Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 166 of 438
Found at i:50850223 original size:29 final size:29
Alignment explanation
Indices: 50850195--50850354 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
50850185 CCTCCGAGCT
** * * *
50850195 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
50850224 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
50850253 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50850282 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50850311 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50850340 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
50850355 GATCTCGTCA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 119 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50850258 original size:87 final size:86
Alignment explanation
Indices: 50850166--50850346 Score: 193
Period size: 87 Copynumber: 2.1 Consensus size: 86
50850156 AATTTAAGCC
* * * **
50850166 CGCACACACAGTGCC-ATACCCTCCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACA
1 CGCACACACAGTGCCTATA-CCTCC-AGCACGCACACCCAGTGCCATATATTTCCAGCACGCACA
* *
50850230 CATAGTGTCATATTTTTCCAGCA
64 CATAGTGCCATATATTTCCAGCA
* ** ** **
50850253 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACACAGTGCC-TATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
*
50850318 TTAGTGCCATATATTTCCAGCA
65 ATAGTGCCATATATTTCCAGCA
50850340 CGCACAC
1 CGCACAC
50850347 TTAGTGCCGA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
87 70 0.92
88 3 0.04
89 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.27
Consensus pattern (86 bp):
CGCACACACAGTGCCTATACCTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACACA
TAGTGCCATATATTTCCAGCA
Found at i:50853356 original size:25 final size:26
Alignment explanation
Indices: 50853295--50853356 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
50853285 GTTTTATCAA
*
50853295 TTTTATAATTTATTAGATTTTTA--T
1 TTTTATAATTTAGTAGATTTTTATTT
*
50853319 TTTTATAATATTTGTA-ATATTTTATTT
1 TTTTATAAT-TTAGTAGAT-TTTTATTT
50853346 TTTTATAATTT
1 TTTTATAATTT
50853357 TTCATAAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 11 0.34
25 9 0.28
26 2 0.06
27 10 0.31
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTATAATTTAGTAGATTTTTATTT
Found at i:50854428 original size:12 final size:13
Alignment explanation
Indices: 50854411--50854445 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
50854401 ATATTTCCTT
50854411 TTTCTTTTTCCC-
1 TTTCTTTTTCCCA
50854423 TTTCTTTTTCCCA
1 TTTCTTTTTCCCA
50854436 TTTCCTTTTT
1 TTT-CTTTTT
50854446 TTCTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.57
13 3 0.14
14 6 0.29
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCTTTTTCCCA
Found at i:50854460 original size:18 final size:16
Alignment explanation
Indices: 50854435--50854482 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
50854425 TCTTTTTCCC
50854435 ATTTCCTTTTTTTCTTT
1 ATTTCC-TTTTTTCTTT
50854452 ATTTACCTTTTTTCTTT
1 ATTT-CCTTTTTTCTTT
50854469 -TCTT-CTTTTTTCTT
1 AT-TTCCTTTTTTCTT
50854483 CTCAACCCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 10 0.34
16 1 0.03
17 16 0.55
18 2 0.07
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (16 bp):
ATTTCCTTTTTTCTTT
Found at i:50855852 original size:13 final size:13
Alignment explanation
Indices: 50855834--50855872 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
50855824 CTATAGGGGA
50855834 CACATGGCCGTGT
1 CACATGGCCGTGT
*
50855847 CACATGGCTGTGT
1 CACATGGCCGTGT
*
50855860 CACTTGGCCGTGT
1 CACATGGCCGTGT
50855873 GTCACACACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.31, T:0.28
Consensus pattern (13 bp):
CACATGGCCGTGT
Found at i:50855875 original size:15 final size:13
Alignment explanation
Indices: 50855834--50855878 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
50855824 CTATAGGGGA
*
50855834 CACATGGCCGTGT
1 CACATGGCTGTGT
50855847 CACATGGCTGTGT
1 CACATGGCTGTGT
*
50855860 CACTTGGCCGTGTGT
1 CACATGG-C-TGTGT
50855875 CACA
1 CACA
50855879 CACGGCTGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 18 0.67
14 1 0.04
15 8 0.30
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.27
Consensus pattern (13 bp):
CACATGGCTGTGT
Found at i:50863787 original size:49 final size:50
Alignment explanation
Indices: 50863715--50863951 Score: 271
Period size: 49 Copynumber: 4.8 Consensus size: 50
50863705 GACGTCACGC
* *
50863715 GTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
* * * ** * * * *
50863764 GTGTATTACCAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCACGT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACAT
* * ** *
50863815 GTGTAGTACTTAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACTT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
* *
50863865 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCGCAT
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
* *
50863914 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
50863952 GCTTTGGATA
Statistics
Matches: 153, Mismatches: 33, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
49 73 0.48
50 46 0.30
51 34 0.22
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (50 bp):
GTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACAT
Found at i:50869087 original size:51 final size:49
Alignment explanation
Indices: 50868956--50869088 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
50868946 TATTGTGACG
* * * * *
50868956 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAATTGG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAATTGA
* * * * * *
50869005 TCGCATGTGCAGTAATAAGTGCAAGCAACTATGCGTACCCGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAA-TT-GA
*
50869056 TCACGTGTGTAGTACTAAGTGCATGCTACTATG
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTATG
50869089 TAACACCCCG
Statistics
Matches: 65, Mismatches: 17, Indels: 2
0.77 0.20 0.02
Matches are distributed among these distances:
49 35 0.54
50 2 0.03
51 28 0.43
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATAATTGA
Found at i:50870562 original size:40 final size:40
Alignment explanation
Indices: 50870456--50870622 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
50870446 CGGGATTTAA
* * *
50870456 CCGGATATAACCACGAGCA-AATTGCCTTCGGGTCTTCA-C
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTT-AGC
** * * *
50870495 CCGGAT-TGGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATAT-AATCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
50870535 CCGGATATAA-CAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
50870575 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50870615 CCGGATAT
1 CCGGATAT
50870623 CATTCAAATG
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 12 0.11
40 91 0.86
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50884539 original size:55 final size:55
Alignment explanation
Indices: 50884469--50884595 Score: 137
Period size: 55 Copynumber: 2.3 Consensus size: 55
50884459 CGAGCCTGCC
* * * * * * *
50884469 AAAAGAACACAGGCGTGCGACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAAATAACACGGGCGTGAGACACGCCCATGTCGAACACCCGTGGTCGAAACTGAG
* * * * **
50884524 AAACTAGCACGGGCGTGAGACACGCCCATGTCTAACACCCGTGGTCGAACCTGTT
1 AAAATAACACGGGCGTGAGACACGCCCATGTCGAACACCCGTGGTCGAAACTGAG
50884579 AAAATAACACGGGCGTG
1 AAAATAACACGGGCGTG
50884596 GGGATTGAAC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.30, C:0.26, G:0.29, T:0.15
Consensus pattern (55 bp):
AAAATAACACGGGCGTGAGACACGCCCATGTCGAACACCCGTGGTCGAAACTGAG
Found at i:50891860 original size:20 final size:19
Alignment explanation
Indices: 50891831--50891872 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
50891821 TCCCCTGTAG
*
50891831 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTCCTAAGT
*
50891850 TTTGTAAAAATTTCCTGAGT
1 TTTG-AAAAATTTCCTAAGT
50891870 TTT
1 TTT
50891873 TAGTTTAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (19 bp):
TTTGAAAAATTTCCTAAGT
Found at i:50901129 original size:40 final size:40
Alignment explanation
Indices: 50901059--50901241 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
50901049 TACTCGTTCA
* *
50901059 AATGCCTTCGGGACATAGCCCTG-TTATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACC
*
50901099 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * *
50901139 AAGGCCTTCGGG-CTTAGCCTGGAATTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
* * * *
50901178 AATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-C
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACC
* *
50901218 AAAGCCTTCGAGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50901242 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 78 0.66
41 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACC
Found at i:50901225 original size:79 final size:80
Alignment explanation
Indices: 50901085--50901237 Score: 195
Period size: 79 Copynumber: 1.9 Consensus size: 80
50901075 AGCCCTGTTA
* * * *
50901085 TAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAAGGCCTTCG-
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
*
50901149 GGCTTAGCCTGGAAT
66 GACTTAGCCTGGAAT
** *
50901164 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
50901227 GAGACTTAGCC
64 GAGACTTAGCC
50901238 CGGACATCAT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
78 3 0.05
79 48 0.76
80 12 0.19
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
GACTTAGCCTGGAAT
Found at i:50905880 original size:40 final size:40
Alignment explanation
Indices: 50905825--50905992 Score: 189
Period size: 40 Copynumber: 4.2 Consensus size: 40
50905815 TGAATGATAC
* *
50905825 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
50905865 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* ** *
50905905 CCGGGCTAAGACCCGAAGGCATTTGTG-TAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCT-AGTGATTATAT
* * * *
50905945 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
50905985 CC-GGCTAA
1 CCGGGCTAA
50905993 ATTCCGAAGA
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 6 0.06
40 96 0.91
41 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:50910640 original size:41 final size:41
Alignment explanation
Indices: 50910595--50910711 Score: 96
Period size: 41 Copynumber: 3.1 Consensus size: 41
50910585 TGAAAGATAA
50910595 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
50910636 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50910666 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
50910707 ATGTA
1 ATGTA
50910712 TACAAGAGAG
Statistics
Matches: 53, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 13 0.25
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:50910651 original size:71 final size:71
Alignment explanation
Indices: 50910563--50910726 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
50910553 GAGATGTATC
50910563 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50910628 AGGACA
66 AGGACA
50910634 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
50910699 AGGACA
66 AGGACA
*
50910705 CCATGTATACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
50910727 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:50915142 original size:40 final size:39
Alignment explanation
Indices: 50914941--50915142 Score: 223
Period size: 39 Copynumber: 5.1 Consensus size: 39
50914931 CGGAATTTAA
** *
50914941 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAA-GCCTTCGGGACTTAGC
* * *
50914981 CCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
* *
50915020 CCGGATTTAGTAACTCGCACAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
*
50915058 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAA-GCCTTCGGGA-CTTAGC
* *
50915098 CCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAAGCCTTCGGGACTTAGC
50915138 CCGGA
1 CCGGA
50915143 CATCATTCGA
Statistics
Matches: 139, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
38 27 0.19
39 51 0.37
40 49 0.35
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAAGCCTTCGGGACTTAGC
Found at i:50918017 original size:21 final size:21
Alignment explanation
Indices: 50917967--50918018 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
50917957 TGTGTATTTT
50917967 GAAGTTTT-TTGATAGATTAC
1 GAAGTTTTGTTGATAGATTAC
*
50917987 GATAG-GTTGTTGATAGATATAC
1 GA-AGTTTTGTTGATAGAT-TAC
50918009 -AAGTTTTGTT
1 GAAGTTTTGTT
50918019 AAGTGATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 6 0.23
21 17 0.65
22 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.44
Consensus pattern (21 bp):
GAAGTTTTGTTGATAGATTAC
Found at i:50918537 original size:40 final size:40
Alignment explanation
Indices: 50918501--50918631 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 40
50918491 CAGCTATTTG
* * *
50918501 TGGCACTTAGTGTGCGATTCGACATAACTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
50918541 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
** * * *
50918581 TGTTACTTAGTGTGTGATTTTAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
50918621 TGGCACTTAGT
1 TGGCACTTAGT
50918632 ATGCAAGATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.22, C:0.15, G:0.25, T:0.37
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
Found at i:50919788 original size:33 final size:33
Alignment explanation
Indices: 50919751--50919829 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
50919741 AGTCTATGCT
* * * *
50919751 TTAGCCCTATACAATATCAGTACAGTCTGGGTC
1 TTAGCCCTATACAATAACAATACAATCTGGGCC
* * *
50919784 TTAGCCCTTTATAGTAACAATACAATCTGGGCC
1 TTAGCCCTATACAATAACAATACAATCTGGGCC
50919817 TTAGCCCTATACA
1 TTAGCCCTATACA
50919830 GTTATAGTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (33 bp):
TTAGCCCTATACAATAACAATACAATCTGGGCC
Found at i:50920332 original size:26 final size:27
Alignment explanation
Indices: 50920189--50920381 Score: 177
Period size: 27 Copynumber: 7.4 Consensus size: 27
50920179 GGGCATAATC
* * **
50920189 GTCATTTTACCATACAAGGGTATTATA
1 GTCATTTTACCCTACAAGGGCATTACG
* * *
50920216 GTCATTTTACCCGATAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* * *
50920243 GTCATTTTATCCTACAGGGGCAGTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* *
50920270 ATCATTTTACCCT---A---TATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
*
50920291 GTCATTTTACCCTACAAGGGCGTTACG
1 GTCATTTTACCCTACAAGGGCATTACG
**
50920318 GTCA-TTTATTCTAC-AGGGACATTACG
1 GTCATTTTACCCTACAAGGG-CATTACG
*
50920344 GTCATTTTACCCTACAAGGGCATTATG
1 GTCATTTTACCCTACAAGGGCATTACG
50920371 GTCATTTTACC
1 GTCATTTTACC
50920382 TATTTTGGGG
Statistics
Matches: 132, Mismatches: 25, Indels: 18
0.75 0.14 0.10
Matches are distributed among these distances:
21 17 0.13
24 1 0.01
25 4 0.03
26 18 0.14
27 88 0.67
28 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACG
Found at i:50921585 original size:14 final size:13
Alignment explanation
Indices: 50921541--50921586 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
50921531 TCAAACTCCT
50921541 AATTCCTCTCCAC
1 AATTCCTCTCCAC
* *
50921554 AAAT-CTCTCCCC
1 AATTCCTCTCCAC
50921566 AA-TCCTCTCCAC
1 AATTCCTCTCCAC
50921578 AATTTCCTC
1 AA-TTCCTC
50921587 CTTGATATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
11 1 0.04
12 18 0.67
13 3 0.11
14 5 0.19
ACGTcount: A:0.24, C:0.46, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTCCTCTCCAC
Found at i:50924618 original size:4 final size:4
Alignment explanation
Indices: 50924609--50924639 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
50924599 CTACTACTAA
50924609 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
50924640 ATATATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:50936737 original size:29 final size:29
Alignment explanation
Indices: 50936705--50936779 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50936695 CATGGCCTTT
*
50936705 TTAGGCCCAAATCAC-TTGTATATGGCCCA
1 TTAGGCCCAAATCACATT-TATACGGCCCA
* *
50936734 TTAGGCCTAAATCACATTTATACGGCCCG
1 TTAGGCCCAAATCACATTTATACGGCCCA
*
50936763 TTAGGCCC-AGTCACATT
1 TTAGGCCCAAATCACATT
50936780 CATATTCATG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
28 8 0.20
29 30 0.75
30 2 0.05
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
TTAGGCCCAAATCACATTTATACGGCCCA
Found at i:50942236 original size:40 final size:40
Alignment explanation
Indices: 50942157--50942333 Score: 225
Period size: 40 Copynumber: 4.5 Consensus size: 40
50942147 CGGATGATAA
* * * *
50942157 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
50942197 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
50942237 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
50942277 CCAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
50942317 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
50942334 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 101 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:50942601 original size:22 final size:22
Alignment explanation
Indices: 50942561--50942602 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50942551 GAATGTGCAT
*
50942561 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
50942583 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
50942603 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:50946810 original size:40 final size:40
Alignment explanation
Indices: 50946755--50946964 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
50946745 GAACATTGAA
50946755 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
50946795 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
50946835 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
50946875 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
50946914 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
50946955 CTATATCCGG
1 ATATATCCGG
50946965 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:50952354 original size:40 final size:39
Alignment explanation
Indices: 50952299--50952500 Score: 226
Period size: 40 Copynumber: 5.1 Consensus size: 39
50952289 AATGATACCT
* * *
50952299 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATATCC
*
50952339 GGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCC
* *
50952379 GAGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATATCC
* * *
50952419 GGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATATCC
* * **
50952459 GGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGT-GTTATATCC
50952499 GG
1 GG
50952501 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 136 0.96
41 2 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATATCC
Found at i:50954526 original size:24 final size:23
Alignment explanation
Indices: 50954494--50954602 Score: 137
Period size: 24 Copynumber: 4.6 Consensus size: 23
50954484 ACCAAACGTT
* **
50954494 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
50954518 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
50954542 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
50954566 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
50954590 GCACACATAGTGC
1 GCACACATAGTGC
50954603 ATTTGAGATT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
23 2 0.03
24 68 0.89
25 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:50954568 original size:48 final size:48
Alignment explanation
Indices: 50954494--50954602 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
50954484 ACCAAACGTT
* **
50954494 GCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
50954542 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAATC
50954590 GCACACATAGTGC
1 GCACACATAGTGC
50954603 ATTTGAGATT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 53 0.93
49 4 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (48 bp):
GCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAATC
Found at i:50961263 original size:29 final size:29
Alignment explanation
Indices: 50961224--50961298 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
50961214 GGTTGAGAGA
* *
50961224 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
50961253 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
50961282 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
50961299 TGGTTATTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:50969139 original size:29 final size:29
Alignment explanation
Indices: 50969100--50969174 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
50969090 GGTTGAGAGA
* *
50969100 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
50969129 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
50969158 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
50969175 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:50972367 original size:13 final size:13
Alignment explanation
Indices: 50972349--50972374 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50972339 TCGACAGGGA
50972349 CATGCCCGTGTGG
1 CATGCCCGTGTGG
50972362 CATGCCCGTGTGG
1 CATGCCCGTGTGG
50972375 GGTGGCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (13 bp):
CATGCCCGTGTGG
Found at i:50981440 original size:49 final size:49
Alignment explanation
Indices: 50981384--50981743 Score: 621
Period size: 49 Copynumber: 7.3 Consensus size: 49
50981374 TACATATATG
* * *
50981384 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
50981433 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
50981482 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
50981531 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
50981580 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
50981629 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
50981678 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
50981727 TGTGATAAGGCCTAATG
1 TGTGATAAGGCCTAATG
50981744 AATAATGTAA
Statistics
Matches: 297, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 297 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:50981897 original size:37 final size:37
Alignment explanation
Indices: 50981847--50981968 Score: 217
Period size: 37 Copynumber: 3.3 Consensus size: 37
50981837 GGAATATGTT
* *
50981847 CCGGGTGAGACCCGATGACTATGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
50981884 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
50981921 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
50981958 CCGGGTAAGAC
1 CCGGGTAAGAC
50981969 TTCTTTTATA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:50989584 original size:40 final size:40
Alignment explanation
Indices: 50989463--50989591 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
50989453 CAGCTATTTG
* ** *
50989463 TGGCACTTAGTTTGCGATTCAATATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
* * * * **
50989503 AGCCACTT-GTATGCGACTTGAGATAGCTTCAACTATATA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
* *
50989542 TGGCACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
50989582 TGGCACTTAG
1 TGGCACTTAG
50989592 CGTGTGAGAT
Statistics
Matches: 71, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 30 0.42
40 41 0.58
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATA
Found at i:50989636 original size:28 final size:28
Alignment explanation
Indices: 50989579--50989638 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
50989569 CTTCGGCTAT
* *
50989579 GTATGGCACTTAGCGTGTGAGATATCGA
1 GTATGGCACTTAGCGTGCGAGACATCGA
* * *
50989607 GTATGGCACTTAGTGTGCGAGGCATTGA
1 GTATGGCACTTAGCGTGCGAGACATCGA
50989635 GTAT
1 GTAT
50989639 TCAACAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.30
Consensus pattern (28 bp):
GTATGGCACTTAGCGTGCGAGACATCGA
Found at i:51007861 original size:13 final size:13
Alignment explanation
Indices: 51007843--51007869 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51007833 GCTTGGCAGG
51007843 GACACGCCCATGT
1 GACACGCCCATGT
51007856 GACACGCCCATGT
1 GACACGCCCATGT
51007869 G
1 G
51007870 CGATTACTTC
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:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:51023581 original size:49 final size:49
Alignment explanation
Indices: 51023509--51023606 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
51023499 TCATACAGCC
*
51023509 AATAACACACCAGTTTGAGGACAAGCCACCGGTAATGTAGATAAACTAT
1 AATAACACACCAGTTTGAGGACAAGCCACCAGTAATGTAGATAAACTAT
*
51023558 AATAACACACCAGTTTGTGGACAAGCCACCAGTAATGTAGATAAACTAT
1 AATAACACACCAGTTTGAGGACAAGCCACCAGTAATGTAGATAAACTAT
51023607 CAAAATTGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.21
Consensus pattern (49 bp):
AATAACACACCAGTTTGAGGACAAGCCACCAGTAATGTAGATAAACTAT
Found at i:51023676 original size:20 final size:20
Alignment explanation
Indices: 51023651--51023705 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
51023641 ACCTGCTAGT
51023651 ATTGTAGACAAGCTACCAGA
1 ATTGTAGACAAGCTACCAGA
*
51023671 ATTGTAGACAAGCCACCAGA
1 ATTGTAGACAAGCTACCAGA
* *
51023691 ATTGCACACAAGCTA
1 ATTGTAGACAAGCTA
51023706 TCGATACTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
ATTGTAGACAAGCTACCAGA
Found at i:51025660 original size:17 final size:17
Alignment explanation
Indices: 51025634--51025667 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
51025624 TATATAATTG
*
51025634 AAATATGTTATAATATA
1 AAATAAGTTATAATATA
51025651 AAATAAGTTATAATATA
1 AAATAAGTTATAATATA
51025668 TTAAGTGGGG
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:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATAAGTTATAATATA
Found at i:51026915 original size:24 final size:24
Alignment explanation
Indices: 51026845--51026917 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
51026835 GAAATGATTT
*
51026845 TGGCACTATGTGTGCGAATTTGAA
1 TGGCACTATGTGTGCGAATTTGTA
*
51026869 TGGCATTATGTGTGCGAATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
* *
51026893 TGGCACTATGTGTTCGGATTTGTA
1 TGGCACTATGTGTGCGAATTTGTA
51026917 T
1 T
51026918 TGTAACACCC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.40
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGTA
Found at i:51028325 original size:40 final size:40
Alignment explanation
Indices: 51028280--51028446 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
51028270 CGGAATATAA
*
51028280 CCGGATATAAGCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCACT-AGCACAAATGCCTTCGGGTCTTAGC
* * *
51028320 CCGGATAGAATG-ACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCACTAGCACAAATGCCTTCGGGTCTTAGC
* *
51028360 CCGGATAT-AGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAG-CACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
51028400 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
51028439 CCGGATAT
1 CCGGATAT
51028447 CATTCAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.13
40 89 0.83
41 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAAGCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51028430 original size:80 final size:79
Alignment explanation
Indices: 51028296--51028446 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
51028286 ATAAGCATGT
*
51028296 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG-CTTAGCC
51028361 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
51028376 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGCTTAGC
51028439 CCGGATAT
64 CCGGATAT
51028447 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:51036086 original size:40 final size:40
Alignment explanation
Indices: 51036041--51036170 Score: 142
Period size: 40 Copynumber: 3.2 Consensus size: 40
51036031 CGGAATATAA
51036041 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
* * *
51036081 CCGGATAGAATG-ACT-CGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-GCA-TGTGCACAAATGCCTTCGGGTCTTAGC
* * *
51036121 CCGGATAT-AGC-CGCTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAAGCATG-T-GCACAAATGCCTTCGGGTCTTAGC
51036161 CCGGATATAA
1 CCGGATATAA
51036171 TTTCCAGCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 69 0.93
41 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.24
Consensus pattern (40 bp):
CCGGATATAAGCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:51036185 original size:40 final size:40
Alignment explanation
Indices: 51036057--51036208 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
51036047 ATAAGCATGT
* * *
51036057 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** * *
51036097 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCGCTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
51036137 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
51036177 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
51036209 CATTCAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 89 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:51036191 original size:80 final size:80
Alignment explanation
Indices: 51036057--51036208 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
51036047 ATAAGCATGT
* *
51036057 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
51036122 CGGATATAGCCGCTA
66 CGGATATAGCCGCTA
* * ** * *
51036137 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
51036200 CCCGGATAT
64 CCCGGATAT
51036209 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCGCTA
Found at i:51038648 original size:39 final size:39
Alignment explanation
Indices: 51038596--51038818 Score: 284
Period size: 39 Copynumber: 5.7 Consensus size: 39
51038586 ATTTGATGTA
51038596 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
51038635 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* **
51038674 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * * * *
51038714 TATCCGGACTTAAGATCCGCAGGCTTCATGCTAGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * * *
51038753 TATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTA
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * *
51038792 TATCCGGGCTTAAAGTCCCGTAGGCTT
1 TATCCGGACTTAAGGT-CCGCAGGCTT
51038819 TGTGTTGGTG
Statistics
Matches: 165, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 120 0.73
40 45 0.27
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:51038726 original size:79 final size:78
Alignment explanation
Indices: 51038594--51038818 Score: 270
Period size: 79 Copynumber: 2.9 Consensus size: 78
51038584 ATATTTGATG
**
51038594 TATATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
1 TATATCCGGACTTAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
* * *
51038659 TTCGTGCTGGAAT
66 TTCATGCTAGAAC
* * *
51038672 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGCAGG
1 TATATCCGGACTT-AAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGG
*
51038737 CTTCATGCTAGTAC
65 CTTCATGCTAGAAC
** * * * * * * *
51038751 TATATCCGGACTTAAGGTCCGCAGGCTTCGTACTGGTACTATATCCGGGCTTAAAGTCCCGTAGG
1 TATATCCGGACTTAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGT-CCGCAGG
51038816 CTT
65 CTT
51038819 TGTGTTGGTG
Statistics
Matches: 124, Mismatches: 21, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
78 46 0.37
79 78 0.63
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.28
Consensus pattern (78 bp):
TATATCCGGACTTAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGC
TTCATGCTAGAAC
Found at i:51038804 original size:118 final size:118
Alignment explanation
Indices: 51038596--51038818 Score: 338
Period size: 118 Copynumber: 1.9 Consensus size: 118
51038586 ATTTGATGTA
* * * * *
51038596 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTT
1 TATCCGGACTTAAGATCCGCAGGCTTCATGCTAGAACTATATCCGGACTTAAGGTCCGCAGGCTT
* * *
51038661 CGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
66 CGTACTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
*
51038714 TATCCGGACTTAAGATCCGCAGGCTTCATGCTAGTACTATATCCGGACTTAAGGTCCGCAGGCTT
1 TATCCGGACTTAAGATCCGCAGGCTTCATGCTAGAACTATATCCGGACTTAAGGTCCGCAGGCTT
* * *
51038779 CGTACTGGTACTATATCCGGGCTTAAAGTCCCGTAGGCTT
66 CGTACTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTT
51038819 TGTGTTGGTG
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
118 93 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28
Consensus pattern (118 bp):
TATCCGGACTTAAGATCCGCAGGCTTCATGCTAGAACTATATCCGGACTTAAGGTCCGCAGGCTT
CGTACTGGAACTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:51040399 original size:20 final size:20
Alignment explanation
Indices: 51040374--51040411 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51040364 GTTTATTCGC
*
51040374 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51040394 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51040412 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51042071 original size:28 final size:28
Alignment explanation
Indices: 51042039--51042107 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51042029 GCGTAGATCA
51042039 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51042067 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51042095 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51042108 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51048403 original size:20 final size:20
Alignment explanation
Indices: 51048378--51048415 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51048368 GTTTATTCGC
*
51048378 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
51048398 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
51048416 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:51050075 original size:28 final size:28
Alignment explanation
Indices: 51050043--51050111 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
51050033 GCGTAGATCA
51050043 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
51050071 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
51050099 CGATA-TACCCCTA
1 CGAAATTACCCCTA
51050112 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:51053724 original size:43 final size:43
Alignment explanation
Indices: 51053662--51053746 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
51053652 TTGTGATTCT
* **
51053662 GATATGTGTTTACGAGTAAGACCTTGTCTGGGACAG-TGGCATC
1 GATATGTGGTTACGAGTAAGACCACGTCTGGGAC-GTTGGCATC
51053705 GATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
51053747 TATACGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (43 bp):
GATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:51064106 original size:28 final size:28
Alignment explanation
Indices: 51064074--51064172 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
51064064 GCAATAAGCC
*
51064074 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
51064102 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
51064130 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
51064159 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51064173 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:51071667 original size:28 final size:28
Alignment explanation
Indices: 51071635--51071733 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
51071625 GCAATAAGCC
*
51071635 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
51071663 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
51071691 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
51071720 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51071734 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:51076926 original size:45 final size:45
Alignment explanation
Indices: 51076862--51077060 Score: 247
Period size: 45 Copynumber: 4.4 Consensus size: 45
51076852 TAGGATTTCG
* *
51076862 ATATGTGTTTTCATGTAAGACAACGTCTGGGACTTTGGCATCAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACTTTGGCATCAAT
* **
51076907 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGGCATCGTT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACTTTGGCATCAAT
* * **
51076952 ATATGTGTTTTCGTGTAAGACCACGTCTAGGACGTTGGCATTGAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACTTTGGCATCAAT
* ** *
51076997 ATATGTGTTTTTGTGTAAGACCACGTCTGGGA-TGTTAACATTAAT
1 ATATGTGTTTTCGTGTAAGACCACGTCTGGGACT-TTGGCATCAAT
* *
51077042 ATATGTGGTTACGTGTAAG
1 ATATGTGTTTTCGTGTAAG
51077061 CCATGTATTG
Statistics
Matches: 135, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 135 1.00
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (45 bp):
ATATGTGTTTTCGTGTAAGACCACGTCTGGGACTTTGGCATCAAT
Found at i:51079160 original size:27 final size:27
Alignment explanation
Indices: 51079130--51079227 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
51079120 TGTAGGATAG
**
51079130 AATTACCAAAATACCACT-GGTTTG-AGA
1 AATTACCAAAATACC-CTCAATTTGTA-A
*
51079157 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTCAATTTGTAA
**
51079184 AATTACCAAAATACCC-CTAATTTACAA
1 AATTACCAAAATACCCTC-AATTTGTAA
51079211 AATTA-CAGAAATACCCT
1 AATTACCA-AAATACCCT
51079228 TGACTTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 5 0.08
27 54 0.90
28 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTGTAA
Found at i:51079396 original size:27 final size:26
Alignment explanation
Indices: 51079307--51079396 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 26
51079297 TTACCAAAAC
***
51079307 ACCCTTGTAGGATGAAATGACTAAAAT
1 ACCCTTGTAGGAT-AAATGACCGTAAT
* *
51079334 ACCCTTAATAGG-TAAAAAGACCGTAA-
1 ACCCTT-GTAGGAT-AAATGACCGTAAT
*
51079360 AGCCCCTGTAGGATAAAGTGACCGTAAT
1 A-CCCTTGTAGGATAAA-TGACCGTAAT
51079388 ACCCTTGTA
1 ACCCTTGTA
51079397 TGGTAAAATG
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
26 8 0.17
27 35 0.73
28 5 0.10
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (26 bp):
ACCCTTGTAGGATAAATGACCGTAAT
Found at i:51080293 original size:24 final size:24
Alignment explanation
Indices: 51080210--51080293 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
51080200 GAGGAAGTGC
*
51080210 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTCTGCCCCAGTTTA-T
* *
51080235 GAAAAGAGCTCTGCCCCAGTTTAT
1 TAAAAGGGCTCTGCCCCAGTTTAT
*
51080259 TAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTCTGCCCCAGTTTAT
51080283 TAAAAGAGGCT
1 TAAAAG-GGCT
51080294 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.08
24 11 0.22
25 36 0.71
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTCTGCCCCAGTTTAT
Found at i:51080303 original size:25 final size:24
Alignment explanation
Indices: 51080247--51080307 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
51080237 AAAGAGCTCT
**
51080247 GCCCCAGTTTATTAGAAAGGGCTTT
1 GCCCCAG-TTATTAGAAAGGGCTAG
51080272 GCCCCAGTTATTA-AAAGAGGCTAG
1 GCCCCAGTTATTAGAAAG-GGCTAG
51080296 GCCTCCAGTTAT
1 GCC-CCAGTTAT
51080308 ATGATAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 4 0.12
24 13 0.41
25 15 0.47
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
GCCCCAGTTATTAGAAAGGGCTAG
Found at i:51080487 original size:42 final size:42
Alignment explanation
Indices: 51080428--51080519 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
51080418 TAGTCTCCCC
* * ** **
51080428 AAATGGGCTTGCATACATTCATTGGTATTTTATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
51080470 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
51080512 AAATGGGC
1 AAATGGGC
51080520 CTAAGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (42 bp):
AAATGGGCTTACATACATCCATTGACATTACATGTGATATTG
Found at i:51080578 original size:31 final size:31
Alignment explanation
Indices: 51080543--51080621 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
51080533 CGTTTATAGT
51080543 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
51080574 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
51080605 AAAGGCTTTGGCCCAGT
1 AAAGGCTTCGGCCCAGT
51080622 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:51082269 original size:29 final size:29
Alignment explanation
Indices: 51082236--51082367 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
51082226 GTGACGAGAT
*
51082236 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
51082265 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
51082294 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
51082323 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
51082352 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
51082368 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:51090141 original size:29 final size:29
Alignment explanation
Indices: 51090108--51090181 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
51090098 GTGACGAGAT
51090108 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
51090137 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
51090166 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
51090182 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:51090197 original size:29 final size:29
Alignment explanation
Indices: 51090165--51090240 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
51090155 CTGGAAATAT
* *
51090165 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
51090194 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
51090223 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
51090241 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:51090208 original size:58 final size:58
Alignment explanation
Indices: 51090108--51090240 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
51090098 GTGACGAGAT
* * * * * *
51090108 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
51090166 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
51090224 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
51090241 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:51095680 original size:30 final size:31
Alignment explanation
Indices: 51095624--51095686 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
51095614 CCTTTTCATA
51095624 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
51095655 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
51095685 TT
1 TT
51095687 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:51095927 original size:24 final size:24
Alignment explanation
Indices: 51095876--51096016 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
51095866 GCTTTATCAT
*
51095876 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
51095901 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
51095925 ATAACTGGGGCATAAGCCC-TTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
51095947 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
51095970 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
51095994 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
51096017 CACTTCCTCC
Statistics
Matches: 107, Mismatches: 5, Indels: 9
0.88 0.04 0.07
Matches are distributed among these distances:
21 12 0.11
22 9 0.08
23 8 0.07
24 66 0.62
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:51095963 original size:45 final size:48
Alignment explanation
Indices: 51095876--51096015 Score: 189
Period size: 45 Copynumber: 3.0 Consensus size: 48
51095866 GCTTTATCAT
* * *
51095876 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTCA
**
51095925 ATAACTGGGGCATAAGCCC-TTT-ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
51095970 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
51096016 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 4, Indels: 9
0.86 0.04 0.09
Matches are distributed among these distances:
45 33 0.40
46 9 0.11
47 9 0.11
48 20 0.24
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCA
Found at i:51096096 original size:11 final size:11
Alignment explanation
Indices: 51096066--51096119 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
51096056 TATGATTACC
51096066 TCATGTGCATA
1 TCATGTGCATA
*
51096077 TCA--TACATA
1 TCATGTGCATA
51096086 TCATGTGCATA
1 TCATGTGCATA
*
51096097 TCA--TACAT-
1 TCATGTGCATA
51096105 TCATGTGCATA
1 TCATGTGCATA
51096116 TCAT
1 TCAT
51096120 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:51096110 original size:19 final size:20
Alignment explanation
Indices: 51096066--51096124 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
51096056 TATGATTACC
51096066 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
51096086 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
51096105 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
51096125 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:51096199 original size:25 final size:25
Alignment explanation
Indices: 51096167--51096214 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
51096157 ATACATAAAC
* * *
51096167 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
51096192 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
51096215 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:51101683 original size:29 final size:28
Alignment explanation
Indices: 51101649--51101751 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
51101639 TACTCAATCA
*
51101649 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
51101678 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
51101707 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
51101736 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
51101752 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:51113984 original size:37 final size:36
Alignment explanation
Indices: 51113934--51114020 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
51113924 TACGAAGTCT
51113934 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
51113970 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
51114007 TCACCCGGAACATA
1 T-ACCCGG-ACATA
51114021 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:51114158 original size:49 final size:49
Alignment explanation
Indices: 51114089--51114400 Score: 507
Period size: 49 Copynumber: 6.4 Consensus size: 49
51114079 TTTACCACAT
* *
51114089 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
51114138 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
51114187 ATATACATATACTTTCACATTCACCACATCGGCCATTTGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
51114236 ATATACATATACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
51114285 ATATACATATACTTTCACATTCACCACATCGGCCATTTGGCCTTATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* * *
51114334 ATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
* *
51114383 ATATATATACATTTTCAC
1 ATATACATACACTTTCAC
51114401 GAATCTTGAT
Statistics
Matches: 249, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 249 1.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
ATATACATACACTTTCACATTCACCACATCGGCCATTAGGCCTTATCAC
Found at i:51117162 original size:39 final size:39
Alignment explanation
Indices: 51117108--51117226 Score: 220
Period size: 39 Copynumber: 3.1 Consensus size: 39
51117098 GTGATGAAGT
*
51117108 AGGCAAGGTTGATGACGTGCCCTTGCGACATGCACCATA
1 AGGCAAGGTCGATGACGTGCCCTTGCGACATGCACCATA
51117147 AGGCAAGGTCGATGACGTGCCCTTGCGACATGCACCATA
1 AGGCAAGGTCGATGACGTGCCCTTGCGACATGCACCATA
*
51117186 AGGCAAGGTCGATGACGTGCCCTTGTGACATGCACCATA
1 AGGCAAGGTCGATGACGTGCCCTTGCGACATGCACCATA
51117225 AG
1 AG
51117227 AAGTAGACGT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (39 bp):
AGGCAAGGTCGATGACGTGCCCTTGCGACATGCACCATA
Found at i:51120234 original size:44 final size:44
Alignment explanation
Indices: 51120171--51120261 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
51120161 TTGTGTTAAG
*
51120171 GTGTTCAATTAGGTTAGGTTTAGTATTACTTGGTAAGCTACCTT
1 GTGTTCAATTAGGTTAGGTTCAGTATTACTTGGTAAGCTACCTT
*
51120215 GTGTTCAATTGGGTTAGGTTCAGTATTACTTGGTAAGCTACCTT
1 GTGTTCAATTAGGTTAGGTTCAGTATTACTTGGTAAGCTACCTT
51120259 GTG
1 GTG
51120262 GTCCTTTAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (44 bp):
GTGTTCAATTAGGTTAGGTTCAGTATTACTTGGTAAGCTACCTT
Found at i:51124142 original size:22 final size:22
Alignment explanation
Indices: 51124102--51124210 Score: 119
Period size: 22 Copynumber: 4.9 Consensus size: 22
51124092 ATAGCTCGTA
*
51124102 AGAGCTTACTGTTTCAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
*
51124125 AAAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
51124147 AGTGCGTACCGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* *
51124169 AGAGCTTACCGTTTTAGCTCAAT
1 AGAGCTTACTG-TTCAGCTCAAT
* *
51124192 ATAGCTTACTATTCAGCTC
1 AGAGCTTACTGTTCAGCTC
51124211 GAAGGAGCTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
22 44 0.61
23 28 0.39
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:51124207 original size:45 final size:45
Alignment explanation
Indices: 51124104--51124224 Score: 113
Period size: 45 Copynumber: 2.7 Consensus size: 45
51124094 AGCTCGTAAG
* * * *
51124104 AGCTTACTGTTTCAGCTCATTAAAGCTTACTGTTCAGCTCAATAGT
1 AGCTTACT-ATTCAGCTCAATAGAGCTTACCGTTCAGCTCAATAGT
* ** *
51124150 -GCGTACCGTTCAGCTCAATAGAGCTTACCGTTTTAGCTCAATA-T
1 AGCTTACTATTCAGCTCAATAGAGCTTACCG-TTCAGCTCAATAGT
*
51124194 AGCTTACTATTCAGCTCGAA-GGAGCTTACCG
1 AGCTTACTATTCAGCTC-AATAGAGCTTACCG
51124225 AGAATGACTT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
44 20 0.33
45 39 0.64
46 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (45 bp):
AGCTTACTATTCAGCTCAATAGAGCTTACCGTTCAGCTCAATAGT
Found at i:51131738 original size:22 final size:22
Alignment explanation
Indices: 51131713--51131786 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
51131703 TAGCTCGTTG
*
51131713 GAGCTTACCATTCAGCTTAATA
1 GAGCTTACCGTTCAGCTTAATA
*
51131735 GAGCTTATCGTTCAGCTTAATA
1 GAGCTTACCGTTCAGCTTAATA
* *
51131757 AAGCTTACTGTTCAGCTTGAA-A
1 GAGCTTACCGTTCAGCTT-AATA
51131779 GAGCTTAC
1 GAGCTTAC
51131787 AGAGCATGAC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
22 43 0.96
23 2 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (22 bp):
GAGCTTACCGTTCAGCTTAATA
Found at i:51131807 original size:24 final size:24
Alignment explanation
Indices: 51131775--51131830 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
51131765 TGTTCAGCTT
51131775 GAAAGAGCTTACAGAGCATGACTC
1 GAAAGAGCTTACAGAGCATGACTC
* *
51131799 GAAATAGCTTACCGAGCATGACTC
1 GAAAGAGCTTACAGAGCATGACTC
51131823 GAAAGAGC
1 GAAAGAGC
51131831 ATGTATGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
GAAAGAGCTTACAGAGCATGACTC
Found at i:51133994 original size:9 final size:9
Alignment explanation
Indices: 51133982--51134039 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
51133972 TTTTGATAAA
51133982 TATGATATG
1 TATGATATG
51133991 TATGATATG
1 TATGATATG
* *
51134000 CACATGACATG
1 --TATGATATG
51134011 TATGATATG
1 TATGATATG
*
51134020 CACATGATATG
1 --TATGATATG
51134031 TATGATATG
1 TATGATATG
51134040 CACATGAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 24 0.62
11 15 0.38
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGATATG
Found at i:51134011 original size:20 final size:20
Alignment explanation
Indices: 51133983--51134051 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
51133973 TTTGATAAAT
51133983 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
*
51134003 ATGACATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
51134023 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
*
51134043 ATGAGATGT
1 ATGATATGT
51134052 TCATAAATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.33
Consensus pattern (20 bp):
ATGATATGTATGATATGCAC
Found at i:51134028 original size:11 final size:11
Alignment explanation
Indices: 51133992--51134046 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
51133982 TATGATATGT
51133992 ATGATATGCAC
1 ATGATATGCAC
* *
51134003 ATGACATG--T
1 ATGATATGCAC
51134012 ATGATATGCAC
1 ATGATATGCAC
*
51134023 ATGATATG--T
1 ATGATATGCAC
51134032 ATGATATGCAC
1 ATGATATGCAC
51134043 ATGA
1 ATGA
51134047 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51134123 original size:24 final size:24
Alignment explanation
Indices: 51134096--51134239 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
51134086 GGAGGAAGTG
*
51134096 CAAAAGGGCTTATGCCCCAGCTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
51134120 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
51134144 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
51134168 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
51134191 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
51134215 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
51134240 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
23 22 0.20
24 78 0.70
25 11 0.10
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:51134188 original size:47 final size:47
Alignment explanation
Indices: 51134096--51134218 Score: 201
Period size: 47 Copynumber: 2.6 Consensus size: 47
51134086 GGAGGAAGTG
* *
51134096 CAAAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
51134144 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
51134191 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
51134219 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
47 48 0.68
48 23 0.32
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:51134214 original size:71 final size:72
Alignment explanation
Indices: 51134098--51134239 Score: 216
Period size: 71 Copynumber: 2.0 Consensus size: 72
51134088 AGGAAGTGCA
*
51134098 AAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-C
1 AAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCTC
51134161 CAGTTATT
65 CAGTTATT
* * * *
51134169 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCC
1 AAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
51134234 AGTTAT
66 AGTTAT
51134240 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.83
72 11 0.17
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
AGTTATT
Found at i:51139228 original size:28 final size:28
Alignment explanation
Indices: 51139163--51139263 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51139153 ATAGTGAATC
*
51139163 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
51139192 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51139220 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
51139250 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51139264 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51147150 original size:28 final size:28
Alignment explanation
Indices: 51147085--51147185 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
51147075 ATAGTGAATC
*
51147085 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
51147114 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
51147142 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
51147172 CGCACACTTAGTGC
1 CGCACACTTAGTGC
51147186 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:51153169 original size:20 final size:20
Alignment explanation
Indices: 51153144--51153214 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
51153134 ATTTTGATAA
51153144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51153164 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
51153184 ACATGATCTGTATGATATGC
1 ACATGATATGTATGATATGC
*
51153204 ACATGAGATGT
1 ACATGATATGT
51153215 TCATAAATGC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:51153285 original size:24 final size:24
Alignment explanation
Indices: 51153258--51153425 Score: 250
Period size: 24 Copynumber: 7.0 Consensus size: 24
51153248 TGGAGGAGTG
*
51153258 CAAAAGGGCTTATGCCCCAGCTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
51153282 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
51153306 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
51153330 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
51153354 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
51153377 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
51153401 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
51153426 ATGATAAAGC
Statistics
Matches: 135, Mismatches: 6, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
23 22 0.16
24 102 0.76
25 11 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:51153382 original size:47 final size:47
Alignment explanation
Indices: 51153260--51153404 Score: 245
Period size: 47 Copynumber: 3.1 Consensus size: 47
51153250 GAGGAGTGCA
* *
51153260 AAAGGGCTTATGCCCCAGCTATCAAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT-T
51153308 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
* *
51153355 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
51153402 AAA
1 AAA
51153405 AGAGGCTAGG
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
47 48 0.52
48 45 0.48
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:51157549 original size:16 final size:16
Alignment explanation
Indices: 51157524--51157555 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51157514 AAAATTGAGA
*
51157524 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
51157540 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
51157556 GCGTTACAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.06, G:0.34, T:0.50
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:51174410 original size:40 final size:40
Alignment explanation
Indices: 51174365--51174532 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
51174355 CGGAATATAA
51174365 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
51174405 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
51174445 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
51174485 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
51174525 CCGGATAT
1 CCGGATAT
51174533 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:51182664 original size:19 final size:20
Alignment explanation
Indices: 51182640--51182694 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
51182630 ATATGGTATA
51182640 TATGATATGCACATGA-ATG
1 TATGATATGCACATGATATG
51182659 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
51182679 TATGATATGCACATGA
1 TATGATATGCACATGA
51182695 GGTAATCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 16 0.46
20 19 0.54
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:51182674 original size:11 final size:11
Alignment explanation
Indices: 51182641--51182694 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
51182631 TATGGTATAT
51182641 ATGATATGCAC
1 ATGATATGCAC
*
51182652 ATGA-ATG--T
1 ATGATATGCAC
51182660 ATGATATGCAC
1 ATGATATGCAC
*
51182671 ATGATATG--T
1 ATGATATGCAC
51182680 ATGATATGCAC
1 ATGATATGCAC
51182691 ATGA
1 ATGA
51182695 GGTAATCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 4 0.12
9 11 0.32
10 3 0.09
11 16 0.47
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:51182772 original size:24 final size:24
Alignment explanation
Indices: 51182745--51182862 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
51182735 GAGGAAGTGA
*
51182745 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
51182769 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
51182792 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
51182816 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
51182839 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51182863 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
23 40 0.47
24 38 0.44
25 8 0.09
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:51182799 original size:23 final size:23
Alignment explanation
Indices: 51182745--51182863 Score: 161
Period size: 24 Copynumber: 5.0 Consensus size: 23
51182735 GAGGAAGTGA
51182745 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
51182768 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
51182792 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
51182816 GAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
51182839 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51182863 A
1 A
51182864 TGATAAAGCA
Statistics
Matches: 88, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
23 40 0.45
24 41 0.47
25 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:51182814 original size:47 final size:47
Alignment explanation
Indices: 51182745--51182862 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
51182735 GAGGAAGTGA
51182745 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTT-TGCCCCAGTTATT
**
51182792 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAGTTATT
*
51182839 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
51182863 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
46 11 0.17
47 43 0.66
48 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTTGCCCCAGTTATT
Found at i:51187000 original size:26 final size:27
Alignment explanation
Indices: 51186942--51187070 Score: 199
Period size: 27 Copynumber: 4.9 Consensus size: 27
51186932 ATTACCAAAG
* *
51186942 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
51186969 TACCCTCGATTTACAGAATTAC-GTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
51186995 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
51187022 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
51187049 TACCCT-GATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
51187071 AAAATACCCT
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
26 40 0.42
27 56 0.58
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:51187070 original size:53 final size:53
Alignment explanation
Indices: 51186942--51187070 Score: 206
Period size: 53 Copynumber: 2.4 Consensus size: 53
51186932 ATTACCAAAG
*
51186942 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACGTTT
*
51186995 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTAC-GTTT
* *
51187049 TACCCT-GATTTACAAAATTACT
1 TACCCTCGATTTATAGAATTACT
51187071 AAAATACCCT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 61 0.86
54 10 0.14
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (53 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACGTTT
Found at i:51187078 original size:26 final size:26
Alignment explanation
Indices: 51187049--51187318 Score: 210
Period size: 27 Copynumber: 10.2 Consensus size: 26
51187039 ATTACTGTTT
* *
51187049 TACCCTGATTTACAAAATTACTAAAA
1 TACCCTGATTTATAAAATTACCAAAA
* *
51187075 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCC-TGATTTATAAAATTACCAAAA
*
51187102 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCT-GATTTA-TAAAATTACCAAAA
* * * *
51187129 TA-CCT-AGTTGTAAAATTGCTAAAA
1 TACCCTGATTTATAAAATTACCAAAA
* *
51187153 TACCCTGGTTTGTAAAATTACCAAAA
1 TACCCTGATTTATAAAATTACCAAAA
* *
51187179 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCT-GATTTATAAAATTACCAAAA
*
51187206 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TA-CCCTGA-TTTATAAAATTACCAAAA
* * * *
51187233 TACCACTGGTTTGTGAAATTACCGAAA
1 TACC-CTGATTTATAAAATTACCAAAA
* *
51187260 TA-CCTCAATTTGTAAAATTACCAAAA
1 TACCCT-GATTTATAAAATTACCAAAA
* *
51187286 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TA-CCCTGATTTATAAAATTACCA-AAA
51187313 TACCCT
1 TACCCT
51187319 TGACTTTCTA
Statistics
Matches: 203, Mismatches: 26, Indels: 30
0.78 0.10 0.12
Matches are distributed among these distances:
24 15 0.07
25 6 0.03
26 60 0.30
27 115 0.57
28 7 0.03
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (26 bp):
TACCCTGATTTATAAAATTACCAAAA
Found at i:51187079 original size:53 final size:53
Alignment explanation
Indices: 51186969--51187096 Score: 159
Period size: 53 Copynumber: 2.4 Consensus size: 53
51186959 ATTACCGTTT
* * * ****
51186969 TACCCTCGATTTACAGAATTACGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACTAAAA
51187022 TACCCTTGATTTACAGAATTACTGTTTTACCCT-GATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTAC-GTTTTACCCTCGATTTACAAAATTACTAAAA
* *
51187075 TACCCTTGGTTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
51187097 CAAAATACCC
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
53 55 0.85
54 10 0.15
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.39
Consensus pattern (53 bp):
TACCCTTGATTTACAGAATTACGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:51187095 original size:27 final size:27
Alignment explanation
Indices: 51187049--51187377 Score: 160
Period size: 27 Copynumber: 12.3 Consensus size: 27
51187039 ATTACTGTTT
* *
51187049 TACCC-TGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
51187075 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * * *
51187102 TACCC-TCGATCAGTAAAATTACCAAAA
1 TACCCTTGGTTTA-CAAAATTACCAAAA
* * *
51187129 TA-CC-TAGTTGT--AAAATTGCTAAAA
1 TACCCTTGGTT-TACAAAATTACCAAAA
**
51187153 TACCC-TGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** **
51187179 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * **
51187206 TACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*** *
51187233 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTACAAAATTACCAAAA
*** **
51187260 TA-CCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
* * *
51187286 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGGTTTACAAAATTACCA-AAA
* *
51187313 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTG-GTTTAC--AAAATTACCA-AAA
* **
51187342 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTACAAAATTACCAAAA
*
51187369 TACCTTTGG
1 TACCCTTGG
51187378 GTTGTAGATT
Statistics
Matches: 245, Mismatches: 42, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
24 14 0.06
25 7 0.03
26 51 0.21
27 146 0.60
28 8 0.03
29 19 0.08
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTTGGTTTACAAAATTACCAAAA
Found at i:51187232 original size:54 final size:52
Alignment explanation
Indices: 51187062--51187297 Score: 244
Period size: 54 Copynumber: 4.5 Consensus size: 52
51187052 CCTGATTTAC
* * ** * **
51187062 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGT
1 AAAATTACCAAAATACCC-TGATTTGTAAAATTACCAAAATACCCTAG-TTTGT
* * * *
51187116 AAAATTACCAAAATA-CCT-AGTTGTAAAATTGCTAAAATACCCTGGTTTGT
1 AAAATTACCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTAGTTTGT
*
51187166 AAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCT-GATTTGTAAAATTACCAAAATA-CCCTAGTTTGT
* * * *
51187220 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATA-CCTCAATTTGT
1 AAAATTACCAAAATACC-CTGATTTGTAAAATTACCAAAATACCCT-AGTTTGT
51187273 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATA-CCCTGATTT
51187298 ACAAAGTTAC
Statistics
Matches: 155, Mismatches: 20, Indels: 15
0.82 0.11 0.08
Matches are distributed among these distances:
50 18 0.12
51 23 0.15
52 4 0.03
53 47 0.30
54 61 0.39
55 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (52 bp):
AAAATTACCAAAATACCCTGATTTGTAAAATTACCAAAATACCCTAGTTTGT
Found at i:51187525 original size:27 final size:27
Alignment explanation
Indices: 51187434--51187525 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
51187424 ACCCCTATTA
*
51187434 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
51187461 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
51187488 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
51187515 GGTAAAATGAC
1 GGTAAAATGAC
51187526 GAATATGCCC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:51188351 original size:25 final size:26
Alignment explanation
Indices: 51188323--51188444 Score: 169
Period size: 25 Copynumber: 4.8 Consensus size: 26
51188313 GAGGAAGTGC
**
51188323 AAAAGGGCTTATG-CCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
51188348 AAAAGGGCCTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
51188374 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
51188400 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
51188425 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
51188445 ATTAAAGAGG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 45 0.52
26 41 0.48
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:51188414 original size:51 final size:52
Alignment explanation
Indices: 51188323--51188444 Score: 205
Period size: 51 Copynumber: 2.4 Consensus size: 52
51188313 GAGGAAGTGC
51188323 AAAAGGGCTTATG-CCCAGTTTATTGAAAAGGGCCTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCCTATGCCCCAATTTACCG
* *
51188374 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG-CTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCCTATGCCCCAATTTACCG
51188425 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
51188445 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
50 10 0.15
51 39 0.57
52 19 0.28
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCCTATGCCCCAATTTACCG
Found at i:51188648 original size:42 final size:42
Alignment explanation
Indices: 51188589--51188680 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
51188579 TAGTCTCCCC
* ** *
51188589 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
51188631 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
51188673 AAATGGGC
1 AAATGGGC
51188681 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:51188781 original size:31 final size:31
Alignment explanation
Indices: 51188704--51188782 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
51188694 CGTTTACAGT
*
51188704 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
51188735 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
51188766 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
51188783 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:51191014 original size:27 final size:27
Alignment explanation
Indices: 51190984--51191141 Score: 100
Period size: 27 Copynumber: 5.9 Consensus size: 27
51190974 CTCAAATTGT
*
51190984 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
*** *
51191011 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTAC
* ***** *
51191038 AGAATTATTGTTTTACCCTTGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* ****
51191065 AGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
** * * *
51191092 AAAATTAATAAAATACCCTTGGTTTAC
1 AAAATTACCAAATTACCCTCGATTTAC
* *
51191119 AAATTTACCAAAATACCCTCGAT
1 AAAATTACCAAATTACCCTCGAT
51191142 CAGTAAAATT
Statistics
Matches: 106, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
AAAATTACCAAATTACCCTCGATTTAC
Found at i:51191044 original size:54 final size:54
Alignment explanation
Indices: 51190997--51191127 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
51190987 ATTACCAAAG
* * * * ****
51190997 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTATTGTTT
1 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAATAAAA
* *
51191051 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTAATAAAA
1 TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAATAAAA
* *
51191105 TACCCTTGGTTTACAAATTTACC
1 TACCCTTGATTTACAAAATTACC
51191128 AAAATACCCT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTACAAAATTAATAAAA
Found at i:51191184 original size:26 final size:26
Alignment explanation
Indices: 51191092--51191323 Score: 214
Period size: 27 Copynumber: 8.7 Consensus size: 26
51191082 CTCGATTTAC
** * *
51191092 AAAATTAATAAAATACCCTTGGTT-T
1 AAAATTACCAAAATACCCTAGTTTGT
* **
51191117 ACAAATTTACCAAAATACCCTCGATCAGT
1 A-AAA-TTACCAAAATACCCTAG-TTTGT
* *
51191146 AAAATTACGAAAATACCCTAGTCTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* * *
51191172 AAAATTGCTAAAATACCCTGGTTTGT
1 AAAATTACCAAAATACCCTAGTTTGT
* *
51191198 AAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
*
51191225 AAAATTACCAAAATACATCTAGTTTGT
1 AAAATTACCAAAATAC-CCTAGTTTGT
*
51191252 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACC-CTAGTTTGT
* * * *
51191279 GAAATTACCGAAATACTCTCAATTTGT
1 AAAATTACCAAAATACCCT-AGTTTGT
51191306 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
51191324 CTGATTTACA
Statistics
Matches: 168, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
25 1 0.01
26 47 0.28
27 113 0.67
28 5 0.03
29 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTAGTTTGT
Found at i:51191346 original size:54 final size:53
Alignment explanation
Indices: 51191193--51191348 Score: 149
Period size: 54 Copynumber: 2.9 Consensus size: 53
51191183 AATACCCTGG
* * *
51191193 TTTGTAAAATTACCGAAATA-CCCTCAATTTGTA-AAATTACCA-AAATACATCTAG
1 TTTGTAAAATTACCAAAATACCCCT-GA-TT-TACAAATTA-CAGAAATACATCTAA
* * ** *
51191247 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATAC-TCTCAA
1 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAATTACAGAAATACATCT-AA
51191301 TTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAATAC
1 TTTGTAAAATTACCAAAATACCCCTGATTTACAAA-TTACAGAAATAC
51191349 CCTTGACTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
52 1 0.01
53 9 0.11
54 71 0.85
55 3 0.04
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
TTTGTAAAATTACCAAAATACCCCTGATTTACAAATTACAGAAATACATCTAA
Found at i:51191347 original size:81 final size:80
Alignment explanation
Indices: 51191092--51191351 Score: 278
Period size: 81 Copynumber: 3.2 Consensus size: 80
51191082 CTCGATTTAC
** ** * * * ** *
51191092 AAAATTAATAAAATACCCTTGGTTTACAAATTTACCAAAATACCCTCGATCAGTAAAATTACGAA
1 AAAATTACCAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
51191157 AATAC-CCTAG-TCTGT
65 AATACACCTAGAT-TGT
* *
51191172 AAAATTGCTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
1 AAAATTACCAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
* *
51191237 ATACATCTAGTTTGT
66 ATACACCTAGATTGT
* *
51191252 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACTCTCAATTTGTAAAATTACCAA
1 AAAATTACCAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAA
*
51191317 AATACCCCT-GATT-T
65 AATACACCTAGATTGT
51191331 ACAAAGTTA-CAGAAATACCCT
1 A-AAA-TTACCA-AAATACCCT
51191352 TGACTTTCTA
Statistics
Matches: 156, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
79 45 0.29
80 48 0.31
81 63 0.40
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAA
ATACACCTAGATTGT
Found at i:51191401 original size:27 final size:27
Alignment explanation
Indices: 51191362--51191413 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
51191352 TGACTTTCTA
51191362 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
51191389 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
51191414 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:51191530 original size:27 final size:27
Alignment explanation
Indices: 51191439--51191530 Score: 125
Period size: 27 Copynumber: 3.4 Consensus size: 27
51191429 CACCCTATTA
*
51191439 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
51191466 GGTAAAGA-GACCGTAAAGCCCCTGTAG
1 GGTAAA-ATGACCGTAAAGCCCCTGTAG
* *
51191493 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
51191520 GGTAAAATGAC
1 GGTAAAATGAC
51191531 GAATATGCTC
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Done.