Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 147 of 211
Found at i:46368167 original size:21 final size:20
Alignment explanation
Indices: 46367970--46368168 Score: 103
Period size: 20 Copynumber: 9.8 Consensus size: 20
46367960 TATTAAAAAA
* *
46367970 ATAAAAAATTGATATAAACTT
1 ATAAAAAA-TAATATAAAATT
* *
46367991 ATAAAAAATTAT-TAATATT
1 ATAAAAAATAATATAAAATT
*
46368010 AT-AAAAATTATA-ACAAATT
1 ATAAAAAATAATATA-AAATT
*
46368029 AATAAAAAA-CA-ATAAAATT
1 -ATAAAAAATAATATAAAATT
*
46368048 ATTAAAAACAT-ATTTAAAATTCT
1 A-TAAAAA-ATAATATAAAA-T-T
46368071 ATAAAAAAT-AT-TAAAATTCT
1 ATAAAAAATAATATAAAA-T-T
*
46368091 ATAAAAAA-AATCATAAGCATT
1 ATAAAAAATAAT-ATAA-AATT
* *
46368112 ATAAAAAATTATA-AAAAGT
1 ATAAAAAATAATATAAAATT
* *
46368131 ATTAAAATTAATATAAAATT
1 ATAAAAAATAATATAAAATT
*
46368151 ATAAAAAAGAATCATAAA
1 ATAAAAAATAAT-ATAAA
46368169 TCTTGAACTA
Statistics
Matches: 143, Mismatches: 17, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
18 11 0.08
19 35 0.24
20 44 0.31
21 37 0.26
22 13 0.09
23 3 0.02
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.31
Consensus pattern (20 bp):
ATAAAAAATAATATAAAATT
Found at i:46368302 original size:17 final size:17
Alignment explanation
Indices: 46368280--46368313 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
46368270 CGGTTCAATC
*
46368280 ATTTTTTTATTTTTAAA
1 ATTTTTTTAATTTTAAA
46368297 ATTTTTTTAATTTTAAA
1 ATTTTTTTAATTTTAAA
46368314 TGTTCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTTTTAATTTTAAA
Found at i:46368615 original size:19 final size:19
Alignment explanation
Indices: 46368593--46368635 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
46368583 TTTTTAAAAT
46368593 TTTATAATTTTATATCAAC
1 TTTATAATTTTATATCAAC
* *
46368612 TTTAATATTTTTATATCAAT
1 TTT-ATAATTTTATATCAAC
46368632 TTTA
1 TTTA
46368636 ATATTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATAATTTTATATCAAC
Found at i:46368625 original size:20 final size:20
Alignment explanation
Indices: 46368600--46368643 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
46368590 AATTTTATAA
46368600 TTTTATATCAACTTTAATAT
1 TTTTATATCAACTTTAATAT
*
46368620 TTTTATATCAATTTTAATAT
1 TTTTATATCAACTTTAATAT
46368640 TTTT
1 TTTT
46368644 TATTATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTATATCAACTTTAATAT
Found at i:46368757 original size:20 final size:20
Alignment explanation
Indices: 46368721--46368761 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
46368711 ATTTATTATA
*
46368721 TTTTATAATATTTATAAGTT
1 TTTTATAATATTAATAAGTT
46368741 TTTTATAAT-TTCAATAAGTT
1 TTTTATAATATT-AATAAGTT
46368761 T
1 T
46368762 ATATTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTATAATATTAATAAGTT
Found at i:46368794 original size:16 final size:17
Alignment explanation
Indices: 46368759--46368814 Score: 53
Period size: 16 Copynumber: 3.3 Consensus size: 17
46368749 TTTCAATAAG
*
46368759 TTTATATTAATTTTAGTAT
1 TTTATATT--TTTTAATAT
46368778 TTTAT-TTTTTTAATAT
1 TTTATATTTTTTAATAT
* *
46368794 TTAATATTTTATAAT-T
1 TTTATATTTTTTAATAT
46368810 TTTAT
1 TTTAT
46368815 GGAAAAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
16 17 0.53
17 8 0.25
18 2 0.06
19 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATTTTTTAATAT
Found at i:46368811 original size:23 final size:22
Alignment explanation
Indices: 46368765--46368811 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
46368755 TAAGTTTATA
* **
46368765 TTAATTTTAGTATTTTATTTTT
1 TTAATTTTAATATTTTATAATT
46368787 TTAATATTTAATATTTTATAATT
1 TTAAT-TTTAATATTTTATAATT
46368810 TT
1 TT
46368812 TATGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (22 bp):
TTAATTTTAATATTTTATAATT
Found at i:46369030 original size:23 final size:26
Alignment explanation
Indices: 46368984--46369030 Score: 64
Period size: 23 Copynumber: 1.9 Consensus size: 26
46368974 TAGTAAAGGG
*
46368984 TCTTAATTATTATTATTTTTACATTT
1 TCTTAATTATTATTATTTTGACATTT
46369010 TCTTAA-TATT-TT-TTTTGACAT
1 TCTTAATTATTATTATTTTGACAT
46369031 ATAAGCCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 4 0.20
26 6 0.30
ACGTcount: A:0.26, C:0.09, G:0.02, T:0.64
Consensus pattern (26 bp):
TCTTAATTATTATTATTTTGACATTT
Found at i:46370543 original size:25 final size:25
Alignment explanation
Indices: 46370512--46370594 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
46370502 CAAACATGTA
46370512 AACGGGAAGCTCTTTCGAGCCATAT
1 AACGGGAAGCTCTTTCGAGCCATAT
* * *
46370537 AATGGGAAGCTCATGT-GAGCCATGT
1 AACGGGAAGCTC-TTTCGAGCCATAT
* *
46370562 AACGGGAAGCTCATCCGAGCCATA-
1 AACGGGAAGCTCTTTCGAGCCATAT
*
46370586 ATCGGGAAG
1 AACGGGAAG
46370595 TTAAAATGAG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 8 0.17
25 37 0.79
26 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (25 bp):
AACGGGAAGCTCTTTCGAGCCATAT
Found at i:46373151 original size:25 final size:25
Alignment explanation
Indices: 46373114--46373164 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
46373104 TGATCATTAA
*
46373114 TATCAATAGGCAATATTTCATTATC
1 TATCAATAAGCAATATTTCATTATC
*
46373139 TATCAGTAAGCAATATTTCATTATC
1 TATCAATAAGCAATATTTCATTATC
46373164 T
1 T
46373165 CAATTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (25 bp):
TATCAATAAGCAATATTTCATTATC
Found at i:46373596 original size:21 final size:22
Alignment explanation
Indices: 46373548--46373623 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
46373538 CCTAATCAGT
* * *
46373548 ATACGACACA-TAAGTGCTTGA
1 ATACGACACACGAGGTGCCTGA
*
46373569 A-ACGACACACGAGGTGTCTG-
1 ATACGACACACGAGGTGCCTGA
46373589 ATACGACACACACGAGGTGCCTGAA
1 ATACG--ACACACGAGGTGCCTG-A
46373614 ATACGACACA
1 ATACGACACA
46373624 TAAAGTGCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
20 9 0.20
21 10 0.23
23 20 0.45
25 5 0.11
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:46373603 original size:23 final size:24
Alignment explanation
Indices: 46373573--46373623 Score: 77
Period size: 23 Copynumber: 2.1 Consensus size: 24
46373563 GCTTGAAACG
*
46373573 ACACACGAGGTGTCTG-ATACGAC
1 ACACACGAGGTGCCTGAATACGAC
46373596 ACACACGAGGTGCCTGAAATACGAC
1 ACACACGAGGTGCCTG-AATACGAC
46373621 ACA
1 ACA
46373624 TAAAGTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 15 0.60
25 10 0.40
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.14
Consensus pattern (24 bp):
ACACACGAGGTGCCTGAATACGAC
Found at i:46373631 original size:23 final size:23
Alignment explanation
Indices: 46373605--46373656 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
46373595 CACACACGAG
46373605 GTGCCTGAAATACGACACATAAA
1 GTGCCTGAAATACGACACATAAA
* * *
46373628 GTGCTTGATATATGACACATAAA
1 GTGCCTGAAATACGACACATAAA
46373651 GTGCCT
1 GTGCCT
46373657 AATCAGCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (23 bp):
GTGCCTGAAATACGACACATAAA
Found at i:46374968 original size:25 final size:24
Alignment explanation
Indices: 46374923--46374970 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
46374913 TATCTTTTAC
* **
46374923 TTAATTAATAAGTATGTATATATA
1 TTAATTAAAAAGTATACATATATA
46374947 TTAATTAAAAATGTATACATATAT
1 TTAATTAAAAA-GTATACATATAT
46374971 TTATTACACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (24 bp):
TTAATTAAAAAGTATACATATATA
Found at i:46374976 original size:23 final size:23
Alignment explanation
Indices: 46374942--46374985 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
46374932 AAGTATGTAT
46374942 ATATATTAATTAAAAATGTATAC
1 ATATATTAATTAAAAATGTATAC
* * *
46374965 ATATATTTATTACACATGTAT
1 ATATATTAATTAAAAATGTAT
46374986 TTATAATTAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
ATATATTAATTAAAAATGTATAC
Found at i:46376748 original size:56 final size:52
Alignment explanation
Indices: 46376675--46376873 Score: 160
Period size: 50 Copynumber: 3.9 Consensus size: 52
46376665 ACATTAAGGG
* * * **
46376675 GATGAGA--TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATTATTGA
1 GATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCA-TACCGA
* * *
46376726 GGTTATGAGAGGTCCCACGTAAGCCCATGTTTGGGACATAGCGTTGGC--ACCGA
1 -G--ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATACCGA
* *
46376779 GATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATAGGCAT--CG-
1 GATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATACCGA
** * * * *
46376828 GTATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGC
1 G-ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGC
46376874 GGTACAGGAA
Statistics
Matches: 119, Mismatches: 21, Indels: 16
0.76 0.13 0.10
Matches are distributed among these distances:
49 1 0.01
50 77 0.65
52 2 0.02
53 3 0.03
54 6 0.05
56 30 0.25
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (52 bp):
GATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATACCGA
Found at i:46377151 original size:20 final size:20
Alignment explanation
Indices: 46377126--46377164 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
46377116 TGAGTTATTT
46377126 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
46377146 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
46377165 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:46378240 original size:128 final size:129
Alignment explanation
Indices: 46378089--46378380 Score: 451
Period size: 128 Copynumber: 2.3 Consensus size: 129
46378079 GCGTCGCTAA
* * * *
46378089 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTCTCCCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATACCACA
* * * **
46378154 AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGTTAAAGACC-AGTC
66 AACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAAAC
* *
46378217 CTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGATGCTTATACCACA
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATACCACA
*
46378282 AACGCCGCTAAAGACTAAGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAAAC
66 AACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAAAC
*
46378346 CTTTAGCGGCGCTTTTTATCACAAACGCCGCTAAA
1 CTTTAGCGGCGCTTTTT-CCACAAACGCCGCTAAA
46378381 AACATAATCT
Statistics
Matches: 148, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
128 114 0.77
129 18 0.12
130 16 0.11
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.21
Consensus pattern (129 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCAAGACCTTTAGCGACGCTTATACCACA
AACGCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAAAC
Found at i:46378393 original size:43 final size:43
Alignment explanation
Indices: 46378089--46378380 Score: 415
Period size: 43 Copynumber: 6.8 Consensus size: 43
46378079 GCGTCGCTAA
* *
46378089 CTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
46378132 CTTTAGCGACGCTTCTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* * *
46378175 CTTTAGCGGCGCTTTTCCCACAAACGCCGTTAAAGACC-AGTC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* *
46378217 CTTTAGCGACGCTTTTTCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
** * *
46378260 CTTTAGCGATGCTTATACCACAAACGCCGCTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
* *
46378303 CTTTAGCGGCACTTTTACCACAAACGCCGCTAAAGACCAAAAC
1 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
*
46378346 CTTTAGCGGCGCTTTTTATCACAAACGCCGCTAAA
1 CTTTAGCGGCGC-TTTTACCACAAACGCCGCTAAA
46378381 AACATAATCT
Statistics
Matches: 226, Mismatches: 21, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
42 38 0.17
43 167 0.74
44 21 0.09
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.21
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCAAGAC
Found at i:46378446 original size:5 final size:5
Alignment explanation
Indices: 46378436--46378465 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
46378426 TTTATGATAA
46378436 ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
46378466 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:46378834 original size:37 final size:37
Alignment explanation
Indices: 46378784--46378859 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
46378774 TTTATCAAAC
46378784 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
46378821 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
1 TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
46378858 TA
1 TA
46378860 CAATAGAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.25
Consensus pattern (37 bp):
TAGTTAAGAAATACATGGTGCAGCCATGCAATATAAA
Found at i:46379190 original size:23 final size:23
Alignment explanation
Indices: 46379140--46379191 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
46379130 GTTAGGTGTC
* *
46379140 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGAGATG
* * *
46379163 GGTATGAAGGCATGTCTGAGATG
1 AGTATGAAGACATGTCAGAGATG
46379186 AGTATG
1 AGTATG
46379192 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGAGATG
Found at i:46379660 original size:12 final size:12
Alignment explanation
Indices: 46379643--46379672 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
46379633 CAAGACAGAT
46379643 CAAATTTTAAAG
1 CAAATTTTAAAG
46379655 CAAATTTTAAAG
1 CAAATTTTAAAG
46379667 CAAATT
1 CAAATT
46379673 GCTGATGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (12 bp):
CAAATTTTAAAG
Found at i:46382907 original size:21 final size:20
Alignment explanation
Indices: 46382865--46382909 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
46382855 TATTGGATGT
*
46382865 GGGAAATTAGGGATTTTAGG
1 GGGAAATTAGGGATTTCAGG
*
46382885 GGGAAAGTTAGGGATTTCGGG
1 GGGAAA-TTAGGGATTTCAGG
46382906 GGGA
1 GGGA
46382910 GGGGGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.27, C:0.02, G:0.47, T:0.24
Consensus pattern (20 bp):
GGGAAATTAGGGATTTCAGG
Found at i:46383179 original size:143 final size:143
Alignment explanation
Indices: 46382916--46383279 Score: 536
Period size: 143 Copynumber: 2.5 Consensus size: 143
46382906 GGGAGGGGGT
* * *
46382916 AGGGAATTTTAAAAAATTGCACTA-TTTTTTAAAAGTAAATTTTATTTTGTGGCATTTTTTTTTA
1 AGGGAATTTTAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGC--GTTTTTTTA
** * *
46382980 TAAAAACGCCGCTATTTTTTATCTATTGCGGCGTTTGTGTAAAAAACGCCGTAAAAAATTATTCT
64 TAAAAACGCCGCTATTGCTTATCTATTGCGACGTTTGTGTAAAAAACGCCGCAAAAAATTATTCT
46383045 ATTTGGAATAAAACG
129 ATTTGGAATAAAACG
* *
46383060 AGGGAATTTTAAAAAATGGTGCTATTTTTTTAAAAATAAATTTTATTTTGTGGCGTTTTTTTATA
1 AGGGAATTTTAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTTATA
* * * *
46383125 AAAACGCCGCTATTGCTTATCTATTGCGACGTTT-TTTACACAAATGCCGCAAAAAATTATTTTA
66 AAAACGCCGCTATTGCTTATCTATTGCGACGTTTGTGTA-AAAAACGCCGCAAAAAATTATTCTA
46383189 TTTGGAATAAAACG
130 TTTGGAATAAAACG
* *
46383203 AGGGAATTTAAAAAAATGACGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCG-TTTTTTATA
1 AGGGAATTTTAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTTATA
*
46383267 AAAACACCGCTAT
66 AAAACGCCGCTAT
46383280 AAACGCCGCA
Statistics
Matches: 200, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
142 24 0.12
143 127 0.63
144 21 0.10
145 28 0.14
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (143 bp):
AGGGAATTTTAAAAAATGGCGCTATTTTTTTAAAAGTAAATTTTATTTTGTGGCGTTTTTTTATA
AAAACGCCGCTATTGCTTATCTATTGCGACGTTTGTGTAAAAAACGCCGCAAAAAATTATTCTAT
TTGGAATAAAACG
Found at i:46383383 original size:114 final size:115
Alignment explanation
Indices: 46383170--46383394 Score: 266
Period size: 114 Copynumber: 2.0 Consensus size: 115
46383160 TTACACAAAT
* *
46383170 GCCGCAAAAAATTATTTTATTTGGAATAAAACGAGGGAATTTAAAAAAATGACGCTATTTTTTTA
1 GCCGCAAAAAATTATTTTATTTGGAATAAAACGACGGAATTTAAAAAAATGACGCTATATTTTTA
*
46383235 AAAGTAAATTTTATTTTGTGGCGTTTTTTAT-AAAAACACCGCTATAAAC
66 AAAGTAAATTATATTTTGTGGCGTTTTTTATAAAAAACACCGCTATAAAC
* ** * *
46383284 GCCGCAAAAAATTATTTTATTTGGAATAAAACGACACTGTTTTGCTATATAAAATGGCG-T-TAT
1 GCCGCAAAAAATTATTTTATTTGGAATAAAACG--ACGGAATT--TA-AAAAAATGACGCTATAT
*
46383347 TTTTAAAA-TAAAATTAT-TTTTGTGGCG-TTTTT-TAAAAAACGCCGCTAT
61 TTTTAAAAGT-AAATTATATTTTGTGGCGTTTTTTATAAAAAACACCGCTAT
46383395 TGCTTACCTT
Statistics
Matches: 95, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
114 34 0.36
115 18 0.19
116 15 0.16
117 16 0.17
118 3 0.03
119 9 0.09
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (115 bp):
GCCGCAAAAAATTATTTTATTTGGAATAAAACGACGGAATTTAAAAAAATGACGCTATATTTTTA
AAAGTAAATTATATTTTGTGGCGTTTTTTATAAAAAACACCGCTATAAAC
Found at i:46384333 original size:21 final size:20
Alignment explanation
Indices: 46384309--46384358 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
46384299 CCTAAATCAC
46384309 TAACTCTTAACCACAAACCCT
1 TAAC-CTTAACCACAAACCCT
* *
46384330 TAACCCCTAACCACTAACCCT
1 TAA-CCTTAACCACAAACCCT
46384351 TAACCTTA
1 TAACCTTA
46384359 TTTAATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 20 0.80
22 1 0.04
ACGTcount: A:0.36, C:0.40, G:0.00, T:0.24
Consensus pattern (20 bp):
TAACCTTAACCACAAACCCT
Found at i:46384483 original size:40 final size:40
Alignment explanation
Indices: 46384397--46384483 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 40
46384387 TAATATAAAT
* * *
46384397 CCTAAACCCTAAACCTTAACTCGACCCTAAATCTCTAATC
1 CCTAAACCATAAACCCTAACTCGACCCTAAATCTCTAACC
*
46384437 CTTAAACCATAAACCCTAACTCGA-CCTCAAAT-TCATAACC
1 CCTAAACCATAAACCCTAACTCGACCCT-AAATCTC-TAACC
46384477 CCTAAAC
1 CCTAAAC
46384484 ATTATTTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 5 0.12
40 35 0.88
ACGTcount: A:0.38, C:0.37, G:0.02, T:0.23
Consensus pattern (40 bp):
CCTAAACCATAAACCCTAACTCGACCCTAAATCTCTAACC
Found at i:46385519 original size:41 final size:41
Alignment explanation
Indices: 46385462--46385580 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
46385452 TTTTATTATT
*
46385462 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGAGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
* * **
46385503 ATTAGATGCGCTTTTTCAAAAATGCCGCTAAAGGCCATAGC
1 ATTAGAGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
*
46385544 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
1 ATTAGAGGCGCTTTTTCAAAAACGCCGCTAAAGGCCC
46385581 CAAAAACTCA
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
ATTAGAGGCGCTTTTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:46390357 original size:25 final size:25
Alignment explanation
Indices: 46390329--46390390 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
46390319 CAAACATGTA
*
46390329 AACGAGAAGCTCTTTCAAGCCATAT
1 AACGGGAAGCTCTTTCAAGCCATAT
* *
46390354 AACGGGAAGCTCTTTCGAGCCATGT
1 AACGGGAAGCTCTTTCAAGCCATAT
*
46390379 AATGGGAAGCTC
1 AACGGGAAGCTC
46390391 ATCCGAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (25 bp):
AACGGGAAGCTCTTTCAAGCCATAT
Found at i:46390397 original size:25 final size:25
Alignment explanation
Indices: 46390346--46390402 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
46390336 AGCTCTTTCA
* *
46390346 AGCCATATAACGGGAAGCTCTTTCG
1 AGCCATATAACGGGAAGCTCATCCG
* *
46390371 AGCCATGTAATGGGAAGCTCATCCG
1 AGCCATATAACGGGAAGCTCATCCG
46390396 AGCCATA
1 AGCCATA
46390403 ATCAAGAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATCCG
Found at i:46390985 original size:21 final size:21
Alignment explanation
Indices: 46390961--46391001 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
46390951 GAATTTAACA
* *
46390961 TCAATTTAATACAATTCATAC
1 TCAATTGAATACAATACATAC
*
46390982 TCAATTGAATCCAATACATA
1 TCAATTGAATACAATACATA
46391002 TCTTTGGCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (21 bp):
TCAATTGAATACAATACATAC
Found at i:46395747 original size:18 final size:19
Alignment explanation
Indices: 46395713--46395748 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46395703 TTTAAAAGAG
*
46395713 TTTAGATAAAAATATTAAA
1 TTTAAATAAAAATATTAAA
46395732 TTTAAATAAAAA-ATTAA
1 TTTAAATAAAAATATTAA
46395749 TCTCGCTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TTTAAATAAAAATATTAAA
Found at i:46397703 original size:3 final size:3
Alignment explanation
Indices: 46397697--46397793 Score: 178
Period size: 3 Copynumber: 32.7 Consensus size: 3
46397687 GCATCTCCAT
46397697 TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
46397744 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTA TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
46397792 TT
1 TT
46397794 ATTGTTAACT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 89 0.98
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:46398123 original size:27 final size:27
Alignment explanation
Indices: 46398084--46398137 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
46398074 CTTCCCATGC
46398084 CAAAACCCAAACTAGATTCTAGTAATT
1 CAAAACCCAAACTAGATTCTAGTAATT
* * *
46398111 CAAAACCCTAACTAGATTTTGGTAATT
1 CAAAACCCAAACTAGATTCTAGTAATT
46398138 TGAAATCCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
CAAAACCCAAACTAGATTCTAGTAATT
Found at i:46398293 original size:21 final size:21
Alignment explanation
Indices: 46398269--46398309 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46398259 TCCATCGTGG
46398269 CTAGTTAACTG-GCCACATCAA
1 CTAGTTAAC-GAGCCACATCAA
46398290 CTAGTTAACGAGCCACATCA
1 CTAGTTAACGAGCCACATCA
46398310 CCTATCCCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (21 bp):
CTAGTTAACGAGCCACATCAA
Found at i:46401143 original size:38 final size:38
Alignment explanation
Indices: 46401101--46401176 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
46401091 CATAGAAAGT
46401101 TGGTAAAACATAATAATTATCATTTCATATCCTGGAAA
1 TGGTAAAACATAATAATTATCATTTCATATCCTGGAAA
46401139 TGGTAAAACATAATAATTATCATTTCATATCCTGGAAA
1 TGGTAAAACATAATAATTATCATTTCATATCCTGGAAA
46401177 CTTGTAAGGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (38 bp):
TGGTAAAACATAATAATTATCATTTCATATCCTGGAAA
Found at i:46402345 original size:31 final size:32
Alignment explanation
Indices: 46402310--46402381 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
46402300 TAACTTGTTC
46402310 ATATTATTTTTAAATT-AT-TTTAAAAACATTT
1 ATATTATTTTTAAATTAATATTTAAAAA-ATTT
* *
46402341 ATATTATTTTTAATTTAATATTTAATAAATTT
1 ATATTATTTTTAAATTAATATTTAAAAAATTT
46402373 ATA-TATTTT
1 ATATTATTTT
46402382 GCATTTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 21 0.57
32 9 0.24
33 7 0.19
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.58
Consensus pattern (32 bp):
ATATTATTTTTAAATTAATATTTAAAAAATTT
Found at i:46403874 original size:4 final size:4
Alignment explanation
Indices: 46403867--46403891 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
46403857 ATAGAATCAT
46403867 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
46403892 AATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:46403900 original size:2 final size:2
Alignment explanation
Indices: 46403893--46403926 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
46403883 ATAAATAAAA
46403893 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
46403927 ACTAGTTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:46404272 original size:21 final size:21
Alignment explanation
Indices: 46404230--46404289 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
46404220 TTTTATGATA
* **
46404230 ATTA-AATAATATTTATTTTT
1 ATTATAATATTATTTATCCTT
46404250 ATTATAATATTATTTATCCTT
1 ATTATAATATTATTTATCCTT
*
46404271 ATGATAAATATTATATTAT
1 ATTAT-AATATTAT-TTAT
46404290 GTTTTACTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 4 0.12
21 17 0.52
22 8 0.24
23 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTATAATATTATTTATCCTT
Found at i:46405291 original size:23 final size:23
Alignment explanation
Indices: 46405262--46405315 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
46405252 AAAAAATAAT
* *
46405262 TTCAAGTTAA-TCGAATCAAGTTA
1 TTCAAGTTAACTCAAAT-AAGTAA
*
46405285 TTCAAGTCAACTCAAATAAGTAA
1 TTCAAGTTAACTCAAATAAGTAA
46405308 TTCAAGTT
1 TTCAAGTT
46405316 TCGAATTTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (23 bp):
TTCAAGTTAACTCAAATAAGTAA
Found at i:46405485 original size:19 final size:20
Alignment explanation
Indices: 46405449--46405501 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
46405439 AAAATTAAAA
46405449 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
46405468 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
46405488 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
46405502 TTATATATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Found at i:46405508 original size:20 final size:19
Alignment explanation
Indices: 46405449--46405506 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
46405439 AAAATTAAAA
46405449 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
46405468 CAAAAATTCAAAATATTTAT
1 -AAAAATTCAAAATATTTAT
*
46405488 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
46405506 A
1 A
46405507 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 7 0.19
19 15 0.42
20 14 0.39
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:46405574 original size:9 final size:9
Alignment explanation
Indices: 46405510--46405585 Score: 64
Period size: 9 Copynumber: 8.1 Consensus size: 9
46405500 ATTTATATAT
*
46405510 TTTTTAAAA
1 TTTTAAAAA
*
46405519 TTATAAAAA
1 TTTTAAAAA
46405528 TTTTAAAAA
1 TTTTAAAAA
46405537 TTTCTAAAGAA
1 TTT-TAAA-AA
*
46405548 TATATAAAAA
1 T-TTTAAAAA
**
46405558 AGTT-AAAA
1 TTTTAAAAA
46405566 TTTTAAAAA
1 TTTTAAAAA
46405575 TTTTATAAAA
1 TTTTA-AAAA
46405585 T
1 T
46405586 AATAATTTTG
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
8 6 0.11
9 28 0.53
10 11 0.21
11 7 0.13
12 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:46418577 original size:27 final size:27
Alignment explanation
Indices: 46418547--46418724 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46418537 ATATTGAGTC
* * * *
46418547 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46418574 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46418601 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46418629 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46418656 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46418683 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46418710 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46418725 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46418686 original size:82 final size:81
Alignment explanation
Indices: 46418568--46418723 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46418558 TGCTATATAA
* *
46418568 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46418633 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46418650 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46418714 CACTTAGTGC
65 CACTTAGTGC
46418724 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46424889 original size:23 final size:24
Alignment explanation
Indices: 46424849--46424894 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
46424839 AAAAATTTTC
46424849 TTTTTAGTTATTTTATTTTCCTTG
1 TTTTTAGTTATTTTATTTTCCTTG
46424873 TTTTTA-TT-TTTTAATTTTCCTT
1 TTTTTAGTTATTTT-ATTTTCCTT
46424895 TTAATTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 11 0.52
24 6 0.29
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTTAGTTATTTTATTTTCCTTG
Found at i:46427749 original size:5 final size:5
Alignment explanation
Indices: 46427739--46427766 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
46427729 ATTTTTCAGT
46427739 TTTAG TTTAG TTTAG TTTAG TTTAG TTT
1 TTTAG TTTAG TTTAG TTTAG TTTAG TTT
46427767 TTATTTTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTAG
Found at i:46429860 original size:43 final size:43
Alignment explanation
Indices: 46429794--46429954 Score: 184
Period size: 43 Copynumber: 3.8 Consensus size: 43
46429784 TATTAACTCT
* * *
46429794 AAAGGTGGTTGCTAAGTGTTGATTCCACCGTTTCTTTGATTGTG
1 AAAGGTGGTTGCTATGTGCTGATTCC-CCGTATCTTTGATTGTG
** ***
46429838 AAAGG-GGTTGCTATGTGCTGATTCCCCGTATCACTGAACAT-
1 AAAGGTGGTTGCTATGTGCTGATTCCCCGTATCTTTGATTGTG
* * *
46429879 AAAGGTTGTTGCTAGGTGCTGATTCCACCGTATCTTTAATTGTG
1 AAAGGTGGTTGCTATGTGCTGATTCC-CCGTATCTTTGATTGTG
46429923 AAAGG-GGTTGCTATGTGCTGATTCCCCGTATC
1 AAAGGTGGTTGCTATGTGCTGATTCCCCGTATC
46429955 ACTGAATTTA
Statistics
Matches: 96, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 5 0.05
42 35 0.36
43 46 0.48
44 10 0.10
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (43 bp):
AAAGGTGGTTGCTATGTGCTGATTCCCCGTATCTTTGATTGTG
Found at i:46429902 original size:85 final size:84
Alignment explanation
Indices: 46429793--46429991 Score: 317
Period size: 85 Copynumber: 2.4 Consensus size: 84
46429783 TTATTAACTC
* *
46429793 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTTTCTTTGATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTAATTGTGAAAGGGGTTGCTATGTGCTG
46429858 ATTCCCCGTATCACTGAACA
66 ATTCCCCGTATCACTGAA-A
* * *
46429878 TAAAGGTTGTTGCTAGGTGCTGATTCCACCGTATCTTTAATTGTGAAAGGGGTTGCTATGTGCTG
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTAATTGTGAAAGGGGTTGCTATGTGCTG
*
46429943 ATTCCCCGTATCACTGAAT
66 ATTCCCCGTATCACTGAAA
* *
46429962 TTAAGGTGGTTGCTAAGTGTTGAATCCACC
1 TAAAGGTGGTTGCTAAGTGTTGATTCCACC
46429992 AAGTAACGGA
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
84 25 0.24
85 78 0.76
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (84 bp):
TAAAGGTGGTTGCTAAGTGTTGATTCCACCGTATCTTTAATTGTGAAAGGGGTTGCTATGTGCTG
ATTCCCCGTATCACTGAAA
Found at i:46432849 original size:50 final size:50
Alignment explanation
Indices: 46432769--46432863 Score: 140
Period size: 50 Copynumber: 1.9 Consensus size: 50
46432759 GATCTATTCC
*
46432769 ACTGCAAGGTCGGGGAGATAGGATTTGCTGTTGTAGCTTCAATCTGTTTA
1 ACTGCAAGGTCGGGGAGATAGGATTCGCTGTTGTAGCTTCAATCTGTTTA
*
46432819 ACTGCAATGTCGTGGGAG-T-GAGATTCGCTGTTGTAGCTTCAATCT
1 ACTGCAAGGTCG-GGGAGATAG-GATTCGCTGTTGTAGCTTCAATCT
46432864 ATTCCAATAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
49 1 0.02
50 35 0.85
51 5 0.12
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (50 bp):
ACTGCAAGGTCGGGGAGATAGGATTCGCTGTTGTAGCTTCAATCTGTTTA
Found at i:46433091 original size:88 final size:88
Alignment explanation
Indices: 46432905--46434206 Score: 1488
Period size: 88 Copynumber: 14.8 Consensus size: 88
46432895 GTTATTTCAT
* * * * ** * * *
46432905 TCTGCTGCGCTGCCAGTACAGGAAGGCAAGATTTGCTGTTTTTAGTCTGCTTCGCTGAAAACCTA
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTG-CAACCCA
*
46432970 GAGAGGCAAGGCTGGTGTCTTCGA
65 GGGAGGCAAGGCTGGTGTCTTCGA
* * * * *
46432994 CCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTGTTATTTTCAACCTGCTCTGCTGCAACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
*
46433059 GGAGGCAAGGCTGGTGTCTTTGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* ** * * *
46433082 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCCACTGCGACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
46433147 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* *
46433170 TCTGCTTCGATGCCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
46433235 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * * *
46433258 TTTGCTTCGTTGCTAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGTTTCGCTGCAACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
*
46433323 GGAGGCAAGGCTGGTGTCTTTGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* ** * * *
46433346 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCCACTGCGACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
*
46433411 GGAGGCAAGGCTGGTGTCTTTGA
66 GGAGGCAAGGCTGGTGTCTTCGA
*
46433434 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCC--
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
46433497 --AGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * *
46433518 TCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATTTTCAACCTGTTCCG-TCGCAACCCA
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCT-GCAACCCA
*
46433582 GGGAGGCAAGGCCGGTGTCTTCGA
65 GGGAGGCAAGGCTGGTGTCTTCGA
* * ** * ** * *
46433606 TCTACTTCACTGCTGGTACAGGAAGGCAAAATCTGCTATCTTT-AGGCTGCTCCACTGTAACCCA
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCA
* *
46433670 GGGAGGCAAGGCTTGTGTCTTCAA
65 GGGAGGCAAGGCTGGTGTCTTCGA
* * * * * * ** * *
46433694 TCTGCTTCGCTGTCTGTACTGGAAGACAAGATCTTCTATCTTCAGTCTACTCCACTGCAACCCAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
* *
46433759 AGAGACAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * * * * *
46433782 TCTGCTTCGCTGTCGGTACAGGAAGACAAGATCTGCTATTCTCAACCTGTTCTGCTGCAACCTAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
46433847 GGAGGCAAGGCTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
** * * * * *** * * **
46433870 AATGCTTCGCTGCCTA-CACAAGAAGGCAAGATCTGTTATCTTCAGTTTGCTCCACTAC-AGTCA
1 TCTGCTTCGCTGCC-AGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCA
46433933 GGGAGGCAAGGCTGGTGTCTTCGA
65 GGGAGGCAAGGCTGGTGTCTTCGA
** * * * * ** * *
46433957 TCTGCTTCATTGTCGGTATAGGATGGCAAGATCTGCTATCTTT-AGTCTGCTCCACTACAACCCA
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAACCTGCTCCGCTGCAACCCA
*
46434021 GGGAGGCAAGGCTTGTGTCTTCGA
65 GGGAGGCAAGGCTGGTGTCTTCGA
* ** * * *
46434045 TCTGCTTCACTGCTGGTACAAGAAGACAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCTAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
*
46434110 GGAGGCAAGACTGGTGTCTTCGA
66 GGAGGCAAGGCTGGTGTCTTCGA
* * * ** * ** *
46434133 TCTGCTTCGCTGTCAGTACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTCCACTATAACCTAG
1 TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
46434198 GGAGGCAAG
66 GGAGGCAAG
46434207 ACAAGTGATT
Statistics
Matches: 1026, Mismatches: 174, Indels: 27
0.84 0.14 0.02
Matches are distributed among these distances:
83 1 0.00
84 77 0.08
87 72 0.07
88 827 0.81
89 49 0.05
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
TCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
GGAGGCAAGGCTGGTGTCTTCGA
Found at i:46433349 original size:264 final size:263
Alignment explanation
Indices: 46432905--46434206 Score: 1690
Period size: 264 Copynumber: 4.9 Consensus size: 263
46432895 GTTATTTCAT
* * * * * * * *
46432905 TCTGCTGCGCTGCCAGTACAGGAAGGCAAGATTTGCTGTTTTTAGTCTGCTTCGCTGAAAACCTA
1 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTG-CAACCCA
* * * *
46432970 GAGAGGCAAGGCTGGTGTCTTCGACCTGCTTCGCTG-TCAGTACAAGAAGGCAAGATCTGTTATT
65 GAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCT-AGTACAGGAAGACAAGATCTGCTATT
* *
46433034 TTCAACCTGCTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCAGT
129 TTCAACCTGTTC-GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGT
* *
46433099 ACAGGAAGGCAAGATCTGCTATCTTCAGTCTACTCCACTGCGACCCAGGGAGGCAAGGCTGGTGT
193 ACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGT
46433164 CTTCGA
258 CTTCGA
* **
46433170 TCTGCTTCGATGCCAGTACAAGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCCAG
1 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAACCCAG
* * * *
46433235 GGAGGCAAGGCTGGTGTCTTCGATTTGCTTCGTTGCTAGTACAGGAAGGCAAGATCTGCTATTTT
66 AGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATTTT
*
46433300 CAACCTGTTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCCAGTAC
131 CAACCTG-TTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTAC
* *
46433365 AGGAAGGCAAGATCTGCTATCTTCAGTCTACTCCACTGCGACCCAGGGAGGCAAGGCTGGTGTCT
195 AGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCT
*
46433430 TTGA
260 TCGA
**
46433434 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCTGCAACCC--
1 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAACCCAG
46433497 --AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATTTT
66 AGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATTTT
* * * **
46433560 CAACCTGTTC-CGTCGCAACCCAGGGAGGCAAGGCCGGTGTCTTCGATCTACTTCACTGCTGGTA
131 CAACCTGTTCGC-T-GCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTA
* * * * *
46433624 CAGGAAGGCAAAATCTGCTATCTTTAGGCTGCTCCACTGTAACCCAGGGAGGCAAGGCTTGTGTC
194 CAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTC
*
46433689 TTCAA
259 TTCGA
* * * * * * * * *
46433694 TCTGCTTCGCTGTCTGTACTGGAAGACAAGATCTTCTATCTTCAGTCTACTCCACTGCAACCCAG
1 TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAACCCAG
* * *
46433759 AGAGACAAGGCTGGTGTCTTCGATCTGCTTCGCTG-TCGGTACAGGAAGACAAGATCTGCTATTC
66 AGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCT-AGTACAGGAAGACAAGATCTGCTATTT
* ** *
46433823 TCAACCTGTTCTGCTGCAACCTAGGGAGGCAAGGCTGGTGTCTTCGAAATGCTTCGCTGCCTA-C
130 TCAACCTGTTC-GCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCC-AGT
* * * * **
46433887 ACAAGAAGGCAAGATCTGTTATCTTCAGTTTGCTCCACTAC-AGTCAGGGAGGCAAGGCTGGTGT
193 ACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGT
46433951 CTTCGA
258 CTTCGA
* * * * * *
46433957 TCTGCTTC-ATTGTCGGTATAGGATGGCAAGATCTGCTATCTTT-AGTCTGCTCCACTACAACCC
1 TCTGCTTCGA-TGCCAGTACAGGAAGGCAAGATCTGCTAT-TTTCAGTCTGCTCCGCTGCAACCC
* * * * *
46434020 AGGGAGGCAAGGCTTGTGTCTTCGATCTGCTTCACTGCTGGTACAAGAAGACAAGATCTGCTATT
64 AGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATT
* * * *
46434085 TTCAACCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGGTGTCTTCGATCTGCTTCGCTGTCAGT
129 TTCAACCTG-TTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGT
* ** *
46434150 ACAGGAAGGTAAGATCTGCTATCTTCAGTCTGCTCCACTATAACCTAGGGAGGCAAG
193 ACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAG
46434207 ACAAGTGATT
Statistics
Matches: 916, Mismatches: 103, Indels: 37
0.87 0.10 0.04
Matches are distributed among these distances:
258 1 0.00
259 4 0.00
260 224 0.24
262 1 0.00
263 222 0.24
264 411 0.45
265 52 0.06
266 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (263 bp):
TCTGCTTCGATGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAGTCTGCTCCGCTGCAACCCAG
AGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCTAGTACAGGAAGACAAGATCTGCTATTTT
CAACCTGTTCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGCCAGTACA
GGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTT
CGA
Found at i:46435926 original size:10 final size:10
Alignment explanation
Indices: 46435911--46435935 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
46435901 TTTTCCTTCT
46435911 GATCAGATTG
1 GATCAGATTG
46435921 GATCAGATTG
1 GATCAGATTG
46435931 GATCA
1 GATCA
46435936 ACCAATACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.28
Consensus pattern (10 bp):
GATCAGATTG
Found at i:46436480 original size:13 final size:13
Alignment explanation
Indices: 46436462--46436487 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46436452 TTGGCCTCTC
46436462 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
46436475 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
46436488 TATCACTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:46441424 original size:3 final size:3
Alignment explanation
Indices: 46441416--46441545 Score: 63
Period size: 3 Copynumber: 43.3 Consensus size: 3
46441406 ATGTAATTAG
* * *
46441416 ATA ATA ATA CATG ATA AAA AGA ATTA A-A ATA ATA ATA CATA ATA A-A
1 ATA ATA ATA -ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA
* * * * * * *
46441462 ATA A-A ATA AT- GTA AAA AAA ATA A-A CTA ATA CGATA ATG ATA CTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA
* * *
46441506 ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA TTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
46441546 ATTAAAAAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
2 8 0.08
3 77 0.81
4 7 0.07
5 3 0.03
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:46442186 original size:16 final size:16
Alignment explanation
Indices: 46442167--46442207 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
46442157 ACTGAAAGAA
46442167 AAAAAGAAAA-AACAAG
1 AAAAAGAAAACAA-AAG
46442183 AAAAAGAAAACAAAAG
1 AAAAAGAAAACAAAAG
*
46442199 CAAAAGAAA
1 AAAAAGAAA
46442208 GATTCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 21 0.91
17 2 0.09
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAACAAAAG
Found at i:46445921 original size:42 final size:40
Alignment explanation
Indices: 46445870--46446016 Score: 177
Period size: 43 Copynumber: 3.5 Consensus size: 40
46445860 TTTGATTGTG
* * *
46445870 AAAGGGGTTGCTATGTGTTGATTCCCTGTATCACTGAATAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAAT-T
** *
46445911 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGT
1 AAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCACTGAAT-T
46445954 GAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATT
1 -AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATT
*
46445995 TAAGGTGGTTGCTAAGTGCTGA
1 AAAGG-GGTTGCTAAGTGCTGA
46446017 ATCCACCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 4 0.04
41 22 0.24
42 29 0.32
43 31 0.34
44 5 0.05
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATT
Found at i:46448855 original size:40 final size:40
Alignment explanation
Indices: 46448662--46448887 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
46448652 TTGAATGATG
* * * *
46448662 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
46448702 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46448742 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46448782 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
46448822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46448863 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46448888 AACGGGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46448905 original size:120 final size:120
Alignment explanation
Indices: 46448662--46448920 Score: 287
Period size: 120 Copynumber: 2.2 Consensus size: 120
46448652 TTGAATGATG
* * *
46448662 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** *
46448727 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGGTACTAAA
* * **
46448782 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
46448845 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACG-GGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGGTA-CTAAA
* *
46448902 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
46448921 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
119 19 0.16
120 89 0.75
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGGTACTAAA
Found at i:46457629 original size:48 final size:48
Alignment explanation
Indices: 46457577--46457671 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
46457567 TAAGGGAATT
* *
46457577 CTGTTGAATCCTTTATTATTGCGAGTTAAGCTGACTTAGGCATTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCATTTTTA
* * *
46457625 CTGTTGAATTCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCATTTTT
46457672 GAGCAAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.21, C:0.15, G:0.20, T:0.44
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCATTTTTA
Found at i:46462441 original size:36 final size:35
Alignment explanation
Indices: 46462394--46462465 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 35
46462384 CATCTCCGGA
46462394 GCTTGGCAAATA-AGGAAAGTGATCTTTTGAAGATAT
1 GCTTGGCAAATATA-GAAAGTGATCTTTTG-AGATAT
*
46462430 GCTTGGCAAATATAGAAGGTGATCTTTTGAGATAT
1 GCTTGGCAAATATAGAAAGTGATCTTTTGAGATAT
46462465 G
1 G
46462466 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
35 7 0.21
36 26 0.76
37 1 0.03
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.32
Consensus pattern (35 bp):
GCTTGGCAAATATAGAAAGTGATCTTTTGAGATAT
Found at i:46462838 original size:48 final size:48
Alignment explanation
Indices: 46462763--46462857 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
46462753 TAAGGGAATT
** *
46462763 CTGTTGAATCCTTTATTGTTGCGAGTTAAGCTGACTTAGGCGTTTTTA
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
*
46462811 CTGTTGAATCCTTTATTACTGCAAGTTAGGCTGACTTAGGCGTTTTT
1 CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTT
46462858 GAGCAAAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (48 bp):
CTGTTGAATCCTTTATTACTGCAAGTTAAGCTGACTTAGGCGTTTTTA
Found at i:46471093 original size:20 final size:20
Alignment explanation
Indices: 46471070--46471138 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 20
46471060 TTTTTTTGGA
46471070 ATTGATCTGAAATTTTATAT
1 ATTGATCTGAAATTTTATAT
**
46471090 ATTGAGTGGGTAAATGCTTT-TCA-
1 ATTGA-TCTG-AAAT--TTTAT-AT
46471113 ATTGATCTGAAATTTTATAT
1 ATTGATCTGAAATTTTATAT
46471133 ATTGAT
1 ATTGAT
46471139 TTTCGGAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.11
20 12 0.32
21 6 0.16
22 6 0.16
23 6 0.16
24 4 0.11
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (20 bp):
ATTGATCTGAAATTTTATAT
Found at i:46474935 original size:22 final size:23
Alignment explanation
Indices: 46474900--46474943 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
46474890 CATAGATTTA
46474900 TTATTCTAATTTAATTATCTTAC
1 TTATTCTAATTTAATTATCTTAC
* *
46474923 TTATT-TATTTTAATTGTCTTA
1 TTATTCTAATTTAATTATCTTA
46474944 TCTAACCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.27, C:0.09, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATTCTAATTTAATTATCTTAC
Found at i:46475543 original size:39 final size:39
Alignment explanation
Indices: 46475499--46475590 Score: 148
Period size: 39 Copynumber: 2.4 Consensus size: 39
46475489 GGGAACTTCA
46475499 CTGATACACAACTTACCCTTAGCTCTCGGGGGAGCTTTG
1 CTGATACACAACTTACCCTTAGCTCTCGGGGGAGCTTTG
* *
46475538 TTGATACACAACTTATCCTTAGCTCTCGGGGGAGCTTTG
1 CTGATACACAACTTACCCTTAGCTCTCGGGGGAGCTTTG
* *
46475577 CTAATACAAAACTT
1 CTGATACACAACTT
46475591 GTAGAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (39 bp):
CTGATACACAACTTACCCTTAGCTCTCGGGGGAGCTTTG
Found at i:46484114 original size:5 final size:5
Alignment explanation
Indices: 46484104--46484128 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
46484094 CCTAAGCCTG
46484104 AGCCC AGCCC AGCCC AGCCC AGCCC
1 AGCCC AGCCC AGCCC AGCCC AGCCC
46484129 GTTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
AGCCC
Found at i:46494400 original size:19 final size:19
Alignment explanation
Indices: 46494376--46494415 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
46494366 TGGTTGCAAG
46494376 AAAGATTTCTTCTTTGTAC
1 AAAGATTTCTTCTTTGTAC
46494395 AAAGATTTCTTCTTTGTAC
1 AAAGATTTCTTCTTTGTAC
46494414 AA
1 AA
46494416 GTTGGGGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (19 bp):
AAAGATTTCTTCTTTGTAC
Found at i:46498030 original size:10 final size:10
Alignment explanation
Indices: 46498011--46498048 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
46498001 TATAATAATA
46498011 CCAA-ATCAT
1 CCAACATCAT
46498020 CCAACATCAT
1 CCAACATCAT
46498030 CCAACATCAT
1 CCAACATCAT
46498040 -CAACATCAT
1 CCAACATCAT
46498049 TAAACCAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 13 0.46
10 15 0.54
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (10 bp):
CCAACATCAT
Found at i:46498043 original size:19 final size:19
Alignment explanation
Indices: 46498011--46498048 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
46498001 TATAATAATA
46498011 CCAAATCATCCAACATCAT
1 CCAAATCATCCAACATCAT
46498030 CCAACATCAT-CAACATCAT
1 CCAA-ATCATCCAACATCAT
46498049 TAAACCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (19 bp):
CCAAATCATCCAACATCAT
Found at i:46498837 original size:31 final size:32
Alignment explanation
Indices: 46498800--46499040 Score: 196
Period size: 31 Copynumber: 7.8 Consensus size: 32
46498790 CATCATCGGT
46498800 ACATAGTACCTGATA-AATTATAAACACTGGC
1 ACATAGTACCTGATACAATTATAAACACTGGC
* * *
46498831 ATATAGTGCCTGATACAA-TATAAACACTGGT
1 ACATAGTACCTGATACAATTATAAACACTGGC
* * * *
46498862 ACATAGTACGTGATA-AACTATAAACATTAGC
1 ACATAGTACCTGATACAATTATAAACACTGGC
* * * * * *
46498893 ACATAGTGCTTAATACAA-TATAAATATTGGT
1 ACATAGTACCTGATACAATTATAAACACTGGC
*
46498924 ACATAGTACCTGATA-AATTATAAACACTGAC
1 ACATAGTACCTGATACAATTATAAACACTGGC
* *
46498955 ACATAGT-GCTGATACAA-TATAAACA-TCGGT
1 ACATAGTACCTGATACAATTATAAACACT-GGC
* * *
46498985 ACATAGTATCTGATA-AATTATAAACTCCGGC
1 ACATAGTACCTGATACAATTATAAACACTGGC
* * * *
46499016 ATATAGTGCCTGCTATAATTA-AAAC
1 ACATAGTACCTGATACAATTATAAAC
46499041 CTAATGACAT
Statistics
Matches: 167, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
29 1 0.01
30 28 0.17
31 129 0.77
32 9 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (32 bp):
ACATAGTACCTGATACAATTATAAACACTGGC
Found at i:46498868 original size:62 final size:61
Alignment explanation
Indices: 46498797--46499027 Score: 311
Period size: 62 Copynumber: 3.8 Consensus size: 61
46498787 ATCCATCATC
*
46498797 GGTACATAGTACCTGATAAATTATAAACACTGGCATATAGTGCCTGATACAATATAAACACT
1 GGTACATAGTACCTGATAAATTATAAACACTGGCACATAGTGCCTGATACAATATAAACA-T
* * * * * * *
46498859 GGTACATAGTACGTGATAAACTATAAACATTAGCACATAGTGCTTAATACAATATAAATATT
1 GGTACATAGTACCTGATAAATTATAAACACTGGCACATAGTGCCTGATACAATATAAACA-T
*
46498921 GGTACATAGTACCTGATAAATTATAAACACTGACACATAGTG-CTGATACAATATAAACAT
1 GGTACATAGTACCTGATAAATTATAAACACTGGCACATAGTGCCTGATACAATATAAACAT
* * * *
46498981 CGGTACATAGTATCTGATAAATTATAAACTCCGGCATATAGTGCCTG
1 -GGTACATAGTACCTGATAAATTATAAACACTGGCACATAGTGCCTG
46499028 CTATAATTAA
Statistics
Matches: 145, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
60 1 0.01
61 51 0.35
62 93 0.64
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (61 bp):
GGTACATAGTACCTGATAAATTATAAACACTGGCACATAGTGCCTGATACAATATAAACAT
Found at i:46504134 original size:125 final size:125
Alignment explanation
Indices: 46503886--46504450 Score: 704
Period size: 125 Copynumber: 4.5 Consensus size: 125
46503876 GATAAAATCA
* * * * * * * * *
46503886 AAGCAGGATGATTTATCAGAAGGATTTTTGCAGTCACGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
*
46503951 AGGTCCTGGAA-AAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTC
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
* * * * *
46504011 AAGCAGGATACTATATGTGAAGAATTTGTGAAATCGTGCCCTCCTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
46504076 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * *
46504136 TA-CTAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAA
1 AAGC-AGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * * *
46504200 TAGGTCCT-GAAAAAATTATTTCGAGTTGATGTTTCTGAGCAAATAGCATAAAAAAAAGCTTT
65 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
* * * *
46504262 AAGCAGGATGCTATTTGAGAAGAATTTCTGAAATCGCGTCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
46504327 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTT
66 AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * * *
46504387 TACCAGGATGTTTTATGAGAAAAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
46504451 GAGCATGTTT
Statistics
Matches: 374, Mismatches: 60, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
124 35 0.09
125 198 0.53
126 107 0.29
127 34 0.09
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTATATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:46504368 original size:251 final size:250
Alignment explanation
Indices: 46503889--46504449 Score: 861
Period size: 251 Copynumber: 2.2 Consensus size: 250
46503879 AAAATCAAAG
* * * * * * * *
46503889 CAGGATGATTTATCAGAAGGATTTTTGCAGTCACGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 CAGGATGATTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAATAGG
* * *
46503954 TCCTGGAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
66 TCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGCATAAAAAAAGCTTCAAGCAGGA
* * *
46504019 TACTATATGTGAAGAATTTGTGAAATCGTGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTG
131 TACTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTG
46504084 GAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
196 GAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
* *
46504139 TAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAATAGG
1 CAGGATGATTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAATAGG
* ** *
46504204 TCCTGAAAAAATTATTTCGAGTTGATGTTTCTGAGCAAATAGCATAAAAAAAAGCTTTAAGCAGG
66 TCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGCAT-AAAAAAAGCTTCAAGCAGG
* * * *
46504269 ATGCTATTTGAGAAGAATTTCTGAAATCGCGTCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCT
130 ATACTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCT
* *
46504334 GGAAGAAATAATTTTGAGTTGACGTTTTTGAGCAAATAGTATAAAATCGCTTTTAC
195 GGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
* *
46504390 CAGGATGTTTTATGAGAAAAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
1 CAGGATGATTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACA
46504450 GGAGCATGTT
Statistics
Matches: 281, Mismatches: 29, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
250 95 0.34
251 186 0.66
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (250 bp):
CAGGATGATTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAATAGG
TCCTGAAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGCATAAAAAAAGCTTCAAGCAGGA
TACTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTG
GAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
Found at i:46504841 original size:29 final size:29
Alignment explanation
Indices: 46504799--46504858 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
46504789 TCGACATAAA
46504799 AGGTGCTCGTAGCTTGGAGGCAATGGTGC
1 AGGTGCTCGTAGCTTGGAGGCAATGGTGC
46504828 AGGTGCTCGTAGCTTGGAGGCAATGGTGC
1 AGGTGCTCGTAGCTTGGAGGCAATGGTGC
46504857 AG
1 AG
46504859 ACTCATCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.18, C:0.17, G:0.42, T:0.23
Consensus pattern (29 bp):
AGGTGCTCGTAGCTTGGAGGCAATGGTGC
Found at i:46507689 original size:21 final size:21
Alignment explanation
Indices: 46507658--46508051 Score: 261
Period size: 22 Copynumber: 17.9 Consensus size: 21
46507648 TCAAATTATA
*
46507658 TTTAACTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
46507679 TTAAAGTTAAGGTTTTAGGGTTTAGGGT
1 TTTAAGTTAAGG-GTTAGGG--T----T
* *
46507707 TTTAAAGTTTAGGGTTTAGTGTT
1 TTT-AAGTTAAGGG-TTAGGGTT
*
46507730 TTTAAGTTTAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* * * *
46507752 TTTAGGTTTAGGGTTTGTGTTT
1 TTTAAGTTAAGGGTTAG-GGTT
*
46507774 TTTAAGTTAAGGGTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * * *
46507795 TTTAGGTTTACGGTTTGAGGTT
1 TTTAAGTTAAGGGTTAG-GGTT
*
46507817 TTTAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* * *
46507838 TTTAGGTTTAGGGTTTGGGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
46507860 TTT-AGTTTAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
46507881 TTTAGGTTTAAGGTTTAGGGTT
1 TTTAAG-TTAAGGGTTAGGGTT
* * *
46507903 TTTAATTTTAAGGTTTATGGTT
1 TTTAA-GTTAAGGGTTAGGGTT
* *
46507925 TTTAGGTTTAGGGTTTGAGGG-T
1 TTTAAGTTAAGGG-TT-AGGGTT
46507947 TTTAAGTTAAGGGTTAGTGGGTT
1 TTTAAGTTAAGGGTTA--GGGTT
* * * *
46507970 TTTAGGTTTAGTGTTTGGGGTT
1 TTTAAGTTAAG-GGTTAGGGTT
* *
46507992 TTTAAATTAAGGGTTAGCGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
46508013 TTTAATTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
46508034 TTTAAGTTAAGTGTTAGG
1 TTTAAGTTAAGGGTTAGG
46508052 ATTAGGGTTA
Statistics
Matches: 292, Mismatches: 60, Indels: 42
0.74 0.15 0.11
Matches are distributed among these distances:
20 1 0.00
21 109 0.37
22 139 0.48
23 22 0.08
24 4 0.01
27 1 0.00
28 3 0.01
29 13 0.04
ACGTcount: A:0.19, C:0.01, G:0.31, T:0.49
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:46507704 original size:7 final size:7
Alignment explanation
Indices: 46507692--46507767 Score: 57
Period size: 7 Copynumber: 10.4 Consensus size: 7
46507682 AAGTTAAGGT
46507692 TTTAGGG
1 TTTAGGG
46507699 TTTAGGG
1 TTTAGGG
**
46507706 TTTTAAAG
1 -TTTAGGG
46507714 TTTAGGG
1 TTTAGGG
*
46507721 TTTAGTGTT
1 TTTAG-G-G
*
46507730 TTTA-AG
1 TTTAGGG
46507736 TTTAGGG
1 TTTAGGG
46507743 TTTAGGG
1 TTTAGGG
46507750 TTTTTA-GG
1 --TTTAGGG
46507758 TTTAGGG
1 TTTAGGG
46507765 TTT
1 TTT
46507768 GTGTTTTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
6 8 0.15
7 30 0.56
8 8 0.15
9 8 0.15
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (7 bp):
TTTAGGG
Found at i:46507705 original size:29 final size:29
Alignment explanation
Indices: 46507667--46507730 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
46507657 ATTTAACTTA
*
46507667 AGGG-TTAGGGTTTTAAAGTTAAGGTTTT
1 AGGGTTTAGGGTTTTAAAGTTAAGGGTTT
*
46507695 AGGGTTTAGGGTTTTAAAGTTTAGGGTTT
1 AGGGTTTAGGGTTTTAAAGTTAAGGGTTT
*
46507724 AGTGTTT
1 AGGGTTT
46507731 TTAAGTTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (29 bp):
AGGGTTTAGGGTTTTAAAGTTAAGGGTTT
Found at i:46507709 original size:15 final size:15
Alignment explanation
Indices: 46507667--46507767 Score: 70
Period size: 15 Copynumber: 6.9 Consensus size: 15
46507657 ATTTAACTTA
46507667 AGGG-TTAGGGTTTT
1 AGGGTTTAGGGTTTT
** *
46507681 AAAG-TTAAGGTTTT
1 AGGGTTTAGGGTTTT
46507695 AGGGTTTAGGGTTTT
1 AGGGTTTAGGGTTTT
**
46507710 AAAGTTTAGGG-TTT
1 AGGGTTTAGGGTTTT
* *
46507724 AGTGTTTTTA-AG-TTT
1 AG-G-GTTTAGGGTTTT
46507739 AGGGTTTAGGGTTTTT
1 AGGGTTTAGGG-TTTT
46507755 A-GGTTTAGGGTTT
1 AGGGTTTAGGGTTT
46507768 GTGTTTTTTA
Statistics
Matches: 67, Mismatches: 14, Indels: 12
0.72 0.15 0.13
Matches are distributed among these distances:
13 4 0.06
14 22 0.33
15 33 0.49
16 8 0.12
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.48
Consensus pattern (15 bp):
AGGGTTTAGGGTTTT
Found at i:46507740 original size:44 final size:43
Alignment explanation
Indices: 46507695--46508051 Score: 393
Period size: 43 Copynumber: 8.2 Consensus size: 43
46507685 TTAAGGTTTT
* * * *
46507695 AGGGTTTAGGGTTTTAAAGTTTAGGGTTTAGTGTTTTTAAGTTT
1 AGGG-TTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAAGTTA
*
46507739 AGGGTTTAGGGTTTTTAGGTTTAGGGTTT-GTGTTTTTTAAGTTA
1 AGGG-TTAGGGTTTTTAGGTTTAGGGTTTAG-GGTTTTTAAGTTA
* *
46507783 AGGGTTATGGTTTTTAGGTTTACGGTTT-GAGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAGGTTTAGGGTTTAG-GGTTTTTAAGTTA
* * *
46507826 ATGGTTAGGGTTTTTAGGTTTAGGGTTTGGGGTTTTT-AGTTT
1 AGGGTTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAAGTTA
* * *
46507868 AGGGTTTATGGTTTTTAGGTTTAAGGTTTAGGGTTTTTAATTTTA
1 AGGG-TTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAA-GTTA
* *
46507913 AGGTTTATGGTTTTTAGGTTTAGGGTTTGAGGG-TTTTAAGTTA
1 AGGGTTAGGGTTTTTAGGTTTAGGGTTT-AGGGTTTTTAAGTTA
* * *
46507956 AGGGTTAGTGGGTTTTTAGGTTTAGTGTTTGGGGTTTTTAAATTA
1 AGGGTTA--GGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAAGTTA
* *
46508001 AGGGTTAGCGTTTTTA-ATTTAAGGG-TTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTTTTAGGTTT-AGGGTTTAGGGTTTTTAAGTTA
*
46508043 AGTGTTAGG
1 AGGGTTAGG
46508052 ATTAGGGTTA
Statistics
Matches: 269, Mismatches: 34, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.12
43 118 0.44
44 75 0.28
45 44 0.16
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (43 bp):
AGGGTTAGGGTTTTTAGGTTTAGGGTTTAGGGTTTTTAAGTTA
Found at i:46507848 original size:15 final size:15
Alignment explanation
Indices: 46507834--46507940 Score: 62
Period size: 15 Copynumber: 7.3 Consensus size: 15
46507824 TAATGGTTAG
46507834 GGTTTTTAGGTTTA-
1 GGTTTTTAGGTTTAT
* ** *
46507848 GGGTTTGGGGTTTTT
1 GGTTTTTAGGTTTAT
*
46507863 AG-TTT-AGGGTTTAT
1 GGTTTTTAGG-TTTAT
*
46507877 GGTTTTTAGGTTTAA
1 GGTTTTTAGGTTTAT
*
46507892 GG--TTTAGGGTTTTT
1 GGTTTTTA-GGTTTAT
** *
46507906 AATTTTAAGGTTTAT
1 GGTTTTTAGGTTTAT
*
46507921 GGTTTTTAGGTTTAG
1 GGTTTTTAGGTTTAT
46507936 GGTTT
1 GGTTT
46507941 GAGGGTTTTA
Statistics
Matches: 67, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
13 6 0.09
14 23 0.34
15 32 0.48
16 6 0.09
ACGTcount: A:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (15 bp):
GGTTTTTAGGTTTAT
Found at i:46507911 original size:29 final size:29
Alignment explanation
Indices: 46507864--46507925 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
46507854 GGGGTTTTTA
** *
46507864 GTTTAGGGTTTATGGTTTTTAGGTTTAAG
1 GTTTAGGGTTTATAATTTTAAGGTTTAAG
* *
46507893 GTTTAGGGTTTTTAATTTTAAGGTTTATG
1 GTTTAGGGTTTATAATTTTAAGGTTTAAG
46507922 GTTT
1 GTTT
46507926 TTAGGTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (29 bp):
GTTTAGGGTTTATAATTTTAAGGTTTAAG
Found at i:46508654 original size:18 final size:18
Alignment explanation
Indices: 46508631--46508669 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
46508621 ACTCGAAAAG
* *
46508631 GGATACATATAAGGGTTA
1 GGATACATAAAAGGGCTA
46508649 GGATACATAAAAGGGCTA
1 GGATACATAAAAGGGCTA
46508667 GGA
1 GGA
46508670 AACGCACCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.08, G:0.31, T:0.21
Consensus pattern (18 bp):
GGATACATAAAAGGGCTA
Found at i:46510624 original size:12 final size:12
Alignment explanation
Indices: 46510573--46510616 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
46510563 ATTAAATATG
46510573 AATTTGAGA-GA
1 AATTTGAGAGGA
46510584 AATTTG-GAAGGA
1 AATTTGAG-AGGA
46510596 AA-TTGAGAGGA
1 AATTTGAGAGGA
46510607 AATTTGAGAG
1 AATTTGAGAG
46510617 AAGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:46518878 original size:98 final size:98
Alignment explanation
Indices: 46518699--46518895 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
46518689 TACAATAAAA
*
46518699 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
* **
46518764 CCTTTAGAATTTCAAACTCGGAAGATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAAGATTTCCTTT
*
46518797 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
46518862 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAAGATTTCCTTT
46518895 A
1 A
46518896 TGATTTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAAAATCCCAAACTCGGAAGATTTCCTTT
Found at i:46522039 original size:16 final size:17
Alignment explanation
Indices: 46522018--46522052 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
46522008 AGCTGCATTC
46522018 ATTGAAG-TAAAAAAAA
1 ATTGAAGTTAAAAAAAA
46522034 ATTGAAGTTTAAAAAAAA
1 ATTGAAG-TTAAAAAAAA
46522052 A
1 A
46522053 CATAAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
ATTGAAGTTAAAAAAAA
Found at i:46526890 original size:33 final size:33
Alignment explanation
Indices: 46526852--46526976 Score: 112
Period size: 33 Copynumber: 3.8 Consensus size: 33
46526842 CCGGAAGTAA
*
46526852 TGGAGTACGGCGGTGGATACGGGCCTG-GAGAAG
1 TGGAGTACGACGGTGGATACGGGCC-GAGAGAAG
* **
46526885 TGGAGTACGATGGTACATACGGGCCGAGAGAAG
1 TGGAGTACGACGGTGGATACGGGCCGAGAGAAG
* * * *
46526918 TGGAGTACGACAGTGGATACAGG-CTAGAAGGAG
1 TGGAGTACGACGGTGGATACGGGCCGAG-AGAAG
* *
46526951 TGGAGTATTGA-GGTGGATACGAGCCG
1 TGGAGTA-CGACGGTGGATACGGGCCG
46526977 GGATGACTGG
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
32 4 0.06
33 65 0.90
34 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.42, T:0.17
Consensus pattern (33 bp):
TGGAGTACGACGGTGGATACGGGCCGAGAGAAG
Found at i:46528145 original size:3 final size:3
Alignment explanation
Indices: 46528137--46528163 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
46528127 GTTATTTTTG
46528137 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
46528164 AAATACCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46528234 original size:21 final size:21
Alignment explanation
Indices: 46528209--46528248 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46528199 TTCTCATATG
* *
46528209 TATATGTATGCATTTTTAATA
1 TATATATATACATTTTTAATA
*
46528230 TATATATATATATTTTTAA
1 TATATATATACATTTTTAA
46528249 GCTTAATACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (21 bp):
TATATATATACATTTTTAATA
Found at i:46532399 original size:22 final size:21
Alignment explanation
Indices: 46532358--46532404 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
46532348 TGAGCAAATG
46532358 TTCTTTCATTCTTTACGATTT
1 TTCTTTCATTCTTTACGATTT
**
46532379 CTTCTTTCATTCTTTTGGATTT
1 -TTCTTTCATTCTTTACGATTT
46532401 TTCT
1 TTCT
46532405 GCCAAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.11, C:0.19, G:0.06, T:0.64
Consensus pattern (21 bp):
TTCTTTCATTCTTTACGATTT
Found at i:46533367 original size:14 final size:13
Alignment explanation
Indices: 46533350--46533380 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
46533340 GTGATGTGAA
46533350 AAAATGAAAAGATG
1 AAAATGAAAA-ATG
46533364 AAAATGAAAAATG
1 AAAATGAAAAATG
46533377 AAAA
1 AAAA
46533381 GGTAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:46533393 original size:21 final size:21
Alignment explanation
Indices: 46533349--46533389 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46533339 AGTGATGTGA
46533349 AAAAATGAAAAGATGAAAATG
1 AAAAATGAAAAGATGAAAATG
*
46533370 AAAAATGAAAAGGT-AAAATG
1 AAAAATGAAAAGATGAAAATG
46533390 GAAAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.15
Consensus pattern (21 bp):
AAAAATGAAAAGATGAAAATG
Found at i:46534853 original size:44 final size:44
Alignment explanation
Indices: 46534805--46534977 Score: 101
Period size: 44 Copynumber: 4.0 Consensus size: 44
46534795 GTAATTCTAT
46534805 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTAC
1 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTAC
** * * * ** * *
46534849 CTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGGT--GATTTTAC
1 CTCCCTGGGCAGCAGTGGAATAGATTGAAGAT-TTCAGATCTTAC
* * *
46534892 CTCCCTGTGGTTA-CAGT-GAAGTATATTGAAG---CCAGTAAT-TCTAC
1 CTCCCTG-GG-CAGCAGTGGAA-TAGATTGAAGATTTCAG--ATCT-TAC
* *
46534936 TTCCCTGGGCAGCAGTGGGATAGATTGAAGATTTCAGATCTT
1 CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTT
46534978 GTCTCCCTAA
Statistics
Matches: 90, Mismatches: 24, Indels: 30
0.62 0.17 0.21
Matches are distributed among these distances:
42 2 0.02
43 31 0.34
44 51 0.57
45 3 0.03
46 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
CTCCCTGGGCAGCAGTGGAATAGATTGAAGATTTCAGATCTTAC
Found at i:46535113 original size:132 final size:132
Alignment explanation
Indices: 46534697--46535099 Score: 621
Period size: 132 Copynumber: 3.1 Consensus size: 132
46534687 GTGGAGCAGG
* * *
46534697 TTGAAGATTACAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
** ** *
46534762 TCCCTGAAGTTGTAGTGGAGTACATTGAAACCAGTAATTCTA-TCTCCCTGGGCAGCAGTGGAAT
66 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGGCAGCAGTGGAAT
46534826 AGA
130 AGA
* * * *
46534829 TTGAAGATTTCAGATCTTACCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGG-TGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
* * *
46534893 TCCCTGTGGTTACAGTGAAGTATATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGGATA
66 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
46534958 GA
131 GA
* *
46534960 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAAATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
46535025 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
66 TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
46535090 GA
131 GA
*
46535092 TTAAAGAT
1 TTGAAGAT
46535100 ACCAAATCTT
Statistics
Matches: 245, Mismatches: 24, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
131 116 0.47
132 129 0.53
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (132 bp):
TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACC
TCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAATA
GA
Found at i:46535193 original size:44 final size:44
Alignment explanation
Indices: 46535129--46535409 Score: 233
Period size: 44 Copynumber: 6.3 Consensus size: 44
46535119 TACTAGTGGC
*
46535129 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
* * * * *** *
46535173 GAAGTAGATCAAATACAACAGATATTGTCTCCCCATA-CTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATC-GG-CGT
* ** * * *** * *
46535218 GGAGTAGATTGAAGAAAGCAGATCGTGTCTTCCCATA-CTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATC-GG-CGT
* * * **
46535263 GAAGTAGATCCAAGAAAATAGATCGTGTCTTCATGTATTAGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
* * **
46535307 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTAGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
* * *
46535351 GAAATAGATCGAAGAAAACAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
46535395 GAAGTAGATCAAAGA
1 GAAGTAGATCAAAGA
46535410 TGGCGGATTT
Statistics
Matches: 191, Mismatches: 43, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
43 1 0.01
44 123 0.64
45 67 0.35
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (44 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCATGTATCGGCGT
Found at i:46535329 original size:134 final size:134
Alignment explanation
Indices: 46535082--46535336 Score: 366
Period size: 134 Copynumber: 1.9 Consensus size: 134
46535072 CTGGGCAGCA
* * *
46535082 GTGGAATAGATTAAAGATACCAAATCTTGTCTTCCCATACTAGTGGCGAAGTAGATCGAAGAAAA
1 GTGGAATAGATTAAAGAAACCAAATCGTGTCTTCCCATACTAGTGGCGAAGTAGATCCAAGAAAA
* * *
46535147 CAGATCTTGTCTTCATGTATCGGCGTGAAGTAGATCAAATACAACAGATATTGTCTCCCCATACT
66 CAGATCGTGTCTTCATGTATCAGCGTGAAGTAGATCAAAGACAACAGATATTGTCTCCCCATACT
46535212 GGTG
131 GGTG
* * * * *
46535216 GTGGAGTAGATTGAAGAAAGCAGATCGTGTCTTCCCATACTGGTGGCGAAGTAGATCCAAGAAAA
1 GTGGAATAGATTAAAGAAACCAAATCGTGTCTTCCCATACTAGTGGCGAAGTAGATCCAAGAAAA
* * * * *
46535281 TAGATCGTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCT
66 CAGATCGTGTCTTCATGTATCAGCGTGAAGTAGATCAAAGACAACAGATATTGTCT
46535337 TCATGTATTA
Statistics
Matches: 105, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
134 105 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (134 bp):
GTGGAATAGATTAAAGAAACCAAATCGTGTCTTCCCATACTAGTGGCGAAGTAGATCCAAGAAAA
CAGATCGTGTCTTCATGTATCAGCGTGAAGTAGATCAAAGACAACAGATATTGTCTCCCCATACT
GGTG
Found at i:46536351 original size:17 final size:18
Alignment explanation
Indices: 46536318--46536354 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
46536308 CGGGGCGAGC
46536318 CTTCTCCACGTGCGCCGCT
1 CTTCTCCACG-GCGCCGCT
46536337 CTTCTCCAC-GCGCCGCT
1 CTTCTCCACGGCGCCGCT
46536354 C
1 C
46536355 CTTGCGCGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.05, C:0.51, G:0.19, T:0.24
Consensus pattern (18 bp):
CTTCTCCACGGCGCCGCT
Found at i:46537246 original size:3 final size:3
Alignment explanation
Indices: 46537238--46537267 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
46537228 GTTATTTTTG
46537238 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
46537268 AAATACCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:46537338 original size:21 final size:21
Alignment explanation
Indices: 46537313--46537352 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
46537303 TTCTCATATG
*
46537313 TATATGTATGCATTTTTAATA
1 TATATATATGCATTTTTAATA
**
46537334 TATATATATTTATTTTTAA
1 TATATATATGCATTTTTAA
46537353 GCTTCATACG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATATATATGCATTTTTAATA
Found at i:46540725 original size:109 final size:105
Alignment explanation
Indices: 46540635--46541030 Score: 424
Period size: 104 Copynumber: 3.8 Consensus size: 105
46540625 TAACAATTTA
* * *
46540635 TATAACCTAATCATCAATTACTAACAAAATAACTATAAAATTACCTTTTTTTAAAAAAATTTGCT
1 TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTACC-TTTTTTAAAAAAA-TTACA
46540700 TTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTT
64 TTACTAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT
*
46540743 ATATAACCTAATCATAAATTACTAACAAAATAATTATAAAATTA-CTTTTTT--AAAAATTACAT
1 -TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTACCTTTTTTAAAAAAATTACAT
* * *
46540805 TGCTTAAAAATCACAAAACCCTAAACTAAACACTAACAATT
65 TACTAAAAAATCACAAAACACTAAACTAAACACTAACAATT
* * ** * ***
46540846 TATAATCTAATCCCATAAATTACTAACAAAATAA--ATAACTACAACATTTAAAAAAAAGAAATT
1 TATAACCTAAT--CATAAATTACTAACAAAATAACTATAA-AATTACCTTT-TTTAAAA-AAATT
*
46540909 ACATTACTAAAAAATAACAAAACAC---A--AAACACTAACAATT
61 ACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATT
* **
46540949 TATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTA--TTATTTT--TTAAATTACAT
1 TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTACCTT-TTTTAAAAAAATTACAT
*
46541010 TACTAAAAACTCACAAAACAC
65 TACTAAAAAATCACAAAACAC
46541031 AACAATTTAT
Statistics
Matches: 245, Mismatches: 31, Indels: 34
0.79 0.10 0.11
Matches are distributed among these distances:
97 28 0.11
100 2 0.01
101 21 0.09
102 16 0.07
103 32 0.13
104 64 0.26
105 6 0.02
107 8 0.03
108 27 0.11
109 41 0.17
ACGTcount: A:0.53, C:0.17, G:0.01, T:0.29
Consensus pattern (105 bp):
TATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTACCTTTTTTAAAAAAATTACATT
ACTAAAAAATCACAAAACACTAAACTAAACACTAACAATT
Found at i:46540866 original size:104 final size:103
Alignment explanation
Indices: 46540581--46541030 Score: 490
Period size: 109 Copynumber: 4.3 Consensus size: 103
46540571 TTAAATTATA
* *
46540581 TAAAAATCACATTA-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
*
46540645 TCATCAATTACTAACAAAATAACTATAAAATTACCTTTTTT
66 TCATAAATTACTAACAAAATAACTATAAAATTA---TTTTT
* *
46540686 TAAAAAAATTTGCTTTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACC
1 T--AAAAA-TTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACC
*
46540751 TAATCATAAATTACTAACAAAATAATTATAAAATTACTTTTT
63 TAATCATAAATTACTAACAAAATAACTATAAAATTA-TTTTT
* * * *
46540793 TAAAAATTACATTGCTTAAAAATCACAAAACCCTAAACTAAACACTAACAA-TT-TATAATCTAA
1 TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
* ****
46540856 TCCCATAAATTACTAACAAAATAAATAACTACAACATT-TAAAAA
66 T--CATAAATTACTAACAAAATAACT-A-TA-AA-ATTAT-TTTT
* *
46540900 AAAGAAATTACATTACTAAAAAATAACAAAACAC---A--AAACACTAACAA-TT-TATAACCTA
1 TAA-AAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTA
*
46540958 ATCATAAACTACTAACAAAATAACTATAAAATTATTATTT
65 ATCATAAATTACTAACAAAATAACTATAAAATTATT-TTT
** *
46540998 TTTAAATTACATTACTAAAAACTCACAAAACAC
1 TAAAAATTACATTACTAAAAAATCACAAAACAC
46541031 AACAATTTAT
Statistics
Matches: 296, Mismatches: 35, Indels: 36
0.81 0.10 0.10
Matches are distributed among these distances:
97 31 0.10
98 3 0.01
99 2 0.01
100 1 0.00
101 21 0.07
102 10 0.03
103 26 0.09
104 62 0.21
105 8 0.03
106 3 0.01
107 15 0.05
108 34 0.11
109 80 0.27
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (103 bp):
TAAAAATTACATTACTAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAA
TCATAAATTACTAACAAAATAACTATAAAATTATTTTT
Found at i:46541349 original size:9 final size:8
Alignment explanation
Indices: 46541334--46541376 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 8
46541324 TTTTTTTTTC
46541334 TTTCTTCT
1 TTTCTTCT
46541342 TCTTCTTCT
1 T-TTCTTCT
46541351 TTTCTTCT
1 TTTCTTCT
46541359 CCTTTCTCTCT
1 --TTTCT-TCT
46541370 TTTCTTC
1 TTTCTTC
46541377 CCCACACACC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
8 10 0.32
9 13 0.42
10 5 0.16
11 3 0.10
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTCTTCT
Found at i:46541356 original size:17 final size:19
Alignment explanation
Indices: 46541334--46541376 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
46541324 TTTTTTTTTC
*
46541334 TTTCTTCTTC-TTCT-TCT
1 TTTCTTCTCCTTTCTCTCT
46541351 TTTCTTCTCCTTTCTCTCT
1 TTTCTTCTCCTTTCTCTCT
46541370 TTTCTTC
1 TTTCTTC
46541377 CCCACACACC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTCTTCTCCTTTCTCTCT
Found at i:46541739 original size:24 final size:23
Alignment explanation
Indices: 46541692--46541738 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
46541682 CCCGATATAT
46541692 ATAAAAATATTTTTAAAAATAAA
1 ATAAAAATATTTTTAAAAATAAA
* * *
46541715 ATAATAATATTTTTTAAAGTAAA
1 ATAAAAATATTTTTAAAAATAAA
46541738 A
1 A
46541739 AAGATTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAAAAATATTTTTAAAAATAAA
Found at i:46544495 original size:36 final size:37
Alignment explanation
Indices: 46544448--46544532 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 37
46544438 TTCGTTTGCT
* *
46544448 TTACTACTTTCGATTAGAA-TCAGGGAAAATTTTGGC
1 TTACTACTTTCGATTAGAATTCAGGGAAAATTCTGGA
*
46544484 TTACTGCTTTCGATTAGAATTTTCAGGGAAAATTCTGGA
1 TTACTACTTTCGATTAGAA--TTCAGGGAAAATTCTGGA
*
46544523 TTACTTCTTT
1 TTACTACTTT
46544533 GCTTTACTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 18 0.43
39 24 0.57
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (37 bp):
TTACTACTTTCGATTAGAATTCAGGGAAAATTCTGGA
Found at i:46545323 original size:20 final size:20
Alignment explanation
Indices: 46545298--46545337 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
46545288 AATATTTTCC
*
46545298 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
46545318 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
46545338 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:46545344 original size:34 final size:34
Alignment explanation
Indices: 46545286--46545351 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
46545276 CAAACACCAG
*
46545286 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
* *
46545321 AAAACATTTTTCAG-AAATTATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
46545352 ATATTTTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 5 0.18
34 11 0.39
35 12 0.43
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.35
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:46547754 original size:13 final size:13
Alignment explanation
Indices: 46547736--46547799 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
46547726 ACACTCAAAT
46547736 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
46547749 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
*
46547762 TTCTT-AAAAACAC
1 TT-TTCAAAAGCAC
*
46547775 TTTTCCACAA-CAC
1 TTTT-CAAAAGCAC
*
46547788 TCTTCAAAAGCA
1 TTTTCAAAAGCA
46547800 ATGAAGAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
12 6 0.14
13 32 0.74
14 5 0.12
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.30
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:46553496 original size:50 final size:51
Alignment explanation
Indices: 46553379--46553620 Score: 206
Period size: 50 Copynumber: 4.7 Consensus size: 51
46553369 GATAATAACA
* * ** * *
46553379 TGCCAAAGCCATGTCCCAGACATGGACTTACATGGGATGTTTCTTGTA---C
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTTCTTATATTGG
* * * *
46553428 TACCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTTATATTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATATTGG
* * * * * *
46553478 TGCCCATGCCATGTCCCAGACATGATCTTACAAGGGACC-TCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATATTGG
* * * * *
46553528 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-TC-T--TAT-ATTGG
46553584 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
46553621 TCTCTTTACC
Statistics
Matches: 152, Mismatches: 31, Indels: 13
0.78 0.16 0.07
Matches are distributed among these distances:
47 7 0.05
49 32 0.21
50 73 0.48
52 2 0.01
53 1 0.01
55 1 0.01
56 36 0.24
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTCTTATATTGG
Found at i:46564148 original size:38 final size:38
Alignment explanation
Indices: 46564106--46564204 Score: 121
Period size: 38 Copynumber: 2.6 Consensus size: 38
46564096 CGAATATAAT
* *
46564106 AATTATAATTACCATAATTATAATAATGTTTGA-CAAAA
1 AATTATAATTACCATAATTATAATAATATTCGATC-AAA
* *
46564144 AATTACAATTA-CAGTAATTATAATAATATTCGATCATA
1 AATTATAATTACCA-TAATTATAATAATATTCGATCAAA
*
46564182 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
46564205 CAAAGATTTC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
37 2 0.04
38 48 0.92
39 2 0.04
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTCGATCAAA
Found at i:46567363 original size:11 final size:11
Alignment explanation
Indices: 46567337--46567376 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
46567327 TAATCCTCTT
*
46567337 TCAATTATTTTC
1 TCAATT-TTCTC
46567349 TCAATTTTCTC
1 TCAATTTTCTC
46567360 TCAATTTTCTC
1 TCAATTTTCTC
46567371 TCAATT
1 TCAATT
46567377 CCCTTCCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 21 0.78
12 6 0.22
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (11 bp):
TCAATTTTCTC
Found at i:46567415 original size:51 final size:51
Alignment explanation
Indices: 46567360--46567457 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
46567350 CAATTTTCTC
*
46567360 TCAATTTTCTCTCAA-TTCC-CTTCCAAATTTCTCTCAAATCCATATTTAATT
1 TCAATTTACTCTCAATTTCCTCTT--AAATTTCTCTCAAATCCATATTTAATT
* *
46567411 TCAATTTACTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTACTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTT
46567458 TTAATTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 35 0.83
52 4 0.10
53 3 0.07
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (51 bp):
TCAATTTACTCTCAATTTCCTCTTAAATTTCTCTCAAATCCATATTTAATT
Found at i:46567494 original size:20 final size:21
Alignment explanation
Indices: 46567456--46567499 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
46567446 AAATCCCTAT
* *
46567456 TTTTAATTATTTTTTAAAAGA
1 TTTTAATTATTTTTAAAAAAA
46567477 TTTTAATT-TTTTTAAAAAAA
1 TTTTAATTATTTTTAAAAAAA
46567497 TTT
1 TTT
46567500 AAATCGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTAATTATTTTTAAAAAAA
Found at i:46567500 original size:19 final size:19
Alignment explanation
Indices: 46567465--46567501 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46567455 TTTTTAATTA
* *
46567465 TTTTTTAAAAGATTTTAAT
1 TTTTTTAAAAAAATTTAAT
46567484 TTTTTTAAAAAAATTTAA
1 TTTTTTAAAAAAATTTAA
46567502 ATCGTAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAAAAATTTAAT
Found at i:46569286 original size:18 final size:18
Alignment explanation
Indices: 46569263--46569305 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
46569253 TGCCAGGTGC
*
46569263 GTATCCTAAACCTTTTAT
1 GTATCCTAAACCTTATAT
*
46569281 GTATCCTAACCCTTATAT
1 GTATCCTAAACCTTATAT
*
46569299 GTTTCCT
1 GTATCCT
46569306 TTTTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (18 bp):
GTATCCTAAACCTTATAT
Found at i:46569585 original size:21 final size:21
Alignment explanation
Indices: 46569561--46569607 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
46569551 AGATGCCCTA
* *
46569561 CCGGAGGAACCAAAATCCCCG
1 CCGGAGCAACCAAAACCCCCG
*
46569582 CCGGAGCAACCACAACCCCCG
1 CCGGAGCAACCAAAACCCCCG
46569603 CCGGA
1 CCGGA
46569608 AGCTGGACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.45, G:0.23, T:0.02
Consensus pattern (21 bp):
CCGGAGCAACCAAAACCCCCG
Found at i:46570037 original size:126 final size:126
Alignment explanation
Indices: 46569881--46570126 Score: 415
Period size: 126 Copynumber: 2.0 Consensus size: 126
46569871 ACCGGAAGTA
* *
46569881 TTTTTTTATACTATTTACTCAGAAACGTCAA-TTGAAAATTATTTTTCCAGGACCTACTGTAGCA
1 TTTTTTTATACTATTTACTCAGAAACGTCAACTCG-AAATTATTTTTCCAAGACCTACTGTAGCA
46569945 AAAGCGCGTCCACGAGGGCGCGA-TTTCAGAAATTCTTCTAATAAAGCATCCTGCTTGAAGCG
65 AAAGCGCGTCCACGAGGGCGCGACTTT-AGAAATTCTTCTAATAAAGCATCCTGCTTGAAGCG
* *
46570007 TTTTTTTATACTATTTGCTCATAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTGTAGCAA
1 TTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTGTAGCAA
*
46570072 AAGCGCGTCCACGTGGGCGCGACTTTAGAAATTCTTCTAATAAAGCATCCTGCTT
66 AAGCGCGTCCACGAGGGCGCGACTTTAGAAATTCTTCTAATAAAGCATCCTGCTT
46570127 TGATTTTATC
Statistics
Matches: 113, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
126 108 0.96
127 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (126 bp):
TTTTTTTATACTATTTACTCAGAAACGTCAACTCGAAATTATTTTTCCAAGACCTACTGTAGCAA
AAGCGCGTCCACGAGGGCGCGACTTTAGAAATTCTTCTAATAAAGCATCCTGCTTGAAGCG
Found at i:46570967 original size:22 final size:22
Alignment explanation
Indices: 46570936--46570995 Score: 57
Period size: 26 Copynumber: 2.5 Consensus size: 22
46570926 AAAACAGAAT
*
46570936 ATAATGTTTATCATAAAGATAA
1 ATAATATTTATCATAAAGATAA
* *
46570958 ATAATATTTAATTAAAATAAAGTTAA
1 ATAATATTT-A-T--CATAAAGATAA
46570984 ATAATATTTATC
1 ATAATATTTATC
46570996 TTAATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
22 8 0.27
23 1 0.03
24 2 0.07
25 1 0.03
26 18 0.60
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (22 bp):
ATAATATTTATCATAAAGATAA
Found at i:46571172 original size:14 final size:15
Alignment explanation
Indices: 46571147--46571177 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
46571137 ATTTTAATAA
46571147 ATTTCAAATTTTTTT
1 ATTTCAAATTTTTTT
*
46571162 ATTTCAATTTTTTTT
1 ATTTCAAATTTTTTT
46571177 A
1 A
46571178 CTTTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTCAAATTTTTTT
Done.