 final size:46
Alignment explanation
Indices: 162510435--162510610 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
162510425 TATTTGGGCA
162510435 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
162510481 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
162510528 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
162510574 -CCCAGGCTCGTTGAGTTGAGTCTGACTTCACTTATGG
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
162510611 GTGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 63 0.58
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:162520005 original size:49 final size:49
Alignment explanation
Indices: 162519817--162520170 Score: 546
Period size: 49 Copynumber: 7.4 Consensus size: 49
162519807 TACATATATG
* * * *
162519817 TGTGATAAGGCCGAATGGCC-A-ATG-TGAATGTGAAAGTGCA--TATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
162519861 TGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTGTA--TATA
1 TGTGATAAGGCC-TAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
162519908 TGTGATAAGGCCTAATGGCC-ATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
162519956 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
162520005 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
162520054 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
162520103 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
162520152 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
162520171 TAATGTAAAA
Statistics
Matches: 295, Mismatches: 7, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
44 18 0.06
45 1 0.00
46 25 0.08
47 36 0.12
48 24 0.08
49 191 0.65
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:162520313 original size:36 final size:37
Alignment explanation
Indices: 162520272--162520391 Score: 208
Period size: 36 Copynumber: 3.3 Consensus size: 37
162520262 GGAATATGTT
*
162520272 CCGGGTGAGACCCGATGACTACGTGTGGAGA-TATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
162520308 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
162520345 CC-GGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
162520381 CCGGGTAAGAC
1 CCGGGTAAGAC
162520392 TTCGTAATAA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
36 65 0.81
37 15 0.19
ACGTcount: A:0.26, C:0.20, G:0.33, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:162522508 original size:29 final size:29
Alignment explanation
Indices: 162522476--162522752 Score: 491
Period size: 29 Copynumber: 9.6 Consensus size: 29
162522466 CGTTAACCGA
162522476 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
162522505 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
162522534 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
162522563 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
162522592 GCACTATGTGTGCTAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
162522621 GCACTATGTGTGCGAGATCAGTAATCGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
162522650 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
162522679 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
* *
162522708 GCACTGTGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAATCGAG
*
162522737 GCACTGTGTGTGCGAG
1 GCACTATGTGTGCGAG
162522753 TTTTTCAACA
Statistics
Matches: 242, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 242 1.00
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAATCGAG
Found at i:162526444 original size:49 final size:49
Alignment explanation
Indices: 162526294--162526609 Score: 480
Period size: 49 Copynumber: 6.5 Consensus size: 49
162526284 TATGATATAC
* * *
162526294 ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
162526342 -CATATGTGTGATAAGGCCGT-ATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCC-TAATGGCCGATGTGATGAATGTGAAAGTGT
162526389 -TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
162526437 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
162526486 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* * *
162526535 ATGTATATGTGATAAGGCCTAAAGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
162526584 ATATATATGTGATAAGGCCTAATGGC
1 ATATATATGTGATAAGGCCTAATGGC
162526610 TAATGTAAAA
Statistics
Matches: 254, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 86 0.34
49 167 0.66
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
Found at i:162526761 original size:37 final size:37
Alignment explanation
Indices: 162526711--162526795 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
162526701 GGAATATGTT
*
162526711 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
162526748 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
162526785 CCGGGTAAGAC
1 CCGGGTAAGAC
162526796 TTCGTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:162531368 original size:93 final size:93
Alignment explanation
Indices: 162531256--162531426 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
162531246 GCCCCTAAGT
* *
162531256 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
162531321 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
162531349 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
162531414 CGAGTTCGGATGC
66 CGAGTTCGGATGC
162531427 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:162531423 original size:46 final size:46
Alignment explanation
Indices: 162531251--162531423 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
162531241 AACCCGCCCC
* *
162531251 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
162531297 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
162531345 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
162531390 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
162531424 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:162536900 original size:40 final size:40
Alignment explanation
Indices: 162536852--162537059 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
162536842 TCTTCGAAAT
* * *
162536852 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * * *
162536891 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTTGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
162536931 TTAACCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
162536971 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
162537011 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
162537051 TTAGCCCGG
1 TTAGCCCGG
162537060 GTATCATTCA
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 140 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:162545005 original size:40 final size:40
Alignment explanation
Indices: 162544956--162545163 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
162544946 TCTTCGGAAT
* * *
162544956 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
162544995 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
162545035 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
162545075 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
162545115 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
162545155 TTAGCCCGG
1 TTAGCCCGG
162545164 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:162553110 original size:40 final size:40
Alignment explanation
Indices: 162553061--162553268 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
162553051 TCTTCGGAAT
* * *
162553061 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
162553100 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
162553140 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
162553180 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
162553220 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
162553260 TTAGCCCGG
1 TTAGCCCGG
162553269 GTATCATTCA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 142 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:162561191 original size:39 final size:38
Alignment explanation
Indices: 162561143--162561344 Score: 164
Period size: 39 Copynumber: 5.2 Consensus size: 38
162561133 TCTTCGGAAT
162561143 TTAG-CCGGATATAACCAA-AGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAA-CAATAGCACAA-TGCCTTCGGGTC
* * *** *
162561181 TTAACCCGGATTTGGTAATTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAATAGCAC-AATGCCTTCGGGTC
*
162561220 TTAGCCCGGATATAACAACTCGCACGAATG-CTTCGGGTC
1 TTAGCCCGGATATAACAA-TAGCAC-AATGCCTTCGGGTC
* * *
162561259 TTAGCCCGGATATAATCACTAGCATAAATGCCTT-GGGAC
1 TTAGCCCGGATATAA-CAATAGCA-CAATGCCTTCGGGTC
* * *
162561298 TTAG--CGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAATAGCA-CAATGCCTTCGGGTC
162561336 TTAGCCCGG
1 TTAGCCCGG
162561345 GTATCATTCA
Statistics
Matches: 137, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
37 28 0.20
38 14 0.10
39 76 0.55
40 19 0.14
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (38 bp):
TTAGCCCGGATATAACAATAGCACAATGCCTTCGGGTC
Found at i:162568369 original size:29 final size:29
Alignment explanation
Indices: 162568334--162568407 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
162568324 GTTGTGAGAT
* *
162568334 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
162568363 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
162568392 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
162568408 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:162570093 original size:28 final size:26
Alignment explanation
Indices: 162570062--162570125 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
162570052 AATTACTATA
* **
162570062 ATACCCCTATGTATGGAAAATTATTGTT
1 ATACCCCTA-G-ATGCAAAATTACCGTT
* *
162570090 ATACCTCTAGGTGCAAAATTACCGTT
1 ATACCCCTAGATGCAAAATTACCGTT
162570116 ATACCCCTAG
1 ATACCCCTAG
162570126 GGTTAATTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
26 21 0.70
27 1 0.03
28 8 0.27
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (26 bp):
ATACCCCTAGATGCAAAATTACCGTT
Found at i:162570271 original size:27 final size:27
Alignment explanation
Indices: 162570233--162570341 Score: 121
Period size: 27 Copynumber: 4.0 Consensus size: 27
162570223 AAGCGTTCTA
*
162570233 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
162570260 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
162570287 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* * * *
162570315 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
162570341 G
1 G
162570342 CAGCCATGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.07
27 51 0.72
28 15 0.21
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:162570334 original size:54 final size:54
Alignment explanation
Indices: 162570227--162570341 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
162570217 TGGAGGAAGC
* *
162570227 GTTCTAGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
162570281 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
162570335 GTTCTGG
1 GTTCTGG
162570342 CAGCCATGGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:162574346 original size:26 final size:26
Alignment explanation
Indices: 162574310--162574667 Score: 331
Period size: 26 Copynumber: 13.2 Consensus size: 26
162574300 TGATACAAAT
*
162574310 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
162574336 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
162574362 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
162574388 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
162574414 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
** * *** **
162574440 TGATAA-GAATTTCATGTCTTTTGTATTAA
1 TGATAATG-GGTT-AGGT-AAATGT-TCCA
* * * ** * *
162574469 AGAATTAAATGGATGAAATATGAAGTTTGATACAAA
1 TG-A-T-AATGGGTTAGGTA--AA---TG-TTC-CA
*
162574505 TTGATAATAGGTTAGGTAAATGTTCCA
1 -TGATAATGGGTTAGGTAAATGTTCCA
*
162574532 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
162574558 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
162574584 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
162574610 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
162574636 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
162574662 TGATAA
1 TGATAA
162574668 GAATTTCATG
Statistics
Matches: 280, Mismatches: 36, Indels: 32
0.80 0.10 0.09
Matches are distributed among these distances:
25 1 0.00
26 238 0.85
27 4 0.01
28 5 0.02
29 6 0.02
30 1 0.00
31 3 0.01
32 5 0.02
33 1 0.00
34 8 0.03
35 3 0.01
36 4 0.01
37 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:162574696 original size:222 final size:222
Alignment explanation
Indices: 162574310--162574718 Score: 773
Period size: 222 Copynumber: 1.8 Consensus size: 222
162574300 TGATACAAAT
*
162574310 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCTATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
*
162574375 GGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGCTAGGTAAATGTTTCA
66 GGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTTCATGATAATGGGCTAGGTAAATGTTTCA
162574440 TGATAAGAATTTCATGTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAGTTTGATACAAA
131 TGATAAGAATTTCATGTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAGTTTGATACAAA
162574505 TTGATAATAGGTTAGGTAAATGTTCCA
196 TTGATAATAGGTTAGGTAAATGTTCCA
*
162574532 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
* *
162574597 GGTAAATGTTTCATGATAATGAGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
66 GGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTTCATGATAATGGGCTAGGTAAATGTTTCA
162574662 TGATAAGAATTTCATGTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAGTTT
131 TGATAAGAATTTCATGTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAGTTT
162574719 TATTAAAAGA
Statistics
Matches: 182, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 182 1.00
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (222 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTCCATGATAATGAGTTAGGTAAATGTTTCATGATAATGGGCTAGGTAAATGTTTCA
TGATAAGAATTTCATGTCTTTTGTATTAAAGAATTAAATGGATGAAATATGAAGTTTGATACAAA
TTGATAATAGGTTAGGTAAATGTTCCA
Found at i:162576156 original size:40 final size:41
Alignment explanation
Indices: 162576112--162576364 Score: 253
Period size: 40 Copynumber: 6.7 Consensus size: 41
162576102 GCTACTCGTT
* *
162576112 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATT-TAGTAACTCGCA
*
162576152 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
162576192 C-AATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
*
162576231 CAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
162576270 CAAATGCCTTC-GGA---T----C----TTAGTAACTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
162576299 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAAC-TCGCA
162576340 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
162576365 CATCATTCGA
Statistics
Matches: 188, Mismatches: 9, Indels: 32
0.82 0.04 0.14
Matches are distributed among these distances:
29 27 0.14
32 2 0.01
36 2 0.01
38 3 0.02
39 63 0.34
40 78 0.41
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:162576216 original size:39 final size:40
Alignment explanation
Indices: 162576112--162576290 Score: 251
Period size: 39 Copynumber: 4.5 Consensus size: 40
162576102 GCTACTCGTT
* * *
162576112 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCA
**
162576152 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
162576192 C-AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
162576231 CAAATGCCTTCGGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
162576270 CAAATGCCTTCGGATCTTAGT
1 CAAATGCCTTCGGATCTTAGT
162576291 AACTCGCACA
Statistics
Matches: 131, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
38 3 0.02
39 70 0.53
40 56 0.43
41 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
Found at i:162576223 original size:79 final size:79
Alignment explanation
Indices: 162576112--162576290 Score: 249
Period size: 79 Copynumber: 2.3 Consensus size: 79
162576102 GCTACTCGTT
* * *
162576112 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
162576175 GGATTTAGTAACTCGCA
64 -GATTTAGTAACTCGCA
**
162576192 C-AATGCCTTCGGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGG-TTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
162576255 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
162576270 CAAATGCCTTCGGATCTTAGT
1 CAAATGCCTTCGGATCTTAGT
162576291 AACTCGCACA
Statistics
Matches: 90, Mismatches: 5, Indels: 9
0.87 0.05 0.09
Matches are distributed among these distances:
78 23 0.26
79 64 0.71
80 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (79 bp):
CAAATGCCTTCGGATCTTAGTCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
TTTAGTAACTCGCA
Found at i:162576293 original size:68 final size:68
Alignment explanation
Indices: 162576213--162576351 Score: 219
Period size: 68 Copynumber: 2.0 Consensus size: 68
162576203 GATCTTAGTC
* *
162576213 CGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATTTAGTAAC-TCGCACAAATG
1 CGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCACAAA-G
162576276 CCTT
65 CCTT
*
162576280 CGGATCTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAG
1 CGGAT-TTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCACAAAG
162576345 CCTT
65 CCTT
162576349 CGG
1 CGG
162576352 GACTTAGCCC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
67 5 0.08
68 36 0.55
69 17 0.26
70 8 0.12
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (68 bp):
CGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTAACTTAGCACAAAGC
CTT
Found at i:162576299 original size:29 final size:29
Alignment explanation
Indices: 162576257--162576319 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
162576247 TTAGTCCGAT
162576257 TTAGTAACTCGCACAAATGCCTTCGGATC
1 TTAGTAACTCGCACAAATGCCTTCGGATC
162576286 TTAGTAACTCGCACAAATGCCTTCGGATC
1 TTAGTAACTCGCACAAATGCCTTCGGATC
162576315 TTAGT
1 TTAGT
162576320 CCGGATATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (29 bp):
TTAGTAACTCGCACAAATGCCTTCGGATC
Found at i:162584360 original size:40 final size:40
Alignment explanation
Indices: 162584323--162584547 Score: 291
Period size: 40 Copynumber: 5.7 Consensus size: 40
162584313 GCTACTCGTT
*
162584323 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
*
162584363 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
162584403 C-AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
162584442 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
162584482 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
162584523 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
162584548 CATCATTCGA
Statistics
Matches: 172, Mismatches: 8, Indels: 10
0.91 0.04 0.05
Matches are distributed among these distances:
38 3 0.02
39 33 0.19
40 123 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:162584434 original size:79 final size:80
Alignment explanation
Indices: 162584323--162584547 Score: 316
Period size: 79 Copynumber: 2.8 Consensus size: 80
162584313 GCTACTCGTT
* * *
162584323 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
162584386 GGATTTAGTAACTCGCA
64 GGATTTAGTAACTCGCA
*
162584403 C-AATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
162584466 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* * *
162584482 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
162584546 GA
65 GA
162584548 CATCATTCGA
Statistics
Matches: 131, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
78 6 0.05
79 64 0.49
80 50 0.38
81 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
ATTTAGTAACTCGCA
Found at i:162587959 original size:27 final size:27
Alignment explanation
Indices: 162587921--162588056 Score: 175
Period size: 27 Copynumber: 5.0 Consensus size: 27
162587911 AAGTGTTCTA
*
162587921 GTGGCTATGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
162587948 GTGGCTCTGCCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
162587975 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
* *
162588002 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACAAATATCTG-ATCTG
* * * *
162588030 GTGACTCTGTCAC-ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGATCTG
162588056 G
1 G
162588057 CAGCCATGGT
Statistics
Matches: 98, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 78 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGATCTG
Found at i:162588003 original size:54 final size:55
Alignment explanation
Indices: 162587921--162588056 Score: 195
Period size: 54 Copynumber: 2.5 Consensus size: 55
162587911 AAGTGTTCTA
* * *
162587921 GTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-ATCTG
1 GTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTATCTG
* *
162587975 GTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTATCTG
* *
162588030 GTGACTCTGTCACAT-TATCTGTTCTGG
1 GTGGCTCTGCCACATATATCTGTTCTGG
162588057 CAGCCATGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
54 56 0.76
55 18 0.24
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
GTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTATCTG
Found at i:162606051 original size:71 final size:71
Alignment explanation
Indices: 162605967--162606130 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
162605957 CGATTTGTCT
162605967 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
162606032 CTTTCA
66 CTTTCA
162606038 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
162606103 CTTTCA
66 CTTTCA
162606109 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
162606131 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:162606168 original size:71 final size:70
Alignment explanation
Indices: 162605967--162606164 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
162605957 CGATTTGTCT
* * * *
162605967 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
162606032 CTTTCA
65 CTTTCA
* * * *
162606038 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
162606103 CTTTCA
65 CTTTCA
* *
162606109 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
162606165 TACAGGGTTC
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:162609560 original size:29 final size:29
Alignment explanation
Indices: 162609521--162609600 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
162609511 CTTAATAATC
*
162609521 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
162609551 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
162609580 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
162609601 TCTCTCAACG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:162617433 original size:29 final size:28
Alignment explanation
Indices: 162617399--162617471 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
162617389 TAATCAACCA
*
162617399 CGCACACTTAGTGCCATGTACTTT-AAAC
1 CGCACACTTAGTGCCATGCA-TTTCAAAC
*
162617427 TCGCACACTTAGTGCCATGCATTTCAAGC
1 -CGCACACTTAGTGCCATGCATTTCAAAC
*
162617456 CCCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
162617472 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 18 0.45
29 22 0.55
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGCATTTCAAAC
Found at i:162620564 original size:12 final size:12
Alignment explanation
Indices: 162620547--162620571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
162620537 TTAAAAATTC
162620547 TAAATTTTAAAA
1 TAAATTTTAAAA
162620559 TAAATTTTAAAA
1 TAAATTTTAAAA
162620571 T
1 T
162620572 CCAAAATTTA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAATTTTAAAA
Found at i:162621603 original size:24 final size:24
Alignment explanation
Indices: 162621576--162621624 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
162621566 AAATCATCAC
*
162621576 ATTATAGAGTTGTTAATCTAGTAA
1 ATTATAGAGTTGATAATCTAGTAA
*
162621600 ATTATAGAGTTGATAATTTAGTAA
1 ATTATAGAGTTGATAATCTAGTAA
162621624 A
1 A
162621625 ATCAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (24 bp):
ATTATAGAGTTGATAATCTAGTAA
Found at i:162628629 original size:14 final size:14
Alignment explanation
Indices: 162628586--162628631 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
162628576 GTAAGTAATC
* *
162628586 TGTATGCGAACGCT
1 TGTATGCGAACCCA
*
162628600 TATATGCGAACCCA
1 TGTATGCGAACCCA
162628614 TGTATGCGAACCCA
1 TGTATGCGAACCCA
162628628 TGTA
1 TGTA
162628632 AACCTTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (14 bp):
TGTATGCGAACCCA
Found at i:162629525 original size:9 final size:9
Alignment explanation
Indices: 162629511--162629537 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
162629501 GCTATGCTTG
162629511 AGGATGGAT
1 AGGATGGAT
162629520 AGGATGGAT
1 AGGATGGAT
162629529 AGGATGGAT
1 AGGATGGAT
162629538 CGGTGGGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.22
Consensus pattern (9 bp):
AGGATGGAT
Found at i:162641280 original size:29 final size:29
Alignment explanation
Indices: 162641245--162641347 Score: 163
Period size: 29 Copynumber: 3.6 Consensus size: 29
162641235 GTTGTGAGAT
162641245 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
162641274 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* * *
162641303 TGGCACTAAGTGTGCCAG-TTTAAAGTACA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
162641332 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
162641348 CGGTTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:162644874 original size:40 final size:40
Alignment explanation
Indices: 162644829--162644995 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
162644819 CGGAATATAA
162644829 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
162644869 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
162644909 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
162644949 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
162644988 CCGGATAT
1 CCGGATAT
162644996 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:162644979 original size:80 final size:79
Alignment explanation
Indices: 162644845--162644995 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
162644835 ATAATCACGT
*
162644845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
162644910 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
162644925 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
162644988 CCGGATAT
64 CCGGATAT
162644996 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:162645843 original size:17 final size:19
Alignment explanation
Indices: 162645820--162645865 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
162645810 AAGAAGCATG
162645820 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
162645838 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
162645856 AATCATGCTC
1 AATCATGCTC
162645866 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:162649059 original size:40 final size:39
Alignment explanation
Indices: 162649014--162649221 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 39
162649004 CGGAATACAA
*
162649014 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
162649054 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
162649094 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* *** *
162649134 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
* ** * * *
162649174 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
162649214 CCGGATAT
1 CCGGATAT
162649222 CATTCAATTG
Statistics
Matches: 139, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 4 0.03
40 132 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:162649154 original size:80 final size:80
Alignment explanation
Indices: 162649014--162649220 Score: 229
Period size: 80 Copynumber: 2.6 Consensus size: 80
162649004 CGGAATACAA
* * *
162649014 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAAT-
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCAC-AATG
*
162649078 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* * **
162649094 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTGGTC-ACTAGCACAATG
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-AGAACGACTAGCACAATG
*
162649158 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
* ** * ** * *
162649174 CCGGGTATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
162649221 TCATTCAATT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
79 3 0.03
80 101 0.95
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAATGG
CCTTCGGGTATTAAC
Found at i:162657627 original size:17 final size:18
Alignment explanation
Indices: 162657585--162657633 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
162657575 AGTTGAAAAG
162657585 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
162657604 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
162657621 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
162657634 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:162658521 original size:40 final size:40
Alignment explanation
Indices: 162658455--162658621 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
162658445 AAATTGAATG
* * *
162658455 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
162658494 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
162658534 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
162658574 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
162658614 ATATCCGG
1 ATATCCGG
162658622 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:162665627 original size:17 final size:18
Alignment explanation
Indices: 162665585--162665633 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
162665575 AGTTGAAAAG
162665585 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
162665604 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
162665621 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
162665634 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:162666521 original size:40 final size:40
Alignment explanation
Indices: 162666455--162666621 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
162666445 AAATTGAATG
* * *
162666455 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
162666494 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
162666534 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
162666574 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
162666614 ATATCCGG
1 ATATCCGG
162666622 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:162668017 original size:26 final size:26
Alignment explanation
Indices: 162667986--162668093 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
162667976 TTACATGCCC
*
162667986 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
162668012 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
162668038 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
162668064 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
162668090 ATCA
1 ATCA
162668094 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:162670157 original size:30 final size:30
Alignment explanation
Indices: 162670095--162670261 Score: 227
Period size: 29 Copynumber: 5.7 Consensus size: 30
162670085 GTGTGATGAC
162670095 TTCAACTCGCACACTTAGTGCTATAT-ATT
1 TTCAACTCGCACACTTAGTGCTATATAATT
*
162670124 TTCAGCTCGCACACTTAGTGCTATATAATT
1 TTCAACTCGCACACTTAGTGCTATATAATT
*
162670154 TTCAGCTCGCACACTTAGTGCTATAT-ATT
1 TTCAACTCGCACACTTAGTGCTATATAATT
*
162670183 TTCAGCTCGCACACTTAGTGCTATATAA--
1 TTCAACTCGCACACTTAGTGCTATATAATT
* *
162670211 -TCAAACTCGCACACTTAGTGCTGTACAATT
1 TTC-AACTCGCACACTTAGTGCTATATAATT
* *
162670241 TTAAACCCGCACACTTAGTGC
1 TTCAACTCGCACACTTAGTGC
162670262 CAATCTTGTC
Statistics
Matches: 126, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.17
29 54 0.43
30 47 0.37
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (30 bp):
TTCAACTCGCACACTTAGTGCTATATAATT
Found at i:162670192 original size:59 final size:57
Alignment explanation
Indices: 162670095--162670261 Score: 237
Period size: 59 Copynumber: 2.9 Consensus size: 57
162670085 GTGTGATGAC
162670095 TTCAACTCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA
1 TTCAACTCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA
*
162670152 TTTTCAGCTCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA
1 --TTCAACTCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA
* * * * *
162670211 -TCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 TTC-AACTCGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
162670262 CAATCTTGTC
Statistics
Matches: 99, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.20
58 21 0.21
59 56 0.57
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (57 bp):
TTCAACTCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA
Found at i:162677818 original size:17 final size:15
Alignment explanation
Indices: 162677796--162677830 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
162677786 ATATTTGAGG
162677796 CATTTTCACACACAACT
1 CATTTTCAC-CACAA-T
162677813 CATTTTCACCACAAT
1 CATTTTCACCACAAT
162677828 CAT
1 CAT
162677831 ACAATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 5 0.28
17 9 0.50
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (15 bp):
CATTTTCACCACAAT
Found at i:162678067 original size:28 final size:29
Alignment explanation
Indices: 162678000--162678100 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
162677990 ATAGTGAATC
*
162678000 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
162678029 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
162678057 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
162678087 CGCACACTTAGTGC
1 CGCACACTTAGTGC
162678101 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:162687305 original size:28 final size:29
Alignment explanation
Indices: 162687238--162687338 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
162687228 ATAGTGAATC
*
162687238 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
162687267 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
162687295 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
162687325 CGCACACTTAGTGC
1 CGCACACTTAGTGC
162687339 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:162689435 original size:30 final size:30
Alignment explanation
Indices: 162689383--162689540 Score: 209
Period size: 29 Copynumber: 5.4 Consensus size: 30
162689373 GTGAATCCGT
162689383 ACACTTAGTGCTATAT-ATTTTCAGCTCGC
1 ACACTTAGTGCTATATAATTTTCAGCTCGC
162689412 ACACTTAGTGCTATATAATTTTCAGCTCGC
1 ACACTTAGTGCTATATAATTTTCAGCTCGC
162689442 ACACTTAGTGCTATAT-ATTTTCAGCTCGC
1 ACACTTAGTGCTATATAATTTTCAGCTCGC
*
162689471 ACACTTAGTGCTATATAA---TCAAACTCGC
1 ACACTTAGTGCTATATAATTTTC-AGCTCGC
* * * * *
162689499 ACACTTAGTGCTGTACAATTTTAAAACCCGC
1 ACACTTAGTGCTATATAATTTT-CAGCTCGC
162689530 ACACTTAGTGC
1 ACACTTAGTGC
162689541 CAATCTTGTC
Statistics
Matches: 117, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 22 0.19
29 45 0.38
30 30 0.26
31 18 0.15
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (30 bp):
ACACTTAGTGCTATATAATTTTCAGCTCGC
Found at i:162689457 original size:59 final size:57
Alignment explanation
Indices: 162689383--162689510 Score: 213
Period size: 59 Copynumber: 2.2 Consensus size: 57
162689373 GTGAATCCGT
*
162689383 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCTCGC
1 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACTCGC
162689442 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCGC
1 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCGC
162689499 ACACTTAGTGCT
1 ACACTTAGTGCT
162689511 GTACAATTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
56 2 0.03
57 18 0.27
59 47 0.70
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.35
Consensus pattern (57 bp):
ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACTCGC
Found at i:162689531 original size:59 final size:57
Alignment explanation
Indices: 162689383--162689540 Score: 174
Period size: 59 Copynumber: 2.7 Consensus size: 57
162689373 GTGAATCCGT
* * * * *
162689383 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGC
1 ACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAA--TTCAACTCGC
* * * *
162689442 ACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACTCGC
1 ACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTC-AACTCGC
*
162689499 ACACTTAGTGCTGTACAATTTTAAAACCCGCACACTTAGTGC
1 ACACTTAGTGCTATA-AATTTT-AAACCCGCACACTTAGTGC
162689541 CAATCTTGTC
Statistics
Matches: 90, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 5 0.06
59 63 0.70
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (57 bp):
ACACTTAGTGCTATAAATTTTAAACCCGCACACTTAGTGCTATATAATTCAACTCGC
Found at i:162692453 original size:49 final size:50
Alignment explanation
Indices: 162692400--162692524 Score: 180
Period size: 50 Copynumber: 2.5 Consensus size: 50
162692390 CTGGTACGCA
** *
162692400 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTCGATACACG
* * * *
162692449 TAGTAGCCTGCACTTAGTACTACAAATGTGGCCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTCGATACACG
162692499 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
162692525 CGTGACCTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
49 30 0.45
50 37 0.55
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTCGATACACG
Found at i:162695349 original size:29 final size:29
Alignment explanation
Indices: 162695315--162695504 Score: 211
Period size: 29 Copynumber: 6.6 Consensus size: 29
162695305 TACTCGATTT
** * *
162695315 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
162695344 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *** * *
162695373 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
162695402 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
162695431 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
162695460 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
162695489 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
162695505 ATCTCGTCAC
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
28 2 0.01
29 143 0.99
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:162704256 original size:40 final size:39
Alignment explanation
Indices: 162704190--162704355 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
162704180 AAATTGAATG
* * *
162704190 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGG-TATT
* * **
162704229 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
*
162704268 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-G-TATT
* * **
162704308 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGT-ATT
162704348 ATATCCGG
1 ATATCCGG
162704356 TTATATTCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
38 3 0.03
39 42 0.41
40 56 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTATT
Found at i:162716697 original size:26 final size:26
Alignment explanation
Indices: 162716666--162716743 Score: 86
Period size: 26 Copynumber: 3.0 Consensus size: 26
162716656 AGGGTAAAAC
*
162716666 AGTCATCTTACCACCTAAGGGCAAAT
1 AGTCATCTTACCACATAAGGGCAAAT
*
162716692 AGTCATTTTACCACATAAGGGCAAA-
1 AGTCATCTTACCACATAAGGGCAAAT
* * *
162716717 ACTGTCATTTTACCACATGAGAGCAAA
1 A--GTCATCTTACCACATAAGGGCAAA
162716744 ATATTCAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
25 1 0.02
26 23 0.50
27 22 0.48
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (26 bp):
AGTCATCTTACCACATAAGGGCAAAT
Found at i:162716755 original size:27 final size:27
Alignment explanation
Indices: 162716656--162716784 Score: 118
Period size: 27 Copynumber: 4.8 Consensus size: 27
162716646 ACATCACGTA
* * * * *
162716656 AGGGTAAAACAGTCATCTTACCACCTA
1 AGGGCAAAATAGTCATTTTACCACATG
*
162716683 AGGGC-AAATAGTCATTTTACCACATA
1 AGGGCAAAATAGTCATTTTACCACATG
162716709 AGGGCAAAACT-GTCATTTTACCACATG
1 AGGGCAAAA-TAGTCATTTTACCACATG
* * * * *
162716736 AGAGCAAAATATTCAGTTTATCAAATG
1 AGGGCAAAATAGTCATTTTACCACATG
* *
162716763 AGGGAAAAATATTCATTTTACC
1 AGGGCAAAATAGTCATTTTACC
162716785 TTATAGGGGT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 24 0.28
27 60 0.71
28 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
AGGGCAAAATAGTCATTTTACCACATG
Found at i:162716833 original size:54 final size:53
Alignment explanation
Indices: 162716775--162716888 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
162716765 GGAAAAATAT
* *
162716775 TCATTTTACCTTATAGGGGTATTAT-AGCCATTTTATCCTACTGGGGTATTTCGA
1 TCATTTTACCTTATAGGGGTATT-TCAGCCATTTTACCCTA-TAGGGTATTTCGA
* * * * * *
162716829 TCATTTTACCTTGTGGGGGTGTTTCGGTCATTTTACCCTATAGGGTATTTCGG
1 TCATTTTACCTTATAGGGGTATTTCAGCCATTTTACCCTATAGGGTATTTCGA
162716882 TCATTTT
1 TCATTTT
162716889 TAAGTAAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
53 19 0.37
54 32 0.63
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.45
Consensus pattern (53 bp):
TCATTTTACCTTATAGGGGTATTTCAGCCATTTTACCCTATAGGGTATTTCGA
Found at i:162716881 original size:26 final size:26
Alignment explanation
Indices: 162716775--162716888 Score: 95
Period size: 27 Copynumber: 4.3 Consensus size: 26
162716765 GGAAAAATAT
* *
162716775 TCATTTTACCTTATAGGGGTATTAT-AG
1 TCATTTTACCCTATA-GGGTATT-TCGG
* * * *
162716802 CCATTTTATCCTACTGGGGTATTTCGA
1 TCATTTTACCCTA-TAGGGTATTTCGG
* * * *
162716829 TCATTTTACCTTGTGGGGGTGTTTCGG
1 TCATTTTACCCTAT-AGGGTATTTCGG
162716856 TCATTTTACCCTATAGGGTATTTCGG
1 TCATTTTACCCTATAGGGTATTTCGG
162716882 TCATTTT
1 TCATTTT
162716889 TAAGTAAAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 7
0.75 0.18 0.08
Matches are distributed among these distances:
26 19 0.28
27 48 0.71
28 1 0.01
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTATAGGGTATTTCGG
Found at i:162722593 original size:48 final size:48
Alignment explanation
Indices: 162722534--162722733 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
162722524 TGTTACAACA
* *
162722534 TTCACATTAGCCATTTGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
162722582 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
162722630 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
162722678 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
162722726 TTCACATT
1 TTCACATT
162722734 CATCACATCG
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:162722780 original size:18 final size:18
Alignment explanation
Indices: 162722749--162722784 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
162722739 CATCGGCCAT
*
162722749 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
162722767 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
162722785 CATATCACAC
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:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:162722789 original size:123 final size:123
Alignment explanation
Indices: 162722646--162722891 Score: 483
Period size: 123 Copynumber: 2.0 Consensus size: 123
162722636 TTAGCCCTTC
162722646 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
162722711 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
*
162722769 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
162722834 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
162722892 TACACATATG
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.32, C:0.27, G:0.09, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
Found at i:162722863 original size:57 final size:55
Alignment explanation
Indices: 162722810--162723139 Score: 343
Period size: 49 Copynumber: 6.4 Consensus size: 55
162722800 TTTCACATTA
* * *
162722810 GCCATTCGGCTTTACCACATATACATATCACACATATGTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATA-ATAT-ACACATATGTTTCACATTCATCACATCG
162722867 GCCATTAGGCCTTATCACATAT-ATATACACATATGTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATAATATACACATATGTTTCACATTCATCACATCG
* *
162722921 GCCATTAGGCCTTATCAC--AT-ATAT--AC---TCTTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATAATATACACATATGTTTCACATTCATCACATCG
* * *
162722968 GCCATTAGGCCTTATCACATGT-ATATACAC-----TTTCCCATTCATCACATTG
1 GCCATTAGGCCTTATCACATATAATATACACATATGTTTCACATTCATCACATCG
* *
162723017 GCCATTAGGCCTTATCACATGT-ATATACAC-----TTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATAATATACACATATGTTTCACATTCATCACATCG
*
162723066 GCCATTAGGCCTTATCACATATATATATACAC-----TTTCACATTCATCACATTG
1 GCCATTAGGCCTTATCACATATA-ATATACACATATGTTTCACATTCATCACATCG
*
162723117 GCCATTAGGCCGTATCACATATA
1 GCCATTAGGCCTTATCACATATA
162723140 TACATCTCAT
Statistics
Matches: 257, Mismatches: 10, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
47 37 0.14
49 92 0.36
50 2 0.01
51 51 0.20
52 6 0.02
54 46 0.18
55 4 0.02
57 19 0.07
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (55 bp):
GCCATTAGGCCTTATCACATATAATATACACATATGTTTCACATTCATCACATCG
Found at i:162723114 original size:51 final size:49
Alignment explanation
Indices: 162722848--162723141 Score: 448
Period size: 49 Copynumber: 5.9 Consensus size: 49
162722838 CACACATATG
*
162722848 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
162722897 ATATGTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 -----TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
162722949 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
162722998 TTTCCCATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
162723047 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
162723098 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
162723142 CATCTCATAC
Statistics
Matches: 228, Mismatches: 8, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
47 36 0.16
49 99 0.43
51 47 0.21
52 9 0.04
54 37 0.16
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:162724365 original size:20 final size:20
Alignment explanation
Indices: 162724340--162724377 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
162724330 GTTTATTCGC
*
162724340 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
162724360 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
162724378 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:162726027 original size:28 final size:28
Alignment explanation
Indices: 162725995--162726063 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
162725985 GCGTAGATCA
162725995 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
162726023 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
162726051 CGATA-TACCCCTA
1 CGAAATTACCCCTA
162726064 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:162729853 original size:40 final size:39
Alignment explanation
Indices: 162729808--162730024 Score: 195
Period size: 40 Copynumber: 5.5 Consensus size: 39
162729798 CATGATTGCT
* *
162729808 CTTCGGGACCTAGCCCGGATACATCACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGC
* * *
162729847 TCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC
1 -CTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGC
* * * * * *
162729887 TCTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGC
1 -CTTCGGGACTTAGCCCGGATA-CATCACTAGCACAAATGC
* * * * *
162729927 CTTCGGGTCTTAACCCGGGTATAACAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATACATC-ACT-AGCACAAATGC
* * *
162729967 CTTCGGGTCTTAGCCCGGATATATTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATACA-TCACTAGCACAAATGC
162730007 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
162730025 GTATCATTCA
Statistics
Matches: 148, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
39 19 0.13
40 127 0.86
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
CTTCGGGACTTAGCCCGGATACATCACTAGCACAAATGC
Found at i:162731977 original size:37 final size:37
Alignment explanation
Indices: 162731927--162732017 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
162731917 TTATTACGAA
162731927 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
162731964 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
162732001 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
162732018 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:162732116 original size:48 final size:48
Alignment explanation
Indices: 162732057--162732256 Score: 364
Period size: 48 Copynumber: 4.2 Consensus size: 48
162732047 TGTTACAACA
*
162732057 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
162732105 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
162732153 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
162732201 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
162732249 TTCACATT
1 TTCACATT
162732257 CATCACATCA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 147 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:162732303 original size:18 final size:18
Alignment explanation
Indices: 162732272--162732307 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
162732262 CATCAGCCAT
*
162732272 TAGGCCTTATCACATATA
1 TAGGCCTTACCACATATA
*
162732290 TAGGCTTTACCACATATA
1 TAGGCCTTACCACATATA
162732308 CATATCACAC
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:0.22, G:0.11, T:0.33
Consensus pattern (18 bp):
TAGGCCTTACCACATATA
Found at i:162732307 original size:123 final size:123
Alignment explanation
Indices: 162732169--162732414 Score: 456
Period size: 123 Copynumber: 2.0 Consensus size: 123
162732159 TTAGCCCTTC
162732169 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
162732234 ACATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
66 ACATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
*
162732292 GGCTTTACCACATATACATATCACACATATGTTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
* * *
162732357 ATATCACACATATGTTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 ACATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
162732415 TACACATATG
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (123 bp):
GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ACATCACACATATGTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATA
Found at i:162732378 original size:57 final size:54
Alignment explanation
Indices: 162732325--162732664 Score: 234
Period size: 49 Copynumber: 6.6 Consensus size: 54
162732315 CACATATGTT
* * *
162732325 TCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGTTTCATATTCA
1 TCACATCAGCCATTAGGCCTTACCACATAT--ATAT-ACACATATGTTTCATATTCA
* * *
162732382 TCACATCGGCCATTAGGCCTTATCACATATATATACACATATGTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
* * * * *
162732436 TCACATCGGCCATTAAGCCTTATCAC--ATATAT--AC---TCTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
** * * **
162732483 TCACATTGGCCATTAGGCCTTATCACATGTATATACAC-----TTTCCCATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
** * *
162732532 TCACATTGGCCATTAGGCCTTATCACATATATATACAC-----TTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
** * * * *
162732581 TCACATTGGCCATTAGGCCTTATCACATATATATATAC--A-CTTTCACATTCA
1 TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
** * *
162732632 TCACATTGGCCATTAGGCCGTATCACATATATA
1 TCACATCAGCCATTAGGCCTTACCACATATATA
162732665 CATCTCATAC
Statistics
Matches: 261, Mismatches: 16, Indels: 18
0.88 0.05 0.06
Matches are distributed among these distances:
47 36 0.14
49 99 0.38
50 2 0.01
51 45 0.17
52 6 0.02
54 44 0.17
55 4 0.02
57 25 0.10
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (54 bp):
TCACATCAGCCATTAGGCCTTACCACATATATATACACATATGTTTCATATTCA
Found at i:162732597 original size:98 final size:98
Alignment explanation
Indices: 162732371--162732664 Score: 439
Period size: 100 Copynumber: 2.9 Consensus size: 98
162732361 CACACATATG
* *
162732371 TTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACATATGTTTCACATTCA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC-----TTTCACATTCA
* * *
162732436 TCACATCGGCCATTAAGCCTTATCAC--ATATATACTC
61 TCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
162732472 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCCCATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
162732537 TTGGCCATTAGGCCTTATCACATATATATACAC
66 TTGGCCATTAGGCCTTATCACATATATATACAC
162732570 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACACTTTCACATTCATCA
*
162732635 CATTGGCCATTAGGCCGTATCACATATATA
64 CATTGGCCATTAGGCCTTATCACATATATA
162732665 CATCTCATAC
Statistics
Matches: 179, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
96 34 0.19
98 46 0.26
100 53 0.30
101 46 0.26
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (98 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:162732634 original size:51 final size:49
Alignment explanation
Indices: 162732371--162732664 Score: 439
Period size: 49 Copynumber: 5.9 Consensus size: 49
162732361 CACACATATG
* *
162732371 TTTCATATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
162732420 ATATGTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACTC
1 -----TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
162732472 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
162732521 TTTCCCATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
162732570 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATATACAC
*
162732621 TTTCACATTCATCACATTGGCCATTAGGCCGTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
162732665 CATCTCATAC
Statistics
Matches: 225, Mismatches: 11, Indels: 13
0.90 0.04 0.05
Matches are distributed among these distances:
47 35 0.16
49 98 0.44
51 48 0.21
52 9 0.04
54 35 0.16
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:162734387 original size:30 final size:29
Alignment explanation
Indices: 162734293--162734394 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
162734283 TATAGTGAAT
* * *
162734293 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
162734322 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
162734350 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
162734380 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
162734395 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Done.