Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5666189
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 144833 characters in sequence are not A, C, G, or T
File 11 of 14
Found at i:4212213 original size:22 final size:22
Alignment explanation
Indices: 4212142--4212214 Score: 112
Period size: 22 Copynumber: 3.3 Consensus size: 22
4212132 CCCTCCATGG
4212142 CATGTCAAACTCTGAACTATAT
1 CATGTCAAACTCTGAACTATAT
*
4212164 CGTGTCAAACTCTGAACTATAT
1 CATGTCAAACTCTGAACTATAT
*
4212186 CGTGTCAAACTCTGAACTATGA-
1 CATGTCAAACTCTGAACTAT-AT
4212208 CATGTCA
1 CATGTCA
4212215 CAGATTCCCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 47 0.98
23 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (22 bp):
CATGTCAAACTCTGAACTATAT
Found at i:4212298 original size:47 final size:48
Alignment explanation
Indices: 4212210--4212304 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 48
4212200 AACTATGACA
* * * *
4212210 TGTCACAGATTCCCTCCATGGCGTGTCACAAACTCTGAACCCT-CCCT
1 TGTCACAGATTCCCTCCATGACATATCACAAACTCTAAACCCTACCCT
* *
4212257 TGTCACAGATTCCCTCTATGACATATCACAAA-TTTCAAACCCTACCCT
1 TGTCACAGATTCCCTCCATGACATATCACAAACTCT-AAACCCTACCCT
4212305 ATGACAGCCG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
46 2 0.05
47 34 0.85
48 4 0.10
ACGTcount: A:0.26, C:0.36, G:0.11, T:0.27
Consensus pattern (48 bp):
TGTCACAGATTCCCTCCATGACATATCACAAACTCTAAACCCTACCCT
Found at i:4214656 original size:71 final size:72
Alignment explanation
Indices: 4214506--4214661 Score: 206
Period size: 71 Copynumber: 2.2 Consensus size: 72
4214496 TGCTTTACCC
* * * *
4214506 ATAGTCGACTATGGTTGTATAATCTTGACTTTATCTTACTTTTTACTTGTTAAGGTCGACTATGC
1 ATAGTCGACTATGGCTGTATAATCTTGACTTTATCTTACCTTTAACTTGTTAAGGTCAACTATGC
4214571 TTCCTCT
66 TTCCTCT
* * *
4214578 ATAGTCGACTATGGCTGTGTAATCTTGACTTT-TCTTGCCTTTAACTTGTTAGGGTCAACTATGC
1 ATAGTCGACTATGGCTGTATAATCTTGACTTTATCTTACCTTTAACTTGTTAAGGTCAACTATGC
**
4214642 TTGGTCT
66 TTCCTCT
* *
4214649 ATGGTCGATTATG
1 ATAGTCGACTATG
4214662 TCTATTCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
71 43 0.59
72 30 0.41
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (72 bp):
ATAGTCGACTATGGCTGTATAATCTTGACTTTATCTTACCTTTAACTTGTTAAGGTCAACTATGC
TTCCTCT
Found at i:4225961 original size:4 final size:4
Alignment explanation
Indices: 4225954--4225980 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
4225944 ATAAAAGTAG
4225954 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
4225981 TTATGTACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:4232912 original size:12 final size:12
Alignment explanation
Indices: 4232895--4232939 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
4232885 AGATTCTTGA
4232895 GCAGCAAGAGAG
1 GCAGCAAGAGAG
4232907 GCAGCAAGAGAG
1 GCAGCAAGAGAG
4232919 GCAGCAA-AGGAG
1 GCAGCAAGA-GAG
4232931 GCAGCAAGA
1 GCAGCAAGA
4232940 AACTATTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 1 0.03
12 29 0.94
13 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.40, T:0.00
Consensus pattern (12 bp):
GCAGCAAGAGAG
Found at i:4235149 original size:17 final size:17
Alignment explanation
Indices: 4235127--4235173 Score: 69
Period size: 17 Copynumber: 2.7 Consensus size: 17
4235117 TTGTGAGCAT
4235127 ATATATTCAATATATACA
1 ATATATTCAATATAT-CA
4235145 A-ATATTCAATATATCA
1 ATATATTCAATATATCA
4235161 ATATATATCAATA
1 ATATAT-TCAATA
4235174 GACGGAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 3 0.11
17 17 0.63
18 7 0.26
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATATATTCAATATATCA
Found at i:4238549 original size:71 final size:70
Alignment explanation
Indices: 4238352--4238550 Score: 211
Period size: 71 Copynumber: 2.8 Consensus size: 70
4238342 TTAGTATTGG
* * * * *
4238352 CTATAGAGGGTCTATAGTTGATCTTGGACTAGAATGTCTATGCTTCCTTTTATTTTTCCCTCATA
1 CTATAAAGGGTCTATAGTTGATCTTGGACTAGAATGTATGTACTTCC--TTATTTTTCCCTCACA
*
4238417 TACTCAA
64 TAATCAA
* * * * *
4238424 CTATAAAGGGCCTATAGTTGATCTTGGACCAGAATGTATGCACTTCATTCATTTTTCCTTCACA-
1 CTATAAAGGGTCTATAGTTGATCTTGGACTAGAATGTATGTACTTCCTT-ATTTTTCCCTCACAT
4238488 AGATCAA
65 A-ATCAA
** * *
4238495 CTATAAAGGGTCTATAGTCAATCTTGGACTAGAATGTGTGTTCTTCCTCTATTTTT
1 CTATAAAGGGTCTATAGTTGATCTTGGACTAGAATGTATGTACTTCCT-TATTTTT
4238551 ATGTCAGAAG
Statistics
Matches: 105, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
70 3 0.03
71 62 0.59
72 40 0.38
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (70 bp):
CTATAAAGGGTCTATAGTTGATCTTGGACTAGAATGTATGTACTTCCTTATTTTTCCCTCACATA
ATCAA
Found at i:4242702 original size:17 final size:17
Alignment explanation
Indices: 4242682--4242720 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
4242672 ATCCAAGGCT
*
4242682 AAAATAAATCAATTTTA
1 AAAAAAAATCAATTTTA
4242699 AAAAAAAATCAATTTTA
1 AAAAAAAATCAATTTTA
4242716 AAAAA
1 AAAAA
4242721 TTTTAAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAAAATCAATTTTA
Found at i:4249019 original size:79 final size:80
Alignment explanation
Indices: 4248858--4249024 Score: 196
Period size: 79 Copynumber: 2.1 Consensus size: 80
4248848 AATGAGTTTC
* * * *
4248858 ATTTATGAGATTGTAACATGTATGCCATGAGATGTATGTGGTAAGATAGTCATATACACTATGGG
1 ATTTATGAGATTATAACATGTATGCCATGAGATATATATGGTAAGATAATCATATACACTATGGG
* *
4248923 CTATGCATGTAAGTG
66 CTAAGCATGTAAATG
* ** *
4248938 ATTTATGAGATTATGAA-ATGTCTGCCATGAGATATATAT-GTTGGGTAATCATATACACTATGG
1 ATTTATGAGATTAT-AACATGTATGCCATGAGATATATATGGTAAGATAATCATATACACTATGG
*
4249001 GCTAAGTATG-ACAATG
65 GCTAAGCATGTA-AATG
4249017 ATTTATGA
1 ATTTATGA
4249025 AAATGTTATA
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
78 1 0.01
79 39 0.53
80 32 0.43
81 2 0.03
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.35
Consensus pattern (80 bp):
ATTTATGAGATTATAACATGTATGCCATGAGATATATATGGTAAGATAATCATATACACTATGGG
CTAAGCATGTAAATG
Found at i:4256002 original size:3 final size:3
Alignment explanation
Indices: 4255994--4256025 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4255984 CAAATATATT
4255994 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
4256026 GAGATAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:4258837 original size:12 final size:12
Alignment explanation
Indices: 4258798--4258869 Score: 54
Period size: 13 Copynumber: 5.8 Consensus size: 12
4258788 TTAAAATAAT
4258798 AAAAAGAAAAAGA
1 AAAAAGAAAAA-A
* *
4258811 GAAGAGAAAAGAA
1 AAAAAGAAAA-AA
4258824 AAAAAGAAAAAA
1 AAAAAGAAAAAA
* *
4258836 AACATGAAAAAA
1 AAAAAGAAAAAA
* *
4258848 ATAAATAAATAAA
1 AAAAAGAAA-AAA
*
4258861 TAAAAGAAA
1 AAAAAGAAA
4258870 TATTGAAAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
12 17 0.39
13 26 0.59
14 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.07
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:4263825 original size:21 final size:21
Alignment explanation
Indices: 4263799--4263859 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
4263789 TTTTGAATGG
*
4263799 AAGCATTAGTCCTTGTCATTA
1 AAGCATCAGTCCTTGTCATTA
* *
4263820 AAGCATCAGTCTTTGTTATTA
1 AAGCATCAGTCCTTGTCATTA
* * *
4263841 ATGCATCAATCTTTGTCAT
1 AAGCATCAGTCCTTGTCAT
4263860 GAATTGTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (21 bp):
AAGCATCAGTCCTTGTCATTA
Found at i:4266926 original size:80 final size:80
Alignment explanation
Indices: 4266812--4267119 Score: 404
Period size: 80 Copynumber: 3.9 Consensus size: 80
4266802 TTATAGCATT
** * *
4266812 TATGCCATGAGATGTATCTTTTAAGATACTCATATACACTATTGGCTAAGCATGTAAGTGATTTA
1 TATGCCATGAGATGTAAGTTTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTA
* *
4266877 TGAGGTTGTGAAATA
66 TGAGGTTATGAAATG
* * * *
4266892 TATGCCATGAGATGTAAGTGTTAAGATAGTCATATACACTATAGGATAAGCATATAAGTGATTTA
1 TATGCCATGAGATGTAAGTTTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTA
*
4266957 TGAGGTCATGAAATG
66 TGAGGTTATGAAATG
* * ** *
4266972 TATGGCATGAGATGTATGCATTGAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTA
1 TATGCCATGAGATGTAAGTTTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTA
*
4267037 TGAGATTATGAAATG
66 TGAGGTTATGAAATG
* * *
4267052 TATGCCATGAGATGTATA-TTTTAAGATAGTCATATACACTACGGGCTAAGTATGGTGA-TGATT
1 TATGCCATGAGATGTA-AGTTTTAAGATAGTCATATACACTATGGGCTAAGCAT-GTAAGTGATT
4267115 TATGA
64 TATGA
4267120 AAATGTCATA
Statistics
Matches: 198, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 195 0.98
81 3 0.02
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (80 bp):
TATGCCATGAGATGTAAGTTTTAAGATAGTCATATACACTATGGGCTAAGCATGTAAGTGATTTA
TGAGGTTATGAAATG
Found at i:4271144 original size:61 final size:61
Alignment explanation
Indices: 4271031--4271173 Score: 171
Period size: 61 Copynumber: 2.4 Consensus size: 61
4271021 ATATAAATTG
* * * * *
4271031 GGGCTTTAGGTCCCCCTT-TACCGACTCATGGGAACTGCCCATGCCACTTAATACGAATCA
1 GGGCTTCAGGTCCCCCTTGTACCGACTCATGGGAACTACCCACGCCACCTAATACAAATCA
* * * * **
4271091 GGGCTTCAGGTCCCCCTTGTTCCTACTCGTGGGAACTACCCACGCCACCTAATATAAATTG
1 GGGCTTCAGGTCCCCCTTGTACCGACTCATGGGAACTACCCACGCCACCTAATACAAATCA
*
4271152 GGGCTTCAAGTCCCCCTTGTAC
1 GGGCTTCAGGTCCCCCTTGTAC
4271174 AATCAAATAT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 17 0.25
61 52 0.75
ACGTcount: A:0.21, C:0.33, G:0.20, T:0.26
Consensus pattern (61 bp):
GGGCTTCAGGTCCCCCTTGTACCGACTCATGGGAACTACCCACGCCACCTAATACAAATCA
Found at i:4275648 original size:69 final size:70
Alignment explanation
Indices: 4275561--4275741 Score: 175
Period size: 77 Copynumber: 2.5 Consensus size: 70
4275551 ACATAACTTT
* ** *
4275561 AGAAGTTTCTTGTAAAGTAAAAAACTATTTCTTATGAATTTTTCAA-ATTAAAACACTATCCTTA
1 AGAA-TTTCTTTTAAAGTAAAAAACTATTTCTTATGAATCATCCAATATTAAAACACTATCCTTA
4275625 ATTTTA
65 ATTTTA
* **
4275631 AGAATTTCTTTTAAAGTATGAAACAATTCCCTATTTTTTATGAATCATCCAATATTAAAATTCTA
1 AGAATTTCTTTTAAAGTA--AAA-AA----CTATTTCTTATGAATCATCCAATATTAAAACACTA
4275696 TCCTTAATTTTA
59 TCCTTAATTTTA
* * ** *
4275708 GGAATTACTTTTAAAGTAGGAAACAATTTCTTAT
1 AGAATTTCTTTTAAAGTAAAAAACTATTTCTTAT
4275742 TTTTTATGAA
Statistics
Matches: 90, Mismatches: 13, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
69 13 0.14
70 13 0.14
71 3 0.03
72 2 0.02
74 2 0.02
75 1 0.01
76 18 0.20
77 38 0.42
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (70 bp):
AGAATTTCTTTTAAAGTAAAAAACTATTTCTTATGAATCATCCAATATTAAAACACTATCCTTAA
TTTTA
Found at i:4275713 original size:77 final size:76
Alignment explanation
Indices: 4275585--4275752 Score: 228
Period size: 77 Copynumber: 2.2 Consensus size: 76
4275575 AAGTAAAAAA
* ** * * *
4275585 CTATTTCTTATGAATTTTTCAAATTAAAACACTATCCTTAATTTTAAGAATTTCTTTTAAAGTAT
1 CTATTTTTTATGAATCATCCAAATTAAAACACTATCCTTAATTTTAAGAATTACTTTTAAAGTAG
4275650 GAAACAATTCC
66 GAAACAATTCC
** *
4275661 CTATTTTTTATGAATCATCCAATATTAAAATTCTATCCTTAATTTTAGGAATTACTTTTAAAGTA
1 CTATTTTTTATGAATCATCCAA-ATTAAAACACTATCCTTAATTTTAAGAATTACTTTTAAAGTA
*
4275726 GGAAACAATTTC
65 GGAAACAATTCC
*
4275738 TTATTTTTTATGAAT
1 CTATTTTTTATGAAT
4275753 TACATAAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
76 18 0.22
77 62 0.77
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (76 bp):
CTATTTTTTATGAATCATCCAAATTAAAACACTATCCTTAATTTTAAGAATTACTTTTAAAGTAG
GAAACAATTCC
Found at i:4275765 original size:77 final size:76
Alignment explanation
Indices: 4275605--4275769 Score: 224
Period size: 77 Copynumber: 2.1 Consensus size: 76
4275595 TGAATTTTTC
* * *
4275605 AAATTAAAACACTATCCTTAATTTTAAGAATTTCTTTTAAAGTATGAAACAATTCCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAAGAATTACTTTTAAAGTAGGAAACAATTCCCTATTTTTT
4275670 ATGAATCATCCA
66 ATGAATCAT-CA
* * * * *
4275682 ATATTAAAATTCTATCCTTAATTTTAGGAATTACTTTTAAAGTAGGAAACAATTTCTTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAAGAATTACTTTTAAAGTAGGAAACAATTCCCTATTTTTT
4275747 ATGAATTACAT-A
66 ATGAA-T-CATCA
4275759 AAATTAAAATA
1 AAATTAAAATA
4275770 GATGGTATTT
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
77 72 0.95
78 1 0.01
79 3 0.04
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.42
Consensus pattern (76 bp):
AAATTAAAATACTATCCTTAATTTTAAGAATTACTTTTAAAGTAGGAAACAATTCCCTATTTTTT
ATGAATCATCA
Found at i:4277693 original size:28 final size:28
Alignment explanation
Indices: 4277662--4277731 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
4277652 TAAAGTCTTA
4277662 GTGTGTAACATCTTTTACTTTAGCCTTG
1 GTGTGTAACATCTTTTACTTTAGCCTTG
* * * *
4277690 GTGTATAATATCTTTTACTTTGGCTTTG
1 GTGTGTAACATCTTTTACTTTAGCCTTG
*
4277718 GCGTGTAACATCTT
1 GTGTGTAACATCTT
4277732 ACACTGAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (28 bp):
GTGTGTAACATCTTTTACTTTAGCCTTG
Found at i:4278303 original size:27 final size:27
Alignment explanation
Indices: 4278230--4278309 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 27
4278220 ATAAAACAAA
*
4278230 AACATGGCATCTAAC-AT-TTTTTTT-
1 AACATGGCATGTAACAATATTTTTTTC
4278254 AACATGGCATGTAACAATA--TTTTTC
1 AACATGGCATGTAACAATATTTTTTTC
*
4278279 AACATGGCATGTAATAATATTTTTTTC
1 AACATGGCATGTAACAATATTTTTTTC
4278306 AACA
1 AACA
4278310 CATGAATTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.39
25 20 0.41
27 10 0.20
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (27 bp):
AACATGGCATGTAACAATATTTTTTTC
Found at i:4280764 original size:36 final size:36
Alignment explanation
Indices: 4280709--4280793 Score: 116
Period size: 36 Copynumber: 2.4 Consensus size: 36
4280699 ATCATGAGAT
* * * *
4280709 TCACGCTTCTCATATCTCTCACTCTTCTCGCGTCTC
1 TCACGCTTCTCATACCTCTCACGCTTCTCACGCCTC
* *
4280745 TCTCGCTTCTCATACCTCTCACGCTTCTCATGCCTC
1 TCACGCTTCTCATACCTCTCACGCTTCTCACGCCTC
4280781 TCACGCTTCTCAT
1 TCACGCTTCTCAT
4280794 GCTTTTCCTG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.12, C:0.42, G:0.08, T:0.38
Consensus pattern (36 bp):
TCACGCTTCTCATACCTCTCACGCTTCTCACGCCTC
Found at i:4280794 original size:18 final size:18
Alignment explanation
Indices: 4280709--4280795 Score: 102
Period size: 18 Copynumber: 4.8 Consensus size: 18
4280699 ATCATGAGAT
**
4280709 TCACGCTTCTCATATCTC
1 TCACGCTTCTCATGCCTC
* ** *
4280727 TCACTCTTCTCGCGTCTC
1 TCACGCTTCTCATGCCTC
* *
4280745 TCTCGCTTCTCATACCTC
1 TCACGCTTCTCATGCCTC
4280763 TCACGCTTCTCATGCCTC
1 TCACGCTTCTCATGCCTC
4280781 TCACGCTTCTCATGC
1 TCACGCTTCTCATGC
4280796 TTTTCCTGTC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.11, C:0.43, G:0.09, T:0.37
Consensus pattern (18 bp):
TCACGCTTCTCATGCCTC
Found at i:4280828 original size:21 final size:23
Alignment explanation
Indices: 4280789--4280831 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
4280779 TCTCACGCTT
4280789 CTCATGCTTTTCCTGTCTCTTCTC
1 CTCATGC-TTTCCTGTCTCTTCTC
4280813 CTCATGC-TTCCT-TCTCTTC
1 CTCATGCTTTCCTGTCTCTTC
4280832 CTGCTGCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
24 7 0.37
ACGTcount: A:0.05, C:0.40, G:0.07, T:0.49
Consensus pattern (23 bp):
CTCATGCTTTCCTGTCTCTTCTC
Found at i:4287368 original size:15 final size:15
Alignment explanation
Indices: 4287348--4287389 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
4287338 NNNNNNTATA
4287348 ATTAAAATAAAAAAT
1 ATTAAAATAAAAAAT
*
4287363 ATTAAAATAAAATAT
1 ATTAAAATAAAAAAT
*
4287378 A-TAATATAAAAA
1 ATTAAAATAAAAA
4287390 TAAAAAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATTAAAATAAAAAAT
Found at i:4287375 original size:20 final size:20
Alignment explanation
Indices: 4287350--4287419 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
4287340 NNNNTATAAT
*
4287350 TAAAATAAAAAATATTAAAA
1 TAAAATAAAAAATATAAAAA
* *
4287370 TAAAATATATAATATAAAAA
1 TAAAATAAAAAATATAAAAA
*
4287390 TAAAA-AATCAAAA-ATCAAAA
1 TAAAATAA--AAAATATAAAAA
4287410 TAAAATAAAA
1 TAAAATAAAA
4287420 TATAAGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.07
20 33 0.80
21 5 0.12
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAAATATAAAAA
Found at i:4287424 original size:7 final size:6
Alignment explanation
Indices: 4287351--4287435 Score: 55
Period size: 7 Copynumber: 12.8 Consensus size: 6
4287341 NNNTATAATT
*
4287351 AAAATAA AAAATA TTAAAATA AAATATA TAATATA AAAATAA AAAATCA
1 AAAAT-A AAAATA --AAAATA AAA-ATA -AAAATA AAAAT-A AAAAT-A
* *
4287400 AAAATC AAAAT- AAAATA AAATATA AGAAATT AAAAT
1 AAAATA AAAATA AAAATA AAA-ATA A-AAATA AAAAT
4287436 TTATACAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
5 5 0.08
6 20 0.31
7 30 0.46
8 10 0.15
ACGTcount: A:0.73, C:0.02, G:0.01, T:0.24
Consensus pattern (6 bp):
AAAATA
Found at i:4287433 original size:20 final size:19
Alignment explanation
Indices: 4287347--4287435 Score: 67
Period size: 20 Copynumber: 4.5 Consensus size: 19
4287337 NNNNNNNTAT
*
4287347 AATTAAAATAAAAAATATTAA
1 AATTAAAAT--AAAATATAAA
4287368 AA-TAAAATATATAATATAAA
1 AATTAAAATA-A-AATATAAA
* *
4287388 AATAAAAAATCAAAA-ATCAA
1 AAT-TAAAAT-AAAATATAAA
4287408 AA-TAAAATAAAATATAAGA
1 AATTAAAATAAAATATAA-A
4287427 AATTAAAAT
1 AATTAAAAT
4287436 TTATACAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
17 4 0.07
18 9 0.16
19 4 0.07
20 27 0.49
21 4 0.07
22 6 0.11
23 1 0.02
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (19 bp):
AATTAAAATAAAATATAAA
Found at i:4287840 original size:15 final size:15
Alignment explanation
Indices: 4287820--4287867 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
4287810 TTTTTTCTGC
4287820 AATCACATTACTTGT
1 AATCACATTACTTGT
** *
4287835 AATCACAGCACTTGC
1 AATCACATTACTTGT
* *
4287850 AATCATATTACCTGT
1 AATCACATTACTTGT
4287865 AAT
1 AAT
4287868 TGCATTACGT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.33
Consensus pattern (15 bp):
AATCACATTACTTGT
Found at i:4287976 original size:6 final size:6
Alignment explanation
Indices: 4287965--4288001 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
4287955 TCAAAATAAA
4287965 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT TAAAAT T
4288002 TGAAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:4294042 original size:15 final size:16
Alignment explanation
Indices: 4294024--4294056 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4294014 ACTTGGATTC
4294024 TTTT-CTTATAAAGTT
1 TTTTCCTTATAAAGTT
*
4294039 TTTTCCTTATAAGGTT
1 TTTTCCTTATAAAGTT
4294055 TT
1 TT
4294057 AATGAGGCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (16 bp):
TTTTCCTTATAAAGTT
Found at i:4295681 original size:15 final size:15
Alignment explanation
Indices: 4295656--4295694 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4295646 GGCTGGAGAA
*
4295656 AAAGAAGAAGGCTGAG
1 AAAG-AGAAGGCAGAG
*
4295672 AAGGAGAAGGCAGAG
1 AAAGAGAAGGCAGAG
4295687 AAAGAGAA
1 AAAGAGAA
4295695 AGAGGGTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.54, C:0.05, G:0.38, T:0.03
Consensus pattern (15 bp):
AAAGAGAAGGCAGAG
Found at i:4297751 original size:28 final size:28
Alignment explanation
Indices: 4297720--4297773 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
4297710 ATTTAAGAAA
*
4297720 ATTTAAATAAATTTTTAT-TTTTTATTAC
1 ATTT-AATAAAGTTTTATATTTTTATTAC
*
4297748 ATTTAATCAAGTTTTATATTTTTATT
1 ATTTAATAAAGTTTTATATTTTTATT
4297774 TTAGATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTTAATAAAGTTTTATATTTTTATTAC
Found at i:4306227 original size:73 final size:73
Alignment explanation
Indices: 4306140--4306286 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
4306130 ACTAAAAGTA
4306140 AGAGTTTAGGTGTGATGGTAAAGACATTGTTTTATTTACTAAAGATTTGGGTTCAAATCTTAATA
1 AGAGTTTAGGTGTGATGGTAAAGACATTGTTTTATTTACTAAAGATTTGGGTTCAAATCTTAATA
4306205 AGTGCTGC
66 AGTGCTGC
*
4306213 AGAGTTTAGGTGTGATGGTAAAGACATTGTTTTATTTGCTAAAGATTTGGGTTCAAATCTTAATA
1 AGAGTTTAGGTGTGATGGTAAAGACATTGTTTTATTTACTAAAGATTTGGGTTCAAATCTTAATA
4306278 AGTGCTGC
66 AGTGCTGC
4306286 A
1 A
4306287 TGTCACCTGA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.30, C:0.08, G:0.24, T:0.38
Consensus pattern (73 bp):
AGAGTTTAGGTGTGATGGTAAAGACATTGTTTTATTTACTAAAGATTTGGGTTCAAATCTTAATA
AGTGCTGC
Found at i:4311396 original size:21 final size:20
Alignment explanation
Indices: 4311370--4311408 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
4311360 ATTACACAGC
4311370 CATAGTCGACCTTGGACAAAG
1 CATAGTCGACCTT-GACAAAG
*
4311391 CATAGTCGATCTTGACAA
1 CATAGTCGACCTTGACAA
4311409 GTCAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
CATAGTCGACCTTGACAAAG
Found at i:4311464 original size:72 final size:72
Alignment explanation
Indices: 4311319--4311469 Score: 187
Period size: 72 Copynumber: 2.1 Consensus size: 72
4311309 TTCGAACAGA
* * * * * * *
4311319 CATAGTCGACCTTGACAAGTCAAAGGTAAGGAATATTCAAGATTACACAGCCATAGTCGACCTTG
1 CATAGTCGACCTTGACAAGTCAAAAGAAAGAAAAAGTCAAGATTACACAGCCATAATCGACCTTA
4311384 GACAAAG
66 GACAAAG
* *
4311391 CATAGTCGATCTTGACAAGTCAAAAGAAAGAAAAAGTCAAGATTATACAGCCATAATCGA-CTAT
1 CATAGTCGACCTTGACAAGTCAAAAGAAAGAAAAAGTCAAGATTACACAGCCATAATCGACCT-T
**
4311455 AGAGGAAG
65 AGACAAAG
4311463 CATAGTC
1 CATAGTC
4311470 AACTATAGCA
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
71 2 0.03
72 65 0.97
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.21
Consensus pattern (72 bp):
CATAGTCGACCTTGACAAGTCAAAAGAAAGAAAAAGTCAAGATTACACAGCCATAATCGACCTTA
GACAAAG
Found at i:4322485 original size:32 final size:32
Alignment explanation
Indices: 4322423--4322504 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
4322413 CATAGCATCT
*
4322423 ACATGATGACATGGC-ATGCCATGTGACACTA
1 ACATGATGACATGGCAATGCCACGTGACACTA
*
4322454 ACATGATGACATGGCAATGCCACGTGGCACTA
1 ACATGATGACATGGCAATGCCACGTGACACTA
** * *
4322486 TTACGATGACATGGTAATG
1 ACATGATGACATGGCAATG
4322505 TTGACATGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 15 0.34
32 29 0.66
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (32 bp):
ACATGATGACATGGCAATGCCACGTGACACTA
Found at i:4324113 original size:18 final size:19
Alignment explanation
Indices: 4324072--4324118 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
4324062 CCACGTGACA
4324072 TGCCACATCATCATATAAG
1 TGCCACATCATCATATAAG
*
4324091 TGCCACATTATCA-A-AATG
1 TGCCACATCATCATATAA-G
4324109 TGCCACATCA
1 TGCCACATCA
4324119 GCATTGATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 12 0.48
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.26
Consensus pattern (19 bp):
TGCCACATCATCATATAAG
Found at i:4328910 original size:2 final size:2
Alignment explanation
Indices: 4328905--4328930 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4328895 TGTGTGTGTG
4328905 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
4328931 GTTATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4329824 original size:26 final size:26
Alignment explanation
Indices: 4329792--4329842 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4329782 TGACTTGAAA
4329792 TCTTCTATTGAAGTTGTGTTTCAAAG
1 TCTTCTATTGAAGTTGTGTTTCAAAG
4329818 TCTTCTATTGAAGTTGTGTTTCAAA
1 TCTTCTATTGAAGTTGTGTTTCAAA
4329843 TGTTGTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (26 bp):
TCTTCTATTGAAGTTGTGTTTCAAAG
Found at i:4330200 original size:21 final size:21
Alignment explanation
Indices: 4330115--4330191 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
4330105 AGATGCCATG
*
4330115 CATCTATTGATCGATGAAGAA
1 CATCTATTGATAGATGAAGAA
* * * * **
4330136 AATATCTCGATAGAT-AAGCT
1 CATCTATTGATAGATGAAGAA
*
4330156 TATCTATTGATAGATGAAGAA
1 CATCTATTGATAGATGAAGAA
4330177 CATCTATTGATAGAT
1 CATCTATTGATAGAT
4330192 TGATAACATT
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
20 14 0.34
21 27 0.66
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (21 bp):
CATCTATTGATAGATGAAGAA
Found at i:4337465 original size:29 final size:29
Alignment explanation
Indices: 4337423--4337484 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
4337413 ACATGAGAAA
* *
4337423 TCATTAACTAATATACTACTGTACAACAG
1 TCATTAAATAATATACTACTGTACAACAC
*
4337452 TCATTAAATAATATACTACTTTACAACAC
1 TCATTAAATAATATACTACTGTACAACAC
4337481 TCAT
1 TCAT
4337485 CTTTGCTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.03, T:0.34
Consensus pattern (29 bp):
TCATTAAATAATATACTACTGTACAACAC
Found at i:4340145 original size:2 final size:2
Alignment explanation
Indices: 4340138--4340181 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
4340128 TTTTAGTCCT
4340138 TC TC TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4340179 TC T
1 TC T
4340182 TTCATGAGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4344282 original size:17 final size:17
Alignment explanation
Indices: 4344237--4344270 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4344227 TTATAATTAA
*
4344237 TAATTAATTAATTATTTT
1 TAATTAAAT-ATTATTTT
4344255 TAATTAAATATTATTT
1 TAATTAAATATTATTT
4344271 ATTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAATTAAATATTATTTT
Found at i:4348465 original size:21 final size:21
Alignment explanation
Indices: 4348441--4348482 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4348431 TAGGTTTCAG
4348441 GTATCGATACATATTCATCAA
1 GTATCGATACATATTCATCAA
* *
4348462 GTATCGATACTTGTTCATCAA
1 GTATCGATACATATTCATCAA
4348483 AATCTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (21 bp):
GTATCGATACATATTCATCAA
Found at i:4351729 original size:119 final size:120
Alignment explanation
Indices: 4351554--4351793 Score: 385
Period size: 120 Copynumber: 2.0 Consensus size: 120
4351544 ATTGAGTGTA
* *
4351554 TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTTGTTGATCCC-GGAAAAAACCATT
1 TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTGGTTGATCCCAGAAAAAAACCATT
* *
4351618 GTTGAAGGTTGTAG-CTAAGTCTGTGAAAAGCCATTGTAAAAGCTTGGTGAAAGCT
66 GTTGAAGGTTGT-GTCTAAGCCTGTGAAAAACCATTGTAAAAGCTTGGTGAAAGCT
* *
4351673 TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTGGTTGATCCTAGAAAAAAACTATT
1 TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTGGTTGATCCCAGAAAAAAACCATT
* *
4351738 GTTGAAGGTTGTGTCTGAGCCTGTGAAAAACTATTGTAAAAGCTTGGTGAAAGCT
66 GTTGAAGGTTGTGTCTAAGCCTGTGAAAAACCATTGTAAAAGCTTGGTGAAAGCT
4351793 T
1 T
4351794 GGGAATTTCT
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 50 0.45
120 61 0.55
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (120 bp):
TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTGGTTGATCCCAGAAAAAAACCATT
GTTGAAGGTTGTGTCTAAGCCTGTGAAAAACCATTGTAAAAGCTTGGTGAAAGCT
Found at i:4353292 original size:29 final size:29
Alignment explanation
Indices: 4353247--4353302 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
4353237 TTTTTCTACC
*
4353247 TTAACTTCAATAGAAAAGGTCTCATTTTG
1 TTAACTTCAATAAAAAAGGTCTCATTTTG
* *
4353276 TTAATTTCAATAAAAAAGGTCTTATTT
1 TTAACTTCAATAAAAAAGGTCTCATTT
4353303 AAATATGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
TTAACTTCAATAAAAAAGGTCTCATTTTG
Found at i:4355419 original size:30 final size:30
Alignment explanation
Indices: 4355383--4355445 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4355373 GTTAGTGTGA
*
4355383 GTTTATGGTTGAGCCCGTTAAAAACCATGG
1 GTTTATGGTTGAACCCGTTAAAAACCATGG
**
4355413 GTTTATGGTTGAACTTGTTAAAAACCATGG
1 GTTTATGGTTGAACCCGTTAAAAACCATGG
4355443 GTT
1 GTT
4355446 CACTTGATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (30 bp):
GTTTATGGTTGAACCCGTTAAAAACCATGG
Found at i:4355547 original size:33 final size:34
Alignment explanation
Indices: 4355492--4355585 Score: 118
Period size: 33 Copynumber: 2.8 Consensus size: 34
4355482 GTTGTTTTTC
*
4355492 TAAAAAGCCATTGTGAGGGTTTCACTTGATCCCG
1 TAAAAAGCTATTGTGAGGGTTTCACTTGATCCCG
* * **
4355526 TAAAAAG-TATTGTGAGAGTTTCACATGATGTCG
1 TAAAAAGCTATTGTGAGGGTTTCACTTGATCCCG
* *
4355559 TAAAAAGCTGTTGTAAGGGTTTCACTT
1 TAAAAAGCTATTGTGAGGGTTTCACTT
4355586 ATTCTTGTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 28 0.56
34 22 0.44
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (34 bp):
TAAAAAGCTATTGTGAGGGTTTCACTTGATCCCG
Found at i:4360834 original size:13 final size:13
Alignment explanation
Indices: 4360816--4360842 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4360806 GAGGTCTAAA
4360816 CTCTATAAGTACT
1 CTCTATAAGTACT
4360829 CTCTATAAGTACT
1 CTCTATAAGTACT
4360842 C
1 C
4360843 GAGTAAGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (13 bp):
CTCTATAAGTACT
Found at i:4364248 original size:21 final size:21
Alignment explanation
Indices: 4364224--4364282 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
4364214 TTAGAAAACT
4364224 TGTATTAATACATTATGAATA
1 TGTATTAATACATTATGAATA
** * *
4364245 TGTATCGATACATGAT-CATA
1 TGTATTAATACATTATGAATA
*
4364265 TGTATTAATATATT-TGAA
1 TGTATTAATACATTATGAA
4364283 ATAGAATGTA
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
19 1 0.04
20 14 0.50
21 13 0.46
ACGTcount: A:0.39, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
TGTATTAATACATTATGAATA
Found at i:4371877 original size:60 final size:60
Alignment explanation
Indices: 4371784--4371899 Score: 196
Period size: 60 Copynumber: 1.9 Consensus size: 60
4371774 ATCATTGAAG
*
4371784 TTGGTGGAAATCCTCTTAAGATGAGGTAATCAAACCCAACAATTGCACAATTAAAGCAAA
1 TTGGTGGAAATCCTCTTAAGATGAGGCAATCAAACCCAACAATTGCACAATTAAAGCAAA
* * *
4371844 TTGGTGGAAATCCTCTTGAGATGAGGCAATCAAACCTAACAATTGCACAGTTAAAG
1 TTGGTGGAAATCCTCTTAAGATGAGGCAATCAAACCCAACAATTGCACAATTAAAG
4371900 TAACTAAGCG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (60 bp):
TTGGTGGAAATCCTCTTAAGATGAGGCAATCAAACCCAACAATTGCACAATTAAAGCAAA
Found at i:4377506 original size:45 final size:45
Alignment explanation
Indices: 4377441--4377527 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
4377431 TTAGCAACAA
*
4377441 TATTTCCTGTTTCCTGCAGCCTTCTCTTAACCCAGTAGGTTCTAG
1 TATTTCCTGTTTCCTGCAGCCTTCTCGTAACCCAGTAGGTTCTAG
* *
4377486 TATTTCCTGTTTCCTTCAGCCTTCTCGTAACCCATTAGGTTC
1 TATTTCCTGTTTCCTGCAGCCTTCTCGTAACCCAGTAGGTTC
4377528 AACCTCTAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.15, C:0.30, G:0.14, T:0.41
Consensus pattern (45 bp):
TATTTCCTGTTTCCTGCAGCCTTCTCGTAACCCAGTAGGTTCTAG
Found at i:4406557 original size:252 final size:251
Alignment explanation
Indices: 4406075--4406645 Score: 709
Period size: 250 Copynumber: 2.3 Consensus size: 251
4406065 GCTTAGCTAG
* *
4406075 TTAAAAAACCTTGACGTAAAGTTG-AAAGAATTAAAGTAAAAAATAATAAAGGTGGAATAAGCAT
1 TTAAAAAACCTTGACGTAAATTTGTAAA-AATTAAAGTAAAAAATTATAAAGGTGGAATAAGCAT
* * * ** * * * * * *
4406139 TTTTAGAATATTGACATAAACATGTGAGATTTAATGTAACCAGTCATTTATGTAGAATAAACATA
65 TGTCAAAATATAAACATAAACATGTGAAATTTAACGTAACAAATCAATTAAGTAGAATAAACATA
* * *
4406204 TTTTTTAAAAAATTAAACATTTAAATTTATATTCTCGAGTGTAAAGTGTTTACAGTTTATAAATT
130 TTTTTTAAAAAATTAAACATTTAAATTTATATTCTCGAGTGTAAAGTATTTAAAGTTTACAAATT
* * **
4406269 TTAATTTATAAATGAATAATAGTAAGGATAAAAATAATTACAGTG-AAAAATAGTGG
195 TTAATCTATAAATGAATAATAGTAAGAATAAAAATAATTACAGTGCAAAAATAGTAA
* * * * * * *
4406325 TTGAAAAACCTTGACGTTAATTTGTAACAATTAACGTAAAAACTTCTAAAGGTGGAACAAGCATT
1 TTAAAAAACCTTGACGTAAATTTGTAAAAATTAAAGTAAAAAATTATAAAGGTGGAATAAGCATT
* *
4406390 GTCAAAATATAAACGTAAACGTGTGAAATTTAACGTAACAAATCAATTAAGTCA-AATAAACATA
66 GTCAAAATATAAACATAAACATGTGAAATTTAACGTAACAAATCAATTAAGT-AGAATAAACAT-
* * *
4406454 ATTTTTTTAAAAATTAAACATTTAAATTTATATTTTCGAGTTTAAAGTATTTAAACGTTTACAAA
129 ATTTTTTAAAAAATTAAACATTTAAATTTATATTCTCGAGTGTAAAGTATTTAAA-GTTTACAAA
** *
4406519 TTTTAATCTATAAATGAATGGTAGTAAGAATAAAAATAATTATAGTGCAAAAATAGTAA
193 TTTTAATCTATAAATGAATAATAGTAAGAATAAAAATAATTACAGTGCAAAAATAGTAA
* * * * *
4406578 TTAAAAAACCTTAACGTAAATATATAAAAATTAATG-AAACAAATTATAAAGGTCGAATAAGCAT
1 TTAAAAAACCTTGACGTAAATTTGTAAAAATTAAAGTAAA-AAATTATAAAGGTGGAATAAGCAT
4406642 TGTC
65 TGTC
4406646 GAAAGAATGA
Statistics
Matches: 269, Mismatches: 46, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
250 101 0.38
251 53 0.20
252 53 0.20
253 62 0.23
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (251 bp):
TTAAAAAACCTTGACGTAAATTTGTAAAAATTAAAGTAAAAAATTATAAAGGTGGAATAAGCATT
GTCAAAATATAAACATAAACATGTGAAATTTAACGTAACAAATCAATTAAGTAGAATAAACATAT
TTTTTAAAAAATTAAACATTTAAATTTATATTCTCGAGTGTAAAGTATTTAAAGTTTACAAATTT
TAATCTATAAATGAATAATAGTAAGAATAAAAATAATTACAGTGCAAAAATAGTAA
Found at i:4407393 original size:16 final size:16
Alignment explanation
Indices: 4407372--4407407 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
4407362 GAAAGCAAAA
4407372 TTTAGATTTTGATTCT
1 TTTAGATTTTGATTCT
*
4407388 TTTAGATTTTGATTTT
1 TTTAGATTTTGATTCT
4407404 TTTA
1 TTTA
4407408 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (16 bp):
TTTAGATTTTGATTCT
Found at i:4408804 original size:68 final size:68
Alignment explanation
Indices: 4408641--4408973 Score: 275
Period size: 68 Copynumber: 5.0 Consensus size: 68
4408631 ATGCATGTTG
* * * * * * *
4408641 GCATAATGAATGCCATAAGATTATGTATATAATGTAAA-TCTCGTATACTATATGAGATGATCAA
1 GCATGATGAATGCCATGAGAATATGTATATGATGTAAATTCT-ATATACCATATGAGATGATTAA
*
4408705 GTAC
65 GTAT
* * * ** * *
4408709 GCATGATGTATACTAT-AGGCTGGTGTATATGATGTAAATTCTATATACCATATGAGGTGATTAA
1 GCATGATGAATGCCATGAGAAT-ATGTATATGATGTAAATTCTATATACCATATGAGATGATTAA
4408773 GTAT
65 GTAT
* * *
4408777 GCATGATGAATGCCATGAGAATATGTATATGATGTATATTCCATATA-C-TACCGAGATGATTAA
1 GCATGATGAATGCCATGAGAATATGTATATGATGTAAATTCTATATACCATA-TGAGATGATTAA
4408840 GTAT
65 GTAT
* * * * * * * * *
4408844 GCATGATTAATGCCATGAGAATATATATATGATGTATATTCCATGTACTACATGAAATGATTGAG
1 GCATGATGAATGCCATGAGAATATGTATATGATGTAAATTCTATATACCATATGAGATGATTAAG
* *
4408909 CAA
66 TAT
* * * * * *
4408912 GCAT-A--AATGCCATTAGATTATGTATATGATGTAAGTTTTATATACCTTATGAGATGAGTAAG
1 GCATGATGAATGCCATGAGAATATGTATATGATGTAAATTCTATATACCATATGAGATGATTAAG
4408974 CATGTATGTG
Statistics
Matches: 212, Mismatches: 47, Indels: 15
0.77 0.17 0.05
Matches are distributed among these distances:
65 43 0.20
66 2 0.01
67 63 0.30
68 97 0.46
69 7 0.03
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (68 bp):
GCATGATGAATGCCATGAGAATATGTATATGATGTAAATTCTATATACCATATGAGATGATTAAG
TAT
Found at i:4408856 original size:67 final size:66
Alignment explanation
Indices: 4408732--4408944 Score: 252
Period size: 67 Copynumber: 3.2 Consensus size: 66
4408722 TATAGGCTGG
* * *
4408732 TGTATATGATGTAAATTCTATATACCATA-TGAGGTGATTAAGTATGCATGATGAATGCCATGAG
1 TGTATATGATGTATATTCCATATA-C-TACTGAGATGATTAAGTATGCATGAT-AATGCCATGAG
4408796 AATA
63 AATA
*
4408800 TGTATATGATGTATATTCCATATACTACCGAGATGATTAAGTATGCATGATTAATGCCATGAGAA
1 TGTATATGATGTATATTCCATATACTACTGAGATGATTAAGTATGCATGA-TAATGCCATGAGAA
4408865 TA
65 TA
* * * * * * * *
4408867 TATATATGATGTATATTCCATGTACTACATGAAATGATTGAGCAAGCAT-A-AATGCCATTAGAT
1 TGTATATGATGTATATTCCATATACTAC-TGAGATGATTAAGTATGCATGATAATGCCATGAGAA
4408930 TA
65 TA
4408932 TGTATATGATGTA
1 TGTATATGATGTA
4408945 AGTTTTATAT
Statistics
Matches: 128, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
65 25 0.20
66 2 0.02
67 63 0.49
68 38 0.30
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (66 bp):
TGTATATGATGTATATTCCATATACTACTGAGATGATTAAGTATGCATGATAATGCCATGAGAAT
A
Found at i:4412375 original size:35 final size:37
Alignment explanation
Indices: 4412305--4412377 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 37
4412295 TATCCCATGT
*
4412305 TCATTGATTTTCATACATGAACTTGCTATTTTATTGC
1 TCATTGATTTTCATACATGAACTTGCTATTATATTGC
* *
4412342 TCATTGATTTT-AT-GATGAACTTGGT-TATATATTGC
1 TCATTGATTTTCATACATGAACTTGCTAT-TATATTGC
4412377 T
1 T
4412378 GACGACTTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 1 0.03
35 18 0.56
36 2 0.06
37 11 0.34
ACGTcount: A:0.25, C:0.12, G:0.14, T:0.49
Consensus pattern (37 bp):
TCATTGATTTTCATACATGAACTTGCTATTATATTGC
Found at i:4412702 original size:60 final size:60
Alignment explanation
Indices: 4412576--4412745 Score: 164
Period size: 60 Copynumber: 2.8 Consensus size: 60
4412566 TAAAGAGGAC
* * * *
4412576 CTGAAGCCTCGACTTATATTTGGAGGCGTGAGGAGTTCCCACGAGTAGGTAAAGGGGGAT
1 CTGAAGCCTCGACTCATATTTGGAGGCATGAGGAGTTCCCACGAGTAGGTAAAAGGGAAT
* * * * *
4412636 CCGAAGCCTCGACTCATATTTGGTGGCATGGGGAGTTTCCACTAGTAGGTAAAAGGGAA-
1 CTGAAGCCTCGACTCATATTTGGAGGCATGAGGAGTTCCCACGAGTAGGTAAAAGGGAAT
* * * * ** *
4412695 CTTGAAGCC-CTAAGTTATATTTGGTGGTGTGAAGAGTTCCCACGAGTAGGT
1 C-TGAAGCCTC-GACTCATATTTGGAGGCATGAGGAGTTCCCACGAGTAGGT
4412746 GTTGATGTTA
Statistics
Matches: 89, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
59 2 0.02
60 87 0.98
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (60 bp):
CTGAAGCCTCGACTCATATTTGGAGGCATGAGGAGTTCCCACGAGTAGGTAAAAGGGAAT
Found at i:4413227 original size:11 final size:10
Alignment explanation
Indices: 4413206--4413259 Score: 58
Period size: 11 Copynumber: 5.3 Consensus size: 10
4413196 TGATGATGTT
4413206 TAATAGTAAAA
1 TAATA-TAAAA
4413217 TAATATAAAA
1 TAATATAAAA
4413227 -AA-ATAAAA
1 TAATATAAAA
*
4413235 TAACATTAAAA
1 TAATA-TAAAA
4413246 TAATATTAAAA
1 TAATA-TAAAA
4413257 TAA
1 TAA
4413260 GGAAAAGATC
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
8 6 0.15
9 4 0.10
10 6 0.15
11 23 0.59
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAATATAAAA
Found at i:4413245 original size:18 final size:19
Alignment explanation
Indices: 4413207--4413250 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
4413197 GATGATGTTT
* *
4413207 AATAGTAAAATAATATAAA
1 AATAATAAAATAACATAAA
*
4413226 AA-AATAAAATAACATTAA
1 AATAATAAAATAACATAAA
4413244 AATAATA
1 AATAATA
4413251 TTAAAATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (19 bp):
AATAATAAAATAACATAAA
Found at i:4416407 original size:3 final size:3
Alignment explanation
Indices: 4416399--4416437 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
4416389 TAGATACATA
*
4416399 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4416438 GTTTTTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4416445 original size:11 final size:12
Alignment explanation
Indices: 4416399--4416447 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
4416389 TAGATACATA
*
4416399 TATTATTATTAT
1 TATTGTTATTAT
*
4416411 TATTATTATTAT
1 TATTGTTATTAT
4416423 TATTGTTATTAT
1 TATTGTTATTAT
*
4416435 TA-TGTTTTTAT
1 TATTGTTATTAT
4416446 TA
1 TA
4416448 AAAGCTCTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
11 10 0.29
12 25 0.71
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TATTGTTATTAT
Found at i:4417089 original size:17 final size:17
Alignment explanation
Indices: 4417069--4417111 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
4417059 AAAATAAAAA
4417069 TAAAAATTAAATAACTT
1 TAAAAATTAAATAACTT
* * *
4417086 TAAAAAATATATAAGTT
1 TAAAAATTAAATAACTT
4417103 TAAAAATTA
1 TAAAAATTA
4417112 CCTATGTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAAATTAAATAACTT
Found at i:4419958 original size:17 final size:17
Alignment explanation
Indices: 4419936--4419969 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4419926 CATGTTCCTT
4419936 AATAATATAGATTTTTA
1 AATAATATAGATTTTTA
*
4419953 AATAATATATATTTTTA
1 AATAATATAGATTTTTA
4419970 TATTGATTTA
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
AATAATATAGATTTTTA
Found at i:4420047 original size:14 final size:16
Alignment explanation
Indices: 4420028--4420061 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4420018 TTTATTTAGT
4420028 TTAAAA-TC-TAAAAA
1 TTAAAACTCATAAAAA
4420042 TTAAAACTCATAAAAA
1 TTAAAACTCATAAAAA
4420058 TTAA
1 TTAA
4420062 TTTTTCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 2 0.11
16 10 0.56
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
TTAAAACTCATAAAAA
Found at i:4420192 original size:12 final size:12
Alignment explanation
Indices: 4420177--4420240 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 12
4420167 TCATAAAATA
4420177 TATATAATATAT
1 TATATAATATAT
4420189 TATATAATATAT
1 TATATAATATAT
* *
4420201 TATTTATATGTAAT
1 TATATA-ATAT-AT
4420215 TAAATATAATATAAT
1 T--ATATAATAT-AT
4420230 TATA-AATATAT
1 TATATAATATAT
4420241 ATTAATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
11 2 0.05
12 22 0.50
13 6 0.14
14 3 0.07
15 7 0.16
16 4 0.09
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
TATATAATATAT
Found at i:4422585 original size:22 final size:22
Alignment explanation
Indices: 4422559--4422613 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
4422549 TGTCATGTTG
4422559 TTACACGCCATGCTCAAAAATGA
1 TTACACGCCATGCTCAAAAAT-A
4422582 -TACACGCCATGCTCAAAAATA
1 TTACACGCCATGCTCAAAAATA
4422603 TTACACGCCAT
1 TTACACGCCAT
4422614 CTACTTTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (22 bp):
TTACACGCCATGCTCAAAAATA
Found at i:4426163 original size:23 final size:23
Alignment explanation
Indices: 4426131--4426577 Score: 327
Period size: 23 Copynumber: 19.4 Consensus size: 23
4426121 TAATCAAGGT
* * * *
4426131 TGACATGCCATGCTCGAATGCGG
1 TGACACGCCATGCCCCAATGGGG
* * *
4426154 TGACACGCCATGTCCTAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* *
4426177 TGACACGCCATGCCCCAGTTGGG
1 TGACACGCCATGCCCCAATGGGG
* *
4426200 TGACAAGCCATGCCCCAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* *
4426223 TGACACGTCATCCCCCAATGGGG
1 TGACACGCCATGCCCCAATGGGG
* ** * *
4426246 TGACAAGCCATGCCTGAATGCGA
1 TGACACGCCATGCCCCAATGGGG
*
4426269 TGACACGACATGCCCCAATGGGG
1 TGACACGCCATGCCCCAATGGGG
* * *
4426292 TGACAAGCCATGCCCTAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* * * *
4426315 TGACACACCATGCCCTAGTGCGG
1 TGACACGCCATGCCCCAATGGGG
* * * *
4426338 TGACCCGACATGCCCTAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* * * * * *
4426361 TGACAAGCGACGCCCTAGTGGAG
1 TGACACGCCATGCCCCAATGGGG
* *
4426384 TGACACGGCATGCCCCAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* * * * *
4426407 TGACATGCCACGTCCCAGTCGGG
1 TGACACGCCATGCCCCAATGGGG
* * * *
4426430 TGACAAGCTATGCCCTAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* * * *
4426453 TGACACGACATACCCCATTAGGG
1 TGACACGCCATGCCCCAATGGGG
* * *
4426476 TGACACGACATGCCCTAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
* * *
4426499 TGACACGCCATGCCCGATTGCGG
1 TGACACGCCATGCCCCAATGGGG
* * **
4426522 TGACACGCCATGTCCGAATGCAG
1 TGACACGCCATGCCCCAATGGGG
* *
4426545 TGACACGACATGCCCCAGTGGGG
1 TGACACGCCATGCCCCAATGGGG
4426568 TGACACGCCA
1 TGACACGCCA
4426578 CGTGGTTGTA
Statistics
Matches: 337, Mismatches: 87, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 337 1.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (23 bp):
TGACACGCCATGCCCCAATGGGG
Found at i:4426202 original size:46 final size:46
Alignment explanation
Indices: 4426152--4426577 Score: 394
Period size: 46 Copynumber: 9.3 Consensus size: 46
4426142 GCTCGAATGC
*
4426152 GGTGACACGCCATGTCCTAGTGGGGTGACACGCCATGCCCCAGTTG
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * * * *
4426198 GGTGACAAGCCATGCCCCAGTGGGGTGACACGTCATCCCCCAATGG
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * * * * *
4426244 GGTGACAAGCCATG-CCTGAATGCGATGACACGACATGCCCCAATGG
1 GGTGACACGCCATGCCCT-AGTGGGGTGACACGCCATGCCCCAGTTG
* * *
4426290 GGTGACAAGCCATGCCCTAGTGGGGTGACACACCATGCCCTAG-TG
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * * * *
4426335 CGGTGACCCGACATGCCCTAGTGGGGTGACAAGCGACGCCCTAG-TG
1 -GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * * * *
4426381 GAGTGACACGGCATGCCCCAGTGGGGTGACATGCCACGTCCCAGTCG
1 G-GTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * *
4426428 GGTGACAAGCTATGCCCTAGTGGGGTGACACGACATACCCCA-TTAG
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTT-G
* *
4426474 GGTGACACGACATGCCCTAGTGGGGTGACACGCCATGCCCGA-TTG
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
* * * ** * *
4426519 CGGTGACACGCCATGTCCGAATGCAGTGACACGACATGCCCCAGTGG
1 -GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
4426566 GGTGACACGCCA
1 GGTGACACGCCA
4426578 CGTGGTTGTA
Statistics
Matches: 311, Mismatches: 61, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
45 6 0.02
46 298 0.96
47 7 0.02
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.16
Consensus pattern (46 bp):
GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTTG
Found at i:4426573 original size:69 final size:69
Alignment explanation
Indices: 4426152--4426577 Score: 433
Period size: 69 Copynumber: 6.2 Consensus size: 69
4426142 GCTCGAATGC
* * * *
4426152 GGTGACACGCCATGTCCTAGTGGGGTGACACGCCATGCCCCAGTTG-GGTGACAAGCCATGCCCC
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCA-ATGCGGTGACACGACATGCCCC
4426216 AGTGG
65 AGTGG
* * * * * ** *
4426221 GGTGACACGTCATCCCCCAATGGGGTGACAAGCCATGCCTGAATGCGATGACACGACATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAATGCGGTGACACGACATGCCCCA
*
4426286 ATGG
66 GTGG
* * * * * *
4426290 GGTGACAAGCCATGCCCTAGTGGGGTGACACACCATGCCCTAGTGCGGTGACCCGACATGCCCTA
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAATGCGGTGACACGACATGCCCCA
4426355 GTGG
66 GTGG
* * * * * * * * * * *
4426359 GGTGACAAGCGACGCCCTAGTGGAGTGACACGGCATGCCCCAGTGGGGTGACATGCCACGTCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAATGCGGTGACACGACATGCCCCA
*
4426424 GTCG
66 GTGG
* * * * * *
4426428 GGTGACAAGCTATGCCCTAGTGGGGTGACACGACATACCCCATTAG-GGTGACACGACATGCCCT
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAAT-GCGGTGACACGACATGCCCC
4426492 AGTGG
65 AGTGG
* * * * * *
4426497 GGTGACACGCCATGCCCGATTGCGGTGACACGCCATGTCCGAATGCAGTGACACGACATGCCCCA
1 GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAATGCGGTGACACGACATGCCCCA
4426562 GTGG
66 GTGG
4426566 GGTGACACGCCA
1 GGTGACACGCCA
4426578 CGTGGTTGTA
Statistics
Matches: 289, Mismatches: 65, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
68 3 0.01
69 285 0.99
70 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.16
Consensus pattern (69 bp):
GGTGACACGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAATGCGGTGACACGACATGCCCCA
GTGG
Found at i:4430248 original size:31 final size:31
Alignment explanation
Indices: 4430210--4430415 Score: 263
Period size: 31 Copynumber: 6.7 Consensus size: 31
4430200 AACATGGCAC
* *
4430210 AAATGTGGTTACACGTCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
4430241 AAATGTGGTGACACGCCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* * *
4430272 AAAGGTGGTGAC-CTCCATGCATAGCAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* *
4430302 AAATGTGGTCACAAGCCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* *
4430333 AAATGTGGTCACACACCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* * *
4430364 TAATGTCGTGACACGCCATGCATATCAAGTCA
1 AAATGTGGTGACACGCCATGCATAACAAGT-A
* *
4430396 AAA-GTCGTGACACGACATGC
1 AAATGTGGTGACACGCCATGC
4430416 TGACGCGAAA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
30 26 0.17
31 125 0.81
32 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (31 bp):
AAATGTGGTGACACGCCATGCATAACAAGTA
Found at i:4430321 original size:61 final size:62
Alignment explanation
Indices: 4430226--4430399 Score: 251
Period size: 61 Copynumber: 2.8 Consensus size: 62
4430216 GGTTACACGT
* *
4430226 CATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGTAAAAGGTGGTGAC-CTC
1 CATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGTAAAAGGTGGTCACACAC
* * * *
4430287 CATGCATAGCAAGTAAAATGTGGTCACAAGCCATGCATAACAAGTAAAATGTGGTCACACAC
1 CATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGTAAAAGGTGGTCACACAC
* * *
4430349 CATGCATAACAAGTATAATGTCGTGACACGCCATGCATATCAAGTCAAAAG
1 CATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGT-AAAAG
4430400 TCGTGACACG
Statistics
Matches: 98, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
61 53 0.54
62 41 0.42
63 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (62 bp):
CATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGTAAAAGGTGGTCACACAC
Found at i:4430375 original size:92 final size:94
Alignment explanation
Indices: 4430210--4430398 Score: 274
Period size: 92 Copynumber: 2.0 Consensus size: 94
4430200 AACATGGCAC
* * * * *
4430210 AAATGTGGTTACACGTCATGCATAACAAGTAAAATGTGGTGACACGCCATGCATAACAAGTAAAA
1 AAATGTGGTCACAAGCCATGCATAACAAGTAAAATGTGGTCACACACCATGCATAACAAGTAAAA
* *
4430275 GGTGGTGAC-CTCCATGCATAGCAAGT-A
66 GGTCGTGACACGCCATGCATAGCAAGTCA
*
4430302 AAATGTGGTCACAAGCCATGCATAACAAGTAAAATGTGGTCACACACCATGCATAACAAGTATAA
1 AAATGTGGTCACAAGCCATGCATAACAAGTAAAATGTGGTCACACACCATGCATAACAAGTAAAA
* *
4430367 TGTCGTGACACGCCATGCATATCAAGTCA
66 GGTCGTGACACGCCATGCATAGCAAGTCA
4430396 AAA
1 AAA
4430399 GTCGTGACAC
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 66 0.78
93 15 0.18
94 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (94 bp):
AAATGTGGTCACAAGCCATGCATAACAAGTAAAATGTGGTCACACACCATGCATAACAAGTAAAA
GGTCGTGACACGCCATGCATAGCAAGTCA
Found at i:4431087 original size:46 final size:46
Alignment explanation
Indices: 4431037--4431145 Score: 159
Period size: 46 Copynumber: 2.4 Consensus size: 46
4431027 GCTCGAATGC
*
4431037 GGTGACACA-CCATGTCCC-AGTGGGGTGACACGCCATGCCCCAGTTG
1 GGTGACA-AGCCATG-CCCTAGTGGGGTGACACGCCATGCCCCAGTGG
*
4431083 GGTGACAAGCCATGCCCTAGTGGGGTGACACGTCATGCCCCAGTGG
1 GGTGACAAGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTGG
*
4431129 GGTGACAAGCCACGCCC
1 GGTGACAAGCCATGCCC
4431146 GANNNNNNNN
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
45 4 0.07
46 54 0.93
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (46 bp):
GGTGACAAGCCATGCCCTAGTGGGGTGACACGCCATGCCCCAGTGG
Found at i:4431145 original size:23 final size:23
Alignment explanation
Indices: 4431037--4431145 Score: 139
Period size: 23 Copynumber: 4.7 Consensus size: 23
4431027 GCTCGAATGC
*
4431037 GGTGACACA-CCATGTCCCAGTGG
1 GGTGACA-AGCCATGCCCCAGTGG
* *
4431060 GGTGACACGCCATGCCCCAGTTG
1 GGTGACAAGCCATGCCCCAGTGG
*
4431083 GGTGACAAGCCATGCCCTAGTGG
1 GGTGACAAGCCATGCCCCAGTGG
* *
4431106 GGTGACACGTCATGCCCCAGTGG
1 GGTGACAAGCCATGCCCCAGTGG
*
4431129 GGTGACAAGCCACGCCC
1 GGTGACAAGCCATGCCC
4431146 GANNNNNNNN
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.16
Consensus pattern (23 bp):
GGTGACAAGCCATGCCCCAGTGG
Found at i:4435551 original size:17 final size:17
Alignment explanation
Indices: 4435531--4435571 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
4435521 GAAAAAAAAA
4435531 TAAAAATTAAATAACTT
1 TAAAAATTAAATAACTT
* * *
4435548 TAAAAAATAGATAAGTT
1 TAAAAATTAAATAACTT
4435565 TAAAAAT
1 TAAAAAT
4435572 GACCTATGTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (17 bp):
TAAAAATTAAATAACTT
Found at i:4439163 original size:20 final size:20
Alignment explanation
Indices: 4439138--4439180 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4439128 TAAAAGTGAA
4439138 AATCAAGAGGAATATTAAGG
1 AATCAAGAGGAATATTAAGG
4439158 AATCAAGAGGAATATTAAGG
1 AATCAAGAGGAATATTAAGG
4439178 AAT
1 AAT
4439181 TACTCTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (20 bp):
AATCAAGAGGAATATTAAGG
Found at i:4452865 original size:47 final size:47
Alignment explanation
Indices: 4452671--4453217 Score: 349
Period size: 47 Copynumber: 11.7 Consensus size: 47
4452661 TGTGACAAGG
* * * * * *
4452671 CTGTGACACAGTAGGGTTCAGAGTTTGGTGACACGCCATGGAAGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTT-GTGACACACCATGGAGGGAAT
* * * * **
4452719 CTCTGACAC-TCTA-GAGTTTAGAATTTATGACACGGCATGGAGGGAAT
1 CTGTGACACGGC-AGGA-TTTAGAGTTTGTGACACACCATGGAGGGAAT
* *** *
4452766 CTGTGACACGTCA-GAGTTTAGAG-TT-TGACATGGCATGGATGGAAT
1 CTGTGACACGGCAGGA-TTTAGAGTTTGTGACACACCATGGAGGGAAT
* * *
4452811 TTGTGACACGGCAGTATTTAGAGTTTGGGACACACCATGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
** * * *
4452858 CTGTGACACAACAGGGTTCAGGGTTTGTGACACACCATGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
** * * * * **
4452905 CTGTGACATAGCAGGGTTCAGGGTTTGTGACGCGGCATGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
* * * * *
4452952 CTGTGACACGTCA-GAGTTTAGAG-TT-TGAAATAGCATGGATGGAAT
1 CTGTGACACGGCAGGA-TTTAGAGTTTGTGACACACCATGGAGGGAAT
* * * *
4452997 CTGTGACACGACAGTATTCAGAGTTTGTGACACACCACGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
* * ** * * * *
4453044 TTATGACATTGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
* ** * * * *
4453091 CTATGACATAGCAGGGTTCAGGGTTTGTGACACACTATGGAGGGAAT
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
* * * **
4453138 CTGAGACAC-GCTAGTG-TTTAGAGTTGGTGATATGCCATGGAGGGAAT
1 CTGTGACACGGC-AG-GATTTAGAGTTTGTGACACACCATGGAGGGAAT
* * * * * *
4453185 TTGTGACATGTCAGCATTTAGGGTTTGTCACAC
1 CTGTGACACGGCAGGATTTAGAGTTTGTGACAC
4453218 GGCAGCGTTC
Statistics
Matches: 398, Mismatches: 87, Indels: 29
0.77 0.17 0.06
Matches are distributed among these distances:
45 69 0.17
46 13 0.03
47 295 0.74
48 21 0.05
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (47 bp):
CTGTGACACGGCAGGATTTAGAGTTTGTGACACACCATGGAGGGAAT
Found at i:4452866 original size:23 final size:23
Alignment explanation
Indices: 4452839--4452912 Score: 80
Period size: 23 Copynumber: 3.2 Consensus size: 23
4452829 TAGAGTTTGG
4452839 GACACACCATGGAGGGAATCTGT
1 GACACACCATGGAGGGAATCTGT
* * *
4452862 GACACAACAGGGTTCAGGG--TTTGT
1 GACACACCATGG---AGGGAATCTGT
4452886 GACACACCATGGAGGGAATCTGT
1 GACACACCATGGAGGGAATCTGT
4452909 GACA
1 GACA
4452913 TAGCAGGGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
21 4 0.10
23 18 0.45
24 14 0.35
26 4 0.10
ACGTcount: A:0.30, C:0.20, G:0.31, T:0.19
Consensus pattern (23 bp):
GACACACCATGGAGGGAATCTGT
Found at i:4452888 original size:24 final size:24
Alignment explanation
Indices: 4452859--4452935 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
4452849 GGAGGGAATC
4452859 TGTGACACAACAGGGTTCAGGGTT
1 TGTGACACAACAGGGTTCAGGGTT
* * *
4452883 TGTGACACACCATGG---AGGGAATC
1 TGTGACACAACAGGGTTCAGGG--TT
* *
4452906 TGTGACATAGCAGGGTTCAGGGTT
1 TGTGACACAACAGGGTTCAGGGTT
4452930 TGTGAC
1 TGTGAC
4452936 GCGGCATGGA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
21 4 0.10
23 13 0.32
24 20 0.49
26 4 0.10
ACGTcount: A:0.25, C:0.17, G:0.34, T:0.25
Consensus pattern (24 bp):
TGTGACACAACAGGGTTCAGGGTT
Found at i:4452889 original size:139 final size:140
Alignment explanation
Indices: 4452671--4453193 Score: 430
Period size: 139 Copynumber: 3.7 Consensus size: 140
4452661 TGTGACAAGG
* * * * * * *
4452671 CTGTGACACAGTAGGGTTCAGAGTTTGGTGACACGCCATGGAAGGAATCTCTGACACTCTAGAGT
1 CTGTGACACGGCAGAGTTTAGAGTTTGG-GACACACCATGGAAGGAATCTGTGACACAC-AGAGT
* * * ** * * *
4452736 TTAGAATTTATGACACGGCATGGAGGGAATCTGTGACA-CGTCAGAGTTTAGAG-TT-TGACATG
64 TCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACATAG-CAGAGTTCAGAGTTTGTGACACG
*
4452798 GCATGGATGGAAT
128 GCATGGAGGGAAT
* * *
4452811 TTGTGACACGGCAGTA-TTTAGAGTTTGGGACACACCATGGAGGGAATCTGTGACACAACAGGGT
1 CTGTGACACGGCAG-AGTTTAGAGTTTGGGACACACCATGGAAGGAATCTGTGACAC-ACAGAGT
* * * *
4452875 TCAGGGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGGGTTCAGGGTTTGTGACGCGG
64 TCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGAGTTCAGAGTTTGTGACACGG
4452940 CATGGAGGGAAT
129 CATGGAGGGAAT
* * * * *
4452952 CTGTGACACGTCAGAGTTTAGAGTTT--GAAATAGCATGGATGGAATCTGTGACACGACAGTA-T
1 CTGTGACACGGCAGAGTTTAGAGTTTGGGACACACCATGGAAGGAATCTGTGACAC-ACAG-AGT
* * * * * * * **
4453014 TCAGAGTTTGTGACACACCACGGAGGGAATTTATGACATTGTAGGGTTCAGGGTTTGTGACACAC
64 TCAGAGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGAGTTCAGAGTTTGTGACACGG
4453079 CATGGAGGGAAT
129 CATGGAGGGAAT
* ** * * * * * * * * *
4453091 CTATGACATAGCAGGGTTCAGGGTTTGTGACACACTATGGAGGGAATCTGAGACACGCTAGTGTT
1 CTGTGACACGGCAGAGTTTAGAGTTTGGGACACACCATGGAAGGAATCTGTGACACAC-AGAGTT
* * * ** *
4453156 TAGAGTTGGTGATATGCCATGGAGGGAATTTGTGACAT
65 CAGAGTTTGTGACACACCATGGAGGGAATCTGTGACAT
4453194 GTCAGCATTT
Statistics
Matches: 310, Mismatches: 62, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
139 186 0.60
140 28 0.09
141 96 0.31
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (140 bp):
CTGTGACACGGCAGAGTTTAGAGTTTGGGACACACCATGGAAGGAATCTGTGACACACAGAGTTC
AGAGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGAGTTCAGAGTTTGTGACACGGCA
TGGAGGGAAT
Found at i:4452927 original size:26 final size:26
Alignment explanation
Indices: 4452851--4452927 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 26
4452841 CACACCATGG
4452851 AGGGAATCTGTGACACAACAGGGTTC
1 AGGGAATCTGTGACACAACAGGGTTC
* * *
4452877 AGGG--TTTGTGACACACCATGG---
1 AGGGAATCTGTGACACAACAGGGTTC
* *
4452898 AGGGAATCTGTGACATAGCAGGGTTC
1 AGGGAATCTGTGACACAACAGGGTTC
4452924 AGGG
1 AGGG
4452928 TTTGTGACGC
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
21 4 0.10
23 13 0.33
24 14 0.36
26 8 0.21
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.21
Consensus pattern (26 bp):
AGGGAATCTGTGACACAACAGGGTTC
Found at i:4452990 original size:186 final size:185
Alignment explanation
Indices: 4452671--4453211 Score: 676
Period size: 186 Copynumber: 2.9 Consensus size: 185
4452661 TGTGACAAGG
* * * * *
4452671 CTGTGACACAGTAGGGTTCAGAGTTTGGTGACACGCCATGGAAGGAATCTCTGACACT--CTAGA
1 CTGTGACACAGTAGGGTTCAGGGTTT-GTGACACACCATGGAGGGAATCTATGACA-TAGC-AGG
* ** * *
4452734 GTTTAGAATTTATGACACGGCATGGAGGGAATCTGTGACACGTCAGAGTTTAGAGTTTGACATGG
63 GTTCAGGGTTTGTGACACGGCATGGAGGGAATCTGTGACACGTCAGAGTTTAGAGTTTGAAAT-G
* *
4452799 CATGGATGGAATTTGTGACACGGCAGTATTTAGAGTTTGGGACACACCATGGAGGGAAT
127 CATGGATGGAATTTGTGACACGACAGTATTTAGAGTTTGGGACACACCACGGAGGGAAT
** *
4452858 CTGTGACACAACAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGGGTT
1 CTGTGACACAGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTATGACATAGCAGGGTT
*
4452923 CAGGGTTTGTGACGCGGCATGGAGGGAATCTGTGACACGTCAGAGTTTAGAGTTTGAAATAGCAT
66 CAGGGTTTGTGACACGGCATGGAGGGAATCTGTGACACGTCAGAGTTTAGAGTTTGAAAT-GCAT
* * *
4452988 GGATGGAATCTGTGACACGACAGTATTCAGAGTTTGTGACACACCACGGAGGGAAT
130 GGATGGAATTTGTGACACGACAGTATTTAGAGTTTGGGACACACCACGGAGGGAAT
* * **
4453044 TTATGACATTGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTATGACATAGCAGGGTT
1 CTGTGACACAGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTATGACATAGCAGGGTT
* * * *
4453109 CAGGGTTTGTGACAC-ACTATGGAGGGAATCTGAGACACG-CTAGTGTTTAGAGTTGGTGATATG
66 CAGGGTTTGTGACACGGC-ATGGAGGGAATCTGTGACACGTC-AGAGTTTAGAGTT--TGAAATG
* * * * *
4453172 CCATGGAGGGAATTTGTGACATGTCAGCATTTAGGGTTTG
127 -CATGGATGGAATTTGTGACACGACAGTATTTAGAGTTTG
4453212 TCACACGGCA
Statistics
Matches: 309, Mismatches: 38, Indels: 13
0.86 0.11 0.04
Matches are distributed among these distances:
185 3 0.01
186 244 0.79
187 25 0.08
188 37 0.12
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (185 bp):
CTGTGACACAGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTATGACATAGCAGGGTT
CAGGGTTTGTGACACGGCATGGAGGGAATCTGTGACACGTCAGAGTTTAGAGTTTGAAATGCATG
GATGGAATTTGTGACACGACAGTATTTAGAGTTTGGGACACACCACGGAGGGAAT
Found at i:4453176 original size:94 final size:92
Alignment explanation
Indices: 4452671--4453193 Score: 394
Period size: 94 Copynumber: 5.6 Consensus size: 92
4452661 TGTGACAAGG
* * * * *
4452671 CTGTGACACAGTAGGGTTCAGAGTTTGGTGACACGCCATGGAAGGAATCTCTGACACT--CTA-G
1 CTGTGACAC-GTAGAGTTTAGAG-TT-GTGACATGCCATGGAGGGAATCTGTGACA-TAGC-AGG
* * * **
4452733 AGTTTAGAATTTATGACACGGCATGGAGGGAAT
61 A-TTCAGAGTTTGTGACACACCATGGAGGGAAT
* * * ** * *
4452766 CTGTGACACGTCAGAGTTTAGAGTT-TGACATGGCATGGATGGAATTTGTGACACGGCAGTATTT
1 CTGTGACACGT-AGAGTTTAGAGTTGTGACATGCCATGGAGGGAATCTGTGACATAGCAGGATTC
*
4452830 AGAGTTTGGGACACACCATGGAGGGAAT
65 AGAGTTTGTGACACACCATGGAGGGAAT
** * * * ** *
4452858 CTGTGACACAACAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTGTGACATAGCAGGGTT
1 CTGTGACAC-GTAGAGTTTAGAG-TTGTGACATGCCATGGAGGGAATCTGTGACATAGCAGGATT
* * **
4452923 CAGGGTTTGTGACGCGGCATGGAGGGAAT
64 CAGAGTTTGTGACACACCATGGAGGGAAT
* * * *
4452952 CTGTGACACGTCAGAGTTTAGAGTT-TGAAATAG-CATGGATGGAATCTGTGACA-CGACAGTAT
1 CTGTGACACGT-AGAGTTTAGAGTTGTGACAT-GCCATGGAGGGAATCTGTGACATAG-CAGGAT
*
4453014 TCAGAGTTTGTGACACACCACGGAGGGAAT
63 TCAGAGTTTGTGACACACCATGGAGGGAAT
* * * * * * ** * *
4453044 TTATGACATTGTAGGGTTCAGGGTTTGTGACACACCATGGAGGGAATCTATGACATAGCAGGGTT
1 CTGTGACA-CGTAGAGTTTAGAG-TTGTGACATGCCATGGAGGGAATCTGTGACATAGCAGGATT
* *
4453109 CAGGGTTTGTGACACACTATGGAGGGAAT
64 CAGAGTTTGTGACACACCATGGAGGGAAT
* * * *
4453138 CTGAGACACGCTAGTGTTTAGAGTTGGTGATATGCCATGGAGGGAATTTGTGACAT
1 CTGTGACACG-TAGAGTTTAGAGTT-GTGACATGCCATGGAGGGAATCTGTGACAT
4453194 GTCAGCATTT
Statistics
Matches: 331, Mismatches: 80, Indels: 35
0.74 0.18 0.08
Matches are distributed among these distances:
91 1 0.00
92 133 0.40
93 13 0.04
94 165 0.50
95 19 0.06
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (92 bp):
CTGTGACACGTAGAGTTTAGAGTTGTGACATGCCATGGAGGGAATCTGTGACATAGCAGGATTCA
GAGTTTGTGACACACCATGGAGGGAAT
Found at i:4453211 original size:24 final size:24
Alignment explanation
Indices: 4453184--4453241 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
4453174 ATGGAGGGAA
* *
4453184 TTTGTGACATGTCAGCATTTAGGG
1 TTTGTGACATGGCAGCATTCAGGG
* * *
4453208 TTTGTCACACGGCAGCGTTCAGGG
1 TTTGTGACATGGCAGCATTCAGGG
4453232 -TTGTGACATG
1 TTTGTGACATG
4453242 CCATAGAGAG
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 8 0.30
24 19 0.70
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (24 bp):
TTTGTGACATGGCAGCATTCAGGG
Found at i:4454580 original size:31 final size:31
Alignment explanation
Indices: 4454542--4454742 Score: 258
Period size: 31 Copynumber: 6.5 Consensus size: 31
4454532 AACATGGCAC
* *
4454542 AAATGTGGTTACACACCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
4454573 AAATGTGGTGACACGCCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* *
4454604 AAAGGCGGTGACACGCCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* *
4454635 AAATGTGGTCAGACGCCATGCATAACAAGTA
1 AAATGTGGTGACACGCCATGCATAACAAGTA
* * * * *
4454666 TAATGTCGTGACATGCCATGCATATCAAGTC
1 AAATGTGGTGACACGCCATGCATAACAAGTA
** * *
4454697 AAATGTCATGACACGCCATGCATATCAAGTC
1 AAATGTGGTGACACGCCATGCATAACAAGTA
*
4454728 AAATGTCGTGACACG
1 AAATGTGGTGACACG
4454743 ATATGCAGAT
Statistics
Matches: 151, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 151 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (31 bp):
AAATGTGGTGACACGCCATGCATAACAAGTA
Found at i:4455346 original size:24 final size:23
Alignment explanation
Indices: 4455293--4455349 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
4455283 ATTCTCTCTG
*
4455293 TGACGTGTCACAACCCTGAACGT
1 TGACGTGTCACAACCCTGAACGC
* * *
4455316 TGCCGTGTCACAAACCTTGAATGC
1 TGACGTGTCAC-AACCCTGAACGC
4455340 TGACGTGTCA
1 TGACGTGTCA
4455350 TAGATTCCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 10 0.36
24 18 0.64
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (23 bp):
TGACGTGTCACAACCCTGAACGC
Found at i:4455419 original size:47 final size:45
Alignment explanation
Indices: 4455320--4455804 Score: 305
Period size: 47 Copynumber: 10.4 Consensus size: 45
4455310 GAACGTTGCC
** * * *
4455320 GTGTCACAAAC-CTTGAATGCTGACGTGTCATAGATTCCCTCCGAGGC
1 GTGTCACAAACTC-TGAACACTG-CGTGTCACAGATTCCCTCC-ATGT
* * *
4455367 ATGTCACCAACTCTAAACACTAGCGTGTCACAGATTCCCTCCATAGT
1 GTGTCACAAACTCTGAACACT-GCGTGTCACAGATTCCCTCCAT-GT
* * * * *
4455414 GTGTCACAAACCCTGAACCCTGCTATGTCACAGATTCCTTCTATGGT
1 GTGTCACAAACTCTGAACACTGC-GTGTCACAGATTCCCTCCAT-GT
* * *
4455461 GTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCATGGT
1 GTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCAT-GT
* * * * * * * *
4455508 GTGTCACAAATTTTGAATACTGCCATGTCACAGAATCCATCCGTGCC
1 GTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCATG-T
* * * *
4455555 ATGT--CAAACTCTAAACTCTGACGTGTCACAGATTCCCTCCATGCC
1 GTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCATG-T
* * * *
4455600 ATGTCACAAACCCTGAACCCTGTCGTGTCACAGATTCCCTCTATGGT
1 GTGTCACAAACTCTGAACACTG-CGTGTCACAGATTCCCTCCAT-GT
* * ** *
4455647 GTGTCACAAACTCTGAATACTACTGTGTCACAGATTCTATCCATGCC
1 GTGTCACAAACTCTGAACACTGC-GTGTCACAGATTCCCTCCATG-T
* * ** * *
4455694 ATGT--CAAACTCTAAACTTTAACGTGTCACAAATTCCCTCCATGT
1 GTGTCACAAACTCTGAACACT-GCGTGTCACAGATTCCCTCCATGT
* * * * *
4455738 CGTGTCACAAACTTTGAACTCTAGAGTGTCAGAGATTCCCTCCATGGC
1 -GTGTCACAAACTCTGAACACT-GCGTGTCACAGATTCCCTCCAT-GT
4455786 GTGTCACCAAACTCTGAAC
1 GTGTCA-CAAACTCTGAAC
4455805 CTTATCATGT
Statistics
Matches: 344, Mismatches: 77, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
45 67 0.19
46 8 0.02
47 253 0.74
48 16 0.05
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (45 bp):
GTGTCACAAACTCTGAACACTGCGTGTCACAGATTCCCTCCATGT
Found at i:4455515 original size:23 final size:23
Alignment explanation
Indices: 4455391--4455515 Score: 69
Period size: 23 Copynumber: 5.3 Consensus size: 23
4455381 AAACACTAGC
*
4455391 GTGTCACAGATTCCCTCCATAGT
1 GTGTCACAGATTCCCTCCATGGT
* * *
4455414 GTGTCACA-A-ACCCTGAACCCTGCT
1 GTGTCACAGATTCCCT---CCATGGT
* * *
4455438 ATGTCACAGATTCCTTCTATGGT
1 GTGTCACAGATTCCCTCCATGGT
* * **
4455461 GTGTCACA-A-ACCCTAAACCCTGCC
1 GTGTCACAGATTCCCT---CCATGGT
4455485 GTGTCACAGATTCCCTCCATGGT
1 GTGTCACAGATTCCCTCCATGGT
4455508 GTGTCACA
1 GTGTCACA
4455516 AATTTTGAAT
Statistics
Matches: 71, Mismatches: 21, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
21 7 0.10
22 2 0.03
23 31 0.44
24 22 0.31
25 2 0.03
26 7 0.10
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (23 bp):
GTGTCACAGATTCCCTCCATGGT
Found at i:4455612 original size:186 final size:187
Alignment explanation
Indices: 4455320--4455657 Score: 477
Period size: 186 Copynumber: 1.8 Consensus size: 187
4455310 GAACGTTGCC
* * * * * *
4455320 GTGTCACAAACCTTGAATGCTGACGTGTCATAGATTCCCTCCGAGGCATGTCACCAACTCTAAAC
1 GTGTCACAAACCTTGAATACTGACATGTCACAGAATCCATCCGAGCCATGTCA-CAACTCTAAAC
**
4455385 ACTAGCGTGTCACAGATTCCCTCCATAGTGTGTCACAAACCCTGAACCCTG-CTATGTCACAGAT
65 ACTAGCGTGTCACAGATTCCCTCCATAGCATGTCACAAACCCTGAACCCTGTC-ATGTCACAGAT
*
4455449 TCCTTCTATGGTGTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCATGGT
129 TCCCTCTATGGTGTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCATGGT
** * * *
4455508 GTGTCACAAATTTTGAATACTGCCATGTCACAGAATCCATCCGTGCCATGTCA-AACTCTAAACT
1 GTGTCACAAACCTTGAATACTGACATGTCACAGAATCCATCCGAGCCATGTCACAACTCTAAACA
*
4455572 CT-GACGTGTCACAGATTCCCTCCAT-GCCATGTCACAAACCCTGAACCCTGTCGTGTCACAGAT
66 CTAG-CGTGTCACAGATTCCCTCCATAG-CATGTCACAAACCCTGAACCCTGTCATGTCACAGAT
4455635 TCCCTCTATGGTGTGTCACAAAC
129 TCCCTCTATGGTGTGTCACAAAC
4455658 TCTGAATACT
Statistics
Matches: 132, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
185 2 0.02
186 86 0.65
187 1 0.01
188 43 0.33
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (187 bp):
GTGTCACAAACCTTGAATACTGACATGTCACAGAATCCATCCGAGCCATGTCACAACTCTAAACA
CTAGCGTGTCACAGATTCCCTCCATAGCATGTCACAAACCCTGAACCCTGTCATGTCACAGATTC
CCTCTATGGTGTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCATGGT
Found at i:4455621 original size:139 final size:138
Alignment explanation
Indices: 4455439--4455803 Score: 469
Period size: 139 Copynumber: 2.6 Consensus size: 138
4455429 AACCCTGCTA
* * ** *
4455439 TGTCACAGATTCCTTCTATGGTGTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCA
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACCCTGAACCCTG-CGTGTCACAGATTCCCTCCA
* * * *
4455504 TGGTGTGTCACAAATTTTGAATACTGCCATGTCACAGAATCCATCCGTGCCATGTCAAACTCTAA
65 TGGTGTGTCACAAACTCTGAATACTACCATGTCACAGAATCCATCCATGCCATGTCAAACTCTAA
*
4455569 ACTCTGACG
130 ACTCTAACG
* *
4455578 TGTCACAGATTCCCTCCATGCCATGTCACAAACCCTGAACCCTGTCGTGTCACAGATTCCCTCTA
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACCCTGAACCCTG-CGTGTCACAGATTCCCTCCA
** * *
4455643 TGGTGTGTCACAAACTCTGAATACTACTGTGTCACAGATTCTATCCATGCCATGTCAAACTCTAA
65 TGGTGTGTCACAAACTCTGAATACTACCATGTCACAGAATCCATCCATGCCATGTCAAACTCTAA
*
4455708 ACTTTAACG
130 ACTCTAACG
* * ** * * *
4455717 TGTCACAAATTCCCTCCATGTCGTGTCACAAACTTTGAACTCTAGAGTGTCAGAGATTCCCTCCA
1 TGTCACAGATTCCCTCCATGCCGTGTCACAAACCCTGAACCCT-GCGTGTCACAGATTCCCTCCA
*
4455782 TGGCGTGTCACCAAACTCTGAA
65 TGGTGTGTCA-CAAACTCTGAA
4455804 CCTTATCATG
Statistics
Matches: 196, Mismatches: 28, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
139 184 0.94
140 12 0.06
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (138 bp):
TGTCACAGATTCCCTCCATGCCGTGTCACAAACCCTGAACCCTGCGTGTCACAGATTCCCTCCAT
GGTGTGTCACAAACTCTGAATACTACCATGTCACAGAATCCATCCATGCCATGTCAAACTCTAAA
CTCTAACG
Found at i:4455776 original size:186 final size:186
Alignment explanation
Indices: 4455316--4455819 Score: 470
Period size: 186 Copynumber: 2.7 Consensus size: 186
4455306 CCCTGAACGT
* * * * * * *
4455316 TGCCGTGTCACAAAC-CTTGAATGCTGACGTGTCATAGATTCCCTCCGA-GGCATGTCACCAACT
1 TGCCATGT-ACAAACTC-TGAATACTAACGTGTCACAAATTCCCTCC-ATGCCATGTCACAAACT
* * *
4455379 CTAAACACTAGCGTGTCACAGATTCCCTCCATAGTGTGTCACAAACCCTGAACCCTG-CTATGTC
63 CTAAACTCTAGAGTGTCACAGATTCCCTCCAT-GCGTGTCACAAACCCTGAACCCTGTC-ATGTC
* * * *
4455443 ACAGATTCCTTCTATGGTGTGTCACAAACCCTAAACCCTGCCGTGTCACAGATTCCCTCCA
126 ACAGATTCCCTCTATGGTGTGTCACAAACCCTAAACACTACCGTGTCACAGATTCCATCCA
*** * * ** * * *
4455504 TGGTGTGTCACAAATTTTGAATACTGCCATGTCACAGAA-TCCATCCGTGCCATGT--CAAACTC
1 TGCCATGT-ACAAACTCTGAATACTAACGTGTCACA-AATTCCCTCCATGCCATGTCACAAACTC
* *
4455566 TAAACTCT-GACGTGTCACAGATTCCCTCCATGCCATGTCACAAACCCTGAACCCTGTCGTGTCA
64 TAAACTCTAGA-GTGTCACAGATTCCCTCCATG-CGTGTCACAAACCCTGAACCCTGTCATGTCA
* * * * *
4455630 CAGATTCCCTCTATGGTGTGTCACAAACTCTGAATACTACTGTGTCACAGATTCTATCCA
127 CAGATTCCCTCTATGGTGTGTCACAAACCCTAAACACTACCGTGTCACAGATTCCATCCA
* * *
4455690 TGCCATGT-CAAACTCT-AA-ACTTTAACGTGTCACAAATTCCCTCCATGTCGTGTCACAAACTT
1 TGCCATGTACAAACTCTGAATAC--TAACGTGTCACAAATTCCCTCCATGCCATGTCACAAACTC
* * * * *
4455752 TGAACTCTAGAGTGTCAGAGATTCCCTCCATGGCGTGTCACCAAACTCTGAACCTTATCATGTCA
64 TAAACTCTAGAGTGTCACAGATTCCCTCCAT-GCGTGTCA-CAAACCCTGAACCCTGTCATGTCA
4455817 CAG
127 CAG
4455820 CCTTGTTACA
Statistics
Matches: 255, Mismatches: 47, Indels: 29
0.77 0.14 0.09
Matches are distributed among these distances:
182 2 0.01
183 4 0.02
184 27 0.11
185 2 0.01
186 153 0.60
187 27 0.11
188 39 0.15
189 1 0.00
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (186 bp):
TGCCATGTACAAACTCTGAATACTAACGTGTCACAAATTCCCTCCATGCCATGTCACAAACTCTA
AACTCTAGAGTGTCACAGATTCCCTCCATGCGTGTCACAAACCCTGAACCCTGTCATGTCACAGA
TTCCCTCTATGGTGTGTCACAAACCCTAAACACTACCGTGTCACAGATTCCATCCA
Found at i:4462459 original size:21 final size:21
Alignment explanation
Indices: 4462435--4462525 Score: 96
Period size: 21 Copynumber: 4.3 Consensus size: 21
4462425 TCACATAGTT
4462435 TTGATACCTAGATTCAAAGTC
1 TTGATACCTAGATTCAAAGTC
* * *
4462456 TTGATACCTGGTTTCAAAATC
1 TTGATACCTAGATTCAAAGTC
*
4462477 TTGATACCTAGTTTCAAAGTC
1 TTGATACCTAGATTCAAAGTC
* *
4462498 TT-ATTA-CTTGACTTCTAAGTC
1 TTGA-TACCTAGA-TTCAAAGTC
4462519 TTGATAC
1 TTGATAC
4462526 TCAACACAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
20 4 0.07
21 53 0.91
22 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (21 bp):
TTGATACCTAGATTCAAAGTC
Found at i:4462521 original size:42 final size:42
Alignment explanation
Indices: 4462435--4462525 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
4462425 TCACATAGTT
**
4462435 TTGATACCTAGATTCAAAGTCTTGATACCTGGTTTCAAAATC
1 TTGATACCTAGATTCAAAGTCTTGATACCTGACTTCAAAATC
* * * *
4462477 TTGATACCTAGTTTCAAAGTCTT-ATTACTTGACTTCTAAGTC
1 TTGATACCTAGATTCAAAGTCTTGA-TACCTGACTTCAAAATC
4462519 TTGATAC
1 TTGATAC
4462526 TCAACACAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 41 0.98
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (42 bp):
TTGATACCTAGATTCAAAGTCTTGATACCTGACTTCAAAATC
Found at i:4464487 original size:35 final size:36
Alignment explanation
Indices: 4464443--4464544 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 36
4464433 CAGTGTCTTG
*
4464443 GTGAAGGTTATGCTTGGTCATG-TAAAAGGCATGTT
1 GTGAAGGTTATGCTTGATCATGTTAAAAGGCATGTT
* * *
4464478 GTGAAGGTTATGCCTGATCTTGTTGAAAGGCATGTT
1 GTGAAGGTTATGCTTGATCATGTTAAAAGGCATGTT
* * * * *
4464514 ATAAAGGTTGTGCTTAATCTTGTTGAAAAGG
1 GTGAAGGTTATGCTTGATCATGTT-AAAAGG
4464545 TAAGTTGATA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 19 0.35
36 31 0.56
37 5 0.09
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.35
Consensus pattern (36 bp):
GTGAAGGTTATGCTTGATCATGTTAAAAGGCATGTT
Found at i:4464874 original size:32 final size:33
Alignment explanation
Indices: 4464838--4464948 Score: 107
Period size: 32 Copynumber: 3.3 Consensus size: 33
4464828 AAGTGGTTTG
*
4464838 TGCTTGATCCTACGAAAAGGTAGAGTGA-GTTA
1 TGCTTGATCCTACGAAAAGGTAGAGTAAGGTTA
* * *
4464870 TGCTTGATCCCATGAAAAGGTAGTGTAAGGTTA
1 TGCTTGATCCTACGAAAAGGTAGAGTAAGGTTA
* * * *
4464903 TGCTTAATCCTTTCGAAAAAGTAATGTGTAAAGGTTA
1 TGCTTGATCC-TACGAAAAGGT-A-GAGT-AAGGTTA
4464940 TGCTTGATC
1 TGCTTGATC
4464949 TTTAAAAAGG
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
32 24 0.38
33 13 0.20
34 7 0.11
35 1 0.02
36 4 0.06
37 15 0.23
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (33 bp):
TGCTTGATCCTACGAAAAGGTAGAGTAAGGTTA
Found at i:4468801 original size:21 final size:22
Alignment explanation
Indices: 4468768--4468811 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
4468758 AAGTGATTAA
4468768 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
* * *
4468789 TTTATGTTGTTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
4468811 T
1 T
4468812 ACTTTAAGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:4477601 original size:22 final size:21
Alignment explanation
Indices: 4477553--4477600 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
4477543 GATTCCCTTG
*
4477553 ATTTTTAGATGACCAAAAATA
1 ATTTTTAGATAACCAAAAATA
*
4477574 ATTTTTAGATAACCAAAAATG
1 ATTTTTAGATAACCAAAAATA
4477595 ATTTTT
1 ATTTTT
4477601 TTTCATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (21 bp):
ATTTTTAGATAACCAAAAATA
Found at i:4477735 original size:17 final size:16
Alignment explanation
Indices: 4477693--4477726 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4477683 TGAACCAAAA
4477693 TTTAGATTTTGATTAT
1 TTTAGATTTTGATTAT
4477709 TTTAGATTTTGATT-T
1 TTTAGATTTTGATTAT
4477724 TTT
1 TTT
4477727 TTATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.68
Consensus pattern (16 bp):
TTTAGATTTTGATTAT
Found at i:4479094 original size:68 final size:69
Alignment explanation
Indices: 4478949--4479114 Score: 176
Period size: 68 Copynumber: 2.4 Consensus size: 69
4478939 AAGATTAAGT
* ** *
4478949 ATATGATGTAAATTTCATATACCATATGA-GATAATTAAGTCTGCATGATGTATACTATAAAATT
1 ATATGATGTAAATTTCATATACCATATGAGGATAATTAAGTATGCATGATAAATACCATAAAATT
* **
4479013 GTGT
66 ATAC
* * * *
4479017 ATATGATGTAAATTTCATATACCATATGAGGA-GATTAAGTATGCATGATAAATGCCATGAGATT
1 ATATGATGTAAATTTCATATACCATATGAGGATAATTAAGTATGCATGATAAATACCATAAAATT
4479081 ATAC
66 ATAC
* * *
4479085 ATATAATGT-ATTTTCCATATACCTTATGAG
1 ATATGATGTAAATTT-CATATACCATATGAG
4479115 ATGNNNNNNN
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
67 4 0.05
68 76 0.93
69 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (69 bp):
ATATGATGTAAATTTCATATACCATATGAGGATAATTAAGTATGCATGATAAATACCATAAAATT
ATAC
Found at i:4481221 original size:15 final size:17
Alignment explanation
Indices: 4481186--4481225 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
4481176 AGTTTGTTAG
*
4481186 TTAATTTTGTGTTTATT
1 TTAATTTTGTGTTTATA
4481203 TTAATTTTGT-TTTA-A
1 TTAATTTTGTGTTTATA
4481218 TTAATTTT
1 TTAATTTT
4481226 TTGCATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (17 bp):
TTAATTTTGTGTTTATA
Found at i:4482797 original size:29 final size:29
Alignment explanation
Indices: 4482666--4482856 Score: 192
Period size: 29 Copynumber: 6.6 Consensus size: 29
4482656 TCTTATCTTT
* * *
4482666 AATTAAGACAAAATATGTTATCTTATCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
4482695 AATTGAGA-TAAACATGTTTTCTTGTCTC
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * * *
4482723 GAGTAAGATAAAACATATTTTTCTT-TGCTTA
1 AATTAAGACAAAACAT-GTTTTCTTGT-C-TA
* *
4482754 AATTAAGA-TAAACATGTTTTCTTGCCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
4482782 AATTAAGACAAGACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
4482811 AATTAAGACAAAATATGCTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
4482840 AATTAAGACAAAA-ATGT
1 AATTAAGACAAAACATGT
4482857 AAAAGTTATT
Statistics
Matches: 132, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
28 33 0.25
29 78 0.59
30 14 0.11
31 7 0.05
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:4493197 original size:29 final size:31
Alignment explanation
Indices: 4493136--4493197 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
4493126 GGTTGAAAAG
*
4493136 TTTTGGGAAGTATTTATGGATGATTTTCAAT
1 TTTTGGGAAGTATTTATGGATGATTGTCAAT
*
4493167 TTTTGGGAA-TAATTT-T-GATGATTGTCTAT
1 TTTTGGGAAGT-ATTTATGGATGATTGTCAAT
4493196 TT
1 TT
4493198 AATCTTGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 13 0.46
30 2 0.07
31 13 0.46
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (31 bp):
TTTTGGGAAGTATTTATGGATGATTGTCAAT
Found at i:4496915 original size:12 final size:12
Alignment explanation
Indices: 4496897--4496926 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4496887 TTTCTTGTTC
4496897 ATATTTATATAT
1 ATATTTATATAT
*
4496909 TTATTTATATAT
1 ATATTTATATAT
4496921 ATATTT
1 ATATTT
4496927 CTTTCTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:4499690 original size:23 final size:23
Alignment explanation
Indices: 4499664--4499714 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
4499654 GTTTAGAGTT
* *
4499664 TGTGAAACGCCATGGTGGGAATG
1 TGTGAAACGCCATGGTGAGAATA
* *
4499687 TGTGATACGTCATGGTGAGAATA
1 TGTGAAACGCCATGGTGAGAATA
4499710 TGTGA
1 TGTGA
4499715 CACAGCTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.27
Consensus pattern (23 bp):
TGTGAAACGCCATGGTGAGAATA
Found at i:4499772 original size:23 final size:23
Alignment explanation
Indices: 4499745--4499843 Score: 72
Period size: 23 Copynumber: 4.3 Consensus size: 23
4499735 ATTTAGAGTT
* *
4499745 TGTGACATGCCATGGAGGGAATA
1 TGTGACATGACATGGAGAGAATA
* ** * *
4499768 TGTGACACGGTAAGGTGAGAATA
1 TGTGACATGACATGGAGAGAATA
* ** *
4499791 TGTGACATGACTTAAAGGGAATA
1 TGTGACATGACATGGAGAGAATA
* *
4499814 TGTGAGATGACATGGTGAGAATA
1 TGTGACATGACATGGAGAGAATA
*
4499837 TATGACA
1 TGTGACA
4499844 CATCAGTGTG
Statistics
Matches: 53, Mismatches: 23, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.24
Consensus pattern (23 bp):
TGTGACATGACATGGAGAGAATA
Found at i:4499922 original size:23 final size:23
Alignment explanation
Indices: 4499857--4499910 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
4499847 CAGTGTGAAC
*
4499857 GCCATGGTGTGA-ACATGTGACAT
1 GCCATGGTGAGAGA-ATGTGACAT
*
4499880 GCCATGGTGAGAGAATGTGAGAT
1 GCCATGGTGAGAGAATGTGACAT
4499903 GCCATGGT
1 GCCATGGT
4499911 AAGCATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.35, T:0.24
Consensus pattern (23 bp):
GCCATGGTGAGAGAATGTGACAT
Found at i:4500142 original size:116 final size:116
Alignment explanation
Indices: 4499947--4500167 Score: 283
Period size: 116 Copynumber: 1.9 Consensus size: 116
4499937 GGAAAAGTTT
*
4499947 AGAGTTTGTGACACGCCATGGTGGGAATGTGTAACTCGGCATAGTGAGAATATGTAACGCAGCAT
1 AGAGTTTGTGACACGCCATGGTGGGAATGTGTAACTCGGCATAGTGAGAATATGTAACGCAGCAA
* * *
4500012 TTTCAGAATGTGTGAGATGGCATGGTGAGAATA-TGTGACACAACAAGGTTC
66 GTTCAGAATATGTGAGACGGCATGGTGAG-ATAGTGTGACACAACAAGGTTC
* *
4500063 AGAGTTTGTGGCACGCCATGGTGGGAATGTGTGACAT-GGCATAGTGAGAA-ATTGTGACACG-A
1 AGAGTTTGTGACACGCCATGGTGGGAATGTGTAAC-TCGGCATAGTGAGAATA-TGT-A-ACGCA
*
4500125 -CAAGTTGA-AATCATGTGAGACGGCATGGTGAGATAGTGTGACA
62 GCAAGTTCAGAAT-ATGTGAGACGGCATGGTGAGATAGTGTGACA
4500168 AGCCATCATG
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
115 7 0.08
116 79 0.86
117 3 0.03
118 3 0.03
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (116 bp):
AGAGTTTGTGACACGCCATGGTGGGAATGTGTAACTCGGCATAGTGAGAATATGTAACGCAGCAA
GTTCAGAATATGTGAGACGGCATGGTGAGATAGTGTGACACAACAAGGTTC
Found at i:4500925 original size:31 final size:31
Alignment explanation
Indices: 4500890--4500967 Score: 147
Period size: 31 Copynumber: 2.5 Consensus size: 31
4500880 CTCAGCGTTG
*
4500890 GCATGTAACAACATTTGACTTGGTATGCTTA
1 GCATGTAACAACATTTGACTTGGTATGCGTA
4500921 GCATGTAACAACATTTGACTTGGTATGCGTA
1 GCATGTAACAACATTTGACTTGGTATGCGTA
4500952 GCATGTAACAACATTT
1 GCATGTAACAACATTT
4500968 ATTTCTTTCT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (31 bp):
GCATGTAACAACATTTGACTTGGTATGCGTA
Found at i:4506751 original size:71 final size:70
Alignment explanation
Indices: 4506650--4507145 Score: 458
Period size: 71 Copynumber: 7.0 Consensus size: 70
4506640 ACAATTAGAG
* * * *
4506650 CATGGCATGCCACCCCATAATACTGTAACGACTCAACGTGTCACCACAAGATATCAACGACATTT
1 CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATCT
*
4506715 AATAA
66 AACAA
* * * ** * * * * *
4506720 CAATCGCGTGTCACTCCATAGTACTGCAACGACTCAGTGCGTCACCACTAGATGTCAATGATATC
1 C-ATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATC
4506785 TAACAA
65 TAACAA
* ** *
4506791 GCATGGCGTGTCACCCTATAATACTGCAACGACTCAGGGTGTCACCACAAGATAT-TACTGACAT
1 -CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAAC-GACAT
4506855 CTAACAA
64 CTAACAA
* * *
4506862 GCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAAATGTCAACGACATC
1 -CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATC
4506927 TAACAA
65 TAACAA
** * * * * * *
4506933 GTGTGGCGTGTCACCCCATAATACTGCAACGACTAAACATGTCACCATAAAATGTAAACGACATC
1 -CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATC
4506998 TAACGAGA
65 TAAC-A-A
*** * * * * * * *
4507006 -ACCCCGTGTCATCCCATAATACTACAACGACTCAGCATGTCACCACAACATATCAATGGCATCT
1 CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATCT
4507070 AACAA
66 AACAA
* * * ** * * *
4507075 GAGTGGCATGTCACCCCACAATACTGCAACGACAT-GGCGTGTCACTACAAGATGTAAACGACAT
1 CA-TGGCGTGTCACCCCATAATACTGCAACGAC-TCAACGTGTCACCACAAGATATCAACGACAT
4507139 CTAACAA
64 CTAACAA
4507146 TTTGTTCATG
Statistics
Matches: 348, Mismatches: 69, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
69 1 0.00
70 4 0.01
71 337 0.97
72 5 0.01
73 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (70 bp):
CATGGCGTGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATCAACGACATCT
AACAA
Found at i:4506825 original size:142 final size:142
Alignment explanation
Indices: 4506648--4507145 Score: 529
Period size: 142 Copynumber: 3.5 Consensus size: 142
4506638 TGACAATTAG
* * *
4506648 AGCATGGCATGCCACCCCATAATACTGTAACGACTCAACGTGTCACCACAAGATATCAACGACAT
1 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATAAACGACAT
* * * * * * *
4506713 TTAATAACAATCGCGTGTCACTCCATAGTACTGCAACGACTCAGTGCGTCACCACTAGATGTCAA
66 CTAACAACAATCGCGTGTCACTCCATAATACTGCAACGACTCAGCGTGTCACCACAAAATGTCAA
*
4506778 TGATATCTAACA
131 TGACATCTAACA
* * ** *
4506790 AGCATGGCGTGTCACCCTATAATACTGCAACGACTCAGGGTGTCACCACAAGATAT-TACTGACA
1 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATAAAC-GACA
* * * *
4506854 TCTAACAAGC-ATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAAATGTC
65 TCTAACAA-CAATCGCGTGTCACTCCATAATACTGCAACGACTCAGCGTGTCACCACAAAATGTC
*
4506918 AACGACATCTAACA
129 AATGACATCTAACA
** * * * * * *
4506932 AGTGTGGCGTGTCACCCCATAATACTGCAACGACTAAACATGTCACCATAAAATGTAAACGACAT
1 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATAAACGACAT
* * * * * * * *
4506997 CTAACGAGAACCCCGTGTCA-TCCCATAATACTACAACGACTCAGCATGTCACCACAACATATCA
66 CTAACAACAATCGCGTGTCACT-CCATAATACTGCAACGACTCAGCGTGTCACCACAAAATGTCA
*
4507061 ATGGCATCTAACA
130 ATGACATCTAACA
* ** * *
4507074 AG-AGTGGCATGTCACCCCACAATACTGCAACGACAT-GGCGTGTCACTACAAGATGTAAACGAC
1 AGCA-TGGCATGTCACCCCATAATACTGCAACGAC-TCAACGTGTCACCACAAGATATAAACGAC
4507137 ATCTAACAA
64 ATCTAACAA
4507146 TTTGTTCATG
Statistics
Matches: 294, Mismatches: 55, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
141 2 0.01
142 288 0.98
143 4 0.01
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (142 bp):
AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATATAAACGACAT
CTAACAACAATCGCGTGTCACTCCATAATACTGCAACGACTCAGCGTGTCACCACAAAATGTCAA
TGACATCTAACA
Found at i:4506904 original size:213 final size:213
Alignment explanation
Indices: 4506648--4507145 Score: 590
Period size: 213 Copynumber: 2.3 Consensus size: 213
4506638 TGACAATTAG
* * *
4506648 AGCATGGCATGCCACCCCATAATACTGTAACGACTCAACGTGTCACCACAAGATATCAACGACAT
1 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATGTCAACGACAT
* * * * * *** * *
4506713 TTAATAACAATCGCGTGTCACTCCATAGTACTGCAACGACTCAGTGCGTCACCACT-AGATGTCA
66 CTAACAACAATCGCGTGTCACCCCATAATACTGCAACGACTAAACACGTCACCA-TAAAATGTAA
* * * *** * **
4506777 ATGATATCTAACAAGCATGGCGTGTCA-CCCTATAATACTGCAACGACTCAGGGTGTCACCACAA
130 ACGACATCTAACAAGAACCCCGTGTCATCCC-ATAATACTACAACGACTCAGCATGTCACCACAA
* * *
4506841 GATATTACTGACATCTAACA
194 CATATCAATGACATCTAACA
*
4506861 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAAATGTCAACGACAT
1 AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATGTCAACGACAT
*** * *
4506926 CTAACAAGTGTGGCGTGTCACCCCATAATACTGCAACGACTAAACATGTCACCATAAAATGTAAA
66 CTAACAACAATCGCGTGTCACCCCATAATACTGCAACGACTAAACACGTCACCATAAAATGTAAA
*
4506991 CGACATCTAACGAGAACCCCGTGTCATCCCATAATACTACAACGACTCAGCATGTCACCACAACA
131 CGACATCTAACAAGAACCCCGTGTCATCCCATAATACTACAACGACTCAGCATGTCACCACAACA
*
4507056 TATCAATGGCATCTAACA
196 TATCAATGACATCTAACA
* ** * *
4507074 AG-AGTGGCATGTCACCCCACAATACTGCAACGACAT-GGCGTGTCACTACAAGATGTAAACGAC
1 AGCA-TGGCATGTCACCCCATAATACTGCAACGAC-TCAACGTGTCACCACAAGATGTCAACGAC
4507137 ATCTAACAA
64 ATCTAACAA
4507146 TTTGTTCATG
Statistics
Matches: 242, Mismatches: 39, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
212 2 0.01
213 236 0.98
214 4 0.02
ACGTcount: A:0.35, C:0.28, G:0.16, T:0.21
Consensus pattern (213 bp):
AGCATGGCATGTCACCCCATAATACTGCAACGACTCAACGTGTCACCACAAGATGTCAACGACAT
CTAACAACAATCGCGTGTCACCCCATAATACTGCAACGACTAAACACGTCACCATAAAATGTAAA
CGACATCTAACAAGAACCCCGTGTCATCCCATAATACTACAACGACTCAGCATGTCACCACAACA
TATCAATGACATCTAACA
Found at i:4510563 original size:22 final size:23
Alignment explanation
Indices: 4510536--4510588 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
4510526 TCAATCATGT
*
4510536 TGTTACACGCTATGTTTA-AAAA
1 TGTTACACGCTAGGTTTACAAAA
* * *
4510558 TGTTACATGTTAGGTTTACAACA
1 TGTTACACGCTAGGTTTACAAAA
4510581 TGTTACAC
1 TGTTACAC
4510589 ACCAAGTGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (23 bp):
TGTTACACGCTAGGTTTACAAAA
Found at i:4513129 original size:26 final size:27
Alignment explanation
Indices: 4513100--4513150 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
4513090 AACCAAGAAA
*
4513100 AAAGAGAAAGGAGAGG-AAGAAGAAGG
1 AAAGAGAAAAGAGAGGAAAGAAGAAGG
4513126 AAAGAGAAAAGAGAGGAAAGAAGAA
1 AAAGAGAAAAGAGAGGAAAGAAGAA
4513151 AAAAAAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (27 bp):
AAAGAGAAAAGAGAGGAAAGAAGAAGG
Found at i:4513142 original size:16 final size:16
Alignment explanation
Indices: 4513119--4513174 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
4513109 GGAGAGGAAG
4513119 AAGAAGGAAAG-AGAA
1 AAGAAGGAAAGAAGAA
4513134 AAGAGAGGAAAGAAGAA
1 AAGA-AGGAAAGAAGAA
*
4513151 AA-AA-AAAAGAGAGAA
1 AAGAAGGAAAGA-AGAA
*
4513166 AGGAAGGAA
1 AAGAAGGAA
4513175 GGTTTGGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 5 0.15
15 10 0.30
16 10 0.30
17 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAGGAAAGAAGAA
Found at i:4521950 original size:18 final size:18
Alignment explanation
Indices: 4521890--4521950 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
4521880 AAATATGGCT
4521890 TTAA-AATTTAATTTTT-
1 TTAATAATTTAATTTTTA
* *
4521906 TTTATGAA-TTAATTTTAA
1 TTAAT-AATTTAATTTTTA
*
4521924 TTTATTAATTTAATTTTTA
1 -TTAATAATTTAATTTTTA
4521943 TTAATAAT
1 TTAATAAT
4521951 ATATATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.09
17 8 0.24
18 11 0.32
19 12 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTAATAATTTAATTTTTA
Found at i:4529139 original size:13 final size:13
Alignment explanation
Indices: 4529121--4529149 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4529111 ATGCCATGCT
4529121 TTACTGAACAGGA
1 TTACTGAACAGGA
4529134 TTACTGAACAGGA
1 TTACTGAACAGGA
4529147 TTA
1 TTA
4529150 ATTTGATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (13 bp):
TTACTGAACAGGA
Found at i:4536118 original size:15 final size:17
Alignment explanation
Indices: 4536098--4536132 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
4536088 TGTTATGTTT
4536098 TTTAAATT-TTT-TATA
1 TTTAAATTATTTGTATA
4536113 TTTAAATTATTTGTATA
1 TTTAAATTATTTGTATA
4536130 TTT
1 TTT
4536133 TATAATTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.44
16 3 0.17
17 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TTTAAATTATTTGTATA
Found at i:4554211 original size:3 final size:3
Alignment explanation
Indices: 4554203--4554227 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4554193 AAAAATAATT
4554203 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
4554228 CTCAATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:4559321 original size:74 final size:74
Alignment explanation
Indices: 4559176--4559325 Score: 201
Period size: 74 Copynumber: 2.0 Consensus size: 74
4559166 AATTGGTTAA
* * * * *
4559176 AGCCACCTATAATCAGTTAGAGCAGAGAACATAGCAACAAGATAATGAAAGGTAGAGAAATTGTG
1 AGCCACCTATAATCAGTTAGAGCAGAGAACACAACAACAAGACAATGAAAGGTAGAGAAACTGTA
*
4559241 ATCAATTAG
66 ACCAATTAG
* * * * *
4559250 AGCCTCCTGTAATCAGTTAGAGTAGAGAACACAACAACAAGACAGTGAAAGGTAGAGAAGCTGTA
1 AGCCACCTATAATCAGTTAGAGCAGAGAACACAACAACAAGACAATGAAAGGTAGAGAAACTGTA
4559315 ACCAATTAG
66 ACCAATTAG
4559324 AG
1 AG
4559326 GTGCCTATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (74 bp):
AGCCACCTATAATCAGTTAGAGCAGAGAACACAACAACAAGACAATGAAAGGTAGAGAAACTGTA
ACCAATTAG
Found at i:4561309 original size:19 final size:18
Alignment explanation
Indices: 4561253--4561318 Score: 96
Period size: 18 Copynumber: 3.6 Consensus size: 18
4561243 GTAACAAGTA
*
4561253 AAAAAAATATTTTGAAAT
1 AAAATAATATTTTGAAAT
4561271 AAAATAATATTTTGAAAT
1 AAAATAATATTTTGAAAT
*
4561289 AAAATAATATTTTATAAAT
1 AAAATAATATTTT-GAAAT
*
4561308 AAAATATTATT
1 AAAATAATATT
4561319 AAACTATTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
18 30 0.68
19 14 0.32
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AAAATAATATTTTGAAAT
Done.