Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 207 of 444
Found at i:57560307 original size:40 final size:40
Alignment explanation
Indices: 57560252--57560468 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
57560242 TGGATGATAA
* * *
57560252 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
57560292 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57560332 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57560372 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
57560412 CCGGGCTATGTCCCGAAGGCA-TTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
57560451 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
57560469 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 130 0.81
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57562818 original size:15 final size:15
Alignment explanation
Indices: 57562744--57562816 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
57562734 GAGATGACAT
*
57562744 GAAAACCAAGATAAA
1 GAAATCCAAGATAAA
* * *
57562759 GAAGTCTAAGAGAAA
1 GAAATCCAAGATAAA
57562774 GAAATCCAAGATAAA
1 GAAATCCAAGATAAA
*
57562789 GAAATCCAAGATACA
1 GAAATCCAAGATAAA
57562804 GAAATCCAAGATA
1 GAAATCCAAGATA
57562817 CAATATCATA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 50 1.00
ACGTcount: A:0.58, C:0.14, G:0.16, T:0.12
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:57564442 original size:212 final size:212
Alignment explanation
Indices: 57564075--57564476 Score: 768
Period size: 212 Copynumber: 1.9 Consensus size: 212
57564065 CCTTAGTTAT
57564075 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
57564140 GAAAAAAAAAAGGTGTTAATAAATTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAA
66 GAAAAAAAAAAGGTGTTAATAAATTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAA
*
57564205 GCAAGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGCGTTCGACTCAGATTTTTTGAG
131 GAAAGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGCGTTCGACTCAGATTTTTTGAG
57564270 ATCGTTGATAATTTTGA
196 ATCGTTGATAATTTTGA
57564287 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
1 TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
* *
57564352 GAAAAAAAAAAGGTGTTAATAATTTTTTTCACATAGCTGAAACTAAAAAGAAAGAAAAGGAAGAA
66 GAAAAAAAAAAGGTGTTAATAAATTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAA
*
57564417 GAAAGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGTGTTCGACTCAGATTTT
131 GAAAGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGCGTTCGACTCAGATTTT
57564477 GATAATTTTT
Statistics
Matches: 186, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 186 1.00
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (212 bp):
TAATTTTTAAAGCGTAATTTAGAAAACTAGCTTATAAATTATATAATATGTGATACAACATAAAA
GAAAAAAAAAAGGTGTTAATAAATTTTTTCACATAGCCGAAACTAAAAAGAAAGAAAAGGAAGAA
GAAAGCTAGGGTTCGGTTGATTTTTAAGCTCAATCAAGGTAAGCGTTCGACTCAGATTTTTTGAG
ATCGTTGATAATTTTGA
Found at i:57573048 original size:20 final size:21
Alignment explanation
Indices: 57573010--57573048 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
57573000 GTCCCCTGTA
**
57573010 TTTTGAGAAATTTTTTAAGAT
1 TTTTGAGAAATTTCCTAAGAT
57573031 TTTTGA-AAATTTCCTAAG
1 TTTTGAGAAATTTCCTAAG
57573049 TTATCAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (21 bp):
TTTTGAGAAATTTCCTAAGAT
Found at i:57575836 original size:40 final size:40
Alignment explanation
Indices: 57575779--57575964 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57575769 TCGAATGATG
* * * *
57575779 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
57575819 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57575859 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
57575899 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
57575940 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
57575965 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57575971 original size:80 final size:79
Alignment explanation
Indices: 57575832--57575987 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
57575822 GGACTAAGAT
* **
57575832 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
57575896 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
57575912 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
57575975 TATATCCGGTTAA
64 TAAATCCGGTTAA
57575988 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:57584909 original size:29 final size:28
Alignment explanation
Indices: 57584875--57584977 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
57584865 TACTCAATCA
*
57584875 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
57584904 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
57584933 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
57584962 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57584978 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:57592870 original size:29 final size:28
Alignment explanation
Indices: 57592836--57592938 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
57592826 TACTCAATCA
*
57592836 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
57592865 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
57592894 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
57592923 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
57592939 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:57595139 original size:40 final size:40
Alignment explanation
Indices: 57595082--57595266 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57595072 TCGAATGATG
* * * *
57595082 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
57595122 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57595162 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57595202 TCCGG-GTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
57595242 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
57595267 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.24
40 90 0.69
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57595266 original size:79 final size:80
Alignment explanation
Indices: 57595082--57595266 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
57595072 TCGAATGATG
* *
57595082 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
57595147 GTGCGAGTTACTAAA
66 GTGCGAGCTACTAAA
* * * *
57595162 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCCGAAGG-ATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
57595223 TTTGTGCGAGCTACTATAA
63 TTTGTGCGAGCTACTA-AA
*
57595242 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGG-ATTTG
57595267 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
78 2 0.02
79 48 0.53
80 32 0.36
81 8 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGCTACTAAA
Found at i:57595280 original size:40 final size:39
Alignment explanation
Indices: 57595135--57595285 Score: 112
Period size: 40 Copynumber: 3.8 Consensus size: 39
57595125 GGACTAAGAT
** * *
57595135 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGAT-
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGG-GTAAG-TC
** *
57595175 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTAAGTC
1 CCGAAGGCATTTGAACGAGCTACTATAA-CCGGGTAAGTC
** *
57595214 CCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGAACGAGCTACTATAACCGGG-TAAGTC
* *
57595254 CCGAAGGTATTTGAACGAG-TAGCTATATCCGG
1 CCGAAGGCATTTGAACGAGCTA-CTATAACCGG
57595286 TTAAACTCCG
Statistics
Matches: 100, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 35 0.35
40 64 0.64
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGAACGAGCTACTATAACCGGGTAAGTC
Found at i:57595284 original size:79 final size:80
Alignment explanation
Indices: 57595116--57595285 Score: 197
Period size: 79 Copynumber: 2.1 Consensus size: 80
57595106 GTGCTAAGTG
*
57595116 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAG
1 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
**
57595181 GCATTTGTGCGAGTT
66 GCATTTGAACGAGTT
* * * *
57595196 ACTAAATCCGG-GTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCG
1 ACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCG
*
57595257 AAGGTATTTGAACGAG-T
63 AAGGCATTTGAACGAGTT
57595274 AGCTATATCCGG
1 A-CTATATCCGG
57595286 TTAAACTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
78 4 0.05
79 61 0.79
80 12 0.16
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (80 bp):
ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAG
GCATTTGAACGAGTT
Found at i:57603287 original size:40 final size:40
Alignment explanation
Indices: 57603204--57603349 Score: 163
Period size: 40 Copynumber: 3.6 Consensus size: 40
57603194 TCGAATGATG
* * *
57603204 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
57603244 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
57603284 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
57603325 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57603350 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57603367 original size:80 final size:80
Alignment explanation
Indices: 57603204--57603356 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 80
57603194 TCGAATGATG
*
57603204 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
*
57603269 GTACGAGTTACTAAA
66 GAACGAGTTACTAAA
* * * * *
57603284 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCTATG-TCCCGAAGGTA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATAACCGGACTAAGAT-CCGAAGGCA
*
57603346 TTTGAATGAGT
63 TTTGAACGAGT
57603357 AGCTATATCC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
79 1 0.02
80 53 0.85
81 8 0.13
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTTACTAAA
Found at i:57606433 original size:27 final size:28
Alignment explanation
Indices: 57606377--57606446 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
57606367 AAATTTGTAC
*
57606377 AGCACTAAGTGTACGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
57606405 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
57606432 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57606447 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.60
28 16 0.40
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:57606457 original size:27 final size:27
Alignment explanation
Indices: 57606401--57606458 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
57606391 GAGTTTGATC
* * *
57606401 ATATAGCACTAAGTGTGCGAGTTGATT
1 ATATAGCACTAAGTGTGCGAGCTCACT
57606428 ATATAGCACTAAGTGTGCG-GACTCACT
1 ATATAGCACTAAGTGTGCGAG-CTCACT
57606455 ATAT
1 ATAT
57606459 GCTTTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (27 bp):
ATATAGCACTAAGTGTGCGAGCTCACT
Found at i:57607908 original size:27 final size:27
Alignment explanation
Indices: 57607877--57607981 Score: 147
Period size: 27 Copynumber: 3.9 Consensus size: 27
57607867 GGGGTGTTAC
* *
57607877 AATACCCCTACAGGGTAAAATGACCGA
1 AATACCCCCATAGGGTAAAATGACCGA
* *
57607904 AATACCCCCATAGGGTATAATGACCAA
1 AATACCCCCATAGGGTAAAATGACCGA
57607931 AATACCCCCATAGGGTAAAATGACCGA
1 AATACCCCCATAGGGTAAAATGACCGA
** *
57607958 AATACCCTTATAAGGTAAAATGAC
1 AATACCCCCATAGGGTAAAATGAC
57607982 TGTATTTGAG
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (27 bp):
AATACCCCCATAGGGTAAAATGACCGA
Found at i:57608397 original size:34 final size:34
Alignment explanation
Indices: 57608354--57608421 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
57608344 TGCATTACTG
*
57608354 CATTGATACT-ATTACTGTAATAGGCTAAGGCCCA
1 CATTGATACTGA-TACTGTAACAGGCTAAGGCCCA
* *
57608388 CATTGATACTGATACTGTAACGGGCTCAGGCCCA
1 CATTGATACTGATACTGTAACAGGCTAAGGCCCA
57608422 AACTGCATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (34 bp):
CATTGATACTGATACTGTAACAGGCTAAGGCCCA
Found at i:57614151 original size:29 final size:29
Alignment explanation
Indices: 57614116--57614214 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
57614106 AATGTGACTC
57614116 GGCCTAATGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
57614145 GGCCTAATGGGCCATATACATGTGGTTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
57614174 GGTCTAATGGGCCAT-TGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
57614201 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
57614215 GATACAGGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 15 0.25
28 5 0.08
29 41 0.67
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:57618994 original size:28 final size:28
Alignment explanation
Indices: 57618952--57619037 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
57618942 TACCTGTATC
*
57618952 TGGCCCATTAAGCCCATTCATATTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
* * * *
57618980 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-ATTCATATTCATA
* *
57619009 TGGCCCGTTAGGCCCATTCATAGTCATA
1 TGGCCCATTAGGCCCATTCATATTCATA
57619037 T
1 T
57619038 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
28 23 0.50
29 23 0.50
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (28 bp):
TGGCCCATTAGGCCCATTCATATTCATA
Found at i:57620540 original size:16 final size:16
Alignment explanation
Indices: 57620519--57620550 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57620509 GAAAAATTCA
*
57620519 AGATTTTGGGATTTTT
1 AGATTTCGGGATTTTT
57620535 AGATTTCGGGATTTTT
1 AGATTTCGGGATTTTT
57620551 GGGGCATTAC
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:0.19, C:0.03, G:0.25, T:0.53
Consensus pattern (16 bp):
AGATTTCGGGATTTTT
Found at i:57622859 original size:71 final size:71
Alignment explanation
Indices: 57622775--57622938 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57622765 CGATTTGTCT
57622775 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57622840 CTTTCA
66 CTTTCA
57622846 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57622911 CTTTCA
66 CTTTCA
57622917 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57622939 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57622976 original size:71 final size:70
Alignment explanation
Indices: 57622775--57622972 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
57622765 CGATTTGTCT
* * * *
57622775 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57622840 CTTTCA
65 CTTTCA
* * * *
57622846 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57622911 CTTTCA
65 CTTTCA
* *
57622917 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57622973 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57624702 original size:16 final size:15
Alignment explanation
Indices: 57624681--57624714 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
57624671 GAACACTTTA
57624681 TCACCCACCTGAACAT
1 TCACCCACCTGAA-AT
57624697 TCACCCACCTGAAAT
1 TCACCCACCTGAAAT
57624712 TCA
1 TCA
57624715 ATCTCTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.32, C:0.41, G:0.06, T:0.21
Consensus pattern (15 bp):
TCACCCACCTGAAAT
Found at i:57630372 original size:16 final size:16
Alignment explanation
Indices: 57630351--57630383 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
57630341 TCATGCGACC
57630351 AACCGATTTGTCTCGT
1 AACCGATTTGTCTCGT
57630367 AACCGATTTGTCTCGT
1 AACCGATTTGTCTCGT
57630383 A
1 A
57630384 GCTCTCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (16 bp):
AACCGATTTGTCTCGT
Found at i:57630496 original size:71 final size:71
Alignment explanation
Indices: 57630380--57630543 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
57630370 CGATTTGTCT
57630380 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57630445 CTTTCA
66 CTTTCA
57630451 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
57630516 CTTTCA
66 CTTTCA
57630522 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
57630544 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:57630581 original size:71 final size:70
Alignment explanation
Indices: 57630380--57630577 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
57630370 CGATTTGTCT
* * * *
57630380 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57630445 CTTTCA
65 CTTTCA
* * * *
57630451 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
57630516 CTTTCA
65 CTTTCA
* *
57630522 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
57630578 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:57633949 original size:93 final size:93
Alignment explanation
Indices: 57633790--57633959 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
57633780 CGCCCATAAG
* * * *
57633790 CGAACTCGGACTCAACTCAATGAGCTCGAGCGTTCGCATCCATGAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57633855 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
57633883 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
57633947 AACGAGTTCGGAT
65 AACGAGTTCGGAT
57633960 TCTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57633951 original size:46 final size:47
Alignment explanation
Indices: 57633783--57633958 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 47
57633773 TGTAACCCGC
* * * *
57633783 CCATAAGCGAACTCGGACTCAACTCAATGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCAT
* * * * *
57633829 CCATGAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-ATTTGCAT
*
57633879 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCAT
*
57633922 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57633959 TTCTCAACCA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.54
47 30 0.28
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAGCATTTGCAT
Found at i:57640798 original size:40 final size:40
Alignment explanation
Indices: 57640726--57640916 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
57640716 ACACATTTCT
* * *
57640726 AACACG-AGCCTACGGCTCTTT-AACCCAGATTCCATTCC
1 AACACGAAGCCTGCGGGTCTTTAAACCCAGATACCATTCC
*
57640764 AACACGAAGCCTGCGGGTCTTTAAACCCAGATTCCATTCC
1 AACACGAAGCCTGCGGGTCTTTAAACCCAGATACCATTCC
* * *
57640804 AGCACGAAGCCTGC-AGTCTTTAAA-CCAGGATACAATTCC
1 AACACGAAGCCTGCGGGTCTTTAAACCCA-GATACCATTCC
* * * *
57640843 AACA-TATGGCCTGCGGCTCTTTAAACCCGGATACCATTCC
1 AACACGA-AGCCTGCGGGTCTTTAAACCCAGATACCATTCC
* * *
57640883 AGCACGAAGCCTGCGGGTCTTTAAGCCCGGATAC
1 AACACGAAGCCTGCGGGTCTTTAAACCCAGATAC
57640917 ACACATCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 10 0.08
39 40 0.31
40 75 0.59
41 3 0.02
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (40 bp):
AACACGAAGCCTGCGGGTCTTTAAACCCAGATACCATTCC
Found at i:57646474 original size:27 final size:27
Alignment explanation
Indices: 57646444--57646530 Score: 133
Period size: 27 Copynumber: 3.2 Consensus size: 27
57646434 AGCAAAGCTG
57646444 CCAGTAACAGT-ATATGTGGCAAGGCCA
1 CCAGTAACAGTAAT-TGTGGCAAGGCCA
*
57646471 CCAGTATCAGTAATTGTGGCAAGGCCA
1 CCAGTAACAGTAATTGTGGCAAGGCCA
57646498 CCAGTAACAGTAATTGTGGC-AGAGCCA
1 CCAGTAACAGTAATTGTGGCAAG-GCCA
57646525 CCAGTA
1 CCAGTA
57646531 TAGTACTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 2 0.04
27 52 0.93
28 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAAGGCCA
Found at i:57654433 original size:24 final size:24
Alignment explanation
Indices: 57654406--57654517 Score: 91
Period size: 24 Copynumber: 4.6 Consensus size: 24
57654396 AGAAATTTCA
* **
57654406 GCACTATGTGTGCGAGGTTATGCG
1 GCACTATGTGTGCGAGATTACACG
* * * *
57654430 GCACTATGTGTGCAAAAACTACATG
1 GCACTATGTGTGC-GAGATTACACG
* **
57654455 GCACTATGTGTGCGAGATTATATA
1 GCACTATGTGTGCGAGATTACACG
* *
57654479 GCACTATGTGTGCGAGGA-AACGCG
1 GCACTATGTGTGCGA-GATTACACG
57654503 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
57654518 ATGAGTAGAA
Statistics
Matches: 69, Mismatches: 17, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
24 50 0.72
25 19 0.28
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGATTACACG
Found at i:57654532 original size:73 final size:73
Alignment explanation
Indices: 57654405--57654541 Score: 186
Period size: 73 Copynumber: 1.9 Consensus size: 73
57654395 AAGAAATTTC
** * *
57654405 AGCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGCAAAAACTACATGGCACTATGTGTGCGA
1 AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGCAAAAACTACATAGCACTATGTGTGCGA
57654470 GATTATAT
66 GATTATAT
** * *
57654478 AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGCGAATGAGTAGA-AGCACTATGTGTGCG
1 AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGC-AAAAACTACATAGCACTATGTGTGCG
57654542 GACCTTTAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 49 0.89
74 6 0.11
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.26
Consensus pattern (73 bp):
AGCACTATGTGTGCGAGGAAACGCGGCACTATGTGTGCAAAAACTACATAGCACTATGTGTGCGA
GATTATAT
Found at i:57659076 original size:47 final size:48
Alignment explanation
Indices: 57658957--57659130 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 48
57658947 AGGATATTTG
*
57658957 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
57659006 -G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
57659049 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT-ATGGATGCGAA-
1 -GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
57659097 CGC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT
57659131 TATGGGCGGG
Statistics
Matches: 109, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 33 0.30
46 29 0.27
47 32 0.29
48 2 0.02
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (48 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:57662102 original size:15 final size:15
Alignment explanation
Indices: 57662084--57662116 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57662074 ATCCCGGATC
57662084 TCTTTATTCTGGAAT
1 TCTTTATTCTGGAAT
*
57662099 TCTTTATTCTGGATT
1 TCTTTATTCTGGAAT
57662114 TCT
1 TCT
57662117 CTATCTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.58
Consensus pattern (15 bp):
TCTTTATTCTGGAAT
Found at i:57664568 original size:46 final size:46
Alignment explanation
Indices: 57664515--57664690 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
57664505 TATTTGGGCA
*
57664515 TCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57664561 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
57664606 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
57664654 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57664691 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57664670 original size:93 final size:93
Alignment explanation
Indices: 57664511--57664683 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
57664501 AGGATATTTG
* * * *
57664511 GGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
57664576 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
57664604 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
57664669 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
57664684 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57667145 original size:159 final size:159
Alignment explanation
Indices: 57666856--57667173 Score: 618
Period size: 159 Copynumber: 2.0 Consensus size: 159
57666846 CAGCTTCAAA
57666856 TTTTTGAGGATCAACCCTAATCCCCTCGGCAGACACCACGTGACCCAGAAATGTCATCTCTTGCA
1 TTTTTGAGGATCAACCCTAATCCCCTCGGCAGACACCACGTGACCCAGAAATGTCATCTCTTGCA
57666921 GCCAAAACTCACACTTACTGAATTTTGCGTACAACTGCTTCTACCTCAGAATTTGAAGAATGATC
66 GCCAAAACTCACACTTACTGAATTTTGCGTACAACTGCTTCTACCTCAGAATTTGAAGAATGATC
57666986 CGCAAATGTTCATCATGCTCCTCCTCGAT
131 CGCAAATGTTCATCATGCTCCTCCTCGAT
57667015 TTTTTGAGGATCAACCCTAATCCCCTCGGCAGACACCACGTGACCCAGAAATGTCATCTCTTGCA
1 TTTTTGAGGATCAACCCTAATCCCCTCGGCAGACACCACGTGACCCAGAAATGTCATCTCTTGCA
*
57667080 GCCAAAACTCACACTTACTGAATTTTGCGTACAACTGCTTCTGCCTCAGAATTTGAAGAATGATC
66 GCCAAAACTCACACTTACTGAATTTTGCGTACAACTGCTTCTACCTCAGAATTTGAAGAATGATC
*
57667145 CGTAAATGTTCATCATGCTCCTCCTCGAT
131 CGCAAATGTTCATCATGCTCCTCCTCGAT
57667174 ATTAGAATAC
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 157 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (159 bp):
TTTTTGAGGATCAACCCTAATCCCCTCGGCAGACACCACGTGACCCAGAAATGTCATCTCTTGCA
GCCAAAACTCACACTTACTGAATTTTGCGTACAACTGCTTCTACCTCAGAATTTGAAGAATGATC
CGCAAATGTTCATCATGCTCCTCCTCGAT
Found at i:57670792 original size:27 final size:27
Alignment explanation
Indices: 57670726--57670789 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
57670716 TTTAAAACCC
57670726 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAAT-TCGGTAATTTTGCTCTT
57670753 TAGGGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
57670780 TA-GGGTAATT
1 TAGGGGTAATT
57670790 TCGTGATCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
26 8 0.22
27 26 0.72
28 2 0.06
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:57672606 original size:19 final size:18
Alignment explanation
Indices: 57672569--57672612 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
57672559 ATACATACAG
57672569 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
57672586 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
57672605 TACTAATT
1 TAATAATT
57672613 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:57675518 original size:27 final size:27
Alignment explanation
Indices: 57675488--57675552 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
57675478 TTTAAAACCC
57675488 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAAT-TCGGTAATTTTGCTCTT
57675515 TAGGGGTAATTCGGTAATTTTGCTCTT
1 TAGGGGTAATTCGGTAATTTTGCTCTT
*
57675542 TAAGGGTAATT
1 TAGGGGTAATT
57675553 TCGTGATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (27 bp):
TAGGGGTAATTCGGTAATTTTGCTCTT
Found at i:57677381 original size:19 final size:18
Alignment explanation
Indices: 57677344--57677387 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
57677334 ATACATACAG
57677344 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
57677361 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
57677380 TACTAATT
1 TAATAATT
57677388 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:57678630 original size:27 final size:27
Alignment explanation
Indices: 57678589--57678689 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
57678579 CAATATCGCA
**
57678589 GCAAAGCTGCCAGTAACAGT-ATATGTG
1 GCAAAGCCACCAGTAACAGTAAT-TGTG
* **
57678616 GCAAAGCCACTAGTATTAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAATTGTG
*
57678643 GCAAAGCCACCGGTAACAGTAATTGTG
1 GCAAAGCCACCAGTAACAGTAATTGTG
*
57678670 GCAGAGCCACCAGT-ACAGTA
1 GCAAAGCCACCAGTAACAGTA
57678690 CTTCCTCCAA
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 6 0.10
27 54 0.87
28 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
GCAAAGCCACCAGTAACAGTAATTGTG
Found at i:57679016 original size:42 final size:43
Alignment explanation
Indices: 57678953--57679211 Score: 220
Period size: 49 Copynumber: 5.7 Consensus size: 43
57678943 CTTCGTTTTC
** *
57678953 TCGATGCCATAGTTCAACTATGGTCTTACAC-ATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGATCTTCACAT-A
* *
57678996 T-GATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGATCTTCACATA
*
57679037 TGGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG--AT--C-T-TCACATA
* * *
57679086 TCGATGCCATAGCCCAGCTATGATTTTACACGTAATCACATATCACCTA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG--AT--C-T-TCACATA
* *
57679135 TCGATGCCATAGCCTAGCTATGGTCTTACACGGATCACATAT-TCATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-GAT--C-T-TCACATA
*
57679182 TCGATGCCATAGCCCAACTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATGGTCTTACA
57679212 TGAATCACAT
Statistics
Matches: 189, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.01
42 63 0.33
43 1 0.01
45 2 0.01
47 31 0.16
48 10 0.05
49 79 0.42
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (43 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGATCTTCACATA
Found at i:57679096 original size:49 final size:48
Alignment explanation
Indices: 57679023--57679255 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 48
57679013 TATGGTCTTA
* *
57679023 CACATATTCATATATGGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
57679073 CACATATCACATATCGATGCCATAGCCCAGCTATGATTTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* * *
57679122 CACATATCACCTATCGATGCCATAGCCTAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * *
57679170 CACATAT-TCATATCGATGCCATAGCCCAACTATGGTCTTACATGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * *
57679217 CACATATCTCAT-T-GATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
57679256 TAAAGTAGCA
Statistics
Matches: 164, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
46 23 0.14
47 42 0.26
48 13 0.08
49 80 0.49
50 6 0.04
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:57679103 original size:91 final size:93
Alignment explanation
Indices: 57678953--57679255 Score: 290
Period size: 98 Copynumber: 3.3 Consensus size: 93
57678943 CTTCGTTTTC
** *
57678953 TCGATGCCATAGTTCAACTATGGTCTTACAC--AT--C-T-TCACATAAT-GATGCCATAGCCCA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACAT-ATCGATGCCATAGCCCA
*
57679011 GCTATGGTCTTACAC-AT-AT-TCATATA
65 GCTATGGTCTTACACAATCATATCACATA
*
57679037 TGGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCACATATCGATGCCATAGCCCA
* * *
57679102 GCTATGATTTTACACGTAATCACATATCACCTA
65 GCTATGGTCTTACAC--AAT--CATATCACATA
* * * *
57679135 TCGATGCCATAGCCTAGCTATGGTCTTACACGGATCACATAT-TCATATCGATGCCATAGCCCAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAG
* *
57679199 CTATGGTCTTACATGAATCACATATCTCAT-
66 CTATGGTCTTACA-CAAT--CATATCACATA
* *
57679229 T-GATGCCATATCCCAGATATGGTCTTA
1 TCGATGCCATAGCCCAGCTATGGTCTTA
57679256 TAAAGTAGCA
Statistics
Matches: 182, Mismatches: 21, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
84 27 0.15
87 2 0.01
89 1 0.01
90 3 0.02
91 33 0.18
93 23 0.13
94 3 0.02
95 13 0.07
96 31 0.17
97 11 0.06
98 35 0.19
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (93 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCACATATCGATGCCATAGCCCAG
CTATGGTCTTACACAATCATATCACATA
Found at i:57679316 original size:148 final size:145
Alignment explanation
Indices: 57678997--57679249 Score: 328
Period size: 140 Copynumber: 1.8 Consensus size: 145
57678987 TTCACATAAT
* * * *
57678997 GATGCCATAGCCCAGCTATGGTCTTACAC--ATAT-TCATA-T-AT-GGATGCCATAGCCCAGCT
1 GATGCCATAGCCTAGCTATGGTCTTACACGGA-ATCACATATTCATATGATGCCATAGCCCAACT
* *
57679056 ATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGCTATGATTTTACACGTAA
65 ATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGATATGATTTTACAAGTAA
*
57679121 TCACATATCACCTATC
130 GCACATATCACCTATC
57679137 GATGCCATAGCCTAGCTATGGTCTTACACGG-ATCACATATTCATATCGATGCCATAGCCCAACT
1 GATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATATTCATAT-GATGCCATAGCCCAACT
* * *
57679201 ATGGTCTTACATG-AATCACATATCTCAT-T-GATGCCATATCCCAGATATG
65 ATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGATATG
57679250 GTCTTATAAA
Statistics
Matches: 98, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
140 30 0.31
141 4 0.04
142 19 0.19
143 3 0.03
144 14 0.14
145 28 0.29
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (145 bp):
GATGCCATAGCCTAGCTATGGTCTTACACGGAATCACATATTCATATGATGCCATAGCCCAACTA
TGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAGATATGATTTTACAAGTAAG
CACATATCACCTATC
Found at i:57684150 original size:44 final size:44
Alignment explanation
Indices: 57684087--57684219 Score: 221
Period size: 44 Copynumber: 3.0 Consensus size: 44
57684077 TTTTACACCC
* *
57684087 TAATTCTGTTGGAGAGGATGACAAGAGAATATAAAATTATTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
* *
57684131 TAATTCGGTTGTAGAGGATGACAAGAGAATATAAAATTGTTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
*
57684175 TAATTCAGTTGGAGAGGATGGCAAGAGAATATAAAATTGTTTTG
1 TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
57684219 T
1 T
57684220 TTTATTTATT
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 83 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.34
Consensus pattern (44 bp):
TAATTCAGTTGGAGAGGATGACAAGAGAATATAAAATTGTTTTG
Found at i:57685217 original size:18 final size:19
Alignment explanation
Indices: 57685172--57685222 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
57685162 AACATTCTAT
**
57685172 TTTAGGAAAACCATTTTTA
1 TTTAGGAAAACCATTAGTA
* *
57685191 TTTACGAAAACC-TTAGTC
1 TTTAGGAAAACCATTAGTA
57685209 TTTAGGAAAACCAT
1 TTTAGGAAAACCAT
57685223 GTTTTCGGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (19 bp):
TTTAGGAAAACCATTAGTA
Found at i:57685930 original size:20 final size:20
Alignment explanation
Indices: 57685881--57685922 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
57685871 TAATCATTCA
57685881 CACAATCAGTTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
57685901 CACAATCAGTTCAGTATTAT
1 CACAATCAGTTCAGTATTAT
57685921 CA
1 CA
57685923 AACTCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (20 bp):
CACAATCAGTTCAGTATTAT
Found at i:57691496 original size:51 final size:51
Alignment explanation
Indices: 57691420--57691519 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
57691410 TGGATGTGAG
*
57691420 CATCCGAGCTCGTTCAGTGGTCCGAGTTCATAATGGATGGGATACATGTAA
1 CATCCGAGCTCGTTCAGAGGTCCGAGTTCATAATGGATGGGATACATGTAA
* * * *
57691471 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCTCGTTCAGAGGTCCGAGTTCATAATGGATGGGATACATGT
57691520 TATTAGGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (51 bp):
CATCCGAGCTCGTTCAGAGGTCCGAGTTCATAATGGATGGGATACATGTAA
Found at i:57694086 original size:32 final size:32
Alignment explanation
Indices: 57694050--57694114 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
57694040 ACGGATGCTG
57694050 CATTAGATCAACCAGAAACACTATCCCTTGGA
1 CATTAGATCAACCAGAAACACTATCCCTTGGA
**
57694082 CATTAGATCAACTGGAAACACTATCCCTTGGA
1 CATTAGATCAACCAGAAACACTATCCCTTGGA
57694114 C
1 C
57694115 CTCTAGCGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (32 bp):
CATTAGATCAACCAGAAACACTATCCCTTGGA
Found at i:57696831 original size:20 final size:20
Alignment explanation
Indices: 57696806--57696847 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
57696796 TAATCATTCA
*
57696806 CACAATCAGTTCAGTATTAT
1 CACAATCAATTCAGTATTAT
57696826 CACAATCAATTCAGTATTAT
1 CACAATCAATTCAGTATTAT
57696846 CA
1 CA
57696848 AACTCAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (20 bp):
CACAATCAATTCAGTATTAT
Found at i:57703431 original size:13 final size:13
Alignment explanation
Indices: 57703415--57703439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57703405 TTTTGTGTAG
57703415 AAATTTTCCCACT
1 AAATTTTCCCACT
57703428 AAATTTTCCCAC
1 AAATTTTCCCAC
57703440 ATGGTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCCCACT
Found at i:57709853 original size:24 final size:24
Alignment explanation
Indices: 57709821--57709921 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
57709811 AAGTCTGTCA
*
57709821 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAACTGATAAG
*
57709845 GGAGAGGATTTAGGAACTAATAAG
1 GGAGAGGATTTAGGAACTGATAAG
*
57709869 GGAGAGGATTTAGGAACTGATACG
1 GGAGAGGATTTAGGAACTGATAAG
* * *
57709893 GGAGAGGATTTAGTAGCTGATTAG
1 GGAGAGGATTTAGGAACTGATAAG
57709917 GGAGA
1 GGAGA
57709922 ACAGTGTTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.35, C:0.05, G:0.39, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAACTGATAAG
Found at i:57711423 original size:26 final size:27
Alignment explanation
Indices: 57711327--57711427 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
57711317 CTAATGGCTA
* * * * *
57711327 TGCCACAATTATTTGATCTGGTGGCTT
1 TGCCACGATTATCTGTTCTGGTGACTC
* *
57711354 TGCCAC-ATATATCTATTCTGGTGGCTC
1 TGCCACGAT-TATCTGTTCTGGTGACTC
57711381 TGCCACGATTATCTGTTCTGGTGACTC
1 TGCCACGATTATCTGTTCTGGTGACTC
*
57711408 TGTCA-GATTATCTGTTCTGG
1 TGCCACGATTATCTGTTCTGG
57711428 CAGCCATGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
26 17 0.26
27 46 0.71
28 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.40
Consensus pattern (27 bp):
TGCCACGATTATCTGTTCTGGTGACTC
Found at i:57721868 original size:40 final size:39
Alignment explanation
Indices: 57721757--57721907 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
57721747 TTAATCACGT
* * *
57721757 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
57721797 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
57721837 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
57721877 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
57721908 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:57721891 original size:80 final size:79
Alignment explanation
Indices: 57721757--57721907 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57721747 TTAATCACGT
*
57721757 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
57721822 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57721837 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
57721900 CCGGATAT
64 CCGGATAT
57721908 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57729867 original size:40 final size:39
Alignment explanation
Indices: 57729756--57729906 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
57729746 TTAATCACGT
* * *
57729756 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
57729796 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
57729836 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
57729876 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
57729907 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:57729890 original size:80 final size:79
Alignment explanation
Indices: 57729756--57729906 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
57729746 TTAATCACGT
*
57729756 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
57729821 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
57729836 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
57729899 CCGGATAT
64 CCGGATAT
57729907 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:57735316 original size:24 final size:24
Alignment explanation
Indices: 57735048--57735314 Score: 444
Period size: 24 Copynumber: 11.1 Consensus size: 24
57735038 GCAAAGACCA
*
57735048 TATGGCACTATGTGTGCGGTTTAC
1 TATGGCACTATGTGTGCGATTTAC
57735072 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57735096 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
57735120 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57735144 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
* *
57735168 TATGGCACTAGGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
57735192 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
57735216 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57735240 TATAGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
57735264 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
57735288 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
57735312 TAT
1 TAT
57735315 AGTCACATTC
Statistics
Matches: 232, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 232 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:57738954 original size:43 final size:42
Alignment explanation
Indices: 57738888--57739044 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
57738878 AGCTTGTAAA
* *
57738888 ATGCCAAC-GTCCCAGAC-GAGGTCTTACATGTAATCAAATATTG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAATA-CG
* *
57738931 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATACG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATACG
* * * *
57738973 ATGCCAATGTCCCAAACATGGTCTTACACGTAAATCCCAAAT-CA
1 ATGCCACTGTCCCAGACAGGGTCTTACACGT-AAT--CAAATACG
**
57739017 ATGCCAAC-GTCCCAGACTTGGTCTTACA
1 ATGCC-ACTGTCCCAGACAGGGTCTTACA
57739045 TGAAATAACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 30 0.32
43 35 0.37
44 25 0.26
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATACG
Found at i:57746534 original size:42 final size:42
Alignment explanation
Indices: 57746464--57746609 Score: 134
Period size: 42 Copynumber: 3.4 Consensus size: 42
57746454 CATCCAAATT
* * *
57746464 AGGTCTTACATGTAATCAAATAAAGATGCCACTGTCCCAGACA
1 AGGTCTTACACGAAATCAAAT-ATGATGCCACTGTCCCAGACA
* * *
57746507 AGGTCTTACACGAAATCATATATGATGCCAATGTCCCAAACA
1 AGGTCTTACACGAAATCAAATATGATGCCACTGTCCCAGACA
* * *
57746549 TGGTCTTACACATAAATCCCAAAT-TGATGCCAAC-GTCCCAGACG
1 AGGTCTTACAC-GAAAT--CAAATATGATGCC-ACTGTCCCAGACA
* *
57746593 TGGTCTTACATGAAATC
1 AGGTCTTACACGAAATC
57746610 CCATATCAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 28 0.33
43 26 0.31
44 25 0.29
45 5 0.06
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
AGGTCTTACACGAAATCAAATATGATGCCACTGTCCCAGACA
Found at i:57746587 original size:44 final size:42
Alignment explanation
Indices: 57746465--57746609 Score: 141
Period size: 44 Copynumber: 3.4 Consensus size: 42
57746455 ATCCAAATTA
* * * *
57746465 GGTCTTACATGTAATCAAATAAAGATGCC-ACTGTCCCAGACAA
1 GGTCTTACACGAAATCAAAT-ATGATGCCAAC-GTCCCAGACAT
* * *
57746508 GGTCTTACACGAAATCATATATGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCAAATATGATGCCAACGTCCCAGACAT
* *
57746550 GGTCTTACACATAAATCCCAAAT-TGATGCCAACGTCCCAGACGT
1 GGTCTTACAC-GAAAT--CAAATATGATGCCAACGTCCCAGACAT
*
57746594 GGTCTTACATGAAATC
1 GGTCTTACACGAAATC
57746610 CCATATCAAA
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 26 0.31
43 26 0.31
44 27 0.32
45 4 0.05
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCCAACGTCCCAGACAT
Found at i:57747258 original size:28 final size:28
Alignment explanation
Indices: 57747212--57747280 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
57747202 TTTAAAACCC
* *
57747212 TAGGGGT-ATATCGGTAATTTTTCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
57747239 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
57747267 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
57747281 TGATCTACGC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 7 0.18
28 32 0.82
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:57748930 original size:20 final size:20
Alignment explanation
Indices: 57748907--57748944 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57748897 CACATCCAAA
*
57748907 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
57748927 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
57748945 GCGAATAAAT
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:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:57755265 original size:28 final size:28
Alignment explanation
Indices: 57755219--57755287 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
57755209 TTTAAAACCC
*
57755219 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
57755246 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
57755274 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
57755288 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:57756939 original size:20 final size:20
Alignment explanation
Indices: 57756916--57756953 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57756906 CACATCCAAA
*
57756916 TACAAAATTTTGAAAATCTT
1 TACAAAATATTGAAAATCTT
57756936 TACAAAATATTGAAAATC
1 TACAAAATATTGAAAATC
57756954 ACGAATAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (20 bp):
TACAAAATATTGAAAATCTT
Found at i:57760608 original size:28 final size:28
Alignment explanation
Indices: 57760539--57760639 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57760529 GACAAGATTG
* * * *
57760539 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
57760569 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
57760597 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
57760626 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57760640 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:57760633 original size:29 final size:28
Alignment explanation
Indices: 57760568--57760639 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
57760558 AAAATTGTAC
*
57760568 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
57760596 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
57760625 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57760640 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:57763344 original size:17 final size:17
Alignment explanation
Indices: 57763322--57763357 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
57763312 TTTTAAAATC
57763322 CATTACTCTTTTGAAAA
1 CATTACTCTTTTGAAAA
57763339 CATTACTCTTTTGAAAA
1 CATTACTCTTTTGAAAA
57763356 CA
1 CA
57763358 CGCGTCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (17 bp):
CATTACTCTTTTGAAAA
Found at i:57764078 original size:26 final size:27
Alignment explanation
Indices: 57763990--57764092 Score: 111
Period size: 27 Copynumber: 3.9 Consensus size: 27
57763980 ATATTTACAT
* *
57763990 CACAT-AGGGCAAAACAGTTATATTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
57764016 CATATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
57764043 CTCATGAGGGAAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
57764070 CACAT-AGGGTACAATAGTCATTT
1 CACATAAGGGCAAAACAGTCATTT
57764093 ATCAATCAAG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.29
27 46 0.71
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:57775075 original size:16 final size:16
Alignment explanation
Indices: 57775056--57775153 Score: 53
Period size: 16 Copynumber: 6.3 Consensus size: 16
57775046 TTGTCCTTTC
57775056 TATTT-TTTTCATATAT
1 TATTTATTTT-ATATAT
57775072 TATTTATTTTATATAT
1 TATTTATTTTATATAT
* *
57775088 T-TTATATATTATTTA-
1 TATT-TATTTTATATAT
* * *
57775103 T-TTTACTATAAATAT
1 TATTTATTTTATATAT
* * *
57775118 TATGTA-TATATAAAT
1 TATTTATTTTATATAT
* *
57775133 GATTTATTATATATAT
1 TATTTATTTTATATAT
57775149 TATTT
1 TATTT
57775154 TTAGTTATGC
Statistics
Matches: 63, Mismatches: 14, Indels: 10
0.72 0.16 0.11
Matches are distributed among these distances:
14 6 0.10
15 17 0.27
16 36 0.57
17 4 0.06
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TATTTATTTTATATAT
Found at i:57775096 original size:25 final size:27
Alignment explanation
Indices: 57775061--57775112 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
57775051 CTTTCTATTT
57775061 TTTTCATATATTATTTATTTTA-TATA
1 TTTTCATATATTATTTATTTTACTATA
57775087 TTTT-ATATATTATTTATTTTACTATA
1 TTTTCATATATTATTTATTTTACTATA
57775113 AATATTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (27 bp):
TTTTCATATATTATTTATTTTACTATA
Found at i:57775145 original size:18 final size:17
Alignment explanation
Indices: 57775097--57775147 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
57775087 TTTTATATAT
*
57775097 TATTTATTTTACTATAAA
1 TATTTATTATA-TATAAA
57775115 TA-TTATGTATATATAAA
1 TATTTAT-TATATATAAA
57775132 TGATTTATTATATATA
1 T-ATTTATTATATATA
57775148 TTATTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 11 0.38
18 14 0.48
19 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TATTTATTATATATAAA
Found at i:57775226 original size:20 final size:22
Alignment explanation
Indices: 57775197--57775264 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
57775187 TAAGTTTTAT
57775197 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
57775216 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * * *
57775238 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
57775259 TTATAT
1 TTATAT
57775265 TTTATATTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:57775261 original size:14 final size:14
Alignment explanation
Indices: 57775214--57775265 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
57775204 TTTTATAATA
*
57775214 TATTATATCA-TTT
1 TATTATATTATTTT
*
57775227 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
57775243 CATTATATTATTTT
1 TATTATATTATTTT
57775257 TATTATATT
1 TATTATATT
57775266 TTATATTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:57775287 original size:33 final size:35
Alignment explanation
Indices: 57775234--57775303 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 35
57775224 TTTTACTATA
* *
57775234 TATATTATTCATTATATTATTTTTAT-TAT-ATTT
1 TATATTATTCAATATATTATTATTATGTATAATTT
57775267 TATATTACTTCAATAT-TTATTATTATGTATAATTT
1 TATATTA-TTCAATATATTATTATTATGTATAATTT
57775302 TA
1 TA
57775304 AAAATTTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 16 0.50
34 10 0.31
35 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (35 bp):
TATATTATTCAATATATTATTATTATGTATAATTT
Found at i:57778672 original size:46 final size:46
Alignment explanation
Indices: 57778619--57778794 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
57778609 TATTTGGGCA
57778619 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
57778665 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
57778712 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
57778758 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57778795 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:57778774 original size:93 final size:93
Alignment explanation
Indices: 57778615--57778786 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57778605 GGGATATTTG
* *
57778615 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
57778680 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
57778708 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
57778773 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
57778787 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:57788482 original size:40 final size:40
Alignment explanation
Indices: 57788427--57788634 Score: 303
Period size: 40 Copynumber: 5.2 Consensus size: 40
57788417 TGAATGATAC
* * *
57788427 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
57788467 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
57788507 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
57788547 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
57788587 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
57788627 CC-GGCTAA
1 CCGGGCTAA
57788635 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:57796688 original size:40 final size:40
Alignment explanation
Indices: 57796633--57796880 Score: 374
Period size: 40 Copynumber: 6.2 Consensus size: 40
57796623 TGAATGATAC
* * *
57796633 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
57796673 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
57796713 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
57796753 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
57796793 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
57796833 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
57796873 CC-GGCTAA
1 CCGGGCTAA
57796881 ATTCCGAAGA
Statistics
Matches: 192, Mismatches: 15, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 5 0.03
40 185 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:57801825 original size:44 final size:44
Alignment explanation
Indices: 57801763--57802675 Score: 998
Period size: 44 Copynumber: 20.9 Consensus size: 44
57801753 CACCGATAGT
* * * * *
57801763 AGATTTGGAGTCTCTGTATTGTCAAAGAACAGATCGAAGATAAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
57801807 AGGTTTGACGTCTTTGTATTGACAGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * * *
57801851 AAATTTGGTGTCTCTATATTGACAAAGAGCAGA-C--TGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
57801892 AGATGTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
57801936 AGGTTTGACGTCTCTGTATTGATAGAGAGCAGATCGAAAATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
57801980 AAATTTGGCGTCTCTGTATTGACAGAGAGTAGATCGAAAATAAA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * *
57802024 AAAATTGGCGTCTCTGTATTAACAGAGAACAGATCGAATATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
** * * *
57802068 A-AAATGGCATCTCTGTATTGACAGAGAGCAAATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
57802111 AGATTTGGTGTCTCTGTATTGACAGAGAACAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * *
57802155 AAATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAATATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
57802199 AGATTTGGTGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
57802243 ATATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGAT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* *
57802287 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGAT-GAAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* ** * **
57802330 CGATTTGGAATATCTGTATTG-CTAGAGAGCAGATCGAAGATAGT
1 AGATTTGGCGTCTCTGTATTGAC-AGAGAGCAGATCGAAGATAAC
* * * * * * *
57802374 AGATTTGGTGTCTCTATATTGTCAGAGAGCATATCAAACATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * **
57802418 AGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * * * * * *
57802462 AGATTTAGCATTTCTGTATTAATAGAGAGTAGATCAAAGATAGA-
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA-AC
* * *
57802506 AGATTTGGCGTCTCCGTATTGGCAGAGAGCAGATC-AGAGATAGC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA-AGATAAC
*
57802550 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
* * *
57802594 AGATTTGTCGACTCTGTATTGACAAAGAGCAGATCGAAGATAAC
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
*
57802638 AGATTTGGTGTCTCTGTATTGACAGAG-GACAGATCGAA
1 AGATTTGGCGTCTCTGTATTGACAGAGAG-CAGATCGAA
57802676 TGTAACGCCC
Statistics
Matches: 734, Mismatches: 123, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
41 32 0.04
42 2 0.00
43 73 0.10
44 625 0.85
45 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (44 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAAC
Found at i:57802251 original size:263 final size:262
Alignment explanation
Indices: 57801763--57802675 Score: 1041
Period size: 263 Copynumber: 3.5 Consensus size: 262
57801753 CACCGATAGT
* * * * * * * * *
57801763 AGATTTGGAGTCTCTGTATTGTCAAAGAACAGATCGAAGATAATAGGTTTGACGTCTTTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACA-ATTTGGCATCTCTGTATTG
* * * * *
57801828 ACAGAGAGCAGATCAAAGATAACAAATTTGGTGTCTCTATATTGACAAAGAGCAGA-C--TGATA
65 ACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTATATTGACAGAGAACAGATCGAAGATA
* * * *
57801890 GCAGATGTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGGTTTGACGTCTCTGTAT
130 GCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGAT-ACAGATTTGGCGTCTCTGTAT
* * * *
57801955 TGATAGAGAGCAGATCGAAAATAACAAATTTGGCGTCTCTGTATTGACAGAGAGTAGATCGAAAA
194 TGATAGAGAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGA
57802020 TAAA
259 TAAA
* * * * * **
57802024 AAAATTGGCGTCTCTGTATTAACAGAGAACAGATCGAATATAACAAAATGGCATCTCTGTATTGA
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAATTTGGCATCTCTGTATTGA
* * * *
57802089 CAGAGAGCAAATCGAAGATGACAGATTTGGTGTCTCTGTATTGACAGAGAACAGATCGAAGATAA
66 CAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTATATTGACAGAGAACAGATCGAAGATAG
* * * *
57802154 CAAATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAATATGACAGATTTGGTGTCTCTGTATT
131 CAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGAT-ACAGATTTGGCGTCTCTGTATT
* *
57802219 GACAGAGAGCAGATCGAAGATGACATATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
195 GATAGAGAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGAT
* *
57802284 GAT
260 AAA
* * * * *
57802287 AGATTTGGCGTCTCTGTATTGTCAGAGAGCAGAT-GAAGATAGCCGATTTGGAATATCTGTATTG
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA-ACAATTTGGCATCTCTGTATTG
** * * * * *
57802351 -CTAGAGAGCAGATCGAAGATAGTAGATTTGGTGTCTCTATATTGTCAGAGAGCATATCAAACAT
65 AC-AGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTATATTGACAGAGAACAGATCGAAGAT
* * * * *
57802415 AGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCAAAGATAGTAGATTTAGCATTTCTGTA
129 AGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATA-CAGATTTGGCGTCTCTGTA
* * * * * *
57802480 TTAATAGAGAGTAGATCAAAGATAGA-AGATTTGGCGTCTCCGTATTGGCAGAGAGCAGATC-AG
193 TTGATAGAGAGCAGATCGAAGAT-GACAAATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGA-
**
57802543 AGATAGC
256 AGATAAA
* *
57802550 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATAACAGATTTGTCGA-CTCTGTATT
1 AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACA-ATTTGGC-ATCTCTGTATT
* * *
57802614 GACAAAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTGTATTGACAGAGGACAGATCGAA
64 GACAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTATATTGACAGAGAACAGATCGAA
57802676 TGTAACGCCC
Statistics
Matches: 542, Mismatches: 98, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
260 62 0.11
261 38 0.07
262 9 0.02
263 359 0.66
264 72 0.13
265 2 0.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (262 bp):
AGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATAACAATTTGGCATCTCTGTATTGA
CAGAGAGCAGATCGAAGATAACAGATTTGGTGTCTCTATATTGACAGAGAACAGATCGAAGATAG
CAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAAGATACAGATTTGGCGTCTCTGTATTG
ATAGAGAGCAGATCGAAGATGACAAATTTGGCGTCTCTGTATTGACAGAGAGCAGATCGAAGATA
AA
Found at i:57806997 original size:46 final size:46
Alignment explanation
Indices: 57806947--57807121 Score: 207
Period size: 45 Copynumber: 3.8 Consensus size: 46
57806937 TGGTTGAGCA
57806947 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57806993 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57807038 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57807086 -CCCAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57807122 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 36 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57807062 original size:47 final size:47
Alignment explanation
Indices: 57806944--57807113 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
57806934 GGATGGTTGA
*
57806944 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
* *
57806992 G--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAA-T
* *
57807035 AGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGA-GGATGCGAAT
*
57807085 GC--CC-AGCTCGTTGAGTTGAGTCCGAGTTC
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
57807114 GCTTATGGGC
Statistics
Matches: 105, Mismatches: 8, Indels: 21
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 27 0.26
46 31 0.30
47 29 0.28
48 5 0.05
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (47 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGAGGATGCGAAT
Found at i:57814574 original size:46 final size:46
Alignment explanation
Indices: 57814524--57814699 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57814514 TGGTTGAGCA
57814524 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57814570 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57814615 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57814663 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57814700 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57814680 original size:93 final size:93
Alignment explanation
Indices: 57814521--57814692 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57814511 GGATGGTTGA
* *
57814521 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57814586 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57814614 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57814679 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
57814693 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57824985 original size:20 final size:22
Alignment explanation
Indices: 57824956--57825022 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 22
57824946 TAAGTTTTAT
57824956 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
57824975 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * *
57824997 TTAT-TCATTATATTAT-TTTA
1 TTATATCATTTTACTATATATA
57825017 TTATAT
1 TTATAT
57825023 TTTGTATTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.15
20 13 0.32
21 13 0.32
22 9 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:57825021 original size:13 final size:13
Alignment explanation
Indices: 57824973--57825023 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
57824963 TTTTATAATA
*
57824973 TATTATATCATTT
1 TATTATATTATTT
*
57824986 TACTATATATATTAT
1 TATTATAT-TATT-T
57825001 TCATTATATTATTT
1 T-ATTATATTATTT
57825015 TATTATATT
1 TATTATATT
57825024 TTGTATTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 15 0.47
14 5 0.16
15 6 0.19
16 6 0.19
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (13 bp):
TATTATATTATTT
Found at i:57825187 original size:20 final size:20
Alignment explanation
Indices: 57825162--57825201 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57825152 GTACATATTT
*
57825162 AATATAGTAT-TATTTATATA
1 AATATA-TATATATTAATATA
57825182 AATATATATATATTAATATA
1 AATATATATATATTAATATA
57825202 TTATATCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
AATATATATATATTAATATA
Found at i:57829853 original size:43 final size:41
Alignment explanation
Indices: 57829740--57829858 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 41
57829730 TGGTATTTAT
* *
57829740 ATGTAAGACCACGTCTGGTACGTTGGCATCGTATTTGATTTC
1 ATGTAAGACCACGTCTGGGACG-TGGCATCGTATTTGATTAC
* ** * *
57829782 ATGTAACACCTTGTCTAGGATAGTGGCATCGATATTTGATTAC
1 ATGTAAGACCACGTCTGGGA-CGTGGCATCG-TATTTGATTAC
*
57829825 ATGTAAGACCACGTCTGGGACGTCGGCATTGTAT
1 ATGTAAGACCACGTCTGGGACGT-GGCATCGTAT
57829859 GAGCTTTTTG
Statistics
Matches: 61, Mismatches: 13, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (41 bp):
ATGTAAGACCACGTCTGGGACGTGGCATCGTATTTGATTAC
Found at i:57834108 original size:28 final size:28
Alignment explanation
Indices: 57834076--57834169 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
57834066 ACCCCAAAAT
*
57834076 AGGTAAAATGAATGTAATACCCTCTGTA
1 AGGTAAAATGAATGTAATACCCTCTATA
* **
57834104 GGGTAAAATGACCGTAATACCCTCTATA
1 AGGTAAAATGAATGTAATACCCTCTATA
*
57834132 AGGTAAAATG-GTCGTAATACCC-CTATA
1 AGGTAAAATGAAT-GTAATACCCTCTATA
*
57834159 TGGTAAAATGA
1 AGGTAAAATGA
57834170 CGATTATGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 14 0.25
28 42 0.75
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (28 bp):
AGGTAAAATGAATGTAATACCCTCTATA
Found at i:57838117 original size:40 final size:40
Alignment explanation
Indices: 57838069--57838252 Score: 244
Period size: 40 Copynumber: 4.6 Consensus size: 40
57838059 CTCGCACAAG
* *
57838069 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
57838109 GCCTTCGGGACTTAGCCAGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
57838149 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
57838189 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
57838229 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
57838253 CATTCGAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.01
40 121 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:57838164 original size:80 final size:79
Alignment explanation
Indices: 57838033--57838252 Score: 266
Period size: 80 Copynumber: 2.8 Consensus size: 79
57838023 ACCCAAGTAT
* * * * * *
57838033 CTTCGGGATTTAGCCGGATATGACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
57838097 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
57838111 CTTCGGGACTTAGCCAGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAGCC-GGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
57838176 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * *
57838191 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
57838253 CATTCGAATA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
78 14 0.11
79 18 0.15
80 89 0.72
81 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:57843798 original size:40 final size:40
Alignment explanation
Indices: 57843535--57843797 Score: 402
Period size: 40 Copynumber: 6.6 Consensus size: 40
57843525 TGGATGATAA
* * *
57843535 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
57843575 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
57843615 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57843655 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
57843695 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57843735 CCGGGCTAAGTCCTGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
57843775 CTGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
57843798 GAATGAGTAG
Statistics
Matches: 204, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 203 1.00
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:57848987 original size:27 final size:27
Alignment explanation
Indices: 57848932--57848999 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
57848922 AACCCCAAAA
57848932 TAGGTAAAATGACCGTAATACCCCTTG
1 TAGGTAAAATGACCGTAATACCCCTTG
57848959 TAGGATAAAATGACCGTAATACCCC-TG
1 TAGG-TAAAATGACCGTAATACCCCTTG
57848986 TATGGTAAAATGAC
1 TA-GGTAAAATGAC
57849000 GATTATGCCC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
TAGGTAAAATGACCGTAATACCCCTTG
Found at i:57849359 original size:33 final size:33
Alignment explanation
Indices: 57849307--57849371 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
57849297 TTGGGCCCAT
*
57849307 TCTGCTACTGTATAGGGCTAAAGCCTAGACTGC
1 TCTGCTACTGAATAGGGCTAAAGCCTAGACTGC
* * **
57849340 TCTGTTACTGAATATGGCTACGGCCTAGACTG
1 TCTGCTACTGAATAGGGCTAAAGCCTAGACTG
57849372 TTTTGCATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (33 bp):
TCTGCTACTGAATAGGGCTAAAGCCTAGACTGC
Found at i:57851901 original size:16 final size:16
Alignment explanation
Indices: 57851864--57851901 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
57851854 CAGCAAACGC
*
57851864 CGAAAAGCCAAAATGT
1 CGAAAAGCCAAAATGA
*
57851880 CAAAAAGCCAAAATGA
1 CGAAAAGCCAAAATGA
57851896 CGAAAA
1 CGAAAA
57851902 TCTGAAAGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.08
Consensus pattern (16 bp):
CGAAAAGCCAAAATGA
Found at i:57852164 original size:29 final size:28
Alignment explanation
Indices: 57852118--57852178 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
57852108 GTGAGCATGA
*
57852118 ATATAAGGTGATTTGGGCCTAACGGGCC
1 ATATAAGGTGATTCGGGCCTAACGGGCC
*
57852146 ATATAAAGGTGATTCGGGCCTAATGGGCC
1 ATAT-AAGGTGATTCGGGCCTAACGGGCC
57852175 ATAT
1 ATAT
57852179 GAATATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (28 bp):
ATATAAGGTGATTCGGGCCTAACGGGCC
Found at i:57852193 original size:29 final size:28
Alignment explanation
Indices: 57852130--57852208 Score: 95
Period size: 29 Copynumber: 2.8 Consensus size: 28
57852120 ATAAGGTGAT
* * *
57852130 TTGGGCCTAACGGGCCATATAAAGGTGA
1 TTGGGCCTAATGGGCCATATGAAGATGA
*
57852158 TTCGGGCCTAATGGGCCATATGAATATGAA
1 TT-GGGCCTAATGGGCCATATGAAGATG-A
*
57852188 TTGGGCCTGATGGGCCATATG
1 TTGGGCCTAATGGGCCATATG
57852209 CATGTATGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
28 2 0.05
29 39 0.89
30 3 0.07
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAAGATGA
Found at i:57854001 original size:29 final size:29
Alignment explanation
Indices: 57853958--57854058 Score: 175
Period size: 29 Copynumber: 3.5 Consensus size: 29
57853948 GAAAGCATGT
57853958 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
57853987 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
57854016 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
57854045 ATATGAATGAGATT
1 ATATGAATGTGATT
57854059 AGGCCTAGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.26, C:0.13, G:0.31, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:57859728 original size:43 final size:42
Alignment explanation
Indices: 57859640--57859731 Score: 121
Period size: 43 Copynumber: 2.2 Consensus size: 42
57859630 TAAAACCATA
* * * **
57859640 TCTGGGACATTGGCATCGTATTTGATTTCATATAAGGCCTTG
1 TCTGGGACAGTGGCATCGTATTTGATTACATATAAGACCACG
*
57859682 TCTGGGACAGTGGCATCGATATTTGATTACATGTAAGACCACG
1 TCTGGGACAGTGGCATCG-TATTTGATTACATATAAGACCACG
57859725 TCTGGGA
1 TCTGGGA
57859732 TGTCGACATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 17 0.40
43 26 0.60
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCGTATTTGATTACATATAAGACCACG
Found at i:57866262 original size:40 final size:40
Alignment explanation
Indices: 57866213--57866352 Score: 169
Period size: 40 Copynumber: 3.5 Consensus size: 40
57866203 CGGATGTAAC
57866213 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
57866253 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
57866293 AACTAGCAC-AATTGCCTT--GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
57866332 AACTAGCACAAATGCCTTCGG
1 AACCAGCACGAATGCCTTCGG
57866353 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
38 3 0.03
39 30 0.34
40 54 0.61
41 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:57873916 original size:24 final size:24
Alignment explanation
Indices: 57873888--57873934 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
57873878 AAAGTAAGCT
57873888 TTCATAAGCTTAGTAAGTCTTAAG
1 TTCATAAGCTTAGTAAGTCTTAAG
57873912 TTCATAAGCTTAGTAAGTCTTAA
1 TTCATAAGCTTAGTAAGTCTTAA
57873935 ACAATTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (24 bp):
TTCATAAGCTTAGTAAGTCTTAAG
Found at i:57875473 original size:29 final size:29
Alignment explanation
Indices: 57875441--57875513 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
57875431 CTTCGAGCTC
* *
57875441 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57875470 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
57875499 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
57875514 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:57877600 original size:40 final size:38
Alignment explanation
Indices: 57877526--57877675 Score: 158
Period size: 38 Copynumber: 3.9 Consensus size: 38
57877516 CGAGGTATAA
* * * *
57877526 AACCCAAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGA-TTT
* * *
57877565 AAACTCAGATATAATACCAGCACCAGGCCTGCGGGATTT
1 -AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* *
57877604 AACCCAGATATATTACCAGCACGAAGCCTGTGGGATTT
1 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
* * *
57877642 AACCCGGATATAATTCCAGCA-TATAGCCTGCGGG
1 AACCCAGATATAATACCAGCACGA-AGCCTGCGGG
57877676 TCTTTAAGCC
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
37 1 0.01
38 60 0.65
39 3 0.03
40 28 0.30
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.19
Consensus pattern (38 bp):
AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:57881101 original size:31 final size:31
Alignment explanation
Indices: 57881050--57881129 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
57881040 CCAATCATGC
*
57881050 ACTGGGCCGTAGCCCTTTTCATATTTCATATT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATT
57881082 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
* **
57881113 ATTGGGATGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
57881130 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 33 0.75
32 11 0.25
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATT
Found at i:57888277 original size:26 final size:26
Alignment explanation
Indices: 57888248--57888397 Score: 257
Period size: 26 Copynumber: 5.8 Consensus size: 26
57888238 GAGGAAGTGC
*
57888248 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
57888274 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
57888300 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
57888326 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
57888352 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
57888378 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
57888398 ATTAAAGAGG
Statistics
Matches: 117, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
25 10 0.09
26 107 0.91
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:57888326 original size:52 final size:52
Alignment explanation
Indices: 57888248--57888397 Score: 284
Period size: 52 Copynumber: 2.9 Consensus size: 52
57888238 GAGGAAGTGC
57888248 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
57888300 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
*
57888352 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTT
57888398 ATTAAAGAGG
Statistics
Matches: 97, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
51 10 0.10
52 87 0.90
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:57888601 original size:42 final size:42
Alignment explanation
Indices: 57888542--57888633 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
57888532 TAGTCTCCCC
* ** *
57888542 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
57888584 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
57888626 AAATGGGC
1 AAATGGGC
57888634 CTATGGGCCA
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:57888692 original size:31 final size:31
Alignment explanation
Indices: 57888657--57888729 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
57888647 CGTTTACAGT
57888657 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
* *
57888688 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGAAATGATTTATGA
57888719 AAAGGCTTCGG
1 AAAGGCTTCGG
57888730 TGCAGTAATC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGAAATGATTTATGA
Found at i:57893115 original size:16 final size:15
Alignment explanation
Indices: 57893095--57893130 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
57893085 CTTATTGCCT
57893095 ATTTTTTATATTATA
1 ATTTTTTATATTATA
*
57893110 ATTTTTTATTATTATT
1 ATTTTTTA-TATTATA
57893126 ATTTT
1 ATTTT
57893131 ATTTATTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTTTTATATTATA
Found at i:57893136 original size:15 final size:14
Alignment explanation
Indices: 57893094--57893138 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
57893084 ACTTATTGCC
57893094 TATTTTTTATATTAT
1 TATTTTTTAT-TTAT
*
57893109 AATTTTTTA-TTAT
1 TATTTTTTATTTAT
57893122 TATTATTTTATTTAT
1 TATT-TTTTATTTAT
57893137 TA
1 TA
57893139 ACCCGTATGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTTTTTATTTAT
Found at i:57894128 original size:20 final size:18
Alignment explanation
Indices: 57894112--57894189 Score: 50
Period size: 19 Copynumber: 4.2 Consensus size: 18
57894102 AAGAGAAAGT
57894112 AGATGAAGAGAAAAGAAA
1 AGATGAAGAGAAAAGAAA
* *
57894130 AGA-AAAGACAAGAAGGAAA
1 AGATGAAGAGAA-AA-GAAA
* * *
57894149 AGAAGAAGAAAAAAGGAAGT
1 AGATGAAGAGAAAA-GAA-A
**
57894169 AGATGAAGAGAGGAGAAA
1 AGATGAAGAGAAAAGAAA
57894187 AGA
1 AGA
57894190 AAAGAAAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
17 6 0.13
18 8 0.17
19 16 0.35
20 16 0.35
ACGTcount: A:0.64, C:0.01, G:0.31, T:0.04
Consensus pattern (18 bp):
AGATGAAGAGAAAAGAAA
Found at i:57894150 original size:19 final size:19
Alignment explanation
Indices: 57894116--57894166 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
57894106 GAAAGTAGAT
*
57894116 GAAGAGAAAA-GAAAAGAA
1 GAAGAAAAAAGGAAAAGAA
*
57894134 -AAGACAAGAAGGAAAAGAA
1 GAAGA-AAAAAGGAAAAGAA
57894153 GAAGAAAAAAGGAA
1 GAAGAAAAAAGGAA
57894167 GTAGATGAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.15
18 3 0.11
19 16 0.59
20 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (19 bp):
GAAGAAAAAAGGAAAAGAA
Found at i:57895301 original size:19 final size:18
Alignment explanation
Indices: 57895264--57895307 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
57895254 ATACATACAG
57895264 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
57895281 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
57895300 TACTAATT
1 TAATAATT
57895308 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:57900403 original size:39 final size:40
Alignment explanation
Indices: 57900349--57900472 Score: 218
Period size: 40 Copynumber: 3.2 Consensus size: 40
57900339 TTATTGAATG
57900349 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
57900388 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
57900428 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
57900467 A-ATCCG
1 ATATCCG
57900473 AAGCTTTGTG
Statistics
Matches: 82, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
38 5 0.06
39 27 0.33
40 50 0.61
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:57900482 original size:24 final size:28
Alignment explanation
Indices: 57900444--57900498 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 28
57900434 GGGCTAAGTC
57900444 CCGAAGGCATTTGTGCTAGTG-CTA-AT
1 CCGAAGGCATTTGTGCTAGTGACTATAT
57900470 CCGAA-GC-TTTGTGCTAGTGACTATAT
1 CCGAAGGCATTTGTGCTAGTGACTATAT
57900496 CCG
1 CCG
57900499 GGCTAAGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 12 0.44
25 5 0.19
26 10 0.37
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (28 bp):
CCGAAGGCATTTGTGCTAGTGACTATAT
Found at i:57900514 original size:64 final size:66
Alignment explanation
Indices: 57900404--57900525 Score: 212
Period size: 64 Copynumber: 1.9 Consensus size: 66
57900394 GGGCTAAGTC
*
57900404 CCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTAA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTAA
57900469 T
66 T
*
57900470 CCGAA-GC-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA
57900526 TTGACTATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
64 47 0.87
65 2 0.04
66 5 0.09
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (66 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGCTAA
T
Done.